##### PUB RECORD ##### ## 10.1186/s12870-015-0602-6 26420429 Li, Suo et al., 2015 "Lü J, Suo H, Yi R, Ma Q, Nian H. Glyma11g13220, a homolog of the vernalization pathway gene VERNALIZATION 1 from soybean [Glycine max (L.) Merr.], promotes flowering in Arabidopsis thaliana. BMC Plant Biol. 2015 Sep 29;15:232. doi: 10.1186/s12870-015-0602-6. PMID: 26420429; PMCID: PMC4588262." ## PMID- 26420429 OWN - NLM STAT- MEDLINE DCOM- 20160701 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 15 DP - 2015 Sep 29 TI - Glyma11g13220, a homolog of the vernalization pathway gene VERNALIZATION 1 from soybean [Glycine max (L.) Merr.], promotes flowering in Arabidopsis thaliana. PG - 232 LID - 10.1186/s12870-015-0602-6 [doi] LID - 232 AB - BACKGROUND: The precise timing of flowering is fundamental to successful reproduction, and has dramatic significance for crop yields. Although prolonged low temperatures are not required for flowering induction in soybean, vernalization pathway genes have been retained during the evolution of this species. Little information is currently available in regarding these genes in soybean. RESULTS: We were able to detect the expression of Glyma11g13220 in different organs at all monitored developmental stages in soybean. Glyma11g13220 expression was higher in leaves and pods than in shoot apexes and stems. In addition, Glyma11g13220 was responsive to photoperiod and low temperature in soybean. Furthermore, Glyma11g13220 was found to be a nuclear-localized protein. Over-expression of Glyma11g13220 in an Arabidopsis Columbia-0 (Col-0) background resulted in early flowering. Quantitative real-time PCR analysis revealed that transcript levels of flower repressor FLOWERING LOCUS C (FLC), and FD decreased significantly in transgenic Arabidopsis compared with wild-type Col-0, while the expression of VERNALIZATION INSENSITIVE 3 (VIN3) and FLOWERING LOCUS T (FT) noticeably increased. CONCLUSIONS: Our results suggest that Glyma11g13220, a homolog of Arabidopsis VRN1, is a functional protein. Glyma11g13220, which is responsive to photoperiod and low temperature in soybean, may participate in the vernalization pathway in Arabidopsis and help regulate flowering time. Arabidopsis VRN1 and Glyma11g13220 exhibit conserved as well as diverged functions. FAU - Lu, Jing AU - Lu J AD - The State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, China. bylvjing@126.com. AD - The Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou, China. bylvjing@126.com. AD - The Guangdong Subcenter of the National Center for Soybean Improvement, College of Agriculture, South China Agricultural University, Guangzhou, China. bylvjing@126.com. FAU - Suo, Haicui AU - Suo H AD - The State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, China. suohaicui@163.com. AD - The Crop Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, China. suohaicui@163.com. AD - Guangdong Provincial Key Laboratory of Crop Genetics and Improvement, Guangzhou, China. suohaicui@163.com. FAU - Yi, Rong AU - Yi R AD - The State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, China. 769963386@qq.com. AD - The Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou, China. 769963386@qq.com. AD - The Guangdong Subcenter of the National Center for Soybean Improvement, College of Agriculture, South China Agricultural University, Guangzhou, China. 769963386@qq.com. FAU - Ma, Qibin AU - Ma Q AD - The State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, China. maqibin@scau.edu.cn. AD - The Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou, China. maqibin@scau.edu.cn. AD - The Guangdong Subcenter of the National Center for Soybean Improvement, College of Agriculture, South China Agricultural University, Guangzhou, China. maqibin@scau.edu.cn. FAU - Nian, Hai AU - Nian H AD - The State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou, China. hnian@scau.edu.cn. AD - The Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou, China. hnian@scau.edu.cn. AD - The Guangdong Subcenter of the National Center for Soybean Improvement, College of Agriculture, South China Agricultural University, Guangzhou, China. hnian@scau.edu.cn. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20150929 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (Plant Proteins) SB - IM MH - Arabidopsis/*genetics/growth & development/metabolism MH - Flowers/genetics/*growth & development/metabolism MH - *Gene Expression Regulation, Plant MH - Molecular Sequence Data MH - Organ Specificity MH - Phylogeny MH - Plant Proteins/*genetics/metabolism MH - Plants, Genetically Modified/genetics/growth & development/metabolism MH - Real-Time Polymerase Chain Reaction MH - Sequence Analysis, DNA MH - Glycine max/*genetics/growth & development/metabolism PMC - PMC4588262 EDAT- 2015/10/01 06:00 MHDA- 2016/07/02 06:00 PMCR- 2015/09/29 CRDT- 2015/10/01 06:00 PHST- 2015/03/19 00:00 [received] PHST- 2015/09/04 00:00 [accepted] PHST- 2015/10/01 06:00 [entrez] PHST- 2015/10/01 06:00 [pubmed] PHST- 2016/07/02 06:00 [medline] PHST- 2015/09/29 00:00 [pmc-release] AID - 10.1186/s12870-015-0602-6 [pii] AID - 602 [pii] AID - 10.1186/s12870-015-0602-6 [doi] PST - epublish SO - BMC Plant Biol. 2015 Sep 29;15:232. doi: 10.1186/s12870-015-0602-6. ##### PUB RECORD ##### ## 10.1073/pnas.1312801111 24707045 Chiasson, Loughlin et al., 2014 "Chiasson DM, Loughlin PC, Mazurkiewicz D, Mohammadidehcheshmeh M, Fedorova EE, Okamoto M, McLean E, Glass AD, Smith SE, Bisseling T, Tyerman SD, Day DA, Kaiser BN. Soybean SAT1 (Symbiotic Ammonium Transporter 1) encodes a bHLH transcription factor involved in nodule growth and NH4+ transport. Proc Natl Acad Sci U S A. 2014 Apr 1;111(13):4814-9. doi: 10.1073/pnas.1312801111. Epub 2014 Mar 19. PMID: 24707045; PMCID: PMC3977234." ## PMID- 24707045 OWN - NLM STAT- MEDLINE DCOM- 20140602 LR - 20240321 IS - 1091-6490 (Electronic) IS - 0027-8424 (Print) IS - 0027-8424 (Linking) VI - 111 IP - 13 DP - 2014 Apr 1 TI - Soybean SAT1 (Symbiotic Ammonium Transporter 1) encodes a bHLH transcription factor involved in nodule growth and NH4+ transport. PG - 4814-9 LID - 10.1073/pnas.1312801111 [doi] AB - Glycine max symbiotic ammonium transporter 1 was first documented as a putative ammonium (NH4(+)) channel localized to the symbiosome membrane of soybean root nodules. We show that Glycine max symbiotic ammonium transporter 1 is actually a membrane-localized basic helix-loop-helix (bHLH) DNA-binding transcription factor now renamed Glycine max bHLH membrane 1 (GmbHLHm1). In yeast, GmbHLHm1 enters the nucleus and transcriptionally activates a unique plasma membrane NH4(+) channel Saccharomyces cerevisiae ammonium facilitator 1. Ammonium facilitator 1 homologs are present in soybean and other plant species, where they often share chromosomal microsynteny with bHLHm1 loci. GmbHLHm1 is important to the soybean rhizobium symbiosis because loss of activity results in a reduction of nodule fitness and growth. Transcriptional changes in nodules highlight downstream signaling pathways involving circadian clock regulation, nutrient transport, hormone signaling, and cell wall modification. Collectively, these results show that GmbHLHm1 influences nodule development and activity and is linked to a novel mechanism for NH4(+) transport common to both yeast and plants. FAU - Chiasson, David M AU - Chiasson DM AD - School of Agriculture Food and Wine, The University of Adelaide, Adelaide, SA 5050, Australia. FAU - Loughlin, Patrick C AU - Loughlin PC FAU - Mazurkiewicz, Danielle AU - Mazurkiewicz D FAU - Mohammadidehcheshmeh, Manijeh AU - Mohammadidehcheshmeh M FAU - Fedorova, Elena E AU - Fedorova EE FAU - Okamoto, Mamoru AU - Okamoto M FAU - McLean, Elizabeth AU - McLean E FAU - Glass, Anthony D M AU - Glass AD FAU - Smith, Sally E AU - Smith SE FAU - Bisseling, Ton AU - Bisseling T FAU - Tyerman, Stephen D AU - Tyerman SD FAU - Day, David A AU - Day DA FAU - Kaiser, Brent N AU - Kaiser BN LA - eng SI - GEO/GSE55804 SI - GEO/GSE55896 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140319 PL - United States TA - Proc Natl Acad Sci U S A JT - Proceedings of the National Academy of Sciences of the United States of America JID - 7505876 RN - 0 (Ammonium Compounds) RN - 0 (Basic Helix-Loop-Helix Leucine Zipper Transcription Factors) RN - 0 (Cation Transport Proteins) RN - 0 (DNA, Plant) RN - 0 (SAT1 protein, glycine max) RN - 0 (Soybean Proteins) SB - IM MH - Ammonium Compounds/*metabolism MH - Basic Helix-Loop-Helix Leucine Zipper Transcription Factors/*metabolism MH - Biological Transport MH - Cation Transport Proteins/*metabolism MH - Cell Membrane/metabolism MH - DNA, Plant/metabolism MH - Gene Expression Regulation, Plant MH - Protein Binding MH - Root Nodules, Plant/cytology/*growth & development/*metabolism/ultrastructure MH - Saccharomyces cerevisiae/metabolism MH - Soybean Proteins/*metabolism MH - Glycine max/genetics/*growth & development/*metabolism/ultrastructure PMC - PMC3977234 OTO - NOTNLM OT - legume OT - nitrogen fixation OT - nitrogen transport COIS- The authors declare no conflict of interest. EDAT- 2014/04/08 06:00 MHDA- 2014/06/03 06:00 PMCR- 2014/03/19 CRDT- 2014/04/08 06:00 PHST- 2014/04/08 06:00 [entrez] PHST- 2014/04/08 06:00 [pubmed] PHST- 2014/06/03 06:00 [medline] PHST- 2014/03/19 00:00 [pmc-release] AID - 1312801111 [pii] AID - 201312801 [pii] AID - 10.1073/pnas.1312801111 [doi] PST - ppublish SO - Proc Natl Acad Sci U S A. 2014 Apr 1;111(13):4814-9. doi: 10.1073/pnas.1312801111. Epub 2014 Mar 19. ##### PUB RECORD ##### ## 10.1534/genetics.110.125062 21406680 Watanabe, Xia et al., 2011 "Watanabe S, Xia Z, Hideshima R, Tsubokura Y, Sato S, Yamanaka N, Takahashi R, Anai T, Tabata S, Kitamura K, Harada K. A map-based cloning strategy employing a residual heterozygous line reveals that the GIGANTEA gene is involved in soybean maturity and flowering. Genetics. 2011 Jun;188(2):395-407. doi: 10.1534/genetics.110.125062. Epub 2011 Mar 15. PMID: 21406680; PMCID: PMC3122305." ## PMID- 21406680 OWN - NLM STAT- MEDLINE DCOM- 20111020 LR - 20231213 IS - 1943-2631 (Electronic) IS - 0016-6731 (Print) IS - 0016-6731 (Linking) VI - 188 IP - 2 DP - 2011 Jun TI - A map-based cloning strategy employing a residual heterozygous line reveals that the GIGANTEA gene is involved in soybean maturity and flowering. PG - 395-407 LID - 10.1534/genetics.110.125062 [doi] AB - Flowering is indicative of the transition from vegetative to reproductive phase, a critical event in the life cycle of plants. In soybean (Glycine max), a flowering quantitative trait locus, FT2, corresponding to the maturity locus E2, was detected in recombinant inbred lines (RILs) derived from the varieties "Misuzudaizu" (ft2/ft2; JP28856) and "Moshidou Gong 503" (FT2/FT2; JP27603). A map-based cloning strategy using the progeny of a residual heterozygous line (RHL) from the RIL was employed to isolate the gene responsible for this quantitative trait locus. A GIGANTEA ortholog, GmGIa (Glyma10g36600), was identified as a candidate gene. A common premature stop codon at the 10th exon was present in the Misuzudaizu allele and in other near isogenic lines (NILs) originating from Harosoy (e2/e2; PI548573). Furthermore, a mutant line harboring another premature stop codon showed an earlier flowering phenotype than the original variety, Bay (E2/E2; PI553043). The e2/e2 genotype exhibited elevated expression of GmFT2a, one of the florigen genes that leads to early flowering. The effects of the E2 allele on flowering time were similar among NILs and constant under high (43 degrees N) and middle (36 degrees N) latitudinal regions in Japan. These results indicate that GmGIa is the gene responsible for the E2 locus and that a null mutation in GmGIa may contribute to the geographic adaptation of soybean. FAU - Watanabe, Satoshi AU - Watanabe S AD - National Institute of Agrobiological Sciences, Tsukuba, Ibaraki, Japan. FAU - Xia, Zhengjun AU - Xia Z FAU - Hideshima, Rumiko AU - Hideshima R FAU - Tsubokura, Yasutaka AU - Tsubokura Y FAU - Sato, Shusei AU - Sato S FAU - Yamanaka, Naoki AU - Yamanaka N FAU - Takahashi, Ryoji AU - Takahashi R FAU - Anai, Toyoaki AU - Anai T FAU - Tabata, Satoshi AU - Tabata S FAU - Kitamura, Keisuke AU - Kitamura K FAU - Harada, Kyuya AU - Harada K LA - eng SI - GENBANK/AB554196 SI - GENBANK/AB554197 SI - GENBANK/AB554198 SI - GENBANK/AB554199 SI - GENBANK/AB554200 SI - GENBANK/AB554201 SI - GENBANK/AB554202 SI - GENBANK/AB554203 SI - GENBANK/AB554204 SI - GENBANK/AB554205 SI - GENBANK/AB554206 SI - GENBANK/AB554207 SI - GENBANK/AB554208 SI - GENBANK/AB554209 SI - GENBANK/AB554210 SI - GENBANK/AB554211 SI - GENBANK/AB554212 SI - GENBANK/AB554213 SI - GENBANK/AB554214 SI - GENBANK/AB554215 SI - GENBANK/AB554216 SI - GENBANK/AB554217 SI - GENBANK/AB554218 SI - GENBANK/AB554219 SI - GENBANK/AB554220 SI - GENBANK/AB554221 SI - GENBANK/AB554222 SI - GENBANK/AP011810 SI - GENBANK/AP011811 SI - GENBANK/AP011813 SI - GENBANK/AP011821 SI - GENBANK/AP011822 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20110315 PL - United States TA - Genetics JT - Genetics JID - 0374636 RN - 0 (DNA, Plant) RN - 0 (Plant Proteins) RN - 0 (Soybean Proteins) SB - IM MH - Acclimatization/genetics MH - Altitude MH - Amplified Fragment Length Polymorphism Analysis MH - Chromosome Mapping MH - Chromosomes, Plant/genetics MH - Cloning, Molecular/*methods MH - DNA, Plant/chemistry/genetics MH - Flowers/*genetics/growth & development MH - Gene Expression Regulation, Developmental MH - Gene Expression Regulation, Plant MH - Heterozygote MH - Lod Score MH - Molecular Sequence Data MH - Mutation MH - Phylogeny MH - Plant Proteins/classification/*genetics MH - Quantitative Trait Loci/genetics MH - Reverse Transcriptase Polymerase Chain Reaction MH - Sequence Analysis, DNA MH - Soybean Proteins/genetics MH - Glycine max/*genetics/growth & development MH - Time Factors PMC - PMC3122305 EDAT- 2011/03/17 06:00 MHDA- 2011/10/21 06:00 PMCR- 2011/06/01 CRDT- 2011/03/17 06:00 PHST- 2011/03/17 06:00 [entrez] PHST- 2011/03/17 06:00 [pubmed] PHST- 2011/10/21 06:00 [medline] PHST- 2011/06/01 00:00 [pmc-release] AID - genetics.110.125062 [pii] AID - 125062 [pii] AID - 10.1534/genetics.110.125062 [doi] PST - ppublish SO - Genetics. 2011 Jun;188(2):395-407. doi: 10.1534/genetics.110.125062. Epub 2011 Mar 15. ##### PUB RECORD ##### ## 10.1186/1471-2229-11-155 22070454 Gillman, Tetlow et al., 2011 "Gillman JD, Tetlow A, Lee JD, Shannon JG, Bilyeu K. Loss-of-function mutations affecting a specific Glycine max R2R3 MYB transcription factor result in brown hilum and brown seed coats. BMC Plant Biol. 2011 Nov 9;11:155. doi: 10.1186/1471-2229-11-155. PMID: 22070454; PMCID: PMC3229458." ## PMID- 22070454 OWN - NLM STAT- MEDLINE DCOM- 20120418 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 11 DP - 2011 Nov 9 TI - Loss-of-function mutations affecting a specific Glycine max R2R3 MYB transcription factor result in brown hilum and brown seed coats. PG - 155 LID - 10.1186/1471-2229-11-155 [doi] AB - BACKGROUND: Although modern soybean cultivars feature yellow seed coats, with the only color variation found at the hila, the ancestral condition is black seed coats. Both seed coat and hila coloration are due to the presence of phenylpropanoid pathway derivatives, principally anthocyanins. The genetics of soybean seed coat and hilum coloration were first investigated during the resurgence of genetics during the 1920s, following the rediscovery of Mendel's work. Despite the inclusion of this phenotypic marker into the extensive genetic maps developed for soybean over the last twenty years, the genetic basis behind the phenomenon of brown seed coats (the R locus) has remained undetermined until now. RESULTS: In order to identify the gene responsible for the r gene effect (brown hilum or seed coat color), we utilized bulk segregant analysis and identified recombinant lines derived from a population segregating for two phenotypically distinct alleles of the R locus. Fine mapping was accelerated through use of a novel, bioinformatically determined set of Simple Sequence Repeat (SSR) markers which allowed us to delimit the genomic region containing the r gene to less than 200 kbp, despite the use of a mapping population of only 100 F6 lines. Candidate gene analysis identified a loss of function mutation affecting a seed coat-specific expressed R2R3 MYB transcription factor gene (Glyma09g36990) as a strong candidate for the brown hilum phenotype. We observed a near perfect correlation between the mRNA expression levels of the functional R gene candidate and an UDP-glucose:flavonoid 3-O-glucosyltransferase (UF3GT) gene, which is responsible for the final step in anthocyanin biosynthesis. In contrast, when a null allele of Glyma09g36990 is expressed no upregulation of the UF3GT gene was found. CONCLUSIONS: We discovered an allelic series of four loss of function mutations affecting our R locus gene candidate. The presence of any one of these mutations was perfectly correlated with the brown seed coat/hilum phenotype in a broadly distributed survey of soybean cultivars, barring the presence of the epistatic dominant I allele or gray pubescence, both of which can mask the effect of the r allele, resulting in yellow or buff hila. These findings strongly suggest that loss of function for one particular seed coat-expressed R2R3 MYB gene is responsible for the brown seed coat/hilum phenotype in soybean. FAU - Gillman, Jason D AU - Gillman JD AD - USDA-ARS, Plant Genetics Research Unit, 110 Waters Hall, Columbia, MO 65211, USA. Jason.Gillman@ars.usda.gov FAU - Tetlow, Ashley AU - Tetlow A FAU - Lee, Jeong-Deong AU - Lee JD FAU - Shannon, J Grover AU - Shannon JG FAU - Bilyeu, Kristin AU - Bilyeu K LA - eng PT - Journal Article DEP - 20111109 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (DNA, Plant) RN - 0 (Soybean Proteins) RN - 0 (Transcription Factors) SB - IM MH - Alleles MH - Chromosome Mapping MH - DNA, Plant/genetics MH - Gene Expression Regulation, Plant MH - Genes, Plant MH - Microsatellite Repeats MH - Mutation MH - Phenotype MH - Pigmentation/*genetics MH - Seeds/*genetics/physiology MH - Soybean Proteins/*genetics MH - Glycine max/*genetics MH - Transcription Factors/*genetics PMC - PMC3229458 EDAT- 2011/11/11 06:00 MHDA- 2012/04/19 06:00 PMCR- 2011/11/09 CRDT- 2011/11/11 06:00 PHST- 2011/07/15 00:00 [received] PHST- 2011/11/09 00:00 [accepted] PHST- 2011/11/11 06:00 [entrez] PHST- 2011/11/11 06:00 [pubmed] PHST- 2012/04/19 06:00 [medline] PHST- 2011/11/09 00:00 [pmc-release] AID - 1471-2229-11-155 [pii] AID - 10.1186/1471-2229-11-155 [doi] PST - epublish SO - BMC Plant Biol. 2011 Nov 9;11:155. doi: 10.1186/1471-2229-11-155. ##### PUB RECORD ##### ## 10.1371/journal.pone.0235120 32584851 Redekar, Glover et al., 2020 "Redekar NR, Glover NM, Biyashev RM, Ha BK, Raboy V, Maroof MAS. Genetic interactions regulating seed phytate and oligosaccharides in soybean (Glycine max L.). PLoS One. 2020 Jun 25;15(6):e0235120. doi: 10.1371/journal.pone.0235120. PMID: 32584851; PMCID: PMC7316244." ## PMID- 32584851 OWN - NLM STAT- MEDLINE DCOM- 20200831 LR - 20231213 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 15 IP - 6 DP - 2020 TI - Genetic interactions regulating seed phytate and oligosaccharides in soybean (Glycine max L.). PG - e0235120 LID - 10.1371/journal.pone.0235120 [doi] LID - e0235120 AB - Two low-phytate soybean (Glycine max (L.) Merr.) mutant lines- V99-5089 (mips mutation on chromosome 11) and CX-1834 (mrp-l and mrp-n mutations on chromosomes 19 and 3, respectively) have proven to be valuable resources for breeding of low-phytate, high-sucrose, and low-raffinosaccharide soybeans, traits that are highly desirable from a nutritional and environmental standpoint. A recombinant inbred population derived from the cross CX1834 x V99-5089 provides an opportunity to study the effect of different combinations of these three mutations on soybean phytate and oligosaccharides levels. Of the 173 recombinant inbred lines tested, 163 lines were homozygous for various combinations of MIPS and two MRP loci alleles. These individuals were grouped into eight genotypic classes based on the combination of SNP alleles at the three mutant loci. The two genotypic classes that were homozygous mrp-l/mrp-n and either homozygous wild-type or mutant at the mips locus (MIPS/mrp-l/mrp-n or mips/mrp-l/mrp-n) displayed relatively similar ~55% reductions in seed phytate, 6.94 mg g -1 and 6.70 mg g-1 respectively, as compared with 15.2 mg g-1 in the wild-type MIPS/MRP-L/MRP-N seed. Therefore, in the presence of the double mutant mrp-l/mrp-n, the mips mutation did not cause a substantially greater decrease in seed phytate level. However, the nutritionally-desirable high-sucrose/low-stachyose/low-raffinose seed phenotype originally observed in soybeans homozygous for the mips allele was reversed in the presence of mrp-l/mrp-n mutations: homozygous mips/mrp-l/mrp-n seed displayed low-sucrose (7.70%), high-stachyose (4.18%), and the highest observed raffinose (0.94%) contents per gram of dry seed. Perhaps the block in phytic acid transport from its cytoplasmic synthesis site to its storage site, conditioned by mrp-l/mrp-n, alters myo-inositol flux in mips seeds in a way that restores to wild-type levels the mips conditioned reductions in raffinosaccharides. Overall this study determined the combinatorial effects of three low phytic acid causing mutations on regulation of seed phytate and oligosaccharides in soybean. FAU - Redekar, Neelam R AU - Redekar NR AUID- ORCID: 0000-0002-4819-9034 AD - School of Plant and Environmental Sciences, Virginia Tech, Blacksburg, Virginia, United States of America. FAU - Glover, Natasha M AU - Glover NM AD - School of Plant and Environmental Sciences, Virginia Tech, Blacksburg, Virginia, United States of America. FAU - Biyashev, Ruslan M AU - Biyashev RM AD - School of Plant and Environmental Sciences, Virginia Tech, Blacksburg, Virginia, United States of America. FAU - Ha, Bo-Keun AU - Ha BK AD - Institute of Plant Breeding, Genetics & Genomics, University of Georgia, Athens, Georgia, United States of America. FAU - Raboy, Victor AU - Raboy V AD - National Small Grains Germplasm Center, USDA-ARS, Aberdeen, Idaho, United States of America. FAU - Maroof, M A Saghai AU - Maroof MAS AD - School of Plant and Environmental Sciences, Virginia Tech, Blacksburg, Virginia, United States of America. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20200625 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Oligosaccharides) RN - 7IGF0S7R8I (Phytic Acid) SB - IM MH - *Genetic Loci MH - *Mutation MH - *Oligosaccharides/genetics/metabolism MH - Phytic Acid/*metabolism MH - *Seeds/genetics/metabolism MH - *Glycine max/genetics/metabolism PMC - PMC7316244 COIS- The authors have declared that no competing interests exist. EDAT- 2020/06/26 06:00 MHDA- 2020/09/01 06:00 PMCR- 2020/06/25 CRDT- 2020/06/26 06:00 PHST- 2020/03/19 00:00 [received] PHST- 2020/06/08 00:00 [accepted] PHST- 2020/06/26 06:00 [entrez] PHST- 2020/06/26 06:00 [pubmed] PHST- 2020/09/01 06:00 [medline] PHST- 2020/06/25 00:00 [pmc-release] AID - PONE-D-20-07955 [pii] AID - 10.1371/journal.pone.0235120 [doi] PST - epublish SO - PLoS One. 2020 Jun 25;15(6):e0235120. doi: 10.1371/journal.pone.0235120. eCollection 2020. ##### PUB RECORD ##### ## 10.1186/1471-2229-14-9 24397545 Fan, Hu et al., 2014 "Fan C, Hu R, Zhang X, Wang X, Zhang W, Zhang Q, Ma J, Fu YF. Conserved CO-FT regulons contribute to the photoperiod flowering control in soybean. BMC Plant Biol. 2014 Jan 7;14:9. doi: 10.1186/1471-2229-14-9. PMID: 24397545; PMCID: PMC3890618." ## PMID- 24397545 OWN - NLM STAT- MEDLINE DCOM- 20140910 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 14 DP - 2014 Jan 7 TI - Conserved CO-FT regulons contribute to the photoperiod flowering control in soybean. PG - 9 LID - 10.1186/1471-2229-14-9 [doi] AB - BACKGROUND: CO and FT orthologs, belonging to the BBX and PEBP family, respectively, have important and conserved roles in the photoperiod regulation of flowering time in plants. Soybean genome experienced at least three rounds of whole genome duplications (WGDs), which resulted in multiple copies of about 75% of genes. Subsequent subfunctionalization is the main fate for paralogous gene pairs during the evolutionary process. RESULTS: The phylogenic relationships revealed that CO orthologs were widespread in the plant kingdom while FT orthologs were present only in angiosperms. Twenty-eight CO homologous genes and twenty-four FT homologous genes were gained in the soybean genome. Based on the collinear relationship, the soybean ancestral CO ortholog experienced three WGD events, but only two paralogous gene pairs (GmCOL1/2 and GmCOL5/13) survived in the modern soybean. The paralogous gene pairs, GmCOL1/2 or GmCOL5/13, showed similar expression patterns in pair but different between pairs, indicating that they functionally diverged. GmFTL1 to 7 were derived from the same ancestor prior to the whole genome triplication (WGT) event, and after the Legume WGD event the ancestor diverged into two branches, GmFTL3/5/7 and GmFTL1/2/4/6. GmFTL7 were truncated in the N-terminus compared to other FT-lineage genes, but ubiquitously expressed. Expressions of GmFTL1 to 6 were higher in leaves at the flowering stage than that at the seedling stage. GmFTL3 was expressed at the highest level in all tissues except roots at the seedling stage, and its circadian pattern was different from the other five ones. The transcript of GmFTL6 was highly accumulated in seedling roots. The circadian rhythms of GmCOL5/13 and GmFT1/2/4/5/6 were synchronized in a day, demonstrating the complicate relationship of CO-FT regulons in soybean leaves. Over-expression of GmCOL2 did not rescue the flowering phenotype of the Arabidopsis co mutant. However, ectopic expression of GmCOL5 did rescue the co mutant phenotype. All GmFTL1 to 6 showed flower-promoting activities in Arabidopsis. CONCLUSIONS: After three recent rounds of whole genome duplications in the soybean, the paralogous genes of CO-FT regulons showed subfunctionalization through expression divergence. Then, only GmCOL5/13 kept flowering-promoting activities, while GmFTL1 to 6 contributed to flowering control. Additionally, GmCOL5/13 and GmFT1/2/3/4/5/6 showed similar circadian expression profiles. Therefore, our results suggested that GmCOL5/13 and GmFT1/2/3/4/5/6 formed the complicate CO-FT regulons in the photoperiod regulation of flowering time in soybean. FAU - Fan, Chengming AU - Fan C FAU - Hu, Ruibo AU - Hu R FAU - Zhang, Xiaomei AU - Zhang X FAU - Wang, Xu AU - Wang X FAU - Zhang, Wenjing AU - Zhang W FAU - Zhang, Qingzhe AU - Zhang Q FAU - Ma, Jinhua AU - Ma J FAU - Fu, Yong-Fu AU - Fu YF AD - MOA Key Lab of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Haidian District, Beijing 100081, China. fufu19cn@163.com. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140107 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (Plant Proteins) SB - IM MH - Circadian Rhythm/physiology MH - Flowers/genetics/*metabolism MH - Gene Duplication/genetics/physiology MH - Photoperiod MH - Phylogeny MH - Plant Proteins/genetics/metabolism MH - Glycine max/genetics/*metabolism PMC - PMC3890618 EDAT- 2014/01/09 06:00 MHDA- 2014/09/11 06:00 PMCR- 2014/01/07 CRDT- 2014/01/09 06:00 PHST- 2013/07/28 00:00 [received] PHST- 2013/11/25 00:00 [accepted] PHST- 2014/01/09 06:00 [entrez] PHST- 2014/01/09 06:00 [pubmed] PHST- 2014/09/11 06:00 [medline] PHST- 2014/01/07 00:00 [pmc-release] AID - 1471-2229-14-9 [pii] AID - 10.1186/1471-2229-14-9 [doi] PST - epublish SO - BMC Plant Biol. 2014 Jan 7;14:9. doi: 10.1186/1471-2229-14-9. ##### PUB RECORD ##### ## 10.1038/s41477-020-00832-7 33452487 Zhang, Wang et. al, 2021 "Zhang B, Wang M, Sun Y, Zhao P, Liu C, Qing K, Hu X, Zhong Z, Cheng J, Wang H, Peng Y, Shi J, Zhuang L, Du S, He M, Wu H, Liu M, Chen S, Wang H, Chen X, Fan W, Tian K, Wang Y, Chen Q, Wang S, Dong F, Yang C, Zhang M, Song Q, Li Y, Wang X. Glycine max NNL1 restricts symbiotic compatibility with widely distributed bradyrhizobia via root hair infection. Nat Plants. 2021 Jan;7(1):73-86. doi: 10.1038/s41477-020-00832-7. Epub 2021 Jan 15. Erratum in: Nat Plants. 2021 Feb;7(2):239. doi: 10.1038/s41477-021-00872-7. PMID: 33452487." ## PMID- 33452487 OWN - NLM STAT- MEDLINE DCOM- 20210423 LR - 20231213 IS - 2055-0278 (Electronic) IS - 2055-0278 (Linking) VI - 7 IP - 1 DP - 2021 Jan TI - Glycine max NNL1 restricts symbiotic compatibility with widely distributed bradyrhizobia via root hair infection. PG - 73-86 LID - 10.1038/s41477-020-00832-7 [doi] AB - Symbiosis between soybean (Glycine max) and rhizobia is essential for efficient nitrogen fixation. Rhizobial effectors secreted through the type-III secretion system are key for mediating the interactions between plants and rhizobia, but the molecular mechanism remains largely unknown. Here, our genome-wide association study for nodule number identified G. max Nodule Number Locus 1 (GmNNL1), which encodes a new R protein. GmNNL1 directly interacts with the nodulation outer protein P (NopP) effector from Bradyrhizobium USDA110 to trigger immunity and inhibit nodulation through root hair infection. The insertion of a 179 bp short interspersed nuclear element (SINE)-like transposon into GmNNL1 leads to the loss of function of GmNNL1, enabling bradyrhizobia to successfully nodulate soybeans through the root hair infection route and enhancing nitrogen fixation. Our findings provide important insights into the coevolution of soybean-bradyrhizobia compatibility and offer a way to design new legume-rhizobia interactions for efficient symbiotic nitrogen fixation. FAU - Zhang, Bao AU - Zhang B AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Wang, Mengdi AU - Wang M AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Sun, Yifang AU - Sun Y AD - State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Zhao, Peng AU - Zhao P AD - State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Liu, Chang AU - Liu C AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Qing, Ke AU - Qing K AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Hu, Xiaotong AU - Hu X AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Zhong, Zhedong AU - Zhong Z AD - State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Cheng, Jialong AU - Cheng J AD - State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Wang, Haijiao AU - Wang H AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Peng, Yaqi AU - Peng Y AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Shi, Jiajia AU - Shi J AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Zhuang, Lili AU - Zhuang L AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Du, Si AU - Du S AD - State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - He, Miao AU - He M AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Wu, Hui AU - Wu H AD - State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Liu, Min AU - Liu M AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Chen, Shengcai AU - Chen S AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Wang, Hong AU - Wang H AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Chen, Xu AU - Chen X AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Fan, Wei AU - Fan W AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Tian, Kewei AU - Tian K AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. FAU - Wang, Yin AU - Wang Y AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Chen, Qiang AU - Chen Q AD - Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences/Hebei Laboratory of Crop Genetics and Breeding, Shijiazhuang, China. FAU - Wang, Shixiang AU - Wang S AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Dong, Faming AU - Dong F AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. AD - Soybean Genomics and Improvement Laboratory, ARS, USDA, Beltsville, MD, USA. FAU - Yang, Chunyan AU - Yang C AD - Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences/Hebei Laboratory of Crop Genetics and Breeding, Shijiazhuang, China. FAU - Zhang, Mengchen AU - Zhang M AD - Institute of Cereal and Oil Crops, Hebei Academy of Agriculture and Forestry Sciences/Hebei Laboratory of Crop Genetics and Breeding, Shijiazhuang, China. FAU - Song, Qijian AU - Song Q AD - Soybean Genomics and Improvement Laboratory, ARS, USDA, Beltsville, MD, USA. FAU - Li, Youguo AU - Li Y AD - Center of Integrative Biology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. youguoli@mail.hzau.edu.cn. AD - State Key Laboratory of Agricultural Microbiology, College of Life Science and Technology, Huazhong Agricultural University, Wuhan, China. youguoli@mail.hzau.edu.cn. FAU - Wang, Xuelu AU - Wang X AUID- ORCID: 0000-0003-2003-1077 AD - State Key Laboratory of Crop Stress Adaptation and Improvement, Henan University, Kaifeng, China. xueluw@henu.edu.cn. LA - eng PT - Journal Article DEP - 20210115 PL - England TA - Nat Plants JT - Nature plants JID - 101651677 RN - 0 (Plant Proteins) SB - IM EIN - Nat Plants. 2021 Feb;7(2):239. doi: 10.1038/s41477-021-00872-7. PMID: 33558756 MH - Bradyrhizobium/*metabolism/physiology MH - Genome-Wide Association Study MH - Haplotypes/genetics MH - Nitrogen Fixation MH - Plant Proteins/genetics/*physiology MH - Plant Roots/*microbiology/physiology MH - Polymorphism, Single Nucleotide/genetics MH - Root Nodules, Plant/microbiology/physiology MH - Glycine max/genetics/microbiology/*physiology MH - Symbiosis/*physiology MH - Whole Genome Sequencing EDAT- 2021/01/17 06:00 MHDA- 2021/04/24 06:00 CRDT- 2021/01/16 05:38 PHST- 2019/10/04 00:00 [received] PHST- 2020/12/08 00:00 [accepted] PHST- 2021/01/16 05:38 [entrez] PHST- 2021/01/17 06:00 [pubmed] PHST- 2021/04/24 06:00 [medline] AID - 10.1038/s41477-020-00832-7 [pii] AID - 10.1038/s41477-020-00832-7 [doi] PST - ppublish SO - Nat Plants. 2021 Jan;7(1):73-86. doi: 10.1038/s41477-020-00832-7. Epub 2021 Jan 15. ##### PUB RECORD ##### ## 10.1016/j.plantsci.2019.110386 32005391 Tian, Liu et al., 2019 "Tian SN, Liu DD, Zhong CL, Xu HY, Yang S, Fang Y, Ran J, Liu JZ. Silencing GmFLS2 enhances the susceptibility of soybean to bacterial pathogen through attenuating the activation of GmMAPK signaling pathway. Plant Sci. 2020 Mar;292:110386. doi: 10.1016/j.plantsci.2019.110386. Epub 2019 Dec 24. PMID: 32005391." ## PMID- 32005391 OWN - NLM STAT- MEDLINE DCOM- 20200831 LR - 20231213 IS - 1873-2259 (Electronic) IS - 0168-9452 (Linking) VI - 292 DP - 2020 Mar TI - Silencing GmFLS2 enhances the susceptibility of soybean to bacterial pathogen through attenuating the activation of GmMAPK signaling pathway. PG - 110386 LID - S0168-9452(19)31559-6 [pii] LID - 10.1016/j.plantsci.2019.110386 [doi] AB - The plasma membrane (PM)-localized receptor-like kinases (RLKs) play important roles in pathogen defense. One of the first cloned RLKs is the Arabidopsis receptor kinase FLAGELLIN SENSING 2 (FLS2), which specifically recognizes a conserved 22 amino acid N-terminal sequence of Pseudomonas syringae pv．tomato DC3000 (Pst) flagellin protein (flg22). Although extensively studied in Arabidopsis, the functions of RLKs in crop plants remain largely uninvestigated. To understand the roles of RLKs in soybean (Glycine max), GmFLS2 was silenced via virus induced gene silencing (VIGS) mediated by Bean pod mottle virus (BPMV). No significant morphological differences were observed between GmFLS2-silenced plants and the vector control plants. However, silencing GmFLS2 significantly enhanced the susceptibility of the soybean plants to Pseudomonas syringae pv．glycinea (Psg). Kinase activity assay showed that silencing GmFLS2 significantly reduced the phosphorylation level of GmMPK6 in response to flg22 treatment. However, reduced phosphorylation level of both GmMPK3 and GmMPK6 in response to Psg infection was observed in GmFLS2-silenced plants, implying that defense response is likely transduced through activation of the downstream GmMAPK signaling pathway upon recognition of bacterial pathogen by GmFLS2. The core peptides of flg22 from Pst and Psg were highly conserved and only 4 amino acid differences were seen at their N-termini. Interestingly, it appeared that the Psg-flg22 was more effective in activating soybean MAPKs than activating Arabidopsis MAPKs, and conversely, Pst-flg22 was more effective in activating Arabidopsis MAPKs than activating soybean MAPKs, suggesting that the cognate recognition is more potent than heterologous recognition in activating downstream signaling. Taken together, our results suggest that the function of FLS2 is conserved in immunity against bacteria pathogens across different plant species. CI - Copyright (c) 2019. Published by Elsevier B.V. FAU - Tian, Sheng-Nan AU - Tian SN AD - College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua, Zhejiang Province, 321004, China. FAU - Liu, Dan-Dan AU - Liu DD AD - College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua, Zhejiang Province, 321004, China. FAU - Zhong, Chen-Li AU - Zhong CL AD - College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua, Zhejiang Province, 321004, China. FAU - Xu, Hui-Yang AU - Xu HY AD - College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua, Zhejiang Province, 321004, China. FAU - Yang, Shuo AU - Yang S AD - College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua, Zhejiang Province, 321004, China. FAU - Fang, Yuan AU - Fang Y AD - College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua, Zhejiang Province, 321004, China. FAU - Ran, Jie AU - Ran J AD - College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua, Zhejiang Province, 321004, China. FAU - Liu, Jian-Zhong AU - Liu JZ AD - College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua, Zhejiang Province, 321004, China. Electronic address: jzliu@zjnu.cn. LA - eng PT - Journal Article DEP - 20191224 PL - Ireland TA - Plant Sci JT - Plant science : an international journal of experimental plant biology JID - 9882015 RN - 0 (Plant Proteins) RN - EC 2.7.- (Protein Kinases) RN - Bean pod mottle virus SB - IM MH - Comovirus MH - *Gene Silencing MH - Plant Diseases/*genetics/microbiology MH - Plant Proteins/*genetics/metabolism MH - Protein Kinases/*genetics/metabolism MH - Pseudomonas syringae/*physiology MH - Glycine max/*genetics/*microbiology OTO - NOTNLM OT - FLAGELLIN SENSING 2 (FLS2) OT - MAPK OT - Soybean OT - Virus-induced gene silencing (VIGS) OT - flg22 COIS- Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper. EDAT- 2020/02/02 06:00 MHDA- 2020/09/01 06:00 CRDT- 2020/02/02 06:00 PHST- 2019/10/13 00:00 [received] PHST- 2019/12/16 00:00 [revised] PHST- 2019/12/21 00:00 [accepted] PHST- 2020/02/02 06:00 [entrez] PHST- 2020/02/02 06:00 [pubmed] PHST- 2020/09/01 06:00 [medline] AID - S0168-9452(19)31559-6 [pii] AID - 10.1016/j.plantsci.2019.110386 [doi] PST - ppublish SO - Plant Sci. 2020 Mar;292:110386. doi: 10.1016/j.plantsci.2019.110386. Epub 2019 Dec 24. ##### PUB RECORD ##### ## 10.3389/fpls.2021.629069 33841461 Yang, Zhang et al., 2021 "Yang X, Zhang Y, Shan J, Sun J, Li D, Zhang X, Li W, Zhao L. GmIDD Is Induced by Short Days in Soybean and May Accelerate Flowering When Overexpressed in Arabidopsis via Inhibiting AGAMOUS-LIKE 18. Front Plant Sci. 2021 Feb 26;12:629069. doi: 10.3389/fpls.2021.629069. PMID: 33841461; PMCID: PMC8029582." ## PMID- 33841461 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20210413 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 12 DP - 2021 TI - GmIDD Is Induced by Short Days in Soybean and May Accelerate Flowering When Overexpressed in Arabidopsis via Inhibiting AGAMOUS-LIKE 18. PG - 629069 LID - 10.3389/fpls.2021.629069 [doi] LID - 629069 AB - Photoperiod is one of the main climatic factors that determine flowering time and yield. Some members of the INDETERMINATE DOMAIN (IDD) transcription factor family have been reported to be involved in regulation of flowering time in Arabidopsis, maize, and rice. In this study, the domain analysis showed that GmIDD had a typical ID domain and was a member of the soybean IDD transcription factor family. Quantitative real-time PCR analysis showed that GmIDD was induced by short day conditions in leaves and regulated by circadian clock. Under long day conditions, transgenic Arabidopsis overexpressing GmIDD flowered earlier than wild-type, and idd mutants flowered later, while the overexpression of GmIDD rescued the late-flowering phenotype of idd mutants. Chromatin immunoprecipitation sequencing assays of GmIDD binding sites in GmIDD-overexpression (GmIDD-ox) Arabidopsis further identified potential direct targets, including a transcription factor, AGAMOUS-like 18 (AGL18). GmIDD might inhibit the transcriptional activity of flower repressor AGL18 by binding to the TTTTGGTCC motif of AGL18 promoter. Furthermore, the results also showed that GmIDD overexpression increased the transcription levels of flowering time-related genes FLOWERING LOCUS T (FT), SUPPRESSOR OF OVEREXPRESSION OF CONSTANS1 (SOC1), LEAFY (LFY) and APETALA1 (AP1) in Arabidopsis. Taken together, GmIDD appeared to inhibit the transcriptional activity of AGL18 and induced the expression of FT gene to promote Arabidopsis flowering. CI - Copyright (c) 2021 Yang, Zhang, Shan, Sun, Li, Zhang, Li and Zhao. FAU - Yang, Xue AU - Yang X AD - Key Laboratory of Soybean Biology of Ministry of Education, China (Key Laboratory of Biology and Genetics and Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, China. FAU - Zhang, Yuntong AU - Zhang Y AD - Key Laboratory of Soybean Biology of Ministry of Education, China (Key Laboratory of Biology and Genetics and Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, China. FAU - Shan, Jinming AU - Shan J AD - Key Laboratory of Soybean Biology of Ministry of Education, China (Key Laboratory of Biology and Genetics and Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, China. FAU - Sun, Jingzhe AU - Sun J AD - Key Laboratory of Soybean Biology of Ministry of Education, China (Key Laboratory of Biology and Genetics and Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, China. FAU - Li, Dongmei AU - Li D AD - Key Laboratory of Soybean Biology of Ministry of Education, China (Key Laboratory of Biology and Genetics and Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, China. FAU - Zhang, Xiaoming AU - Zhang X AD - Key Laboratory of Soybean Biology of Ministry of Education, China (Key Laboratory of Biology and Genetics and Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, China. FAU - Li, Wenbin AU - Li W AD - Key Laboratory of Soybean Biology of Ministry of Education, China (Key Laboratory of Biology and Genetics and Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, China. FAU - Zhao, Lin AU - Zhao L AD - Key Laboratory of Soybean Biology of Ministry of Education, China (Key Laboratory of Biology and Genetics and Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, China. LA - eng PT - Journal Article DEP - 20210226 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC8029582 OTO - NOTNLM OT - AGL18 OT - GmIDD OT - flowering OT - photoperiod OT - soybean COIS- The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. EDAT- 2021/04/13 06:00 MHDA- 2021/04/13 06:01 PMCR- 2021/01/01 CRDT- 2021/04/12 06:17 PHST- 2020/12/07 00:00 [received] PHST- 2021/01/22 00:00 [accepted] PHST- 2021/04/12 06:17 [entrez] PHST- 2021/04/13 06:00 [pubmed] PHST- 2021/04/13 06:01 [medline] PHST- 2021/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2021.629069 [doi] PST - epublish SO - Front Plant Sci. 2021 Feb 26;12:629069. doi: 10.3389/fpls.2021.629069. eCollection 2021. ##### PUB RECORD ##### ## 10.1007/s00122-016-2819-7 27832313 Samanfar, Molnar et al., 2017 "Samanfar B, Molnar SJ, Charette M, Schoenrock A, Dehne F, Golshani A, Belzile F, Cober ER. Mapping and identification of a potential candidate gene for a novel maturity locus, E10, in soybean. Theor Appl Genet. 2017 Feb;130(2):377-390. doi: 10.1007/s00122-016-2819-7. Epub 2016 Nov 10. PMID: 27832313." ## PMID- 27832313 OWN - NLM STAT- MEDLINE DCOM- 20170209 LR - 20231213 IS - 1432-2242 (Electronic) IS - 0040-5752 (Linking) VI - 130 IP - 2 DP - 2017 Feb TI - Mapping and identification of a potential candidate gene for a novel maturity locus, E10, in soybean. PG - 377-390 LID - 10.1007/s00122-016-2819-7 [doi] AB - E10 is a new maturity locus in soybean and FT4 is the predicted/potential functional gene underlying the locus. Flowering and maturity time traits play crucial roles in economic soybean production. Early maturity is critical for north and west expansion of soybean in Canada. To date, 11 genes/loci have been identified which control time to flowering and maturity; however, the molecular bases of almost half of them are not yet clear. We have identified a new maturity locus called "E10" located at the end of chromosome Gm08. The gene symbol E10e10 has been approved by the Soybean Genetics Committee. The e10e10 genotype results in 5-10 days earlier maturity than E10E10. A set of presumed E10E10 and e10e10 genotypes was used to identify contrasting SSR and SNP haplotypes. These haplotypes, and their association with maturity, were maintained through five backcross generations. A functional genomics approach using a predicted protein-protein interaction (PPI) approach (Protein-protein Interaction Prediction Engine, PIPE) was used to investigate approximately 75 genes located in the genomic region that SSR and SNP analyses identified as the location of the E10 locus. The PPI analysis identified FT4 as the most likely candidate gene underlying the E10 locus. Sequence analysis of the two FT4 alleles identified three SNPs, in the 5'UTR, 3'UTR and fourth exon in the coding region, which result in differential mRNA structures. Allele-specific markers were developed for this locus and are available for soybean breeders to efficiently develop earlier maturing cultivars using molecular marker assisted breeding. FAU - Samanfar, Bahram AU - Samanfar B AD - Agriculture and Agri-Food Canada, Ottawa Research and Development Centre, Ottawa, ON, K1A 0C6, Canada. FAU - Molnar, Stephen J AU - Molnar SJ AD - Agriculture and Agri-Food Canada, Ottawa Research and Development Centre, Ottawa, ON, K1A 0C6, Canada. FAU - Charette, Martin AU - Charette M AD - Agriculture and Agri-Food Canada, Ottawa Research and Development Centre, Ottawa, ON, K1A 0C6, Canada. FAU - Schoenrock, Andrew AU - Schoenrock A AD - School of Computer Science, Carleton University, Ottawa, ON, K1S 5B6, Canada. FAU - Dehne, Frank AU - Dehne F AD - School of Computer Science, Carleton University, Ottawa, ON, K1S 5B6, Canada. FAU - Golshani, Ashkan AU - Golshani A AD - Department of Biology and Ottawa Institute of Systems Biology, Carleton University, Ottawa, ON, K1S 5B6, Canada. FAU - Belzile, Francois AU - Belzile F AD - Departement de Phytologie and Institut de Biologie Integrative et des Systemes, Universite Laval, Quebec City, QC, G1V 0A6, Canada. FAU - Cober, Elroy R AU - Cober ER AUID- ORCID: 0000-0002-4673-1808 AD - Agriculture and Agri-Food Canada, Ottawa Research and Development Centre, Ottawa, ON, K1A 0C6, Canada. elroy.cober@agr.gc.ca. LA - eng PT - Journal Article DEP - 20161110 PL - Germany TA - Theor Appl Genet JT - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik JID - 0145600 RN - 0 (DNA, Plant) RN - 0 (Genetic Markers) RN - 0 (RNA, Messenger) SB - IM MH - *Chromosome Mapping MH - Computational Biology MH - DNA, Plant/genetics MH - *Genetic Loci MH - Genetic Markers MH - Genotype MH - Haplotypes MH - Microsatellite Repeats MH - Nucleic Acid Conformation MH - Plant Breeding MH - Polymorphism, Single Nucleotide MH - RNA, Messenger/chemistry MH - Glycine max/*genetics/physiology EDAT- 2016/11/11 06:00 MHDA- 2017/02/10 06:00 CRDT- 2016/11/11 06:00 PHST- 2016/07/18 00:00 [received] PHST- 2016/10/27 00:00 [accepted] PHST- 2016/11/11 06:00 [pubmed] PHST- 2017/02/10 06:00 [medline] PHST- 2016/11/11 06:00 [entrez] AID - 10.1007/s00122-016-2819-7 [pii] AID - 10.1007/s00122-016-2819-7 [doi] PST - ppublish SO - Theor Appl Genet. 2017 Feb;130(2):377-390. doi: 10.1007/s00122-016-2819-7. Epub 2016 Nov 10. ##### PUB RECORD ##### ## 10.1111/jipb.12201 24673766 Hayashi, Gresshoff et al., 2014 "Hayashi S, Gresshoff PM, Ferguson BJ. Mechanistic action of gibberellins in legume nodulation. J Integr Plant Biol. 2014 Oct;56(10):971-8. doi: 10.1111/jipb.12201. Epub 2014 May 18. PMID: 24673766." ## PMID- 24673766 OWN - NLM STAT- MEDLINE DCOM- 20150611 LR - 20141002 IS - 1744-7909 (Electronic) IS - 1672-9072 (Linking) VI - 56 IP - 10 DP - 2014 Oct TI - Mechanistic action of gibberellins in legume nodulation. PG - 971-8 LID - 10.1111/jipb.12201 [doi] AB - Legume plants are capable of entering into a symbiotic relationship with rhizobia bacteria. This results in the formation of novel organs on their roots, called nodules, in which the bacteria capture atmospheric nitrogen and provide it as ammonium to the host plant. Complex molecular and physiological changes are involved in the formation and establishment of such nodules. Several phytohormones are known to play key roles in this process. Gibberellins (gibberellic acids; GAs), a class of phytohormones known to be involved in a wide range of biological processes (i.e., cell elongation, germination) are reported to be involved in the formation and maturation of legume nodules, highlighted by recent transcriptional analyses of early soybean symbiotic steps. Here, we summarize what is currently known about GAs in legume nodulation and propose a model of GA action during nodule development. Results from a wide range of studies, including GA application, mutant phenotyping, and gene expression studies, indicate that GAs are required at different stages, with an optimum, tightly regulated level being key to achieve successful nodulation. Gibberellic acids appear to be required at two distinct stages of nodulation: (i) early stages of rhizobia infection and nodule primordium establishment; and (ii) later stages of nodule maturation. CI - (c) 2014 Institute of Botany, Chinese Academy of Sciences. FAU - Hayashi, Satomi AU - Hayashi S AD - Centre for Integrative Legume Research, The University of Queensland, St. Lucia, Brisbane, Queensland 4072, Australia. FAU - Gresshoff, Peter M AU - Gresshoff PM FAU - Ferguson, Brett J AU - Ferguson BJ LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Review DEP - 20140518 PL - China (Republic : 1949- ) TA - J Integr Plant Biol JT - Journal of integrative plant biology JID - 101250502 RN - 0 (Gibberellins) SB - IM MH - Fabaceae/*physiology MH - Gibberellins/*physiology MH - *Plant Root Nodulation OTO - NOTNLM OT - Gibberellic acid OT - legume OT - nodulation OT - phytohormone OT - plant development OT - rhizobia OT - symbiosis EDAT- 2014/03/29 06:00 MHDA- 2015/06/13 06:00 CRDT- 2014/03/29 06:00 PHST- 2014/01/23 00:00 [received] PHST- 2014/03/25 00:00 [accepted] PHST- 2014/03/29 06:00 [entrez] PHST- 2014/03/29 06:00 [pubmed] PHST- 2015/06/13 06:00 [medline] AID - 10.1111/jipb.12201 [doi] PST - ppublish SO - J Integr Plant Biol. 2014 Oct;56(10):971-8. doi: 10.1111/jipb.12201. Epub 2014 May 18. ##### PUB RECORD ##### ## 10.1111/tpj.15520 34587329 Zhuang, Xue et al., 2021 "Zhuang Q, Xue Y, Yao Z, Zhu S, Liang C, Liao H, Tian J. Phosphate starvation responsive GmSPX5 mediates nodule growth through interaction with GmNF-YC4 in soybean (Glycine max). Plant J. 2021 Dec;108(5):1422-1438. doi: 10.1111/tpj.15520. Epub 2021 Oct 11. PMID: 34587329." ## PMID- 34587329 OWN - NLM STAT- MEDLINE DCOM- 20220207 LR - 20231213 IS - 1365-313X (Electronic) IS - 0960-7412 (Linking) VI - 108 IP - 5 DP - 2021 Dec TI - Phosphate starvation responsive GmSPX5 mediates nodule growth through interaction with GmNF-YC4 in soybean (Glycine max). PG - 1422-1438 LID - 10.1111/tpj.15520 [doi] AB - Phosphorus (P) deficiency adversely affects nodule development as reflected by reduced nodule fresh weight in legume plants. Though mechanisms underlying nodule adaptation to P deficiency have been studied extensively, it remains largely unknown which regulator mediates nodule adaptation to P deficiency. In this study, GUS staining and quantitative reverse transcription-PCR analysis reveal that the SPX member GmSPX5 is preferentially expressed in soybean (Glycine max) nodules. Overexpression of GmSPX5 enhanced soybean nodule development particularly under phosphate (Pi) sufficient conditions. However, the Pi concentration was not affected in soybean tissues (i.e., leaves, roots, and nodules) of GmSPX5 overexpression or suppression lines, which distinguished it from other well-known SPX members functioning in control of Pi homeostasis in plants. Furthermore, GmSPX5 was observed to interact with the transcription factor GmNF-YC4 in vivo and in vitro. Overexpression of either GmSPX5 or GmNF-YC4 significantly upregulated the expression levels of five asparagine synthetase-related genes (i.e., GmASL2-6) in soybean nodules. Meanwhile, yeast one-hybrid and luciferase activity assays strongly suggested that interactions of GmSPX5 and GmNF-YC4 activate GmASL6 expression through enhancing GmNF-YC4 binding of the GmASL6 promoter. These results not only demonstrate the GmSPX5-GmNF-YC4-GmASL6 regulatory pathway mediating soybean nodule development, but also considerably improve our understanding of SPX functions in legume crops. CI - (c) 2021 Society for Experimental Biology and John Wiley & Sons Ltd. FAU - Zhuang, Qingli AU - Zhuang Q AD - Root Biology Center, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, P.R. China. FAU - Xue, Yingbin AU - Xue Y AD - Root Biology Center, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, P.R. China. AD - Department of Resources and Environmental Sciences, College of Chemistry and Environment, Guangdong Ocean University, Zhanjiang, 524088, P.R. China. FAU - Yao, Zhufang AU - Yao Z AD - Root Biology Center, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, P.R. China. FAU - Zhu, Shengnan AU - Zhu S AD - Root Biology Center, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, P.R. China. FAU - Liang, Cuiyue AU - Liang C AD - Root Biology Center, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, P.R. China. FAU - Liao, Hong AU - Liao H AD - Root Biology Center, Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, 350000, P.R. China. FAU - Tian, Jiang AU - Tian J AUID- ORCID: 0000-0002-1104-7803 AD - Root Biology Center, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Natural Resources and Environment, South China Agricultural University, Guangzhou, 510642, P.R. China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20211011 PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 RN - 0 (Phosphates) RN - 0 (Plant Proteins) RN - 0 (Transcription Factors) RN - 27YLU75U4W (Phosphorus) SB - IM MH - Adaptation, Physiological MH - Homeostasis MH - Phosphates/*deficiency MH - Phosphorus/deficiency MH - Plant Leaves/genetics/growth & development/physiology MH - Plant Proteins/genetics/*metabolism MH - Plant Roots/genetics/growth & development/physiology MH - Glycine max/*genetics/growth & development/physiology MH - Transcription Factors/genetics/metabolism OTO - NOTNLM OT - SPX protein OT - asparagine synthetase OT - nodules OT - phosphate starvation OT - soybean EDAT- 2021/09/30 06:00 MHDA- 2022/02/08 06:00 CRDT- 2021/09/29 17:27 PHST- 2020/12/13 00:00 [received] PHST- 2021/09/20 00:00 [accepted] PHST- 2021/09/30 06:00 [pubmed] PHST- 2022/02/08 06:00 [medline] PHST- 2021/09/29 17:27 [entrez] AID - 10.1111/tpj.15520 [doi] PST - ppublish SO - Plant J. 2021 Dec;108(5):1422-1438. doi: 10.1111/tpj.15520. Epub 2021 Oct 11. ##### PUB RECORD ##### ## 10.1105/tpc.114.126938 25005919 Ping, Liu, et al., 2014 "Ping J, Liu Y, Sun L, Zhao M, Li Y, She M, Sui Y, Lin F, Liu X, Tang Z, Nguyen H, Tian Z, Qiu L, Nelson RL, Clemente TE, Specht JE, Ma J. Dt2 is a gain-of-function MADS-domain factor gene that specifies semideterminacy in soybean. Plant Cell. 2014 Jul;26(7):2831-42. doi: 10.1105/tpc.114.126938. Epub 2014 Jul 8. PMID: 25005919; PMCID: PMC4145117." ## PMID- 25005919 OWN - NLM STAT- MEDLINE DCOM- 20150714 LR - 20231213 IS - 1532-298X (Electronic) IS - 1040-4651 (Print) IS - 1040-4651 (Linking) VI - 26 IP - 7 DP - 2014 Jul TI - Dt2 is a gain-of-function MADS-domain factor gene that specifies semideterminacy in soybean. PG - 2831-42 LID - 10.1105/tpc.114.126938 [doi] AB - Similar to Arabidopsis thaliana, the wild soybeans (Glycine soja) and many cultivars exhibit indeterminate stem growth specified by the shoot identity gene Dt1, the functional counterpart of Arabidopsis TERMINAL FLOWER1 (TFL1). Mutations in TFL1 and Dt1 both result in the shoot apical meristem (SAM) switching from vegetative to reproductive state to initiate terminal flowering and thus produce determinate stems. A second soybean gene (Dt2) regulating stem growth was identified, which, in the presence of Dt1, produces semideterminate plants with terminal racemes similar to those observed in determinate plants. Here, we report positional cloning and characterization of Dt2, a dominant MADS domain factor gene classified into the APETALA1/SQUAMOSA (AP1/SQUA) subfamily that includes floral meristem (FM) identity genes AP1, FUL, and CAL in Arabidopsis. Unlike AP1, whose expression is limited to FMs in which the expression of TFL1 is repressed, Dt2 appears to repress the expression of Dt1 in the SAMs to promote early conversion of the SAMs into reproductive inflorescences. Given that Dt2 is not the gene most closely related to AP1 and that semideterminacy is rarely seen in wild soybeans, Dt2 appears to be a recent gain-of-function mutation, which has modified the genetic pathways determining the stem growth habit in soybean. CI - (c) 2014 American Society of Plant Biologists. All rights reserved. FAU - Ping, Jieqing AU - Ping J AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Liu, Yunfeng AU - Liu Y AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Sun, Lianjun AU - Sun L AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Zhao, Meixia AU - Zhao M AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Li, Yinghui AU - Li Y AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - She, Maoyun AU - She M AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Sui, Yi AU - Sui Y AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Lin, Feng AU - Lin F AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Liu, Xiaodong AU - Liu X AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Tang, Zongxiang AU - Tang Z AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Nguyen, Hanh AU - Nguyen H AD - Department of Agronomy and Horticulture/Center for Plant Science Innovation, University of Nebraska, Lincoln, Nebraska 68583. FAU - Tian, Zhixi AU - Tian Z AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Qiu, Lijuan AU - Qiu L AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Nelson, Randall L AU - Nelson RL AD - Soybean/Maize Germplasm, Pathology, and Genetics Research Unit, U.S. Department of Agriculture-Agricultural Research Service, Department of Crop Sciences, University of Illinois, Urbana, Illinois 61801. FAU - Clemente, Thomas E AU - Clemente TE AD - Department of Agronomy and Horticulture/Center for Plant Science Innovation, University of Nebraska, Lincoln, Nebraska 68583. FAU - Specht, James E AU - Specht JE AD - Department of Agronomy and Horticulture/Center for Plant Science Innovation, University of Nebraska, Lincoln, Nebraska 68583. FAU - Ma, Jianxin AU - Ma J AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907 maj@purdue.edu. LA - eng SI - GENBANK/KF908014 SI - GENBANK/KF908015 PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Research Support, U.S. Gov't, Non-P.H.S. DEP - 20140708 PL - England TA - Plant Cell JT - The Plant cell JID - 9208688 RN - 0 (MADS Domain Proteins) RN - 0 (Plant Proteins) SB - IM MH - Arabidopsis/genetics MH - Base Sequence MH - Chromosome Mapping MH - Chromosomes, Plant/*genetics MH - Flowers/genetics/growth & development MH - Gene Expression Regulation, Developmental MH - *Gene Expression Regulation, Plant MH - Genetic Linkage MH - Genetic Loci MH - MADS Domain Proteins/*genetics/metabolism MH - Meristem/genetics/growth & development MH - Molecular Sequence Data MH - Mutation MH - Phenotype MH - Phylogeny MH - Plant Proteins/genetics/metabolism MH - Plant Stems/genetics/growth & development MH - Plants, Genetically Modified MH - Sequence Analysis, DNA MH - Glycine max/*genetics/growth & development PMC - PMC4145117 EDAT- 2014/07/10 06:00 MHDA- 2015/07/15 06:00 PMCR- 2015/07/01 CRDT- 2014/07/10 06:00 PHST- 2014/07/10 06:00 [entrez] PHST- 2014/07/10 06:00 [pubmed] PHST- 2015/07/15 06:00 [medline] PHST- 2015/07/01 00:00 [pmc-release] AID - tpc.114.126938 [pii] AID - 126938 [pii] AID - 10.1105/tpc.114.126938 [doi] PST - ppublish SO - Plant Cell. 2014 Jul;26(7):2831-42. doi: 10.1105/tpc.114.126938. Epub 2014 Jul 8. ##### PUB RECORD ##### ## 10.1016/j.plantsci.2019.110298 31779909 Bai, Jing et al., 2020 "Bai Y, Jing G, Zhou J, Li S, Bi R, Zhao J, Jia Q, Zhang Q, Zhang W. Overexpression of soybean GmPLDγ enhances seed oil content and modulates fatty acid composition in transgenic Arabidopsis. Plant Sci. 2020 Jan;290:110298. doi: 10.1016/j.plantsci.2019.110298. Epub 2019 Oct 6. Erratum in: Plant Sci. 2021 Jun;307:110881. doi: 10.1016/j.plantsci.2021.110881. PMID: 31779909." ## PMID- 31779909 OWN - NLM STAT- MEDLINE DCOM- 20200323 LR - 20231213 IS - 1873-2259 (Electronic) IS - 0168-9452 (Linking) VI - 290 DP - 2020 Jan TI - Overexpression of soybean GmPLDgamma enhances seed oil content and modulates fatty acid composition in transgenic Arabidopsis. PG - 110298 LID - S0168-9452(19)30840-4 [pii] LID - 10.1016/j.plantsci.2019.110298 [doi] AB - Phospholipase D (PLD) hydrolyzes the phosphodiester bond of glycerophospholipids to yield phosphatidic acid (PA) and a free headgroup. PLDs are important for plant growth, development, and responses to external stresses. However, their roles in triacylglycerol (TAG) synthesis are still unclear. Here, we report that a soybean (Glycine max) PLDgamma (GmPLDgamma) is involved in glycerolipid turnover and seed oil production. GmPLDgamma was targeted to mitochondria and exhibited PLD activity that was activated by oleate and phosphatidylinositol 4,5-bisphosphate [PtdIns(4,5)P(2)]. Overexpression of GmPLDgamma (abbreviated GmPLDgamma-OE) in Arabidopsis thaliana resulted in enhanced seed weight, elevated levels of TAGs with 18-, 20-, and 22-carbon fatty acids (FAs), and altered oil-body morphology. Furthermore, the levels of membrane lipids in vegetative tissues decreased significantly, whereas no overt changes were found in mature seeds except for a decrease in the digalactosyldiacylglycerol (DGDG) level in the GmPLDgamma-OE lines. Additionally, the expression of genes involved in glycerolipid metabolism was significantly upregulated in developing siliques in GmPLDgamma-OE lines. Together, our data indicate a regulatory role for GmPLDgamma in TAG synthesis and fatty-acid remodeling, highlighting the importance of mitochondria-directed glycerophospholipid homeostasis in seed oil accumulation. CI - Copyright (c) 2019 Elsevier B.V. All rights reserved. FAU - Bai, Yang AU - Bai Y AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, PR China. FAU - Jing, Guangqin AU - Jing G AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, PR China. FAU - Zhou, Jing AU - Zhou J AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, PR China. FAU - Li, Shuxiang AU - Li S AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, PR China. FAU - Bi, Rongrong AU - Bi R AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, PR China. FAU - Zhao, Jiangzhe AU - Zhao J AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, PR China. FAU - Jia, Qianru AU - Jia Q AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, PR China. FAU - Zhang, Qun AU - Zhang Q AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, PR China. Electronic address: zhangqun@njau.edu.cn. FAU - Zhang, Wenhua AU - Zhang W AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, 210095, PR China. Electronic address: whzhang@njau.edu.cn. LA - eng PT - Journal Article DEP - 20191006 PL - Ireland TA - Plant Sci JT - Plant science : an international journal of experimental plant biology JID - 9882015 RN - 0 (Fatty Acids) RN - 0 (Plant Oils) RN - 0 (Plant Proteins) RN - EC 3.1.4.4 (Phospholipase D) SB - IM EIN - Plant Sci. 2021 Jun;307:110881. doi: 10.1016/j.plantsci.2021.110881. PMID: 33902849 MH - Arabidopsis/genetics/*metabolism MH - Fatty Acids/*metabolism MH - *Gene Expression Regulation, Plant MH - Phospholipase D/*genetics/metabolism MH - Plant Oils/*metabolism MH - Plant Proteins/*genetics/metabolism MH - Plants, Genetically Modified/genetics/metabolism MH - Seeds/metabolism MH - Glycine max/*genetics/metabolism OTO - NOTNLM OT - Mitochondria OT - Oil synthesis OT - Phospholipase Dgamma OT - Soybean OT - Transgenic Arabidopsis EDAT- 2019/11/30 06:00 MHDA- 2020/03/24 06:00 CRDT- 2019/11/30 06:00 PHST- 2019/06/18 00:00 [received] PHST- 2019/09/23 00:00 [revised] PHST- 2019/10/02 00:00 [accepted] PHST- 2019/11/30 06:00 [entrez] PHST- 2019/11/30 06:00 [pubmed] PHST- 2020/03/24 06:00 [medline] AID - S0168-9452(19)30840-4 [pii] AID - 10.1016/j.plantsci.2019.110298 [doi] PST - ppublish SO - Plant Sci. 2020 Jan;290:110298. doi: 10.1016/j.plantsci.2019.110298. Epub 2019 Oct 6. ##### PUB RECORD ##### ## 10.1038/s42003-021-01889-6 33742087 Vadivel, Anguraj AK, et al., 2021 "Anguraj Vadivel AK, McDowell T, Renaud JB, Dhaubhadel S. A combinatorial action of GmMYB176 and GmbZIP5 controls isoflavonoid biosynthesis in soybean (Glycine max). Commun Biol. 2021 Mar 19;4(1):356. doi: 10.1038/s42003-021-01889-6. PMID: 33742087; PMCID: PMC7979867." ## PMID- 33742087 OWN - NLM STAT- MEDLINE DCOM- 20210811 LR - 20231213 IS - 2399-3642 (Electronic) IS - 2399-3642 (Linking) VI - 4 IP - 1 DP - 2021 Mar 19 TI - A combinatorial action of GmMYB176 and GmbZIP5 controls isoflavonoid biosynthesis in soybean (Glycine max). PG - 356 LID - 10.1038/s42003-021-01889-6 [doi] LID - 356 AB - GmMYB176 is an R1 MYB transcription factor that regulates multiple genes in the isoflavonoid biosynthetic pathway, thereby affecting their levels in soybean roots. While GmMYB176 is important for isoflavonoid synthesis, it is not sufficient for the function and requires additional cofactor(s). The aim of this study was to identify the GmMYB176 interactome for the regulation of isoflavonoid biosynthesis in soybean. Here, we demonstrate that a bZIP transcription factor GmbZIP5 co-immunoprecipitates with GmMYB176 and shows protein-protein interaction in planta. RNAi silencing of GmbZIP5 reduced the isoflavonoid level in soybean hairy roots. Furthermore, co-overexpression of GmMYB176 and GmbZIP5 enhanced the level of multiple isoflavonoid phytoallexins including glyceollin, isowighteone and a unique O-methylhydroxy isoflavone in soybean hairy roots. These findings could be utilized to develop biotechnological strategies to manipulate the metabolite levels either to enhance plant defense mechanisms or for human health benefits in soybean or other economically important crops. FAU - Anguraj Vadivel, Arun Kumaran AU - Anguraj Vadivel AK AUID- ORCID: 0000-0002-6384-6316 AD - London Research and Development Centre, Agriculture and Agri-Food Canada, London, ON, Canada. AD - Department of Biology, University of Western Ontario, London, ON, Canada. FAU - McDowell, Tim AU - McDowell T AUID- ORCID: 0000-0001-5334-1923 AD - London Research and Development Centre, Agriculture and Agri-Food Canada, London, ON, Canada. FAU - Renaud, Justin B AU - Renaud JB AD - London Research and Development Centre, Agriculture and Agri-Food Canada, London, ON, Canada. FAU - Dhaubhadel, Sangeeta AU - Dhaubhadel S AUID- ORCID: 0000-0003-2582-5503 AD - London Research and Development Centre, Agriculture and Agri-Food Canada, London, ON, Canada. sangeeta.dhaubhadel@canada.ca. AD - Department of Biology, University of Western Ontario, London, ON, Canada. sangeeta.dhaubhadel@canada.ca. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20210319 PL - England TA - Commun Biol JT - Communications biology JID - 101719179 RN - 0 (Basic-Leucine Zipper Transcription Factors) RN - 0 (Isoflavones) RN - 0 (Pterocarpans) RN - 0 (Soybean Proteins) RN - 0 (Transcription Factors) RN - 6461TV6UCH (glyceollin) SB - IM MH - Basic-Leucine Zipper Transcription Factors/genetics/metabolism MH - Gene Expression Regulation, Plant MH - Isoflavones/*biosynthesis MH - Plant Roots MH - Protein Binding MH - Pterocarpans/biosynthesis MH - Soybean Proteins/genetics/*metabolism MH - Glycine max/genetics/*metabolism MH - Transcription Factors/genetics/*metabolism PMC - PMC7979867 COIS- The authors declare no competing interests. EDAT- 2021/03/21 06:00 MHDA- 2021/08/12 06:00 PMCR- 2021/03/19 CRDT- 2021/03/20 06:33 PHST- 2020/09/03 00:00 [received] PHST- 2021/02/19 00:00 [accepted] PHST- 2021/03/20 06:33 [entrez] PHST- 2021/03/21 06:00 [pubmed] PHST- 2021/08/12 06:00 [medline] PHST- 2021/03/19 00:00 [pmc-release] AID - 10.1038/s42003-021-01889-6 [pii] AID - 1889 [pii] AID - 10.1038/s42003-021-01889-6 [doi] PST - epublish SO - Commun Biol. 2021 Mar 19;4(1):356. doi: 10.1038/s42003-021-01889-6. ##### PUB RECORD ##### ## 10.1186/1471-2229-14-143 24886084 Gillman, Stacey et. al., 2014 "Gillman JD, Stacey MG, Cui Y, Berg HR, Stacey G. Deletions of the SACPD-C locus elevate seed stearic acid levels but also result in fatty acid and morphological alterations in nitrogen fixing nodules. BMC Plant Biol. 2014 May 27;14:143. doi: 10.1186/1471-2229-14-143. PMID: 24886084; PMCID: PMC4058718." ## PMID- 24886084 OWN - NLM STAT- MEDLINE DCOM- 20150116 LR - 20240321 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 14 DP - 2014 May 27 TI - Deletions of the SACPD-C locus elevate seed stearic acid levels but also result in fatty acid and morphological alterations in nitrogen fixing nodules. PG - 143 LID - 10.1186/1471-2229-14-143 [doi] AB - BACKGROUND: Soybean (Glycine max) seeds are the primary source of edible oil in the United States. Despite its widespread utility, soybean oil is oxidatively unstable. Until recently, the majority of soybean oil underwent chemical hydrogenation, a process which also generates trans fats. An alternative to chemical hydrogenation is genetic modification of seed oil through identification and introgression of mutant alleles. One target for improvement is the elevation of a saturated fat with no negative cardiovascular impacts, stearic acid, which typically constitutes a minute portion of seed oil (~3%). RESULTS: We examined radiation induced soybean mutants with moderately increased stearic acid (10-15% of seed oil, ~3-5 X the levels in wild-type soybean seeds) via comparative whole genome hybridization and genetic analysis. The deletion of one SACPD isoform encoding gene (SACPD-C) was perfectly correlated with moderate elevation of seed stearic acid content. However, SACPD-C deletion lines were also found to have altered nodule fatty acid composition and grossly altered morphology. Despite these defects, overall nodule accumulation and nitrogen fixation were unaffected, at least under laboratory conditions. CONCLUSIONS: Although no yield penalty has been reported for moderate elevated seed stearic acid content in soybean seeds, our results demonstrate that genetic alteration of seed traits can have unforeseen pleiotropic consequences. We have identified a role for fatty acid biosynthesis, and SACPD activity in particular, in the establishment and maintenance of symbiotic nitrogen fixation. FAU - Gillman, Jason D AU - Gillman JD AD - USDA-ARS, University of Missouri-Columbia, 205 Curtis Hall, Columbia MO 65211, USA. Jason.Gillman@ars.usda.gov. FAU - Stacey, Minviluz G AU - Stacey MG FAU - Cui, Yaya AU - Cui Y FAU - Berg, Howard R AU - Berg HR FAU - Stacey, Gary AU - Stacey G LA - eng PT - Journal Article PT - Research Support, U.S. Gov't, Non-P.H.S. DEP - 20140527 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (Fatty Acids) RN - 0 (Plant Proteins) RN - 0 (Stearic Acids) RN - 4ELV7Z65AP (stearic acid) RN - 8001-22-7 (Soybean Oil) RN - 9H154DI0UP (Ethyl Methanesulfonate) SB - IM MH - Amino Acid Sequence MH - Chromosome Segregation MH - Chromosomes, Plant/genetics MH - Comparative Genomic Hybridization MH - Crosses, Genetic MH - Ethyl Methanesulfonate MH - Fatty Acids/*metabolism MH - *Gene Deletion MH - Gene Expression Regulation, Plant MH - Genes, Plant MH - Genetic Loci MH - Molecular Sequence Data MH - Neutron Diffraction MH - *Nitrogen Fixation MH - Phenotype MH - Plant Proteins/chemistry/*genetics/metabolism MH - Root Nodules, Plant/*anatomy & histology/metabolism MH - Seeds/*metabolism MH - Sequence Analysis, DNA MH - Soybean Oil MH - Glycine max/genetics MH - Stearic Acids/*metabolism PMC - PMC4058718 EDAT- 2014/06/03 06:00 MHDA- 2015/01/17 06:00 PMCR- 2014/05/27 CRDT- 2014/06/03 06:00 PHST- 2014/02/28 00:00 [received] PHST- 2014/05/16 00:00 [accepted] PHST- 2014/06/03 06:00 [entrez] PHST- 2014/06/03 06:00 [pubmed] PHST- 2015/01/17 06:00 [medline] PHST- 2014/05/27 00:00 [pmc-release] AID - 1471-2229-14-143 [pii] AID - 10.1186/1471-2229-14-143 [doi] PST - epublish SO - BMC Plant Biol. 2014 May 27;14:143. doi: 10.1186/1471-2229-14-143. ##### PUB RECORD ##### ## 10.1186/s12870-019-2201-4 31856712 Yu, Jin et al., 2019 "Yu X, Jin H, Fu X, Yang Q, Yuan F. Quantitative proteomic analyses of two soybean low phytic acid mutants to identify the genes associated with seed field emergence. BMC Plant Biol. 2019 Dec 19;19(1):569. doi: 10.1186/s12870-019-2201-4. PMID: 31856712; PMCID: PMC6921446." ## PMID- 31856712 OWN - NLM STAT- MEDLINE DCOM- 20200403 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 19 IP - 1 DP - 2019 Dec 19 TI - Quantitative proteomic analyses of two soybean low phytic acid mutants to identify the genes associated with seed field emergence. PG - 569 LID - 10.1186/s12870-019-2201-4 [doi] LID - 569 AB - BACKGROUND: Seed germination is essential to crop growth and development, and ultimately affects its harvest. It is difficult to breed soybeans low in phytic acid with a higher seed field emergence. Although additional management and selection could overcome the phytate reduction, the mechanisms of seed germination remain unknown. RESULTS: A comparative proteomic analysis was conducted between two low phytic acid (LPA) soybean mutants (TW-1-M and TW-1), both of which had a deletion of 2 bp in the GmMIPS1 gene. However, the TW-1 seeds showed a significantly lower field emergence compared to the TW-1-M. There were 282 differentially accumulated proteins (DAPs) identified between two mutants at the three stages. Among these DAPs, 80 were down-accumulated and 202 were up-accumulated. Bioinformatic analysis showed that the identified proteins were related to functional categories of oxidation reduction, response to stimulus and stress, dormancy and germination processes and catalytic activity. KEGG analysis showed that these DAPs were mainly involved in energy metabolism and anti-stress pathways. Based upon the conjoint analysis of DAPs with the differentially expressed genes (DEGs) previously published among three germination stages in two LPA mutants, 30 shared DAPs/DEGs were identified with different patterns, including plant seed protein, beta-amylase, protein disulfide-isomerase, disease resistance protein, pyrophosphate-fructose 6-phosphate 1-phosphotransferase, cysteine proteinase inhibitor, non-specific lipid-transfer protein, phosphoenolpyruvate carboxylase and acyl-coenzyme A oxidase. CONCLUSIONS: Seed germination is a very complex process in LPA soybean mutants. The TW-1-M and TW-1 showed many DAPs involved in seed germination. The differential accumulation of these proteins could result in the difference of seed field emergence between the two mutants. The high germination rate in the TW-1-M might be strongly attributed to reactive oxygen species-related and plant hormone-related genes. All these findings would help us further explore the germination mechanisms in LPA crops. FAU - Yu, Xiaomin AU - Yu X AD - Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China. FAU - Jin, Hangxia AU - Jin H AD - Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China. FAU - Fu, Xujun AU - Fu X AD - Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China. FAU - Yang, Qinghua AU - Yang Q AD - Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China. FAU - Yuan, Fengjie AU - Yuan F AD - Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China. fjyuanhz@126.com. LA - eng GR - 2017YFD0101505/National Key Research and Development Plan/ GR - 2016C02050-10/Crop Breeding in Zhejiang of China/ PT - Journal Article DEP - 20191219 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (Plant Proteins) RN - 0 (Proteome) RN - 7IGF0S7R8I (Phytic Acid) SB - IM MH - *Genes, Plant MH - Germination/*genetics MH - Phytic Acid/*metabolism MH - Plant Proteins/*metabolism MH - Proteome/*metabolism MH - Seeds/physiology MH - Glycine max/*genetics/metabolism PMC - PMC6921446 OTO - NOTNLM OT - Field emergence OT - Germination OT - Low phytic acid OT - Proteomics OT - Soybean COIS- The authors declare that they have no competing interests. EDAT- 2019/12/21 06:00 MHDA- 2020/04/04 06:00 PMCR- 2019/12/19 CRDT- 2019/12/21 06:00 PHST- 2019/02/21 00:00 [received] PHST- 2019/12/12 00:00 [accepted] PHST- 2019/12/21 06:00 [entrez] PHST- 2019/12/21 06:00 [pubmed] PHST- 2020/04/04 06:00 [medline] PHST- 2019/12/19 00:00 [pmc-release] AID - 10.1186/s12870-019-2201-4 [pii] AID - 2201 [pii] AID - 10.1186/s12870-019-2201-4 [doi] PST - epublish SO - BMC Plant Biol. 2019 Dec 19;19(1):569. doi: 10.1186/s12870-019-2201-4. ##### PUB RECORD ##### ## 10.3390/ijms19082395 30110937 Su, Han et al., 2018 "Su T, Han M, Min J, Chen P, Mao Y, Huang Q, Tong Q, Liu Q, Fang Y. Genome-Wide Survey of Invertase Encoding Genes and Functional Characterization of an Extracellular Fungal Pathogen-Responsive Invertase in Glycine max. Int J Mol Sci. 2018 Aug 14;19(8):2395. doi: 10.3390/ijms19082395. PMID: 30110937; PMCID: PMC6121457." ## PMID- 30110937 OWN - NLM STAT- MEDLINE DCOM- 20181114 LR - 20231213 IS - 1422-0067 (Electronic) IS - 1422-0067 (Linking) VI - 19 IP - 8 DP - 2018 Aug 14 TI - Genome-Wide Survey of Invertase Encoding Genes and Functional Characterization of an Extracellular Fungal Pathogen-Responsive Invertase in Glycine max. LID - 10.3390/ijms19082395 [doi] LID - 2395 AB - Invertases are essential enzymes that irreversibly catalyze the cleavage of sucrose into glucose and fructose. Cell wall invertase (CWI) and vacuolar invertase (VI) are glycosylated proteins and exert fundamental roles in plant growth as well as in response to environmental cues. As yet, comprehensive insight into invertase encoding genes are lacking in Glycine max. In the present study, the systematic survey of gene structures, coding regions, regulatory elements, conserved motifs, and phylogenies resulted in the identification of thirty(-)two putative invertase genes in soybean genome. Concomitantly, impacts on gene expression, enzyme activities, proteins, and soluble sugar accumulation were explored in specific tissues upon stress perturbation. In combination with the observation of subcellular compartmentation of the fluorescent fusion protein that indeed exported to apoplast, heterologous expression, and purification in using Pichia pastoris system revealed that GmCWI4 was a typical extracellular invertase. We postulated that GmCWI4 may play regulatory roles and be involved in pathogenic fungi defense. The experimental evaluation of physiological significance via phenotypic analysis of mutants under stress exposure has been initiated. Moreover, our paper provides theoretical basis for elucidating molecular mechanisms of invertase in association with inhibitors underlying the stress regime, and will contribute to the improvement of plant performance to a diverse range of stressors. FAU - Su, Tao AU - Su T AUID- ORCID: 0000-0003-4267-0574 AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China. tao.su@cos.uni-heidelberg.de. FAU - Han, Mei AU - Han M AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China. sthanmei@njfu.edu.cn. FAU - Min, Jie AU - Min J AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China. mj121451423@outlook.com. FAU - Chen, Peixian AU - Chen P AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China. peixian1998@163.com. FAU - Mao, Yuxin AU - Mao Y AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China. maoyuxina@outlook.com. FAU - Huang, Qiao AU - Huang Q AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China. 15977126951@163.com. FAU - Tong, Qian AU - Tong Q AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China. tacy1210@outlook.com. FAU - Liu, Qiuchen AU - Liu Q AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China. qiuqiu980815@163.com. FAU - Fang, Yanming AU - Fang Y AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Nanjing 210037, China. jwu4@njfu.edu.cn. LA - eng PT - Journal Article DEP - 20180814 PL - Switzerland TA - Int J Mol Sci JT - International journal of molecular sciences JID - 101092791 RN - 0 (Fungal Proteins) RN - EC 3.2.1.26 (beta-Fructofuranosidase) SB - IM MH - *Fungal Proteins/genetics/metabolism MH - *Genes, Fungal MH - Genome-Wide Association Study MH - Plant Diseases/*microbiology MH - Glycine max/*microbiology MH - *beta-Fructofuranosidase/genetics/metabolism PMC - PMC6121457 OTO - NOTNLM OT - ABA OT - Glycine max OT - drought tolerance OT - invertase OT - pathogen OT - source and sink COIS- The authors declare no conflict of interest. EDAT- 2018/08/17 06:00 MHDA- 2018/11/15 06:00 PMCR- 2018/08/01 CRDT- 2018/08/17 06:00 PHST- 2018/07/19 00:00 [received] PHST- 2018/08/08 00:00 [revised] PHST- 2018/08/13 00:00 [accepted] PHST- 2018/08/17 06:00 [entrez] PHST- 2018/08/17 06:00 [pubmed] PHST- 2018/11/15 06:00 [medline] PHST- 2018/08/01 00:00 [pmc-release] AID - ijms19082395 [pii] AID - ijms-19-02395 [pii] AID - 10.3390/ijms19082395 [doi] PST - epublish SO - Int J Mol Sci. 2018 Aug 14;19(8):2395. doi: 10.3390/ijms19082395. ##### PUB RECORD ##### ## 10.1371/journal.pone.0097669 24845624 Nan, Cao et al., 2014 "Nan H, Cao D, Zhang D, Li Y, Lu S, Tang L, Yuan X, Liu B, Kong F. GmFT2a and GmFT5a redundantly and differentially regulate flowering through interaction with and upregulation of the bZIP transcription factor GmFDL19 in soybean. PLoS One. 2014 May 20;9(5):e97669. doi: 10.1371/journal.pone.0097669. PMID: 24845624; PMCID: PMC4028237." ## PMID- 24845624 OWN - NLM STAT- MEDLINE DCOM- 20150212 LR - 20231213 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 9 IP - 5 DP - 2014 TI - GmFT2a and GmFT5a redundantly and differentially regulate flowering through interaction with and upregulation of the bZIP transcription factor GmFDL19 in soybean. PG - e97669 LID - 10.1371/journal.pone.0097669 [doi] LID - e97669 AB - FLOWERING LOCUS T (FT) is the key flowering integrator in Arabidopsis (Arabidopsis thaliana), and its homologs encode florigens in many plant species regardless of their photoperiodic response. Two FT homologs, GmFT2a and GmFT5a, are involved in photoperiod-regulated flowering and coordinately control flowering in soybean. However, the molecular and genetic understanding of the roles played by GmFT2a and GmFT5a in photoperiod-regulated flowering in soybean is very limited. In this study, we demonstrated that GmFT2a and GmFT5a were able to promote early flowering in soybean by overexpressing these two genes in the soybean cultivar Williams 82 under noninductive long-day (LD) conditions. The soybean homologs of several floral identity genes, such as GmAP1, GmSOC1 and GmLFY, were significantly upregulated by GmFT2a and GmFT5a in a redundant and differential pattern. A bZIP transcription factor, GmFDL19, was identified as interacting with both GmFT2a and GmFT5a, and this interaction was confirmed by yeast two-hybridization and bimolecular fluorescence complementation (BiFC). The overexpression of GmFDL19 in soybean caused early flowering, and the transcription levels of the flowering identity genes were also upregulated by GmFDL19, as was consistent with the upregulation of GmFT2a and GmFT5a. The transcription of GmFDL19 was also induced by GmFT2a. The results of the electrophoretic mobility shift assay (EMSA) indicated that GmFDL19 was able to bind with the cis-elements in the promoter of GmAP1a. Taken together, our results suggest that GmFT2a and GmFT5a redundantly and differentially control photoperiod-regulated flowering in soybean through both physical interaction with and transcriptional upregulation of the bZIP transcription factor GmFDL19, thereby inducing the expression of floral identity genes. FAU - Nan, Haiyang AU - Nan H AD - The Key of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Nangang District, Harbin, China; University of Chinese Academy of Sciences, Beijing, China. FAU - Cao, Dong AU - Cao D AD - The Key of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Nangang District, Harbin, China. FAU - Zhang, Dayong AU - Zhang D AD - Institute of Biotechnology, Jiangsu Academy of Agricultural Sciences, Nanjing, China. FAU - Li, Ying AU - Li Y AD - State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, China. FAU - Lu, Sijia AU - Lu S AD - The Key of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Nangang District, Harbin, China; University of Chinese Academy of Sciences, Beijing, China. FAU - Tang, Lili AU - Tang L AD - The Key of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Nangang District, Harbin, China. FAU - Yuan, Xiaohui AU - Yuan X AD - The Key of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Nangang District, Harbin, China. FAU - Liu, Baohui AU - Liu B AD - The Key of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Nangang District, Harbin, China. FAU - Kong, Fanjiang AU - Kong F AD - The Key of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Nangang District, Harbin, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140520 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Plant Proteins) RN - 0 (Transcription Factors) SB - IM MH - Flowers/genetics/*metabolism MH - Gene Expression Regulation, Plant/*physiology MH - Plant Proteins/genetics/*metabolism MH - Glycine max/genetics/*metabolism MH - Transcription Factors/genetics/*metabolism MH - Up-Regulation/*physiology PMC - PMC4028237 COIS- Competing Interests: The authors have declared that no competing interests exist. EDAT- 2014/05/23 06:00 MHDA- 2015/02/13 06:00 PMCR- 2014/05/20 CRDT- 2014/05/22 06:00 PHST- 2014/03/20 00:00 [received] PHST- 2014/04/14 00:00 [accepted] PHST- 2014/05/22 06:00 [entrez] PHST- 2014/05/23 06:00 [pubmed] PHST- 2015/02/13 06:00 [medline] PHST- 2014/05/20 00:00 [pmc-release] AID - PONE-D-14-12622 [pii] AID - 10.1371/journal.pone.0097669 [doi] PST - epublish SO - PLoS One. 2014 May 20;9(5):e97669. doi: 10.1371/journal.pone.0097669. eCollection 2014. ##### PUB RECORD ##### ## 10.1111/pbi.13199 31240772 Cai, Wang, et al., 2020 "Cai Y, Wang L, Chen L, Wu T, Liu L, Sun S, Wu C, Yao W, Jiang B, Yuan S, Han T, Hou W. Mutagenesis of GmFT2a and GmFT5a mediated by CRISPR/Cas9 contributes for expanding the regional adaptability of soybean. Plant Biotechnol J. 2020 Jan;18(1):298-309. doi: 10.1111/pbi.13199. Epub 2019 Jul 5. PMID: 31240772; PMCID: PMC6920152." ## PMID- 31240772 OWN - NLM STAT- MEDLINE DCOM- 20200622 LR - 20231213 IS - 1467-7652 (Electronic) IS - 1467-7644 (Print) IS - 1467-7644 (Linking) VI - 18 IP - 1 DP - 2020 Jan TI - Mutagenesis of GmFT2a and GmFT5a mediated by CRISPR/Cas9 contributes for expanding the regional adaptability of soybean. PG - 298-309 LID - 10.1111/pbi.13199 [doi] AB - Flowering time is a key agronomic trait that directly influences the successful adaptation of soybean (Glycine max) to diverse latitudes and farming systems. GmFT2a and GmFT5a have been extensively identified as flowering activators and integrators in soybean. Here, we identified two quantitative trait loci (QTLs) regions harbouring GmFT2a and GmFT5a, respectively, associated with different genetic effects on flowering under different photoperiods. We analysed the flowering time of transgenic plants overexpressing GmFT2a or GmFT5a, ft2a mutants, ft5a mutants and ft2aft5a double mutants under long-day (LD) and short-day (SD) conditions. We confirmed that GmFT2a and GmFT5a are not redundant, they collectively regulate flowering time, and the effect of GmFT2a is more prominent than that of GmFT5a under SD conditions whereas GmFT5a has more significant effects than GmFT2a under LD conditions. GmFT5a, not GmFT2a, was essential for soybean to adapt to high latitude regions. The ft2aft5a double mutants showed late flowering by about 31.3 days under SD conditions and produced significantly increased numbers of pods and seeds per plant compared to the wild type. We speculate that these mutants may have enormous yield potential for the tropics. In addition, we examined the sequences of these two loci in 202 soybean accessions and investigated the flowering phenotypes, geographical distributions and maturity groups within major haplotypes. These results will contribute to soybean breeding and regional adaptability. CI - (c) 2019 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd. FAU - Cai, Yupeng AU - Cai Y AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wang, Liwei AU - Wang L AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Chen, Li AU - Chen L AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wu, Tingting AU - Wu T AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Liu, Luping AU - Liu L AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Sun, Shi AU - Sun S AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wu, Cunxiang AU - Wu C AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Yao, Weiwei AU - Yao W AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Jiang, Bingjun AU - Jiang B AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Yuan, Shan AU - Yuan S AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Han, Tianfu AU - Han T AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Hou, Wensheng AU - Hou W AUID- ORCID: 0000-0002-6342-4308 AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20190705 PL - England TA - Plant Biotechnol J JT - Plant biotechnology journal JID - 101201889 RN - 0 (Plant Proteins) SB - IM MH - Adaptation, Biological/genetics MH - *CRISPR-Cas Systems MH - Flowers/*growth & development MH - Mutagenesis MH - Photoperiod MH - Plant Proteins/genetics MH - *Quantitative Trait Loci MH - Glycine max/*genetics PMC - PMC6920152 OTO - NOTNLM OT - GmFT2a OT - GmFT5a OT - CRISPR/Cas9 OT - flowering time OT - regional adaptability OT - soybean COIS- The authors declare that they have no conflicts of interest. EDAT- 2019/06/27 06:00 MHDA- 2020/06/23 06:00 PMCR- 2019/07/05 CRDT- 2019/06/27 06:00 PHST- 2019/05/08 00:00 [received] PHST- 2019/06/11 00:00 [revised] PHST- 2019/06/16 00:00 [accepted] PHST- 2019/06/27 06:00 [pubmed] PHST- 2020/06/23 06:00 [medline] PHST- 2019/06/27 06:00 [entrez] PHST- 2019/07/05 00:00 [pmc-release] AID - PBI13199 [pii] AID - 10.1111/pbi.13199 [doi] PST - ppublish SO - Plant Biotechnol J. 2020 Jan;18(1):298-309. doi: 10.1111/pbi.13199. Epub 2019 Jul 5. ##### PUB RECORD ##### ## 10.3389/fpls.2021.632754 33995435 Xia, Zhai et al., 2012 "Xia Z, Zhai H, Wu H, Xu K, Watanabe S, Harada K. The Synchronized Efforts to Decipher the Molecular Basis for Soybean Maturity Loci E1, E2, and E3 That Regulate Flowering and Maturity. Front Plant Sci. 2021 Apr 28;12:632754. doi: 10.3389/fpls.2021.632754. PMID: 33995435; PMCID: PMC8113421." ## PMID- 33995435 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20210518 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 12 DP - 2021 TI - The Synchronized Efforts to Decipher the Molecular Basis for Soybean Maturity Loci E1, E2, and E3 That Regulate Flowering and Maturity. PG - 632754 LID - 10.3389/fpls.2021.632754 [doi] LID - 632754 AB - The general concept of photoperiodism, i.e., the photoperiodic induction of flowering, was established by Garner and Allard (1920). The genetic factor controlling flowering time, maturity, or photoperiodic responses was observed in soybean soon after the discovery of the photoperiodism. E1, E2, and E3 were named in 1971 and, thereafter, genetically characterized. At the centennial celebration of the discovery of photoperiodism in soybean, we recount our endeavors to successfully decipher the molecular bases for the major maturity loci E1, E2, and E3 in soybean. Through systematic efforts, we successfully cloned the E3 gene in 2009, the E2 gene in 2011, and the E1 gene in 2012. Recently, successful identification of several circadian-related genes such as PRR3a, LUX, and J has enriched the known major E1-FTs pathway. Further research progresses on the identification of new flowering and maturity-related genes as well as coordinated regulation between flowering genes will enable us to understand profoundly flowering gene network and determinants of latitudinal adaptation in soybean. CI - Copyright (c) 2021 Xia, Zhai, Wu, Xu, Watanabe and Harada. FAU - Xia, Zhengjun AU - Xia Z AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, China. FAU - Zhai, Hong AU - Zhai H AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, China. FAU - Wu, Hongyan AU - Wu H AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, China. FAU - Xu, Kun AU - Xu K AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, The Innovative Academy of Seed Design, Chinese Academy of Sciences, Harbin, China. FAU - Watanabe, Satoshi AU - Watanabe S AD - Faculty of Agriculture, Saga University, Saga, Japan. FAU - Harada, Kyuya AU - Harada K AD - Department of Biotechnology, Graduate School of Engineering, Osaka University, Suita, Japan. LA - eng PT - Journal Article PT - Review DEP - 20210428 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC8113421 OTO - NOTNLM OT - E1 OT - flowering time OT - maturity OT - photoperiodic response OT - positional cloning OT - soybean COIS- The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. EDAT- 2021/05/18 06:00 MHDA- 2021/05/18 06:01 PMCR- 2021/01/01 CRDT- 2021/05/17 06:04 PHST- 2020/11/24 00:00 [received] PHST- 2021/03/02 00:00 [accepted] PHST- 2021/05/17 06:04 [entrez] PHST- 2021/05/18 06:00 [pubmed] PHST- 2021/05/18 06:01 [medline] PHST- 2021/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2021.632754 [doi] PST - epublish SO - Front Plant Sci. 2021 Apr 28;12:632754. doi: 10.3389/fpls.2021.632754. eCollection 2021. ##### PUB RECORD ##### ## 10.1016/j.heliyon.2019.e01868 31206092 Li, Guo et. al., 2019 "Li Q, Guo L, Wang H, Zhang Y, Fan C, Shen Y. In silico genome-wide identification and comprehensive characterization of the BES1 gene family in soybean. Heliyon. 2019 Jun 9;5(6):e01868. doi: 10.1016/j.heliyon.2019.e01868. PMID: 31206092; PMCID: PMC6558309." ## PMID- 31206092 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20200929 IS - 2405-8440 (Print) IS - 2405-8440 (Electronic) IS - 2405-8440 (Linking) VI - 5 IP - 6 DP - 2019 Jun TI - In silico genome-wide identification and comprehensive characterization of the BES1 gene family in soybean. PG - e01868 LID - 10.1016/j.heliyon.2019.e01868 [doi] LID - e01868 AB - The BES1 transcription factor family play a central role in brassinosteroid signaling pathway that regulates a wide range of plant growth and developmental processes, as well as resistances to various stresses. However, no comprehensive study of the BES1 gene family in soybean has been reported. In this work, 16 GmBES1-like genes were identified in soybean, which could be divided into two clades based on their phylogenetic relationships, gene structures and motif compositions. We then examined their duplication status and evolutionary models. The result showed that most of the GmBES1-like genes have duplicated counterparts generated from the recent Glycine WGD event, and these genes are originated from 6 distinct ancestors before the Gamma WGT event. We further studied the expression profiles of GmBES1-like genes, and found their spatio-temporal and stressed expression patterns varied tremendously. For example, GmBES1-5 and GmBES1-6 were highly expressed in almost every sample, whereas GmBES1-7 and GmBES1-8 were not expressed. Additionally, interaction network analysis revealed the presence of 3 clusters between GmBES1-like genes and other associated genes, implying that they have both the conserved and divergent functions. Lastly, we analyzed the genetic diversity of GmBES1-like genes in 302 resequenced wild, landrace and improved soybean accessions. It showed that most of these genes are well conserved, and they are not changed during domestication and improvement. These results provide insights into the characterization of GmBES1 family and lay the foundation for further functional study of such genes. FAU - Li, Qing AU - Li Q AD - College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518060, China. AD - Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China. FAU - Guo, Luqin AU - Guo L AD - College of Horticulture, Henan Agricultural University, Zhengzhou 450002, China. FAU - Wang, Hong AU - Wang H AD - College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518060, China. FAU - Zhang, Yu AU - Zhang Y AD - College of Life Sciences and Oceanography, Shenzhen University, Shenzhen 518060, China. AD - College of Horticulture, Henan Agricultural University, Zhengzhou 450002, China. FAU - Fan, Chengming AU - Fan C AD - Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China. FAU - Shen, Yanting AU - Shen Y AD - Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China. LA - eng PT - Journal Article DEP - 20190609 PL - England TA - Heliyon JT - Heliyon JID - 101672560 PMC - PMC6558309 OTO - NOTNLM OT - Bioinformatics OT - Molecular biology OT - Plant biology EDAT- 2019/06/18 06:00 MHDA- 2019/06/18 06:01 PMCR- 2019/06/09 CRDT- 2019/06/18 06:00 PHST- 2019/04/07 00:00 [received] PHST- 2019/05/23 00:00 [revised] PHST- 2019/05/29 00:00 [accepted] PHST- 2019/06/18 06:00 [entrez] PHST- 2019/06/18 06:00 [pubmed] PHST- 2019/06/18 06:01 [medline] PHST- 2019/06/09 00:00 [pmc-release] AID - S2405-8440(19)33550-9 [pii] AID - e01868 [pii] AID - 10.1016/j.heliyon.2019.e01868 [doi] PST - epublish SO - Heliyon. 2019 Jun 9;5(6):e01868. doi: 10.1016/j.heliyon.2019.e01868. eCollection 2019 Jun. ##### PUB RECORD ##### ## 10.1104/pp.110.160796 20864544 Kong, Liu et al., 2010 "Kong F, Liu B, Xia Z, Sato S, Kim BM, Watanabe S, Yamada T, Tabata S, Kanazawa A, Harada K, Abe J. Two coordinately regulated homologs of FLOWERING LOCUS T are involved in the control of photoperiodic flowering in soybean. Plant Physiol. 2010 Nov;154(3):1220-31. doi: 10.1104/pp.110.160796. Epub 2010 Sep 23. PMID: 20864544; PMCID: PMC2971601." ## PMID- 20864544 OWN - NLM STAT- MEDLINE DCOM- 20110210 LR - 20240109 IS - 1532-2548 (Electronic) IS - 0032-0889 (Print) IS - 0032-0889 (Linking) VI - 154 IP - 3 DP - 2010 Nov TI - Two coordinately regulated homologs of FLOWERING LOCUS T are involved in the control of photoperiodic flowering in soybean. PG - 1220-31 LID - 10.1104/pp.110.160796 [doi] AB - FLOWERING LOCUS T (FT) is a key flowering integrator in Arabidopsis (Arabidopsis thaliana), with homologs that encode florigens in many plant species regardless of the type of photoperiodic response. We identified 10 FT homologs, which were arranged as five pairs of linked genes in different homoeologous chromosomal regions, in soybean (Glycine max), a paleopolyploid species. Two of the FT homologs, GmFT2a and GmFT5a, were highly up-regulated under short-day (SD) conditions (inductive for flowering in soybean) and had diurnal expression patterns with the highest expression 4 h after dawn. Under long-day (LD) conditions, expression of GmFT2a and GmFT5a was down-regulated and did not follow a diurnal pattern. Flowering took much longer to initiate under LD than under SD, and only the GmFT5a transcript accumulated late in development under LD. Ectopic expression analysis in Arabidopsis confirmed that both GmFT2a and GmFT5a had the same function as Arabidopsis FT, but the effect of GmFT5a was more prominent. A double-mutant soybean line for two PHYTOCHROME A (PHYA) genes expressed high levels of GmFT2a and GmFT5a under LD, and it flowered slightly earlier under LD than the wild type grown under SD. The expression levels of GmFT2a and GmFT5a were regulated by the PHYA-mediated photoperiodic regulation system, and the GmFT5a expression was also regulated by a photoperiod-independent system in LD. Taken together, our results suggest that GmFT2a and GmFT5a coordinately control flowering and enable the adaptation of soybean to a wide range of photoperiodic environments. FAU - Kong, Fanjiang AU - Kong F AD - Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. FAU - Liu, Baohui AU - Liu B FAU - Xia, Zhengjun AU - Xia Z FAU - Sato, Shusei AU - Sato S FAU - Kim, Bo Min AU - Kim BM FAU - Watanabe, Satoshi AU - Watanabe S FAU - Yamada, Tetsuya AU - Yamada T FAU - Tabata, Satoshi AU - Tabata S FAU - Kanazawa, Akira AU - Kanazawa A FAU - Harada, Kyuya AU - Harada K FAU - Abe, Jun AU - Abe J LA - eng SI - GENBANK/AB550120 SI - GENBANK/AB550121 SI - GENBANK/AB550122 SI - GENBANK/AB550124 SI - GENBANK/AB550125 SI - GENBANK/AB550126 SI - GENBANK/AP011804 SI - GENBANK/AP011805 SI - GENBANK/AP011806 SI - GENBANK/AP011807 SI - GENBANK/AP011808 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20100923 PL - United States TA - Plant Physiol JT - Plant physiology JID - 0401224 RN - 0 (DNA, Plant) RN - 0 (Plant Proteins) SB - IM MH - Amino Acid Sequence MH - Arabidopsis/genetics MH - Chromosome Mapping MH - DNA, Plant/genetics MH - Flowers/*physiology MH - Gene Expression Regulation, Plant MH - Molecular Sequence Data MH - *Photoperiod MH - Plant Proteins/genetics/*metabolism MH - Plants, Genetically Modified/genetics MH - Sequence Alignment MH - Sequence Analysis, DNA MH - Glycine max/*genetics/metabolism/physiology PMC - PMC2971601 EDAT- 2010/09/25 06:00 MHDA- 2011/02/11 06:00 PMCR- 2010/09/23 CRDT- 2010/09/25 06:00 PHST- 2010/09/25 06:00 [entrez] PHST- 2010/09/25 06:00 [pubmed] PHST- 2011/02/11 06:00 [medline] PHST- 2010/09/23 00:00 [pmc-release] AID - pp.110.160796 [pii] AID - 160796 [pii] AID - 10.1104/pp.110.160796 [doi] PST - ppublish SO - Plant Physiol. 2010 Nov;154(3):1220-31. doi: 10.1104/pp.110.160796. Epub 2010 Sep 23. ##### PUB RECORD ##### ## 10.1038/s41467-022-34153-4 36307423 Liang, Chen, et al., 2022 "Liang Q, Chen L, Yang X, Yang H, Liu S, Kou K, Fan L, Zhang Z, Duan Z, Yuan Y, Liang S, Liu Y, Lu X, Zhou G, Zhang M, Kong F, Tian Z. Natural variation of Dt2 determines branching in soybean. Nat Commun. 2022 Oct 28;13(1):6429. doi: 10.1038/s41467-022-34153-4. PMID: 36307423; PMCID: PMC9616897." ## PMID- 36307423 OWN - NLM STAT- MEDLINE DCOM- 20221101 LR - 20231213 IS - 2041-1723 (Electronic) IS - 2041-1723 (Linking) VI - 13 IP - 1 DP - 2022 Oct 28 TI - Natural variation of Dt2 determines branching in soybean. PG - 6429 LID - 10.1038/s41467-022-34153-4 [doi] LID - 6429 AB - Shoot branching is fundamentally important in determining soybean yield. Here, through genome-wide association study, we identify one predominant association locus on chromosome 18 that confers soybean branch number in the natural population. Further analyses determine that Dt2 is the corresponding gene and the natural variations in Dt2 result in significant differential transcriptional levels between the two major haplotypes. Functional characterization reveals that Dt2 interacts with GmAgl22 and GmSoc1a to physically bind to the promoters of GmAp1a and GmAp1d and to activate their transcription. Population genetic investigation show that the genetic differentiation of Dt2 display significant geographic structure. Our study provides a predominant gene for soybean branch number and may facilitate the breeding of high-yield soybean varieties. CI - (c) 2022. The Author(s). FAU - Liang, Qianjin AU - Liang Q AUID- ORCID: 0000-0002-7925-4593 AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Chen, Liyu AU - Chen L AD - Guangdong Provincial Key Laboratory of Plant Adaptation and Molecular Design, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Yang, Xia AU - Yang X AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Yang, Hui AU - Yang H AD - Guangdong Provincial Key Laboratory of Plant Adaptation and Molecular Design, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Liu, Shulin AU - Liu S AUID- ORCID: 0000-0002-0154-2966 AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Kou, Kun AU - Kou K AD - Guangdong Provincial Key Laboratory of Plant Adaptation and Molecular Design, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Fan, Lei AU - Fan L AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Zhang, Zhifang AU - Zhang Z AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Duan, Zongbiao AU - Duan Z AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Yuan, Yaqin AU - Yuan Y AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Liang, Shan AU - Liang S AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Liu, Yucheng AU - Liu Y AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Lu, Xingtong AU - Lu X AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Zhou, Guoan AU - Zhou G AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Zhang, Min AU - Zhang M AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Kong, Fanjiang AU - Kong F AUID- ORCID: 0000-0001-7138-1478 AD - Guangdong Provincial Key Laboratory of Plant Adaptation and Molecular Design, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. kongfj@gzhu.edu.cn. FAU - Tian, Zhixi AU - Tian Z AUID- ORCID: 0000-0001-6051-9670 AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. zxtian@genetics.ac.cn. AD - University of Chinese Academy of Sciences, Beijing, China. zxtian@genetics.ac.cn. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20221028 PL - England TA - Nat Commun JT - Nature communications JID - 101528555 SB - IM MH - *Glycine max/genetics MH - *Genome-Wide Association Study MH - Plant Breeding MH - Haplotypes MH - Polymorphism, Single Nucleotide PMC - PMC9616897 COIS- The authors declare no competing interests. EDAT- 2022/10/29 06:00 MHDA- 2022/11/02 06:00 PMCR- 2022/10/28 CRDT- 2022/10/28 23:20 PHST- 2022/05/26 00:00 [received] PHST- 2022/10/16 00:00 [accepted] PHST- 2022/10/29 06:00 [pubmed] PHST- 2022/11/02 06:00 [medline] PHST- 2022/10/28 23:20 [entrez] PHST- 2022/10/28 00:00 [pmc-release] AID - 10.1038/s41467-022-34153-4 [pii] AID - 34153 [pii] AID - 10.1038/s41467-022-34153-4 [doi] PST - epublish SO - Nat Commun. 2022 Oct 28;13(1):6429. doi: 10.1038/s41467-022-34153-4. ##### PUB RECORD ##### ## 10.1093/jxb/erw283 27422993 Takeshima, Hayashi et al., 2016 "Takeshima R, Hayashi T, Zhu J, Zhao C, Xu M, Yamaguchi N, Sayama T, Ishimoto M, Kong L, Shi X, Liu B, Tian Z, Yamada T, Kong F, Abe J. A soybean quantitative trait locus that promotes flowering under long days is identified as FT5a, a FLOWERING LOCUS T ortholog. J Exp Bot. 2016 Sep;67(17):5247-58. doi: 10.1093/jxb/erw283. Epub 2016 Jul 15. PMID: 27422993; PMCID: PMC5014162." ## PMID- 27422993 OWN - NLM STAT- MEDLINE DCOM- 20171107 LR - 20231213 IS - 1460-2431 (Electronic) IS - 0022-0957 (Print) IS - 0022-0957 (Linking) VI - 67 IP - 17 DP - 2016 Sep TI - A soybean quantitative trait locus that promotes flowering under long days is identified as FT5a, a FLOWERING LOCUS T ortholog. PG - 5247-58 LID - 10.1093/jxb/erw283 [doi] AB - FLOWERING LOCUS T (FT) is an important floral integrator whose functions are conserved across plant species. In soybean, two orthologs, FT2a and FT5a, play a major role in initiating flowering. Their expression in response to different photoperiods is controlled by allelic combinations at the maturity loci E1 to E4, generating variation in flowering time among cultivars. We determined the molecular basis of a quantitative trait locus (QTL) for flowering time in linkage group J (Chromosome 16). Fine-mapping delimited the QTL to a genomic region of 107kb that harbors FT5a We detected 15 DNA polymorphisms between parents with the early-flowering (ef) and late-flowering (lf) alleles in the promoter region, an intron, and the 3' untranslated region of FT5a, although the FT5a coding regions were identical. Transcript abundance of FT5a was higher in near-isogenic lines for ef than in those for lf, suggesting that different transcriptional activities or mRNA stability caused the flowering time difference. Single-nucleotide polymorphism (SNP) calling from re-sequencing data for 439 cultivated and wild soybean accessions indicated that ef is a rare haplotype that is distinct from common haplotypes including lf The ef allele at FT5a may play an adaptive role at latitudes where early flowering is desirable. CI - (c) The Author 2016. Published by Oxford University Press on behalf of the Society for Experimental Biology. FAU - Takeshima, Ryoma AU - Takeshima R AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan. FAU - Hayashi, Takafumi AU - Hayashi T AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan. FAU - Zhu, Jianghui AU - Zhu J AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan. FAU - Zhao, Chen AU - Zhao C AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan. FAU - Xu, Meilan AU - Xu M AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China. FAU - Yamaguchi, Naoya AU - Yamaguchi N AD - Hokkaido Research Organization Tokachi Agricultural Experiment Station, Memuro, Hokkaido 082-0081, Japan. FAU - Sayama, Takashi AU - Sayama T AD - National Institute of Agrobiological Sciences, Kannondai, Ibaraki 305-8602, Japan. FAU - Ishimoto, Masao AU - Ishimoto M AD - National Institute of Agrobiological Sciences, Kannondai, Ibaraki 305-8602, Japan. FAU - Kong, Lingping AU - Kong L AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China. FAU - Shi, Xinyi AU - Shi X AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China. FAU - Liu, Baohui AU - Liu B AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China. FAU - Tian, Zhixi AU - Tian Z AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 1001014, China. FAU - Yamada, Tetsuya AU - Yamada T AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan. FAU - Kong, Fanjiang AU - Kong F AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China kongfj@iga.ac.cn jabe@res.agr.hokucai.ac.jp. FAU - Abe, Jun AU - Abe J AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan kongfj@iga.ac.cn jabe@res.agr.hokucai.ac.jp. LA - eng GR - FC001003/ARC_/Arthritis Research UK/United Kingdom PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20160715 PL - England TA - J Exp Bot JT - Journal of experimental botany JID - 9882906 RN - 0 (Plant Proteins) SB - IM MH - Flowers/*genetics/growth & development/physiology MH - Gene Expression Regulation, Plant MH - Genes, Plant/genetics/physiology MH - Photoperiod MH - Plant Proteins/genetics/physiology MH - Polymorphism, Single Nucleotide/genetics MH - Quantitative Trait Loci/*genetics/physiology MH - Sequence Analysis, DNA MH - Glycine max/*genetics/growth & development/physiology PMC - PMC5014162 OTO - NOTNLM OT - FLOWERING LOCUS T OT - SNP calling OT - flowering time OT - near-isogenic line OT - photoperiod sensitivity OT - quantitative trait locus OT - soybean. EDAT- 2016/07/17 06:00 MHDA- 2017/11/08 06:00 PMCR- 2016/07/15 CRDT- 2016/07/17 06:00 PHST- 2016/07/17 06:00 [entrez] PHST- 2016/07/17 06:00 [pubmed] PHST- 2017/11/08 06:00 [medline] PHST- 2016/07/15 00:00 [pmc-release] AID - erw283 [pii] AID - 10.1093/jxb/erw283 [doi] PST - ppublish SO - J Exp Bot. 2016 Sep;67(17):5247-58. doi: 10.1093/jxb/erw283. Epub 2016 Jul 15. ##### PUB RECORD ##### ## 10.1111/nph.16506 32119117 Liu, Liao et al., 2020 "Liu S, Liao LL, Nie MM, Peng WT, Zhang MS, Lei JN, Zhong YJ, Liao H, Chen ZC. A VIT-like transporter facilitates iron transport into nodule symbiosomes for nitrogen fixation in soybean. New Phytol. 2020 Jun;226(5):1413-1428. doi: 10.1111/nph.16506. Epub 2020 Mar 28. PMID: 32119117." ## PMID- 32119117 OWN - NLM STAT- MEDLINE DCOM- 20210514 LR - 20231213 IS - 1469-8137 (Electronic) IS - 0028-646X (Linking) VI - 226 IP - 5 DP - 2020 Jun TI - A VIT-like transporter facilitates iron transport into nodule symbiosomes for nitrogen fixation in soybean. PG - 1413-1428 LID - 10.1111/nph.16506 [doi] AB - Effective legume-rhizobia symbiosis depends on efficient nutrient exchange. Rhizobia need to synthesize iron-containing proteins for symbiotic nitrogen fixation (SNF) in nodules, which depends on host plant-mediated iron uptake into the symbiosome. We functionally investigated a pair of vacuolar iron transporter like (VTL) genes, GmVTL1a/b, in soybean (Glycine max) and evaluated their contributions to SNF, including investigations of gene expression patterns, subcellular localization, and mutant phenotypes. Though both GmVTL1a/b genes were specifically expressed in the fixation zone of the nodule, GmVTL1a was the lone member to be localized at the tonoplast of tobacco protoplasts, and shown to facilitate ferrous iron transport in yeast. GmVTL1a targets the symbiosome in infected cells, as verified by in situ immunostaining. Two vtl1 knockout mutants had lower iron concentrations in nodule cell sap and peribacteroid units than in wild-type plants, suggesting that GmVTL1 knockout inhibited iron import into symbiosomes. Furthermore, GmVTL1 knockout minimally affected soybean growth under nonsymbiotic conditions, but dramatically impaired nodule development and SNF activity under nitrogen-limited and rhizobia-inoculation conditions, which eventually led to growth retardation. Taken together, these results demonstrate that GmVTL1a is indispensable for SNF in nodules as a transporter of ferrous iron from the infected root cell cytosol to the symbiosome. CI - (c) 2020 The Authors. New Phytologist (c) 2020 New Phytologist Trust. FAU - Liu, Sheng AU - Liu S AD - Root Biology Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. FAU - Liao, Li Li AU - Liao LL AD - Root Biology Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. FAU - Nie, Miao Miao AU - Nie MM AD - Root Biology Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. FAU - Peng, Wen Ting AU - Peng WT AD - Root Biology Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. FAU - Zhang, Meng Shi AU - Zhang MS AD - Root Biology Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. FAU - Lei, Jia Ning AU - Lei JN AD - Vector-borne Virus Research Center, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. FAU - Zhong, Yong Jia AU - Zhong YJ AD - Root Biology Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. FAU - Liao, Hong AU - Liao H AUID- ORCID: 0000-0002-6702-7289 AD - Root Biology Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. FAU - Chen, Zhi Chang AU - Chen ZC AUID- ORCID: 0000-0001-8225-3527 AD - Root Biology Center, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, 350002, China. LA - eng SI - GENBANK/AY310901 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20200328 PL - England TA - New Phytol JT - The New phytologist JID - 9882884 RN - 0 (Plant Proteins) SB - IM MH - Gene Expression Regulation, Plant MH - *Nitrogen Fixation MH - Plant Proteins/genetics/metabolism MH - Root Nodules, Plant/metabolism MH - *Glycine max/genetics/metabolism MH - Symbiosis OTO - NOTNLM OT - VTL OT - iron OT - nodule OT - soybean OT - symbiosome OT - transporter EDAT- 2020/03/03 06:00 MHDA- 2021/05/15 06:00 CRDT- 2020/03/03 06:00 PHST- 2019/12/06 00:00 [received] PHST- 2020/02/17 00:00 [accepted] PHST- 2020/03/03 06:00 [pubmed] PHST- 2021/05/15 06:00 [medline] PHST- 2020/03/03 06:00 [entrez] AID - 10.1111/nph.16506 [doi] PST - ppublish SO - New Phytol. 2020 Jun;226(5):1413-1428. doi: 10.1111/nph.16506. Epub 2020 Mar 28. ##### PUB RECORD ##### ## 10.1038/s42003-021-01907-7 33742112 Zhang, Cheng et al., 2021 "Zhang C, Cheng Q, Wang H, Gao H, Fang X, Chen X, Zhao M, Wei W, Song B, Liu S, Wu J, Zhang S, Xu P. GmBTB/POZ promotes the ubiquitination and degradation of LHP1 to regulate the response of soybean to Phytophthora sojae. Commun Biol. 2021 Mar 19;4(1):372. doi: 10.1038/s42003-021-01907-7. PMID: 33742112; PMCID: PMC7979691." ## PMID- 33742112 OWN - NLM STAT- MEDLINE DCOM- 20210811 LR - 20240331 IS - 2399-3642 (Electronic) IS - 2399-3642 (Linking) VI - 4 IP - 1 DP - 2021 Mar 19 TI - GmBTB/POZ promotes the ubiquitination and degradation of LHP1 to regulate the response of soybean to Phytophthora sojae. PG - 372 LID - 10.1038/s42003-021-01907-7 [doi] LID - 372 AB - Phytophthora sojae is a pathogen that causes stem and root rot in soybean (Glycine max [L.] Merr.). We previously demonstrated that GmBTB/POZ, a BTB/POZ domain-containing nuclear protein, enhances resistance to P. sojae in soybean, via a process that depends on salicylic acid (SA). Here, we demonstrate that GmBTB/POZ associates directly with soybean LIKE HETEROCHROMATIN PROTEIN1 (GmLHP1) in vitro and in vivo and promotes its ubiquitination and degradation. Both overexpression and RNA interference analysis of transgenic lines demonstrate that GmLHP1 negatively regulates the response of soybean to P. sojae by reducing SA levels and repressing GmPR1 expression. The WRKY transcription factor gene, GmWRKY40, a SA-induced gene in the SA signaling pathway, is targeted by GmLHP1, which represses its expression via at least two mechanisms (directly binding to its promoter and impairing SA accumulation). Furthermore, the nuclear localization of GmLHP1 is required for the GmLHP1-mediated negative regulation of immunity, SA levels and the suppression of GmWRKY40 expression. Finally, GmBTB/POZ releases GmLHP1-regulated GmWRKY40 suppression and increases resistance to P. sojae in GmLHP1-OE hairy roots. These findings uncover a regulatory mechanism by which GmBTB/POZ-GmLHP1 modulates resistance to P. sojae in soybean, likely by regulating the expression of downstream target gene GmWRKY40. FAU - Zhang, Chuanzhong AU - Zhang C AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. FAU - Cheng, Qun AU - Cheng Q AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. FAU - Wang, Huiyu AU - Wang H AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. FAU - Gao, Hong AU - Gao H AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. FAU - Fang, Xin AU - Fang X AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. FAU - Chen, Xi AU - Chen X AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. FAU - Zhao, Ming AU - Zhao M AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. FAU - Wei, Wanling AU - Wei W AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. FAU - Song, Bo AU - Song B AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. FAU - Liu, Shanshan AU - Liu S AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. FAU - Wu, Junjiang AU - Wu J AD - Soybean Research Institute of Heilongjiang Academy of Agricultural Sciences, Key Laboratory of Soybean Cultivation of Ministry of Agriculture, Harbin, China. FAU - Zhang, Shuzhen AU - Zhang S AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. zhangshuzhen@neau.edu.cn. FAU - Xu, Pengfei AU - Xu P AD - Soybean Research Institute, Northeast Agricultural University, Key Laboratory of Soybean Biology of Chinese Education Ministry, Harbin, China. xupengfei@neau.edu.cn. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20210319 PL - England TA - Commun Biol JT - Communications biology JID - 101719179 RN - 0 (Chromosomal Proteins, Non-Histone) RN - 0 (Soybean Proteins) RN - 0 (Transcription Factors) RN - 0 (like heterochromatin protein 1) SB - IM MH - BTB-POZ Domain MH - Chromosomal Proteins, Non-Histone/genetics/*metabolism MH - Gene Expression Regulation, Plant MH - Host-Pathogen Interactions MH - Phytophthora/immunology/*pathogenicity MH - Plant Roots/genetics/immunology/metabolism/*microbiology MH - Plants, Genetically Modified/genetics/immunology/metabolism/*microbiology MH - Proteolysis MH - Soybean Proteins/genetics/*metabolism MH - Glycine max/genetics/immunology/metabolism/*microbiology MH - Transcription Factors/genetics/metabolism MH - Ubiquitination PMC - PMC7979691 COIS- The authors declare no competing interests. EDAT- 2021/03/21 06:00 MHDA- 2021/08/12 06:00 PMCR- 2021/03/19 CRDT- 2021/03/20 06:35 PHST- 2019/11/02 00:00 [received] PHST- 2021/02/24 00:00 [accepted] PHST- 2021/03/20 06:35 [entrez] PHST- 2021/03/21 06:00 [pubmed] PHST- 2021/08/12 06:00 [medline] PHST- 2021/03/19 00:00 [pmc-release] AID - 10.1038/s42003-021-01907-7 [pii] AID - 1907 [pii] AID - 10.1038/s42003-021-01907-7 [doi] PST - epublish SO - Commun Biol. 2021 Mar 19;4(1):372. doi: 10.1038/s42003-021-01907-7. ##### PUB RECORD ##### ## 10.1038/ng.3819 28319089 Lu, Zhao et al., 2017 "Lu S, Zhao X, Hu Y, Liu S, Nan H, Li X, Fang C, Cao D, Shi X, Kong L, Su T, Zhang F, Li S, Wang Z, Yuan X, Cober ER, Weller JL, Liu B, Hou X, Tian Z, Kong F. Natural variation at the soybean J locus improves adaptation to the tropics and enhances yield. Nat Genet. 2017 May;49(5):773-779. doi: 10.1038/ng.3819. Epub 2017 Mar 20. PMID: 28319089." ## PMID- 28319089 OWN - NLM STAT- MEDLINE DCOM- 20170918 LR - 20240109 IS - 1546-1718 (Electronic) IS - 1061-4036 (Linking) VI - 49 IP - 5 DP - 2017 May TI - Natural variation at the soybean J locus improves adaptation to the tropics and enhances yield. PG - 773-779 LID - 10.1038/ng.3819 [doi] AB - Soybean is a major legume crop originating in temperate regions, and photoperiod responsiveness is a key factor in its latitudinal adaptation. Varieties from temperate regions introduced to lower latitudes mature early and have extremely low grain yields. Introduction of the long-juvenile (LJ) trait extends the vegetative phase and improves yield under short-day conditions, thereby enabling expansion of cultivation in tropical regions. Here we report the cloning and characterization of J, the major classical locus conferring the LJ trait, and identify J as the ortholog of Arabidopsis thaliana EARLY FLOWERING 3 (ELF3). J depends genetically on the legume-specific flowering repressor E1, and J protein physically associates with the E1 promoter to downregulate its transcription, relieving repression of two important FLOWERING LOCUS T (FT) genes and promoting flowering under short days. Our findings identify an important new component in flowering-time control in soybean and provide new insight into soybean adaptation to tropical regions. FAU - Lu, Sijia AU - Lu S AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Zhao, Xiaohui AU - Zhao X AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Hu, Yilong AU - Hu Y AD - Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement, and Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China. AD - University of the Chinese Academy of Sciences, Beijing, China. FAU - Liu, Shulin AU - Liu S AD - University of the Chinese Academy of Sciences, Beijing, China. AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Nan, Haiyang AU - Nan H AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. FAU - Li, Xiaoming AU - Li X AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of the Chinese Academy of Sciences, Beijing, China. FAU - Fang, Chao AU - Fang C AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of the Chinese Academy of Sciences, Beijing, China. FAU - Cao, Dong AU - Cao D AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Shi, Xinyi AU - Shi X AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. FAU - Kong, Lingping AU - Kong L AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of the Chinese Academy of Sciences, Beijing, China. FAU - Su, Tong AU - Su T AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of the Chinese Academy of Sciences, Beijing, China. FAU - Zhang, Fengge AU - Zhang F AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of the Chinese Academy of Sciences, Beijing, China. FAU - Li, Shichen AU - Li S AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of the Chinese Academy of Sciences, Beijing, China. FAU - Wang, Zheng AU - Wang Z AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Yuan, Xiaohui AU - Yuan X AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. FAU - Cober, Elroy R AU - Cober ER AUID- ORCID: 0000-0002-4673-1808 AD - Eastern Cereal and Oilseed Research Centre, Agriculture and Agri-Food Canada, Central Experimental Farm, Ottawa, Ontario, Canada. FAU - Weller, James L AU - Weller JL AD - School of Plant Science, University of Tasmania, Hobart, Tasmania, Australia. FAU - Liu, Baohui AU - Liu B AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Hou, Xingliang AU - Hou X AD - Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement, and Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China. FAU - Tian, Zhixi AU - Tian Z AUID- ORCID: 0000-0001-6051-9670 AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. FAU - Kong, Fanjiang AU - Kong F AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - School of Life Sciences, Guangzhou University, Guangzhou, China. LA - eng PT - Journal Article DEP - 20170320 PL - United States TA - Nat Genet JT - Nature genetics JID - 9216904 RN - 0 (Plant Proteins) SB - IM MH - Adaptation, Physiological/*genetics MH - Amino Acid Sequence MH - Base Sequence MH - *Biomass MH - China MH - Flowers/genetics/growth & development MH - Gene Expression Regulation, Developmental MH - Gene Expression Regulation, Plant MH - Gene Regulatory Networks MH - Genetic Loci/*genetics MH - *Genetic Variation MH - Geography MH - Mutation MH - Plant Proteins/genetics/metabolism MH - Promoter Regions, Genetic/genetics MH - Sequence Homology, Amino Acid MH - Sequence Homology, Nucleic Acid MH - Glycine max/classification/*genetics/growth & development MH - Species Specificity MH - *Tropical Climate EDAT- 2017/03/21 06:00 MHDA- 2017/09/19 06:00 CRDT- 2017/03/21 06:00 PHST- 2016/10/10 00:00 [received] PHST- 2017/02/24 00:00 [accepted] PHST- 2017/03/21 06:00 [pubmed] PHST- 2017/09/19 06:00 [medline] PHST- 2017/03/21 06:00 [entrez] AID - ng.3819 [pii] AID - 10.1038/ng.3819 [doi] PST - ppublish SO - Nat Genet. 2017 May;49(5):773-779. doi: 10.1038/ng.3819. Epub 2017 Mar 20. ##### PUB RECORD ##### ## 10.3389/fpls.2021.708286 34531883 DeMers, Raboy et al., 2021 "DeMers LC, Raboy V, Li S, Saghai Maroof MA. Network Inference of Transcriptional Regulation in Germinating Low Phytic Acid Soybean Seeds. Front Plant Sci. 2021 Aug 31;12:708286. doi: 10.3389/fpls.2021.708286. PMID: 34531883; PMCID: PMC8438133." ## PMID- 34531883 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20240403 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 12 DP - 2021 TI - Network Inference of Transcriptional Regulation in Germinating Low Phytic Acid Soybean Seeds. PG - 708286 LID - 10.3389/fpls.2021.708286 [doi] LID - 708286 AB - The low phytic acid (lpa) trait in soybeans can be conferred by loss-of-function mutations in genes encoding myo-inositol phosphate synthase and two epistatically interacting genes encoding multidrug-resistance protein ATP-binding cassette (ABC) transporters. However, perturbations in phytic acid biosynthesis are associated with poor seed vigor. Since the benefits of the lpa trait, in terms of end-use quality and sustainability, far outweigh the negatives associated with poor seed performance, a fuller understanding of the molecular basis behind the negatives will assist crop breeders and engineers in producing variates with lpa and better germination rate. The gene regulatory network (GRN) for developing low and normal phytic acid soybean seeds was previously constructed, with genes modulating a variety of processes pertinent to phytic acid metabolism and seed viability being identified. In this study, a comparative time series analysis of low and normal phytic acid soybeans was carried out to investigate the transcriptional regulatory elements governing the transitional dynamics from dry seed to germinated seed. GRNs were reverse engineered from time series transcriptomic data of three distinct genotypic subsets composed of lpa soybean lines and their normal phytic acid sibling lines. Using a robust unsupervised network inference scheme, putative regulatory interactions were inferred for each subset of genotypes. These interactions were further validated by published regulatory interactions found in Arabidopsis thaliana and motif sequence analysis. Results indicate that lpa seeds have increased sensitivity to stress, which could be due to changes in phytic acid levels, disrupted inositol phosphate signaling, disrupted phosphate ion (Pi) homeostasis, and altered myo-inositol metabolism. Putative regulatory interactions were identified for the latter two processes. Changes in abscisic acid (ABA) signaling candidate transcription factors (TFs) putatively regulating genes in this process were identified as well. Analysis of the GRNs reveal altered regulation in processes that may be affecting the germination of lpa soybean seeds. Therefore, this work contributes to the ongoing effort to elucidate molecular mechanisms underlying altered seed viability, germination and field emergence of lpa crops, understanding of which is necessary in order to mitigate these problems. CI - Copyright (c) 2021 DeMers, Raboy, Li and Saghai Maroof. FAU - DeMers, Lindsay C AU - DeMers LC AD - School of Plant and Environmental Sciences, Virginia Tech, Blacksburg, VA, United States. FAU - Raboy, Victor AU - Raboy V AD - National Small Grains Germplasm Research Center, Agricultural Research Service (USDA), Aberdeen, ID, United States. FAU - Li, Song AU - Li S AD - School of Plant and Environmental Sciences, Virginia Tech, Blacksburg, VA, United States. FAU - Saghai Maroof, M A AU - Saghai Maroof MA AD - School of Plant and Environmental Sciences, Virginia Tech, Blacksburg, VA, United States. LA - eng PT - Journal Article DEP - 20210831 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC8438133 OTO - NOTNLM OT - abscisic acid signaling OT - gene regulatory network OT - multidrug-resistance protein ABC transporter OT - myo-inositol phosphate synthase OT - phosphate homeostasis OT - phytic acid OT - seed germination OT - unsupervised machine learning COIS- The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. EDAT- 2021/09/18 06:00 MHDA- 2021/09/18 06:01 PMCR- 2021/01/01 CRDT- 2021/09/17 07:13 PHST- 2021/05/11 00:00 [received] PHST- 2021/06/23 00:00 [accepted] PHST- 2021/09/17 07:13 [entrez] PHST- 2021/09/18 06:00 [pubmed] PHST- 2021/09/18 06:01 [medline] PHST- 2021/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2021.708286 [doi] PST - epublish SO - Front Plant Sci. 2021 Aug 31;12:708286. doi: 10.3389/fpls.2021.708286. eCollection 2021. ##### PUB RECORD ##### ## 10.1111/tpj.14789 32344464 Isidra-Arellano, Pozas-Rodríguez et al., 2020 "Isidra-Arellano MC, Pozas-Rodríguez EA, Del Rocío Reyero-Saavedra M, Arroyo-Canales J, Ferrer-Orgaz S, Del Socorro Sánchez-Correa M, Cardenas L, Covarrubias AA, Valdés-López O. Inhibition of legume nodulation by Pi deficiency is dependent on the autoregulation of nodulation (AON) pathway. Plant J. 2020 Aug;103(3):1125-1139. doi: 10.1111/tpj.14789. Epub 2020 May 28. PMID: 32344464." ## PMID- 32344464 OWN - NLM STAT- MEDLINE DCOM- 20210301 LR - 20231213 IS - 1365-313X (Electronic) IS - 0960-7412 (Linking) VI - 103 IP - 3 DP - 2020 Aug TI - Inhibition of legume nodulation by Pi deficiency is dependent on the autoregulation of nodulation (AON) pathway. PG - 1125-1139 LID - 10.1111/tpj.14789 [doi] AB - Inhibition of nodule development is one of the main adverse effects of phosphate (Pi) deficiency in legumes. Despite all of the efforts made over the last decades to understand how root nodules cope with Pi deficiency, the molecular mechanisms leading to the reduction in nodule number under Pi deficiency remain elusive. In the present study, we provide experimental evidence indicating that Pi deficiency activates the autoregulation of nodulation (AON) pathway, leading to a reduction in nodule numbers in both common bean and soybean. A transcriptional profile analysis revealed that the expression of the AON-related genes PvNIN, PvRIC1, PvRIC2, and PvTML is upregulated under Pi deficiency conditions. The downregulation of the MYB transcription factor PvPHR1 in common bean roots significantly reduced the expression of these four AON-related genes. Physiological analyses indicated that Pi deficiency does not affect the establishment of the root nodule symbiosis in the supernodulation mutant lines Pvnark and Gmnark. Reciprocal grafting and split-roots analyses determined that the activation of the AON pathway was required for the inhibitory effect of Pi deficiency. Altogether, these data improve our understanding of the genetic mechanisms controlling the establishment of the root nodule symbiosis under Pi deficiency. CI - (c) 2020 Society for Experimental Biology and John Wiley & Sons Ltd. FAU - Isidra-Arellano, Mariel C AU - Isidra-Arellano MC AD - Laboratorio de Genomica Funcional de Leguminosas, Facultad de Estudios Superiores Iztacala, Universidad Nacional Autonoma de Mexico, Tlalnepantla, 54090, Mexico. AD - Posgrado en Ciencias Biologicas, Universidad Nacional Autonoma de Mexico, Coyoacan, Mexico City, 04510, Mexico. FAU - Pozas-Rodriguez, Eithan A AU - Pozas-Rodriguez EA AD - Laboratorio de Genomica Funcional de Leguminosas, Facultad de Estudios Superiores Iztacala, Universidad Nacional Autonoma de Mexico, Tlalnepantla, 54090, Mexico. FAU - Del Rocio Reyero-Saavedra, Maria AU - Del Rocio Reyero-Saavedra M AD - Laboratorio de Genomica Funcional de Leguminosas, Facultad de Estudios Superiores Iztacala, Universidad Nacional Autonoma de Mexico, Tlalnepantla, 54090, Mexico. FAU - Arroyo-Canales, Jazmin AU - Arroyo-Canales J AD - Laboratorio de Genomica Funcional de Leguminosas, Facultad de Estudios Superiores Iztacala, Universidad Nacional Autonoma de Mexico, Tlalnepantla, 54090, Mexico. FAU - Ferrer-Orgaz, Susana AU - Ferrer-Orgaz S AD - Laboratorio de Genomica Funcional de Leguminosas, Facultad de Estudios Superiores Iztacala, Universidad Nacional Autonoma de Mexico, Tlalnepantla, 54090, Mexico. FAU - Del Socorro Sanchez-Correa, Maria AU - Del Socorro Sanchez-Correa M AD - Laboratorio de Genomica Funcional de Leguminosas, Facultad de Estudios Superiores Iztacala, Universidad Nacional Autonoma de Mexico, Tlalnepantla, 54090, Mexico. FAU - Cardenas, Luis AU - Cardenas L AD - Departamento de Biologia Molecular de Plantas, Instituto de Biotecnologia, Universidad Nacional Autonoma de Mexico, Cuernavaca, Morelos, 62210, Mexico. FAU - Covarrubias, Alejandra A AU - Covarrubias AA AUID- ORCID: 0000-0003-0439-3414 AD - Departamento de Biologia Molecular de Plantas, Instituto de Biotecnologia, Universidad Nacional Autonoma de Mexico, Cuernavaca, Morelos, 62210, Mexico. FAU - Valdes-Lopez, Oswaldo AU - Valdes-Lopez O AUID- ORCID: 0000-0002-4760-048X AD - Laboratorio de Genomica Funcional de Leguminosas, Facultad de Estudios Superiores Iztacala, Universidad Nacional Autonoma de Mexico, Tlalnepantla, 54090, Mexico. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20200528 PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 RN - 27YLU75U4W (Phosphorus) SB - IM MH - Gene Expression Regulation, Plant MH - Nitrogen Fixation MH - Phaseolus/*metabolism/physiology MH - Phosphorus/*deficiency/metabolism MH - *Plant Root Nodulation MH - Plant Roots/metabolism/microbiology MH - Plant Shoots/metabolism MH - Glycine max/*metabolism/physiology MH - Symbiosis OTO - NOTNLM OT - Glycine max OT - Phaseolus vulgaris OT - NARK receptor OT - Pi scarcity OT - rhizobia-induced CLE peptides OT - root nodule symbiosis EDAT- 2020/04/29 06:00 MHDA- 2021/03/02 06:00 CRDT- 2020/04/29 06:00 PHST- 2020/01/28 00:00 [received] PHST- 2020/04/15 00:00 [revised] PHST- 2020/04/21 00:00 [accepted] PHST- 2020/04/29 06:00 [pubmed] PHST- 2021/03/02 06:00 [medline] PHST- 2020/04/29 06:00 [entrez] AID - 10.1111/tpj.14789 [doi] PST - ppublish SO - Plant J. 2020 Aug;103(3):1125-1139. doi: 10.1111/tpj.14789. Epub 2020 May 28. ##### PUB RECORD ##### ## 10.1371/journal.pone.0085754 24465684 Wu, Price et al., 2014 "Wu F, Price BW, Haider W, Seufferheld G, Nelson R, Hanzawa Y. Functional and evolutionary characterization of the CONSTANS gene family in short-day photoperiodic flowering in soybean. PLoS One. 2014 Jan 21;9(1):e85754. doi: 10.1371/journal.pone.0085754. PMID: 24465684; PMCID: PMC3897488." ## PMID- 24465684 OWN - NLM STAT- MEDLINE DCOM- 20141029 LR - 20231213 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 9 IP - 1 DP - 2014 TI - Functional and evolutionary characterization of the CONSTANS gene family in short-day photoperiodic flowering in soybean. PG - e85754 LID - 10.1371/journal.pone.0085754 [doi] LID - e85754 AB - CONSTANS (CO) plays a central role in photoperiodic flowering control of plants. However, much remains unknown about the function of the CO gene family in soybean and the molecular mechanisms underlying short-day photoperiodic flowering of soybean. We identified 26 CO homologs (GmCOLs) in the soybean genome, many of them previously unreported. Phylogenic analysis classified GmCOLs into three clades conserved among flowering plants. Two homeologous pairs in Clade I, GmCOL1a/GmCOL1b and GmCOL2a/GmCOL2b, showed the highest sequence similarity to Arabidopsis CO. The mRNA abundance of GmCOL1a and GmCOL1b exhibited a strong diurnal rhythm under flowering-inductive short days and peaked at dawn, which coincided with the rise of GmFT5a expression. In contrast, the mRNA abundance of GmCOL2a and GmCOL2b was extremely low. Our transgenic study demonstrated that GmCOL1a, GmCOL1b, GmCOL2a and GmCOL2b fully complemented the late flowering effect of the co-1 mutant in Arabidopsis. Together, these results indicate that GmCOL1a and GmCOL1b are potential inducers of flowering in soybean. Our data also indicate rapid regulatory divergence between GmCOL1a/GmCOL1b and GmCOL2a/GmCOL2b but conservation of their protein function. Dynamic evolution of GmCOL regulatory mechanisms may underlie the evolution of photoperiodic signaling in soybean. FAU - Wu, Faqiang AU - Wu F AD - Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America. FAU - Price, Brian William AU - Price BW AD - Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America. FAU - Haider, Waseem AU - Haider W AD - Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America. FAU - Seufferheld, Gabriela AU - Seufferheld G AD - Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America. FAU - Nelson, Randall AU - Nelson R AD - USDA-Agricultural Research Service, Soybean/Maize Germplasm, Pathology, and Genetics Research Unit, Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America. FAU - Hanzawa, Yoshie AU - Hanzawa Y AD - Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140121 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Arabidopsis Proteins) RN - 0 (CONSTANS protein, Arabidopsis) RN - 0 (DNA-Binding Proteins) RN - 0 (Plant Proteins) RN - 0 (RNA, Messenger) RN - 0 (Transcription Factors) SB - IM MH - Alleles MH - Arabidopsis/genetics MH - Arabidopsis Proteins/genetics MH - Circadian Rhythm/genetics MH - Cluster Analysis MH - Conserved Sequence/genetics MH - DNA-Binding Proteins/genetics MH - *Evolution, Molecular MH - Flowers/genetics/*physiology MH - Gene Expression Regulation, Plant MH - Genetic Loci/genetics MH - Genotype MH - Inbreeding MH - *Multigene Family MH - Mutation/genetics MH - Phenotype MH - *Photoperiod MH - Phylogeny MH - Plant Proteins/*genetics/metabolism MH - RNA, Messenger/genetics/metabolism MH - Sequence Analysis, RNA MH - Sequence Homology, Nucleic Acid MH - Glycine max/*genetics/*physiology MH - Time Factors MH - Transcription Factors/genetics PMC - PMC3897488 COIS- Competing Interests: The authors have declared that no competing interests exist. EDAT- 2014/01/28 06:00 MHDA- 2014/10/30 06:00 PMCR- 2014/01/21 CRDT- 2014/01/28 06:00 PHST- 2013/07/19 00:00 [received] PHST- 2013/11/29 00:00 [accepted] PHST- 2014/01/28 06:00 [entrez] PHST- 2014/01/28 06:00 [pubmed] PHST- 2014/10/30 06:00 [medline] PHST- 2014/01/21 00:00 [pmc-release] AID - PONE-D-13-30011 [pii] AID - 10.1371/journal.pone.0085754 [doi] PST - epublish SO - PLoS One. 2014 Jan 21;9(1):e85754. doi: 10.1371/journal.pone.0085754. eCollection 2014. ##### PUB RECORD ##### ## 10.1126/science.281.5380.1202 9712587 Kaiser, Finnegan et al., 1998 "Kaiser BN, Finnegan PM, Tyerman SD, Whitehead LF, Bergersen FJ, Day DA, Udvardi MK. Characterization of an ammonium transport protein from the peribacteroid membrane of soybean nodules. Science. 1998 Aug 21;281(5380):1202-6. doi: 10.1126/science.281.5380.1202. PMID: 9712587." ## PMID- 9712587 OWN - NLM STAT- MEDLINE DCOM- 19980908 LR - 20231213 IS - 0036-8075 (Print) IS - 0036-8075 (Linking) VI - 281 IP - 5380 DP - 1998 Aug 21 TI - Characterization of an ammonium transport protein from the peribacteroid membrane of soybean nodules. PG - 1202-6 AB - Nitrogen-fixing bacteroids in legume root nodules are surrounded by the plant-derived peribacteroid membrane, which controls nutrient transfer between the symbionts. A nodule complementary DNA (GmSAT1) encoding an ammonium transporter has been isolated from soybean. GmSAT1 is preferentially transcribed in nodules and immunoblotting indicates that GmSAT1 is located on the peribacteroid membrane. [14C]methylammonium uptake and patch-clamp analysis of yeast expressing GmSAT1 demonstrated that it shares properties with a soybean peribacteroid membrane NH4+ channel described elsewhere. GmSAT1 is likely to be involved in the transfer of fixed nitrogen from the bacteroid to the host. FAU - Kaiser, B N AU - Kaiser BN AD - Division of Biochemistry and Molecular Biology, The Australian National University, Canberra ACT 0200, Australia. FAU - Finnegan, P M AU - Finnegan PM FAU - Tyerman, S D AU - Tyerman SD FAU - Whitehead, L F AU - Whitehead LF FAU - Bergersen, F J AU - Bergersen FJ FAU - Day, D A AU - Day DA FAU - Udvardi, M K AU - Udvardi MK LA - eng SI - GENBANK/AF069738 PT - Journal Article PT - Research Support, Non-U.S. Gov't PL - United States TA - Science JT - Science (New York, N.Y.) JID - 0404511 RN - 0 (Carrier Proteins) RN - 0 (Cation Transport Proteins) RN - 0 (DNA, Complementary) RN - 0 (Ion Channels) RN - 0 (Methylamines) RN - 0 (Quaternary Ammonium Compounds) RN - 0 (SAT1 protein, glycine max) RN - 0 (Soybean Proteins) RN - BSF23SJ79E (methylamine) RN - RWP5GA015D (Potassium) SB - IM MH - Amino Acid Sequence MH - Base Sequence MH - Biological Transport MH - Carrier Proteins/chemistry/*genetics/*metabolism MH - *Cation Transport Proteins MH - Cell Membrane/metabolism MH - DNA, Complementary MH - Ion Channels/metabolism MH - Kinetics MH - Methylamines/metabolism MH - Molecular Sequence Data MH - Organelles/metabolism MH - Patch-Clamp Techniques MH - Plant Roots/genetics/metabolism/microbiology MH - Potassium/metabolism MH - Quaternary Ammonium Compounds/*metabolism MH - Saccharomyces cerevisiae/genetics/metabolism MH - *Soybean Proteins MH - Glycine max/chemistry/*genetics/metabolism/microbiology MH - Spheroplasts/metabolism MH - Symbiosis MH - Transformation, Genetic EDAT- 1998/08/26 00:00 MHDA- 1998/08/26 00:01 CRDT- 1998/08/26 00:00 PHST- 1998/08/26 00:00 [pubmed] PHST- 1998/08/26 00:01 [medline] PHST- 1998/08/26 00:00 [entrez] AID - 10.1126/science.281.5380.1202 [doi] PST - ppublish SO - Science. 1998 Aug 21;281(5380):1202-6. doi: 10.1126/science.281.5380.1202. ##### PUB RECORD ##### ## 10.3389/fpls.2022.842597 35599880 Khatri, Pant et al., 2022 "Khatri R, Pant SR, Sharma K, Niraula PM, Lawaju BR, Lawrence KS, Alkharouf NW, Klink VP. Glycine max Homologs of DOESN'T MAKE INFECTIONS 1, 2, and 3 Function to Impair Heterodera glycines Parasitism While Also Regulating Mitogen Activated Protein Kinase Expression. Front Plant Sci. 2022 May 4;13:842597. doi: 10.3389/fpls.2022.842597. PMID: 35599880; PMCID: PMC9114929." ## PMID- 35599880 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20240928 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 13 DP - 2022 TI - Glycine max Homologs of DOESN'T MAKE INFECTIONS 1, 2, and 3 Function to Impair Heterodera glycines Parasitism While Also Regulating Mitogen Activated Protein Kinase Expression. PG - 842597 LID - 10.3389/fpls.2022.842597 [doi] LID - 842597 AB - Glycine max root cells developing into syncytia through the parasitic activities of the pathogenic nematode Heterodera glycines underwent isolation by laser microdissection (LM). Microarray analyses have identified the expression of a G. max DOESN'T MAKE INFECTIONS3 (DMI3) homolog in syncytia undergoing parasitism but during a defense response. DMI3 encodes part of the common symbiosis pathway (CSP) involving DMI1, DMI2, and other CSP genes. The identified DMI gene expression, and symbiosis role, suggests the possible existence of commonalities between symbiosis and defense. G. max has 3 DMI1, 12 DMI2, and 2 DMI3 paralogs. LM-assisted gene expression experiments of isolated syncytia under further examination here show G. max DMI1-3, DMI2-7, and DMI3-2 expression occurring during the defense response in the H. glycines-resistant genotypes G.max ([Peking/PI548402]) and G.max ([PI88788]) indicating a broad and consistent level of expression of the genes. Transgenic overexpression (OE) of G. max DMI1-3, DMI2-7, and DMI3-2 impairs H. glycines parasitism. RNA interference (RNAi) of G. max DMI1-3, DMI2-7, and DMI3-2 increases H. glycines parasitism. The combined opposite outcomes reveal a defense function for these genes. Prior functional transgenic analyses of the 32-member G. max mitogen activated protein kinase (MAPK) gene family has determined that 9 of them act in the defense response to H. glycines parasitism, referred to as defense MAPKs. RNA-seq analyses of root RNA isolated from the 9 G. max defense MAPKs undergoing OE or RNAi reveal they alter the relative transcript abundances (RTAs) of specific DMI1, DMI2, and DMI3 paralogs. In contrast, transgenically-manipulated DMI1-3, DMI2-7, and DMI3-2 expression influences MAPK3-1 and MAPK3-2 RTAs under certain circumstances. The results show G. max homologs of the CSP, and defense pathway are linked, apparently involving co-regulated gene expression. CI - Copyright (c) 2022 Khatri, Pant, Sharma, Niraula, Lawaju, Lawrence, Alkharouf and Klink. FAU - Khatri, Rishi AU - Khatri R AD - Department of Biological Sciences, Mississippi State University, Starkville, MS, United States. FAU - Pant, Shankar R AU - Pant SR AD - Department of Biological Sciences, Mississippi State University, Starkville, MS, United States. FAU - Sharma, Keshav AU - Sharma K AD - Department of Biological Sciences, Mississippi State University, Starkville, MS, United States. FAU - Niraula, Prakash M AU - Niraula PM AD - Department of Biological Sciences, Mississippi State University, Starkville, MS, United States. FAU - Lawaju, Bisho R AU - Lawaju BR AD - Department of Biochemistry, Molecular Biology, Entomology and Plant Pathology, Mississippi State University, Starkville, MS, United States. AD - Department of Entomology and Plant Pathology, Auburn University, Auburn, AL, United States. FAU - Lawrence, Kathy S AU - Lawrence KS AD - Department of Entomology and Plant Pathology, Auburn University, Auburn, AL, United States. FAU - Alkharouf, Nadim W AU - Alkharouf NW AD - Department of Computer and Information Sciences, Towson University, Towson, MD, United States. FAU - Klink, Vincent P AU - Klink VP AD - Department of Biological Sciences, Mississippi State University, Starkville, MS, United States. AD - Department of Biochemistry, Molecular Biology, Entomology and Plant Pathology, Mississippi State University, Starkville, MS, United States. AD - USDA ARS NEA BARC Molecular Plant Pathology Laboratory, Beltsville, MD, United States. AD - Center for Computational Sciences High Performance Computing Collaboratory, Mississippi State University, Starkville, MS, United States. LA - eng PT - Journal Article DEP - 20220504 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC9114929 OTO - NOTNLM OT - DOESN'T MAKE INFECTIONS (DMI) OT - Glycine max OT - PAMP triggered immunity (PTI) OT - common symbiosis pathway (CSP) OT - effector triggered immunity (ETI) OT - pathogen associated molecular pattern (PAMP) OT - pathogen recognition receptor (PRR) OT - plant parasitic nematode COIS- The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. EDAT- 2022/05/24 06:00 MHDA- 2022/05/24 06:01 PMCR- 2022/01/01 CRDT- 2022/05/23 03:45 PHST- 2021/12/23 00:00 [received] PHST- 2022/03/21 00:00 [accepted] PHST- 2022/05/23 03:45 [entrez] PHST- 2022/05/24 06:00 [pubmed] PHST- 2022/05/24 06:01 [medline] PHST- 2022/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2022.842597 [doi] PST - epublish SO - Front Plant Sci. 2022 May 4;13:842597. doi: 10.3389/fpls.2022.842597. eCollection 2022. ##### PUB RECORD ##### ## 10.1104/pp.114.242495 24872380 Wang, Shine et al., 2014 "Wang J, Shine MB, Gao QM, Navarre D, Jiang W, Liu C, Chen Q, Hu G, Kachroo A. Enhanced Disease Susceptibility1 Mediates Pathogen Resistance and Virulence Function of a Bacterial Effector in Soybean. Plant Physiol. 2014 Jul;165(3):1269-1284. doi: 10.1104/pp.114.242495. Epub 2014 May 28. PMID: 24872380; PMCID: PMC4081336." ## PMID- 24872380 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20220331 IS - 1532-2548 (Electronic) IS - 0032-0889 (Print) IS - 0032-0889 (Linking) VI - 165 IP - 3 DP - 2014 Jul TI - Enhanced Disease Susceptibility1 Mediates Pathogen Resistance and Virulence Function of a Bacterial Effector in Soybean. PG - 1269-1284 AB - Enhanced disease susceptibility1 (EDS1) and phytoalexin deficient4 (PAD4) are well-known regulators of both basal and resistance (R) protein-mediated plant defense. We identified two EDS1-like (GmEDS1a/GmEDS1b) proteins and one PAD4-like (GmPAD4) protein that are required for resistance signaling in soybean (Glycine max). Consistent with their significant structural conservation to Arabidopsis (Arabidopsis thaliana) counterparts, constitutive expression of GmEDS1 or GmPAD4 complemented the pathogen resistance defects of Arabidopsis eds1 and pad4 mutants, respectively. Interestingly, however, the GmEDS1 and GmPAD4 did not complement pathogen-inducible salicylic acid accumulation in the eds1/pad4 mutants. Furthermore, the GmEDS1a/GmEDS1b proteins were unable to complement the turnip crinkle virus coat protein-mediated activation of the Arabidopsis R protein Hypersensitive reaction to Turnip crinkle virus (HRT), even though both interacted with HRT. Silencing GmEDS1a/GmEDS1b or GmPAD4 reduced basal and pathogen-inducible salicylic acid accumulation and enhanced soybean susceptibility to virulent pathogens. The GmEDS1a/GmEDS1b and GmPAD4 genes were also required for Resistance to Pseudomonas syringae pv glycinea2 (Rpg2)-mediated resistance to Pseudomonas syringae. Notably, the GmEDS1a/GmEDS1b proteins interacted with the cognate bacterial effector AvrA1 and were required for its virulence function in rpg2 plants. Together, these results show that despite significant structural similarities, conserved defense signaling components from diverse plants can differ in their functionalities. In addition, we demonstrate a role for GmEDS1 in regulating the virulence function of a bacterial effector. CI - (c) 2014 American Society of Plant Biologists. All Rights Reserved. FAU - Wang, Jialin AU - Wang J AD - College of Agriculture, Northeast Agricultural University, Harbin 150030, China (J.W., W.J., Q.C., G.H.);Department of Plant Pathology, University of Kentucky, Lexington, Kentucky 40546 (J.W., M.B.S., Q.-M.G., A.K.);United States Department of Agriculture-Agricultural Research Service, Washington State University, Prosser, Washington 99350 (D.N.); andLand Reclamation Research and Breeding Centre of Heilongjiang, Harbin 150090, China (C.L., G.H.). FAU - Shine, M B AU - Shine MB AD - College of Agriculture, Northeast Agricultural University, Harbin 150030, China (J.W., W.J., Q.C., G.H.);Department of Plant Pathology, University of Kentucky, Lexington, Kentucky 40546 (J.W., M.B.S., Q.-M.G., A.K.);United States Department of Agriculture-Agricultural Research Service, Washington State University, Prosser, Washington 99350 (D.N.); andLand Reclamation Research and Breeding Centre of Heilongjiang, Harbin 150090, China (C.L., G.H.). FAU - Gao, Qing-Ming AU - Gao QM AD - College of Agriculture, Northeast Agricultural University, Harbin 150030, China (J.W., W.J., Q.C., G.H.);Department of Plant Pathology, University of Kentucky, Lexington, Kentucky 40546 (J.W., M.B.S., Q.-M.G., A.K.);United States Department of Agriculture-Agricultural Research Service, Washington State University, Prosser, Washington 99350 (D.N.); andLand Reclamation Research and Breeding Centre of Heilongjiang, Harbin 150090, China (C.L., G.H.). FAU - Navarre, Duroy AU - Navarre D AD - College of Agriculture, Northeast Agricultural University, Harbin 150030, China (J.W., W.J., Q.C., G.H.);Department of Plant Pathology, University of Kentucky, Lexington, Kentucky 40546 (J.W., M.B.S., Q.-M.G., A.K.);United States Department of Agriculture-Agricultural Research Service, Washington State University, Prosser, Washington 99350 (D.N.); andLand Reclamation Research and Breeding Centre of Heilongjiang, Harbin 150090, China (C.L., G.H.). FAU - Jiang, Wei AU - Jiang W AD - College of Agriculture, Northeast Agricultural University, Harbin 150030, China (J.W., W.J., Q.C., G.H.);Department of Plant Pathology, University of Kentucky, Lexington, Kentucky 40546 (J.W., M.B.S., Q.-M.G., A.K.);United States Department of Agriculture-Agricultural Research Service, Washington State University, Prosser, Washington 99350 (D.N.); andLand Reclamation Research and Breeding Centre of Heilongjiang, Harbin 150090, China (C.L., G.H.). FAU - Liu, Chunyan AU - Liu C AD - College of Agriculture, Northeast Agricultural University, Harbin 150030, China (J.W., W.J., Q.C., G.H.);Department of Plant Pathology, University of Kentucky, Lexington, Kentucky 40546 (J.W., M.B.S., Q.-M.G., A.K.);United States Department of Agriculture-Agricultural Research Service, Washington State University, Prosser, Washington 99350 (D.N.); andLand Reclamation Research and Breeding Centre of Heilongjiang, Harbin 150090, China (C.L., G.H.). FAU - Chen, Qingshan AU - Chen Q AD - College of Agriculture, Northeast Agricultural University, Harbin 150030, China (J.W., W.J., Q.C., G.H.);Department of Plant Pathology, University of Kentucky, Lexington, Kentucky 40546 (J.W., M.B.S., Q.-M.G., A.K.);United States Department of Agriculture-Agricultural Research Service, Washington State University, Prosser, Washington 99350 (D.N.); andLand Reclamation Research and Breeding Centre of Heilongjiang, Harbin 150090, China (C.L., G.H.). FAU - Hu, Guohua AU - Hu G AD - College of Agriculture, Northeast Agricultural University, Harbin 150030, China (J.W., W.J., Q.C., G.H.);Department of Plant Pathology, University of Kentucky, Lexington, Kentucky 40546 (J.W., M.B.S., Q.-M.G., A.K.);United States Department of Agriculture-Agricultural Research Service, Washington State University, Prosser, Washington 99350 (D.N.); andLand Reclamation Research and Breeding Centre of Heilongjiang, Harbin 150090, China (C.L., G.H.) apkach2@uky.edu hugh757@vip.163.com. FAU - Kachroo, Aardra AU - Kachroo A AD - College of Agriculture, Northeast Agricultural University, Harbin 150030, China (J.W., W.J., Q.C., G.H.);Department of Plant Pathology, University of Kentucky, Lexington, Kentucky 40546 (J.W., M.B.S., Q.-M.G., A.K.);United States Department of Agriculture-Agricultural Research Service, Washington State University, Prosser, Washington 99350 (D.N.); andLand Reclamation Research and Breeding Centre of Heilongjiang, Harbin 150090, China (C.L., G.H.) apkach2@uky.edu hugh757@vip.163.com. LA - eng PT - Journal Article DEP - 20140528 PL - United States TA - Plant Physiol JT - Plant physiology JID - 0401224 PMC - PMC4081336 EDAT- 2014/05/30 06:00 MHDA- 2014/05/30 06:01 PMCR- 2014/05/28 CRDT- 2014/05/30 06:00 PHST- 2014/05/30 06:00 [entrez] PHST- 2014/05/30 06:00 [pubmed] PHST- 2014/05/30 06:01 [medline] PHST- 2014/05/28 00:00 [pmc-release] AID - pp.114.242495 [pii] AID - 242495 [pii] AID - 10.1104/pp.114.242495 [doi] PST - ppublish SO - Plant Physiol. 2014 Jul;165(3):1269-1284. doi: 10.1104/pp.114.242495. Epub 2014 May 28. ##### PUB RECORD ##### ## 10.1038/srep28541 27345221 Chen, Wang et al., 2016 "Chen B, Wang J, Zhang G, Liu J, Manan S, Hu H, Zhao J. Two types of soybean diacylglycerol acyltransferases are differentially involved in triacylglycerol biosynthesis and response to environmental stresses and hormones. Sci Rep. 2016 Jun 27;6:28541. doi: 10.1038/srep28541. PMID: 27345221; PMCID: PMC4921965." ## PMID- 27345221 OWN - NLM STAT- MEDLINE DCOM- 20180508 LR - 20231213 IS - 2045-2322 (Electronic) IS - 2045-2322 (Linking) VI - 6 DP - 2016 Jun 27 TI - Two types of soybean diacylglycerol acyltransferases are differentially involved in triacylglycerol biosynthesis and response to environmental stresses and hormones. PG - 28541 LID - 10.1038/srep28541 [doi] LID - 28541 AB - Diacylglycerol acyltransferases (DGATs) play a key role in plant triacylglycerol (TAG) biosynthesis. Two type 1 and 2 DGATs from soybean were characterized for their functions in TAG biosynthesis and physiological roles. GmDGAT1A is highly expressed in seeds while GmDGAT2D is mainly expressed in flower tissues. They showed different expression patterns in response to biotic and abiotic stresses. GmDGAT2D was up-regulated by cold and heat stress and ABA signaling, and repressed by insect biting and jasmonate, whereas GmDGAT1A show fewer responses. Both GmDGAT1A and GmDGAT2D were localized to the endoplasmic reticulum and complemented the TAG deficiency of a yeast mutant H1246. GmDGAT2D-transgenic hairy roots synthesized more 18:2- or 18:1-TAG, whereas GmDGAT1A prefers to use 18:3-acyl CoA for TAG synthesis. Overexpression of both GmDGATs in Arabidopsis seeds enhanced the TAG production; GmDGAT2D promoted 18:2-TAG in wild-type but enhanced 18:1-TAG production in rod1 mutant seeds, with a decreased 18:3-TAG. However, GmDGAT1A enhanced 18:3-TAG and reduced 20:1-TAG contents. The different substrate preferences of two DGATs may confer diverse fatty acid profiles in soybean oils. While GmDGAT1A may play a role in usual seed TAG production and GmDGAT2D is also involved in usual TAG biosynthesis in other tissues in responses to environmental and hormonal cues. FAU - Chen, BeiBei AU - Chen B AD - National Key Laboratory of Crop Genetic Improvement, College of Plant Science &Technology, Huazhong Agricultural University, Wuhan, 430070, China. FAU - Wang, Junejie AU - Wang J AD - National Key Laboratory of Crop Genetic Improvement, College of Plant Science &Technology, Huazhong Agricultural University, Wuhan, 430070, China. FAU - Zhang, Gaoyang AU - Zhang G AD - National Key Laboratory of Crop Genetic Improvement, College of Plant Science &Technology, Huazhong Agricultural University, Wuhan, 430070, China. FAU - Liu, Jiaqi AU - Liu J AD - College of Agronomy, Jilin Agricultural University, Changchun, 130047, China. FAU - Manan, Sehrish AU - Manan S AD - National Key Laboratory of Crop Genetic Improvement, College of Plant Science &Technology, Huazhong Agricultural University, Wuhan, 430070, China. FAU - Hu, Honghong AU - Hu H AD - National Key Laboratory of Crop Genetic Improvement, College of Life Science &Technology, Huazhong Agricultural University, Wuhan, 430070, China. FAU - Zhao, Jian AU - Zhao J AD - National Key Laboratory of Crop Genetic Improvement, College of Plant Science &Technology, Huazhong Agricultural University, Wuhan, 430070, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20160627 PL - England TA - Sci Rep JT - Scientific reports JID - 101563288 RN - 0 (Acyl Coenzyme A) RN - 0 (Fatty Acids) RN - 0 (Hormones) RN - 0 (Triglycerides) RN - 8001-22-7 (Soybean Oil) RN - EC 2.3.1.20 (Diacylglycerol O-Acyltransferase) SB - IM MH - Acyl Coenzyme A/metabolism MH - Arabidopsis/metabolism MH - Diacylglycerol O-Acyltransferase/*metabolism MH - Endoplasmic Reticulum/metabolism MH - Fatty Acids/metabolism MH - Flowers/metabolism MH - Gene Expression Regulation, Plant/physiology MH - Hormones/*metabolism MH - Seeds/metabolism MH - Soybean Oil/metabolism MH - Glycine max/*metabolism MH - Stress, Physiological/*physiology MH - Triglycerides/*metabolism PMC - PMC4921965 EDAT- 2016/06/28 06:00 MHDA- 2018/05/09 06:00 PMCR- 2016/06/27 CRDT- 2016/06/28 06:00 PHST- 2015/12/09 00:00 [received] PHST- 2016/06/06 00:00 [accepted] PHST- 2016/06/28 06:00 [entrez] PHST- 2016/06/28 06:00 [pubmed] PHST- 2018/05/09 06:00 [medline] PHST- 2016/06/27 00:00 [pmc-release] AID - srep28541 [pii] AID - 10.1038/srep28541 [doi] PST - epublish SO - Sci Rep. 2016 Jun 27;6:28541. doi: 10.1038/srep28541. ##### PUB RECORD ##### ## 10.1104/pp.109.150607 20219831 Liu, Watanabe et al., 2010 "Liu B, Watanabe S, Uchiyama T, Kong F, Kanazawa A, Xia Z, Nagamatsu A, Arai M, Yamada T, Kitamura K, Masuta C, Harada K, Abe J. The soybean stem growth habit gene Dt1 is an ortholog of Arabidopsis TERMINAL FLOWER1. Plant Physiol. 2010 May;153(1):198-210. doi: 10.1104/pp.109.150607. Epub 2010 Mar 10. PMID: 20219831; PMCID: PMC2862436." ## PMID- 20219831 OWN - NLM STAT- MEDLINE DCOM- 20100825 LR - 20231213 IS - 1532-2548 (Electronic) IS - 0032-0889 (Print) IS - 0032-0889 (Linking) VI - 153 IP - 1 DP - 2010 May TI - The soybean stem growth habit gene Dt1 is an ortholog of Arabidopsis TERMINAL FLOWER1. PG - 198-210 LID - 10.1104/pp.109.150607 [doi] AB - Classical genetic analysis has revealed that the determinate habit of soybean (Glycine max) is controlled by a recessive allele at the determinate stem (Dt1) locus. To dissect the molecular basis of the determinate habit, we isolated two orthologs of pea (Pisum sativum) TERMINAL FLOWER1a, GmTFL1a and GmTFL1b, from the soybean genome. Mapping analysis indicated that GmTFL1b is a candidate for Dt1. Despite their high amino acid identity, the two genes had different transcriptional profiles. GmTFL1b was expressed in the root and shoot apical meristems (SAMs), whereas GmTFL1a was mainly expressed in immature seed. The GmTFL1b transcript accumulated in the SAMs during early vegetative growth in both the determinate and indeterminate lines but thereafter was abruptly lost in the determinate line. Introduction of the genomic region of GmTFL1b from the indeterminate line complemented the stem growth habit in the determinate line: more nodes were produced, and flowering in the terminal raceme was delayed. The identity between Dt1 and GmTFL1b was also confirmed with a virus-induced gene silencing experiment. Taken together, our data suggest that Dt1 encodes the GmTFL1b protein and that the stem growth habit is determined by the variation of this gene. The dt1 allele may condition the determinate habit via the earlier loss in GmTFL1b expression concomitant with floral induction, although it functions normally under the noninductive phase of flowering. An association test of DNA polymorphisms with the stem growth habit among 16 cultivars suggested that a single amino acid substitution in exon 4 determines the fate of the SAM after floral induction. FAU - Liu, Baohui AU - Liu B AD - Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150040, China. FAU - Watanabe, Satoshi AU - Watanabe S FAU - Uchiyama, Tomoo AU - Uchiyama T FAU - Kong, Fanjiang AU - Kong F FAU - Kanazawa, Akira AU - Kanazawa A FAU - Xia, Zhengjun AU - Xia Z FAU - Nagamatsu, Atsushi AU - Nagamatsu A FAU - Arai, Maiko AU - Arai M FAU - Yamada, Tetsuya AU - Yamada T FAU - Kitamura, Keisuke AU - Kitamura K FAU - Masuta, Chikara AU - Masuta C FAU - Harada, Kyuya AU - Harada K FAU - Abe, Jun AU - Abe J LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20100310 PL - United States TA - Plant Physiol JT - Plant physiology JID - 0401224 RN - 0 (Arabidopsis Proteins) RN - 0 (TFL1 protein, Arabidopsis) SB - IM MH - Alleles MH - Amino Acid Sequence MH - Arabidopsis/*genetics MH - Arabidopsis Proteins/genetics MH - Chromosome Mapping MH - Gene Expression MH - Gene Silencing MH - Molecular Sequence Data MH - Plant Stems/*growth & development MH - Polymorphism, Genetic MH - Glycine max/*genetics/growth & development/metabolism PMC - PMC2862436 EDAT- 2010/03/12 06:00 MHDA- 2010/08/26 06:00 PMCR- 2010/03/10 CRDT- 2010/03/12 06:00 PHST- 2010/03/12 06:00 [entrez] PHST- 2010/03/12 06:00 [pubmed] PHST- 2010/08/26 06:00 [medline] PHST- 2010/03/10 00:00 [pmc-release] AID - pp.109.150607 [pii] AID - 150607 [pii] AID - 10.1104/pp.109.150607 [doi] PST - ppublish SO - Plant Physiol. 2010 May;153(1):198-210. doi: 10.1104/pp.109.150607. Epub 2010 Mar 10. ##### PUB RECORD ##### ## 10.1270/jsbbs.64.371 25914592 Hoshino, Watanabe et al., 2014 "Hoshino T, Watanabe S, Takagi Y, Anai T. A novel GmFAD3-2a mutant allele developed through TILLING reduces α-linolenic acid content in soybean seed oil. Breed Sci. 2014 Dec;64(4):371-7. doi: 10.1270/jsbbs.64.371. Epub 2014 Dec 1. PMID: 25914592; PMCID: PMC4267312." ## PMID- 25914592 OWN - NLM STAT- PubMed-not-MEDLINE DCOM- 20150427 LR - 20201001 IS - 1344-7610 (Print) IS - 1347-3735 (Electronic) IS - 1344-7610 (Linking) VI - 64 IP - 4 DP - 2014 Dec TI - A novel GmFAD3-2a mutant allele developed through TILLING reduces alpha-linolenic acid content in soybean seed oil. PG - 371-7 LID - 10.1270/jsbbs.64.371 [doi] AB - Soybean (Glycine max (L.) Merr.) oil typically contains 8% alpha-linolenic acid that is highly unstable and easily oxidized. This property is undesirable in many food and industrial applications. Genetic strategies for reducing alpha-linolenic acid content would enhance the commercial value. However, genetic resources for low alpha-linolenic acid content are limited among natural soybean variations. Microsomal omega-3-fatty acid desaturase (FAD3) is responsible for the synthesis of alpha-linolenic acid in the polyunsaturated fatty acid pathway. There are four FAD3 homologs (Glyma02g39230, Glyma11g27190, Glyma14g37350 and Glyma18g06950) in the soybean genome. While non-functional alleles have been reported for Glyma02g39230 (GmFAD3-1a) and Glyma14g37350 (GmFAD3-1b), little variation is seen in Glyma18g06950 (GmFAD3-2a). We isolated seven mutant GmFAD3-2a alleles, each containing a single-nucleotide substitution, from 39,100 independent mutant lines by using targeting induced local lesions in genomes (TILLING). Analysis of GmFAD3-2a transcripts and enzyme activities revealed that one missense mutant, 'P1-A9', contains a non-functional allele of GmFAD3-2a. By combining three non-functional alleles (GmFAD3-1a, GmFAD3-1b, and GmFAD3-2a), we generated soybean lines containing <2% alpha-linolenic acid in their seeds. The reverse-genetics-based development of novel mutant alleles in the fatty acid metabolic pathway will allow the improvement of soybean with better oil quality through conventional breeding. FAU - Hoshino, Tomoki AU - Hoshino T AD - Laboratory of Plant Genetics and Breeding, Faculty of Agriculture, Saga University , Honjyo-machi 1, Saga 840-8502 , Japan ; Laboratory of Plant Genetics and Breeding, Faculty of Agriculture, Yamagata University , Wakaba-machi 1, Tsuruoka, Yamagata 997-8555 , Japan. FAU - Watanabe, Satoshi AU - Watanabe S AD - Laboratory of Plant Genetics and Breeding, Faculty of Agriculture, Saga University , Honjyo-machi 1, Saga 840-8502 , Japan. FAU - Takagi, Yutaka AU - Takagi Y AD - Laboratory of Plant Genetics and Breeding, Faculty of Agriculture, Saga University , Honjyo-machi 1, Saga 840-8502 , Japan. FAU - Anai, Toyoaki AU - Anai T AD - Laboratory of Plant Genetics and Breeding, Faculty of Agriculture, Saga University , Honjyo-machi 1, Saga 840-8502 , Japan. LA - eng PT - Journal Article DEP - 20141201 PL - Japan TA - Breed Sci JT - Breeding science JID - 9888571 PMC - PMC4267312 OTO - NOTNLM OT - TILLING OT - reverse genetics OT - soybean oil quality OT - alpha-linolenic acid EDAT- 2015/04/29 06:00 MHDA- 2015/04/29 06:01 PMCR- 2014/12/01 CRDT- 2015/04/28 06:00 PHST- 2014/07/11 00:00 [received] PHST- 2014/10/05 00:00 [accepted] PHST- 2015/04/28 06:00 [entrez] PHST- 2015/04/29 06:00 [pubmed] PHST- 2015/04/29 06:01 [medline] PHST- 2014/12/01 00:00 [pmc-release] AID - 64_371 [pii] AID - 10.1270/jsbbs.64.371 [doi] PST - ppublish SO - Breed Sci. 2014 Dec;64(4):371-7. doi: 10.1270/jsbbs.64.371. Epub 2014 Dec 1. ##### PUB RECORD ##### ## 10.1111/nph.16250 31596499 Miao, Yang et al., 2020 "Miao L, Yang S, Zhang K, He J, Wu C, Ren Y, Gai J, Li Y. Natural variation and selection in GmSWEET39 affect soybean seed oil content. New Phytol. 2020 Feb;225(4):1651-1666. doi: 10.1111/nph.16250. Epub 2019 Nov 14. PMID: 31596499; PMCID: PMC7496907." ## PMID- 31596499 OWN - NLM STAT- MEDLINE DCOM- 20210408 LR - 20231213 IS - 1469-8137 (Electronic) IS - 0028-646X (Print) IS - 0028-646X (Linking) VI - 225 IP - 4 DP - 2020 Feb TI - Natural variation and selection in GmSWEET39 affect soybean seed oil content. PG - 1651-1666 LID - 10.1111/nph.16250 [doi] AB - Soybean (Glycine max) is a major contributor to the world oilseed production. Its seed oil content has been increased through soybean domestication and improvement. However, the genes underlying the selection are largely unknown. The present contribution analyzed the expression patterns of genes in the seed oil quantitative trait loci with strong selective sweep signals, then used association, functional study and population genetics to reveal a sucrose efflux transporter gene, GmSWEET39, controlling soybean seed oil content and under selection. GmSWEET39 is highly expressed in soybean seeds and encodes a plasma membrane-localized protein. Its expression level is positively correlated with soybean seed oil content. The variation in its promoter and coding sequence leads to different natural alleles of this gene. The GmSWEET39 allelic effects on total oil content were confirmed in the seeds of soybean recombinant inbred lines, transgenic Arabidopsis, and transgenic soybean hairy roots. The frequencies of its superior alleles increased from wild soybean to cultivated soybean, and are much higher in released soybean cultivars. The findings herein suggest that the sequence variation in GmSWEET39 affects its relative expression and oil content in soybean seeds, and GmSWEET39 has been selected to increase seed oil content during soybean domestication and improvement. CI - (c) 2019 The Authors. New Phytologist (c) 2019 New Phytologist Trust. FAU - Miao, Long AU - Miao L AUID- ORCID: 0000-0003-4261-6914 AD - State Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, 210095, China. FAU - Yang, Songnan AU - Yang S AUID- ORCID: 0000-0003-1408-9846 AD - State Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, 210095, China. FAU - Zhang, Kai AU - Zhang K AD - State Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, 210095, China. FAU - He, Jianbo AU - He J AUID- ORCID: 0000-0002-9685-7564 AD - State Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, 210095, China. FAU - Wu, Chunhua AU - Wu C AD - State Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, 210095, China. FAU - Ren, Yanhua AU - Ren Y AD - State Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, 210095, China. FAU - Gai, Junyi AU - Gai J AD - State Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, 210095, China. FAU - Li, Yan AU - Li Y AUID- ORCID: 0000-0002-1627-7763 AD - State Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, 210095, China. LA - eng SI - GENBANK/NM_001357978.1 SI - GENBANK/NM_001254696.2 SI - GENBANK/NM_121018.4 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20191114 PL - England TA - New Phytol JT - The New phytologist JID - 9882884 RN - 0 (Plant Proteins) RN - 8001-22-7 (Soybean Oil) SB - IM MH - Alleles MH - Arabidopsis/genetics/metabolism MH - Gene Expression Regulation, Plant MH - *Genetic Variation MH - Genotype MH - Linkage Disequilibrium MH - Plant Proteins/genetics/*metabolism MH - Plant Roots MH - Plants, Genetically Modified MH - Seeds/chemistry/*metabolism MH - Selection, Genetic MH - Soybean Oil/chemistry/*metabolism MH - Glycine max/*genetics PMC - PMC7496907 OTO - NOTNLM OT - GmSWEET39 OT - genetic improvement OT - natural variation OT - seed oil content OT - soybean EDAT- 2019/10/10 06:00 MHDA- 2021/04/10 06:00 PMCR- 2020/09/17 CRDT- 2019/10/10 06:00 PHST- 2019/07/26 00:00 [received] PHST- 2019/10/02 00:00 [accepted] PHST- 2019/10/10 06:00 [pubmed] PHST- 2021/04/10 06:00 [medline] PHST- 2019/10/10 06:00 [entrez] PHST- 2020/09/17 00:00 [pmc-release] AID - NPH16250 [pii] AID - 10.1111/nph.16250 [doi] PST - ppublish SO - New Phytol. 2020 Feb;225(4):1651-1666. doi: 10.1111/nph.16250. Epub 2019 Nov 14. ##### PUB RECORD ##### ## 10.3389/fpls.2020.00450 32499790 Wang, Yang et al., 2020 "Wang Y, Yang Z, Kong Y, Li X, Li W, Du H, Zhang C. GmPAP12 Is Required for Nodule Development and Nitrogen Fixation Under Phosphorus Starvation in Soybean. Front Plant Sci. 2020 May 14;11:450. doi: 10.3389/fpls.2020.00450. PMID: 32499790; PMCID: PMC7243344." ## PMID- 32499790 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20240328 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 11 DP - 2020 TI - GmPAP12 Is Required for Nodule Development and Nitrogen Fixation Under Phosphorus Starvation in Soybean. PG - 450 LID - 10.3389/fpls.2020.00450 [doi] LID - 450 AB - Nodulation process in legume plants is essential for biological nitrogen fixation during which process a large amount of phosphorus (P) is required. Under P deficiency, nodule formation is greatly affected, and induction of purple acid phosphatases (PAPs) is an adaptive strategy for nodules to acquire more P. However, regulation roles of PAPs in nodules remain largely understood. In this study, by transcriptome sequencing technology, five PAP genes were found to be differentially expressed, which led to the greatly increased acid phosphatase (APase) and phytase activities in soybean mature nodules under P starvation conditions; and among the five PAP genes, GmPAP12 had the highest transcript level, and RT-PCR indicated expression of GmPAP12 was gradually increasing during nodule development. GUS activity driven by GmPAP12 promoter was also significantly induced in low phosphorus conditions. Further functional analysis showed that under low phosphorus stress, overexpression of GmPAP12 resulted in higher nodule number, fresh weight, and nitrogenase activity as well as the APase activity than those of control plant nodules, whereas the growth performance and APase activity of nodules on hairy roots were greatly lower when GmPAP12 was suppressed, indicating that GmPAP12 may promote P utilization in soybean nodules under low P stress, which thus played an important role in nodulation and biological nitrogen fixation. Moreover, P1BS elements were found in the promoter of GmPAP12, and yeast one-hybrid experiment further proved the binding of P1BS by transcription factor GmPHR1 in the promoter of GmPAP12. At last, overexpression and suppression of GmPHR1 in nodules indeed caused highly increased and decreased expression of GmPAP12, respectively, indicating that GmPAP12 is regulated by GmPHR1 in soybean nodules. Taken together, these data suggested that GmPAP12 was a novel soybean PAP involved in the P utilization and metabolism in soybean root nodules and played an important role in the growth and development of root nodules and biological nitrogen fixation. CI - Copyright (c) 2020 Wang, Yang, Kong, Li, Li, Du and Zhang. FAU - Wang, Yue AU - Wang Y AD - State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China. FAU - Yang, Zhanwu AU - Yang Z AD - State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China. FAU - Kong, Youbin AU - Kong Y AD - State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China. FAU - Li, Xihuan AU - Li X AD - State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China. FAU - Li, Wenlong AU - Li W AD - State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China. FAU - Du, Hui AU - Du H AD - State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China. FAU - Zhang, Caiying AU - Zhang C AD - State Key Laboratory of North China Crop Improvement and Regulation, Hebei Agricultural University, Baoding, China. LA - eng PT - Journal Article DEP - 20200514 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC7243344 OTO - NOTNLM OT - APase activity OT - P deficiency OT - acid phosphatase OT - nitrogen fixation OT - nodulation EDAT- 2020/06/06 06:00 MHDA- 2020/06/06 06:01 PMCR- 2020/01/01 CRDT- 2020/06/06 06:00 PHST- 2019/09/16 00:00 [received] PHST- 2020/03/26 00:00 [accepted] PHST- 2020/06/06 06:00 [entrez] PHST- 2020/06/06 06:00 [pubmed] PHST- 2020/06/06 06:01 [medline] PHST- 2020/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2020.00450 [doi] PST - epublish SO - Front Plant Sci. 2020 May 14;11:450. doi: 10.3389/fpls.2020.00450. eCollection 2020. ##### PUB RECORD ##### ## 10.1111/pbi.13668 34265872 Lu, Wei et al., 2021 "Lu L, Wei W, Tao JJ, Lu X, Bian XH, Hu Y, Cheng T, Yin CC, Zhang WK, Chen SY, Zhang JS. Nuclear factor Y subunit GmNFYA competes with GmHDA13 for interaction with GmFVE to positively regulate salt tolerance in soybean. Plant Biotechnol J. 2021 Nov;19(11):2362-2379. doi: 10.1111/pbi.13668. Epub 2021 Aug 2. PMID: 34265872; PMCID: PMC8541785." ## PMID- 34265872 OWN - NLM STAT- MEDLINE DCOM- 20220131 LR - 20231213 IS - 1467-7652 (Electronic) IS - 1467-7644 (Print) IS - 1467-7644 (Linking) VI - 19 IP - 11 DP - 2021 Nov TI - Nuclear factor Y subunit GmNFYA competes with GmHDA13 for interaction with GmFVE to positively regulate salt tolerance in soybean. PG - 2362-2379 LID - 10.1111/pbi.13668 [doi] AB - Soybean is an important crop worldwide, but its production is severely affected by salt stress. Understanding the regulatory mechanism of salt response is crucial for improving the salt tolerance of soybean. Here, we reveal a role for nuclear factor Y subunit GmNFYA in salt tolerance of soybean likely through the regulation of histone acetylation. GmNFYA is induced by salt stress. Overexpression of GmNFYA significantly enhances salt tolerance in stable transgenic soybean plants by inducing salt-responsive genes. Analysis in soybean plants with transgenic hairy roots also supports the conclusion. GmNFYA interacts with GmFVE, which functions with putative histone deacetylase GmHDA13 in a complex for transcriptional repression possibly by reducing H3K9 acetylation at target loci. Under salt stress, GmNFYA likely accumulates and competes with GmHDA13 for interaction with GmFVE, leading to the derepression and maintenance of histone acetylation for activation of salt-responsive genes and finally conferring salt tolerance in soybean plants. In addition, a haplotype I GmNFYA promoter is identified with the highest self-activated promoter activity and may be selected during future breeding for salt-tolerant cultivars. Our study uncovers the epigenetic regulatory mechanism of GmNFYA in salt-stress response, and all the factors/elements identified may be potential targets for genetic manipulation of salt tolerance in soybean and other crops. CI - (c) 2021 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd. FAU - Lu, Long AU - Lu L AUID- ORCID: 0000-0002-2287-3289 AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. AD - Key Lab of Ministry of Education for Genetics, Breeding and Multiple Utilization of Crops, College of Crop Sciences, Fujian Agriculture and Forestry University, Fuzhou, China. FAU - Wei, Wei AU - Wei W AUID- ORCID: 0000-0002-9471-9694 AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. FAU - Tao, Jian-Jun AU - Tao JJ AUID- ORCID: 0000-0002-2828-6835 AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. FAU - Lu, Xiang AU - Lu X AUID- ORCID: 0000-0002-1176-5389 AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. FAU - Bian, Xiao-Hua AU - Bian XH AUID- ORCID: 0000-0002-2620-4066 AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. FAU - Hu, Yang AU - Hu Y AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. AD - College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China. FAU - Cheng, Tong AU - Cheng T AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. AD - College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China. FAU - Yin, Cui-Cui AU - Yin CC AUID- ORCID: 0000-0001-5691-6366 AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. FAU - Zhang, Wan-Ke AU - Zhang WK AUID- ORCID: 0000-0003-3475-2852 AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. FAU - Chen, Shou-Yi AU - Chen SY AUID- ORCID: 0000-0002-3557-4245 AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. FAU - Zhang, Jin-Song AU - Zhang JS AUID- ORCID: 0000-0003-2165-3468 AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, INASEED, Chinese Academy of Sciences, Beijing, China. AD - College of Advanced Agricultural Sciences, University of Chinese Academy of Sciences, Beijing, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20210802 PL - England TA - Plant Biotechnol J JT - Plant biotechnology journal JID - 101201889 RN - 0 (CCAAT-Binding Factor) RN - 0 (Plant Proteins) RN - 0 (nuclear factor Y) SB - IM MH - CCAAT-Binding Factor MH - Gene Expression Regulation, Plant/genetics MH - Plant Breeding MH - Plant Proteins/genetics/metabolism MH - Plants, Genetically Modified/genetics/metabolism MH - *Salt Tolerance/genetics MH - *Glycine max/genetics/metabolism PMC - PMC8541785 OTO - NOTNLM OT - NF-Y OT - histone deacetylation OT - promoter variation OT - salt stress OT - soybean COIS- The authors declare no conflict of interest. EDAT- 2021/07/16 06:00 MHDA- 2022/02/01 06:00 PMCR- 2021/08/02 CRDT- 2021/07/15 20:37 PHST- 2021/06/29 00:00 [revised] PHST- 2021/03/21 00:00 [received] PHST- 2021/07/12 00:00 [accepted] PHST- 2021/07/16 06:00 [pubmed] PHST- 2022/02/01 06:00 [medline] PHST- 2021/07/15 20:37 [entrez] PHST- 2021/08/02 00:00 [pmc-release] AID - PBI13668 [pii] AID - 10.1111/pbi.13668 [doi] PST - ppublish SO - Plant Biotechnol J. 2021 Nov;19(11):2362-2379. doi: 10.1111/pbi.13668. Epub 2021 Aug 2. ##### PUB RECORD ##### ## 10.1073/pnas.0810585105 19106300 Shang, Li et al., 2008 "Zhang Q, Li H, Li R, Hu R, Fan C, Chen F, Wang Z, Liu X, Fu Y, Lin C. Association of the circadian rhythmic expression of GmCRY1a with a latitudinal cline in photoperiodic flowering of soybean. Proc Natl Acad Sci U S A. 2008 Dec 30;105(52):21028-33. doi: 10.1073/pnas.0810585105. Epub 2008 Dec 23. PMID: 19106300; PMCID: PMC2607247." ## PMID- 19106300 OWN - NLM STAT- MEDLINE DCOM- 20090127 LR - 20231213 IS - 1091-6490 (Electronic) IS - 0027-8424 (Print) IS - 0027-8424 (Linking) VI - 105 IP - 52 DP - 2008 Dec 30 TI - Association of the circadian rhythmic expression of GmCRY1a with a latitudinal cline in photoperiodic flowering of soybean. PG - 21028-33 LID - 10.1073/pnas.0810585105 [doi] AB - Photoperiodic control of flowering time is believed to affect latitudinal distribution of plants. The blue light receptor CRY2 regulates photoperiodic flowering in the experimental model plant Arabidopsis thaliana. However, it is unclear whether genetic variations affecting cryptochrome activity or expression is broadly associated with latitudinal distribution of plants. We report here an investigation of the function and expression of two cryptochromes in soybean, GmCRY1a and GmCRY2a. Soybean is a short-day (SD) crop commonly cultivated according to the photoperiodic sensitivity of cultivars. Both cultivated soybean (Glycine max) and its wild relative (G. soja) exhibit a strong latitudinal cline in photoperiodic flowering. Similar to their Arabidopsis counterparts, both GmCRY1a and GmCRY2a affected blue light inhibition of cell elongation, but only GmCRY2a underwent blue light- and 26S proteasome-dependent degradation. However, in contrast to Arabidopsis cryptochromes, soybean GmCRY1a, but not GmCRY2a, exhibited a strong activity promoting floral initiation, and the level of protein expression of GmCRY1a, but not GmCRY2a, oscillated with a circadian rhythm that has different phase characteristics in different photoperiods. Consistent with the hypothesis that GmCRY1a is a major regulator of photoperiodic flowering in soybean, the photoperiod-dependent circadian rhythmic expression of the GmCRY1a protein correlates with photoperiodic flowering and latitudinal distribution of soybean cultivars. We propose that genes affecting protein expression of the GmCRY1a protein play an important role in determining latitudinal distribution of soybeans. FAU - Zhang, Qingzhu AU - Zhang Q AD - Institute of Crop Sciences, National Key Facility for Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Li, Hongyu AU - Li H FAU - Li, Rui AU - Li R FAU - Hu, Ruibo AU - Hu R FAU - Fan, Chengming AU - Fan C FAU - Chen, Fulu AU - Chen F FAU - Wang, Zonghua AU - Wang Z FAU - Liu, Xu AU - Liu X FAU - Fu, Yongfu AU - Fu Y FAU - Lin, Chentao AU - Lin C LA - eng SI - GENBANK/DQ401046 GR - R01 GM056265/GM/NIGMS NIH HHS/United States GR - R29 GM056265/GM/NIGMS NIH HHS/United States GR - GM56265/GM/NIGMS NIH HHS/United States PT - Journal Article PT - Research Support, N.I.H., Extramural PT - Research Support, Non-U.S. Gov't DEP - 20081223 PL - United States TA - Proc Natl Acad Sci U S A JT - Proceedings of the National Academy of Sciences of the United States of America JID - 7505876 RN - 0 (Arabidopsis Proteins) RN - 0 (CRY1 protein, Arabidopsis) RN - 0 (Cryptochromes) RN - 0 (Flavoproteins) RN - 0 (Plant Proteins) RN - EC 3.4.25.1 (Proteasome Endopeptidase Complex) RN - EC 3.4.99.- (ATP dependent 26S protease) SB - IM MH - Arabidopsis/enzymology/genetics/growth & development MH - Arabidopsis Proteins MH - Base Sequence MH - Circadian Rhythm/*physiology MH - Cryptochromes MH - Flavoproteins/*biosynthesis/genetics MH - Gene Expression Regulation, Enzymologic/*physiology MH - Gene Expression Regulation, Plant/*physiology MH - Molecular Sequence Data MH - Plant Proteins/*biosynthesis/genetics MH - Proteasome Endopeptidase Complex/genetics/metabolism MH - Glycine max/*enzymology/genetics/growth & development PMC - PMC2607247 COIS- The authors declare no conflict of interest. EDAT- 2008/12/25 09:00 MHDA- 2009/01/28 09:00 PMCR- 2008/12/23 CRDT- 2008/12/25 09:00 PHST- 2008/12/25 09:00 [entrez] PHST- 2008/12/25 09:00 [pubmed] PHST- 2009/01/28 09:00 [medline] PHST- 2008/12/23 00:00 [pmc-release] AID - 0810585105 [pii] AID - 5891 [pii] AID - 10.1073/pnas.0810585105 [doi] PST - ppublish SO - Proc Natl Acad Sci U S A. 2008 Dec 30;105(52):21028-33. doi: 10.1073/pnas.0810585105. Epub 2008 Dec 23. ##### PUB RECORD ##### ## 10.1104/pp.19.01209 32680974 Lu, Cheng et al., 2020 "Lu M, Cheng Z, Zhang XM, Huang P, Fan C, Yu G, Chen F, Xu K, Chen Q, Miao Y, Han Y, Feng X, Liu L, Fu YF. Spatial Divergence of PHR-PHT1 Modules Maintains Phosphorus Homeostasis in Soybean Nodules. Plant Physiol. 2020 Sep;184(1):236-250. doi: 10.1104/pp.19.01209. Epub 2020 Jul 17. PMID: 32680974; PMCID: PMC7479890." ## PMID- 32680974 OWN - NLM STAT- MEDLINE DCOM- 20210621 LR - 20240229 IS - 1532-2548 (Electronic) IS - 0032-0889 (Print) IS - 0032-0889 (Linking) VI - 184 IP - 1 DP - 2020 Sep TI - Spatial Divergence of PHR-PHT1 Modules Maintains Phosphorus Homeostasis in Soybean Nodules. PG - 236-250 LID - 10.1104/pp.19.01209 [doi] AB - Maintaining phosphorus (Pi) homeostasis in nodules is the key to nodule development and nitrogen fixation, an important source of nitrogen for agriculture and ecosystems. PHOSPHATE-TRANSPORTER1 (PHT1) and its regulator PHOSPHATE-STARVATION-RESPONSE1 (PHR1), which constitute the PHR1-PHT1 module, play important roles in maintaining Pi homeostasis in different organs. However, the PHR1-PHT1 module and its functions in nodules remain unknown. We identified one PHT1 (GmPHT1;11) and four PHR1 (GmPHR1) homologs in soybean (Glycine max) plants, which displayed specific expression patterns in different tissues in nodules, similar to previously reported GmPHT1;1 and GmPHT1;4 Through the integration of different approaches, GmPHR-GmPHT1 modules were confirmed. Combining our results and previous reports, we established multiple GmPHR-GmPHT1 modules acting in the infected or noninfected tissues in nodules. A single GmPHR had more than one GmPHT1 target, and vice versa. Therefore, overlapping and cross-talking modules monitored the wave of available Pi to maintain Pi homeostasis in nodules, which sequentially regulated nodule initiation and development. High levels of GmPHT1;11 enhanced Pi accumulation in nodules, increased nodule size, but decreased nodule number. Nitrogenase activity was also enhanced by GmPHT1;11 Our findings uncover GmPHR-GmPHT1 modules in nodules, which expands our understanding of the mechanism of maintaining Pi homeostasis in soybean plants. CI - (c) 2020 American Society of Plant Biologists. All Rights Reserved. FAU - Lu, Mingyang AU - Lu M AD - Ministry of Agriculture and Rural Affairs of the People's Republic of China Key Laboratory of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 100081 Beijing, China. FAU - Cheng, Zhiyuan AU - Cheng Z AUID- ORCID: 0000-0002-1326-2179 AD - Ministry of Agriculture and Rural Affairs of the People's Republic of China Key Laboratory of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 100081 Beijing, China. FAU - Zhang, Xiao-Mei AU - Zhang XM AUID- ORCID: 0000-0002-5816-3895 AD - Ministry of Agriculture and Rural Affairs of the People's Republic of China Key Laboratory of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 100081 Beijing, China. FAU - Huang, Penghui AU - Huang P AUID- ORCID: 0000-0003-0197-4846 AD - Ministry of Agriculture and Rural Affairs of the People's Republic of China Key Laboratory of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 100081 Beijing, China. FAU - Fan, Chengming AU - Fan C AUID- ORCID: 0000-0002-1352-8301 AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China. FAU - Yu, Guolong AU - Yu G AD - Key Laboratory of Soybean Biology, Ministry of Education/College of Agriculture, Northeast Agricultural University, Harbin 150030, China. FAU - Chen, Fulu AU - Chen F AUID- ORCID: 0000-0002-9856-0027 AD - Ministry of Agriculture and Rural Affairs of the People's Republic of China Key Laboratory of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 100081 Beijing, China. FAU - Xu, Kun AU - Xu K AD - Ministry of Agriculture and Rural Affairs of the People's Republic of China Key Laboratory of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 100081 Beijing, China. FAU - Chen, Qingshan AU - Chen Q AD - Key Laboratory of Soybean Biology, Ministry of Education/College of Agriculture, Northeast Agricultural University, Harbin 150030, China. FAU - Miao, Yuchen AU - Miao Y AUID- ORCID: 0000-0002-4339-1238 AD - Collaborative Innovation Center of Crop Stress Biology, Henan Province, Institute of Plant Stress Biology, School of Life Science, Henan University, Kaifeng 475004, China. FAU - Han, Yuzhen AU - Han Y AUID- ORCID: 0000-0003-3330-1902 AD - College of Biological Sciences, State Key Laboratory of Plant Physiology and Biochemistry, China Agricultural University, Beijing 100094, China. FAU - Feng, Xianzhong AU - Feng X AUID- ORCID: 0000-0002-7129-3731 AD - CAS Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun 130102, China. FAU - Liu, Liangyu AU - Liu L AUID- ORCID: 0000-0002-8250-934X AD - College of Life Sciences, Capital Normal University, Beijing 100048, China. FAU - Fu, Yong-Fu AU - Fu YF AUID- ORCID: 0000-0002-1486-0146 AD - Ministry of Agriculture and Rural Affairs of the People's Republic of China Key Laboratory of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 100081 Beijing, China fuyongfu@caas.cn. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20200717 PL - United States TA - Plant Physiol JT - Plant physiology JID - 0401224 RN - 0 (Phosphate Transport Proteins) RN - 0 (Plant Proteins) RN - 27YLU75U4W (Phosphorus) SB - IM MH - Gene Expression Regulation, Plant MH - Phosphate Transport Proteins/*metabolism MH - Phosphorus/*metabolism MH - Plant Proteins/*metabolism MH - Root Nodules, Plant/*metabolism MH - Glycine max/*metabolism PMC - PMC7479890 EDAT- 2020/07/19 06:00 MHDA- 2021/06/22 06:00 PMCR- 2021/09/01 CRDT- 2020/07/19 06:00 PHST- 2019/10/02 00:00 [received] PHST- 2020/07/08 00:00 [accepted] PHST- 2020/07/19 06:00 [pubmed] PHST- 2021/06/22 06:00 [medline] PHST- 2020/07/19 06:00 [entrez] PHST- 2021/09/01 00:00 [pmc-release] AID - pp.19.01209 [pii] AID - 201901209R4 [pii] AID - 10.1104/pp.19.01209 [doi] PST - ppublish SO - Plant Physiol. 2020 Sep;184(1):236-250. doi: 10.1104/pp.19.01209. Epub 2020 Jul 17. ##### PUB RECORD ##### ## 10.1111/tpj.15658 34978122 Fliege, Ward et al.,2022 "Fliege CE, Ward RA, Vogel P, Nguyen H, Quach T, Guo M, Viana JPG, Dos Santos LB, Specht JE, Clemente TE, Hudson ME, Diers BW. Fine mapping and cloning of the major seed protein quantitative trait loci on soybean chromosome 20. Plant J. 2022 Apr;110(1):114-128. doi: 10.1111/tpj.15658. Epub 2022 Feb 10. PMID: 34978122; PMCID: PMC9303569." ## PMID- 34978122 OWN - NLM STAT- MEDLINE DCOM- 20220405 LR - 20231213 IS - 1365-313X (Electronic) IS - 0960-7412 (Print) IS - 0960-7412 (Linking) VI - 110 IP - 1 DP - 2022 Apr TI - Fine mapping and cloning of the major seed protein quantitative trait loci on soybean chromosome 20. PG - 114-128 LID - 10.1111/tpj.15658 [doi] AB - Soybean is the most important source of protein meal worldwide and the quantitative trait loci (QTL) cqSeed protein-003 on chromosome 20 exerts the greatest additive effect of any protein QTL mapped in the crop. Through genetic mapping and candidate gene downregulation, we identified that an insertion/deletion variant in Glyma.20G85100 is the likely gene that underlies this important QTL. FAU - Fliege, Christina E AU - Fliege CE AUID- ORCID: 0000-0001-8085-779X AD - Department of Crop Sciences, University of Illinois, 1101 W. Peabody Dr., Urbana, IL, 61801, USA. FAU - Ward, Russell A AU - Ward RA AD - Department of Crop Sciences, University of Illinois, 1101 W. Peabody Dr., Urbana, IL, 61801, USA. AD - Syngenta Seeds Inc., Aurora, SD, 57002, USA. FAU - Vogel, Pamela AU - Vogel P AD - Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68583, USA. AD - Pairwise Company, Durham, NC, 27701, USA. FAU - Nguyen, Hanh AU - Nguyen H AD - Center for Plant Science Innovation, University of Nebrasaka-Lincoln, Lincoln, NE, 68583, USA. FAU - Quach, Truyen AU - Quach T AUID- ORCID: 0000-0002-0177-2622 AD - Center for Plant Science Innovation, University of Nebrasaka-Lincoln, Lincoln, NE, 68583, USA. FAU - Guo, Ming AU - Guo M AUID- ORCID: 0000-0001-5338-9353 AD - Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68583, USA. FAU - Viana, Joao Paulo Gomes AU - Viana JPG AUID- ORCID: 0000-0002-9217-9604 AD - Department of Crop Sciences, University of Illinois, 1101 W. Peabody Dr., Urbana, IL, 61801, USA. FAU - Dos Santos, Lucas Borges AU - Dos Santos LB AD - Department of Crop Sciences, University of Illinois, 1101 W. Peabody Dr., Urbana, IL, 61801, USA. FAU - Specht, James E AU - Specht JE AUID- ORCID: 0000-0003-1859-4858 AD - Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68583, USA. FAU - Clemente, Tom E AU - Clemente TE AUID- ORCID: 0000-0003-3650-852X AD - Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, 68583, USA. FAU - Hudson, Matthew E AU - Hudson ME AUID- ORCID: 0000-0002-4737-0936 AD - Department of Crop Sciences, University of Illinois, 1101 W. Peabody Dr., Urbana, IL, 61801, USA. FAU - Diers, Brian W AU - Diers BW AUID- ORCID: 0000-0003-3584-5495 AD - Department of Crop Sciences, University of Illinois, 1101 W. Peabody Dr., Urbana, IL, 61801, USA. LA - eng PT - Journal Article DEP - 20220210 PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 SB - IM MH - Cloning, Molecular MH - *Quantitative Trait Loci/genetics MH - Seeds/genetics/metabolism MH - *Glycine max/genetics/metabolism PMC - PMC9303569 OTO - NOTNLM OT - Glycine max (L.) Merr. OT - QTL OT - fine mapping OT - gene cloning OT - seed protein OT - soybean COIS- The authors declare that they have no competing interests. EDAT- 2022/01/04 06:00 MHDA- 2022/04/06 06:00 PMCR- 2022/07/22 CRDT- 2022/01/03 06:06 PHST- 2021/07/16 00:00 [received] PHST- 2021/12/28 00:00 [accepted] PHST- 2022/01/04 06:00 [pubmed] PHST- 2022/04/06 06:00 [medline] PHST- 2022/01/03 06:06 [entrez] PHST- 2022/07/22 00:00 [pmc-release] AID - TPJ15658 [pii] AID - 10.1111/tpj.15658 [doi] PST - ppublish SO - Plant J. 2022 Apr;110(1):114-128. doi: 10.1111/tpj.15658. Epub 2022 Feb 10. ##### PUB RECORD ##### ## 10.1186/1471-2229-14-154 24893844 Zhou, He et al., 2014 "Zhou L, He H, Liu R, Han Q, Shou H, Liu B. Overexpression of GmAKT2 potassium channel enhances resistance to soybean mosaic virus. BMC Plant Biol. 2014 Jun 3;14:154. doi: 10.1186/1471-2229-14-154. PMID: 24893844; PMCID: PMC4074861." ## PMID- 24893844 OWN - NLM STAT- MEDLINE DCOM- 20150116 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 14 DP - 2014 Jun 3 TI - Overexpression of GmAKT2 potassium channel enhances resistance to soybean mosaic virus. PG - 154 LID - 10.1186/1471-2229-14-154 [doi] AB - BACKGROUND: Soybean mosaic virus (SMV) is the most prevalent viral disease in many soybean production areas. Due to a large number of SMV resistant loci and alleles, SMV strains and the rapid evolution in avirulence/effector genes, traditional breeding for SMV resistance is complex. Genetic engineering is an effective alternative method for improving SMV resistance in soybean. Potassium (K+) is the most abundant inorganic solute in plant cells, and is involved in plant responses to abiotic and biotic stresses. Studies have shown that altering the level of K+ status can reduce the spread of the viral diseases. Thus K+ transporters are putative candidates to target for soybean virus resistance. RESULTS: The addition of K+ fertilizer significantly reduced SMV incidence. Analysis of K+ channel gene expression indicated that GmAKT2, the ortholog of Arabidopsis K+ weak channel encoding gene AKT2, was significantly induced by SMV inoculation in the SMV highly-resistant genotype Rsmv1, but not in the susceptible genotype Ssmv1. Transgenic soybean plants overexpressing GmAKT2 were produced and verified by Southern blot and RT-PCR analysis. Analysis of K+ concentrations on different leaves of both the transgenic and the wildtype (Williams 82) plants revealed that overexpression of GmAKT2 significantly increased K+ concentrations in young leaves of plants. In contrast, K+ concentrations in the old leaves of the GmAKT2-Oe plants were significantly lower than those in WT plants. These results indicated that GmAKT2 acted as a K+ transporter and affected the distribution of K+ in soybean plants. Starting from 14 days after inoculation (DAI) of SMV G7, severe mosaic symptoms were observed on the WT leaves. In contrast, the GmAKT2-Oe plants showed no symptom of SMV infection. At 14 and 28 DAI, the amount of SMV RNA in WT plants increased 200- and 260- fold relative to GmAKT2-Oe plants at each time point. Thus, SMV development was significantly retarded in GmAKT2-overexpressing transgenic soybean plants. CONCLUSIONS: Overexpression of GmAKT2 significantly enhanced SMV resistance in transgenic soybean. Thus, alteration of K+ transporter expression is a novel molecular approach for enhancing SMV resistance in soybean. FAU - Zhou, Lian AU - Zhou L FAU - He, Hongli AU - He H FAU - Liu, Ruifang AU - Liu R FAU - Han, Qiang AU - Han Q FAU - Shou, Huixia AU - Shou H AD - State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, P, R, China. huixia@zju.edu.cn. FAU - Liu, Bao AU - Liu B LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140603 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (Plant Proteins) RN - 0 (Potassium Channels) RN - RWP5GA015D (Potassium) SB - IM MH - *Disease Resistance/drug effects/genetics MH - Gene Expression Regulation, Plant/drug effects MH - Genotype MH - Mosaic Viruses/drug effects/*physiology MH - Plant Diseases/genetics/*virology MH - Plant Leaves/drug effects/metabolism MH - Plant Proteins/genetics/*metabolism MH - Plants, Genetically Modified MH - Potassium/metabolism/pharmacology MH - Potassium Channels/genetics/*metabolism MH - Reproducibility of Results MH - Glycine max/drug effects/genetics/growth & development/*virology PMC - PMC4074861 EDAT- 2014/06/05 06:00 MHDA- 2015/01/17 06:00 PMCR- 2014/06/03 CRDT- 2014/06/05 06:00 PHST- 2014/02/25 00:00 [received] PHST- 2014/05/27 00:00 [accepted] PHST- 2014/06/05 06:00 [entrez] PHST- 2014/06/05 06:00 [pubmed] PHST- 2015/01/17 06:00 [medline] PHST- 2014/06/03 00:00 [pmc-release] AID - 1471-2229-14-154 [pii] AID - 10.1186/1471-2229-14-154 [doi] PST - epublish SO - BMC Plant Biol. 2014 Jun 3;14:154. doi: 10.1186/1471-2229-14-154. ##### PUB RECORD ##### ## 10.1111/tpj.14025 30004144 Zhao, Li et al., 2018 "Zhao L, Li M, Xu C, Yang X, Li D, Zhao X, Wang K, Li Y, Zhang X, Liu L, Ding F, Du H, Wang C, Sun J, Li W. Natural variation in GmGBP1 promoter affects photoperiod control of flowering time and maturity in soybean. Plant J. 2018 Oct;96(1):147-162. doi: 10.1111/tpj.14025. Epub 2018 Aug 16. PMID: 30004144." ## PMID- 30004144 OWN - NLM STAT- MEDLINE DCOM- 20190625 LR - 20231213 IS - 1365-313X (Electronic) IS - 0960-7412 (Linking) VI - 96 IP - 1 DP - 2018 Oct TI - Natural variation in GmGBP1 promoter affects photoperiod control of flowering time and maturity in soybean. PG - 147-162 LID - 10.1111/tpj.14025 [doi] AB - The present study screened for polymorphisms in coding and non-coding regions of the GmGBP1 gene in 278 soybean accessions with variable maturity and growth habit characteristics under natural field conditions in three different latitudes in China. The results showed that the promoter region was highly diversified compared with the coding sequence of GmGBP1. Five polymorphisms and four haplotypes were closely related to soybean flowering time and maturity through association and linkage disequilibrium analyses. Varieties with the polymorphisms SNP_-796G, SNP_-770G, SNP_-307T, InDel_-242normal, SNP_353A, or haplotypes Hap-3 and Hap-4 showed earlier flowering time and maturity in different environments. The shorter growth period might be largely due to higher GmGBP1 expression levels in soybean that were caused by the TCT-motif with SNP_-796G in the promoter. In contrast, the lower expression level of GmGBP1 in soybean caused by RNAi interference of GmGBP1 resulted in a longer growth period under different day lengths. Furthermore, the gene interference of GmGBP1 also caused a reduction in photoperiod response sensitivity (PRS) before flowering in soybean. RNA-seq analysis on GmGBP1 underexpression in soybean showed that 94 and 30 predicted genes were significantly upregulated and downregulated, respectively. Of these, the diurnal photoperiod-specific expression pattern of three significant flowering time genes GmFT2a, GmFT5a, and GmFULc also showed constantly lower mRNA levels in GmGBP1-i soybean than in wild type, especially under short day conditions. Together, the results showed that GmGBP1 functioned as a positive regulator upstream of GmFT2a and GmFT5a to activate the expression of GmFULc to promote flowering on short days. CI - (c) 2018 The Authors The Plant Journal (c) 2018 John Wiley & Sons Ltd. FAU - Zhao, Lin AU - Zhao L AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Li, Minmin AU - Li M AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Xu, Chongjing AU - Xu C AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Yang, Xue AU - Yang X AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Li, Dongmei AU - Li D AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Zhao, Xue AU - Zhao X AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Wang, Kuo AU - Wang K AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Li, Yinghua AU - Li Y AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Zhang, Xiaoming AU - Zhang X AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Liu, Lixue AU - Liu L AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Ding, Fuquan AU - Ding F AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Du, Hailong AU - Du H AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Wang, Chunsheng AU - Wang C AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Sun, Jingzhe AU - Sun J AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. FAU - Li, Wenbin AU - Li W AD - Key Laboratory of Soybean Biology of Ministry of Education China (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin, 150030, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20180816 PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 RN - 0 (Plant Proteins) SB - IM MH - Flowers/*growth & development MH - Gene Expression Regulation, Plant MH - Haplotypes MH - Linkage Disequilibrium MH - *Photoperiod MH - Plant Proteins/genetics/*physiology MH - Polymorphism, Single Nucleotide/genetics/physiology MH - Promoter Regions, Genetic/genetics/*physiology MH - Glycine max/genetics/growth & development/*physiology OTO - NOTNLM OT - SNP OT - GmGBP1 gene OT - photoperiod OT - promoter OT - soybean maturity EDAT- 2018/07/14 06:00 MHDA- 2019/06/27 06:00 CRDT- 2018/07/14 06:00 PHST- 2018/01/31 00:00 [received] PHST- 2018/06/21 00:00 [revised] PHST- 2018/06/26 00:00 [accepted] PHST- 2018/07/14 06:00 [pubmed] PHST- 2019/06/27 06:00 [medline] PHST- 2018/07/14 06:00 [entrez] AID - 10.1111/tpj.14025 [doi] PST - ppublish SO - Plant J. 2018 Oct;96(1):147-162. doi: 10.1111/tpj.14025. Epub 2018 Aug 16. ##### PUB RECORD ##### ## 10.3390/ijms20194849 31569565 Noman, Jameel et al., 2019 "Noman M, Jameel A, Qiang WD, Ahmad N, Liu WC, Wang FW, Li HY. Overexpression of GmCAMTA12 Enhanced Drought Tolerance in Arabidopsis and Soybean. Int J Mol Sci. 2019 Sep 29;20(19):4849. doi: 10.3390/ijms20194849. PMID: 31569565; PMCID: PMC6801534." ## PMID- 31569565 OWN - NLM STAT- MEDLINE DCOM- 20200212 LR - 20231213 IS - 1422-0067 (Electronic) IS - 1422-0067 (Linking) VI - 20 IP - 19 DP - 2019 Sep 29 TI - Overexpression of GmCAMTA12 Enhanced Drought Tolerance in Arabidopsis and Soybean. LID - 10.3390/ijms20194849 [doi] LID - 4849 AB - Fifteen transcription factors in the CAMTA (calmodulin binding transcription activator) family of soybean were reported to differentially regulate in multiple stresses; however, their functional analyses had not yet been attempted. To characterize their role in stresses, we first comprehensively analyzed the GmCAMTA family in silico and thereafter determined their expression pattern under drought. The bioinformatics analysis revealed multiple stress-related cis-regulatory elements including ABRE, SARE, G-box and W-box, 10 unique miRNA (microRNA) targets in GmCAMTA transcripts and 48 proteins in GmCAMTAs' interaction network. We then cloned the 2769 bp CDS (coding sequence) of GmCAMTA12 in an expression vector and overexpressed in soybean and Arabidopsis through Agrobacterium-mediated transformation. The T3 (Transgenic generation 3) stably transformed homozygous lines of Arabidopsis exhibited enhanced tolerance to drought in soil as well as on MS (Murashige and Skoog) media containing mannitol. In their drought assay, the average survival rate of transgenic Arabidopsis lines OE5 and OE12 (Overexpression Line 5 and Line 12) was 83.66% and 87.87%, respectively, which was ~30% higher than that of wild type. In addition, the germination and root length assays as well as physiological indexes such as proline and malondialdehyde contents, catalase activity and leakage of electrolytes affirmed the better performance of OE lines. Similarly, GmCAMTA12 overexpression in soybean promoted drought-efficient hairy roots in OE chimeric plants as compare to that of VC (Vector control). In parallel, the improved growth performance of OE in Hoagland-PEG (polyethylene glycol) and on MS-mannitol was revealed by their phenotypic, physiological and molecular measures. Furthermore, with the overexpression of GmCAMTA12, the downstream genes including AtAnnexin5, AtCaMHSP, At2G433110 and AtWRKY14 were upregulated in Arabidopsis. Likewise, in soybean hairy roots, GmELO, GmNAB and GmPLA1-IId were significantly upregulated as a result of GmCAMTA12 overexpression and majority of these upregulated genes in both plants possess CAMTA binding CGCG/CGTG motif in their promoters. Taken together, we report that GmCAMTA12 plays substantial role in tolerance of soybean against drought stress and could prove to be a novel candidate for engineering soybean and other plants against drought stress. Some research gaps were also identified for future studies to extend our comprehension of Ca-CaM-CAMTA-mediated stress regulatory mechanisms. FAU - Noman, Muhammad AU - Noman M AUID- ORCID: 0000-0002-5580-671X AD - College of Life Sciences, Engineering Research Center of the Chinese Ministry of Education for Bioreactor and Pharmaceutical Development, Jilin Agricultural University, Changchun 130118, Jilin, China. FAU - Jameel, Aysha AU - Jameel A AD - College of Life Sciences, Engineering Research Center of the Chinese Ministry of Education for Bioreactor and Pharmaceutical Development, Jilin Agricultural University, Changchun 130118, Jilin, China. FAU - Qiang, Wei-Dong AU - Qiang WD AD - College of Life Sciences, Engineering Research Center of the Chinese Ministry of Education for Bioreactor and Pharmaceutical Development, Jilin Agricultural University, Changchun 130118, Jilin, China. FAU - Ahmad, Naveed AU - Ahmad N AD - College of Life Sciences, Engineering Research Center of the Chinese Ministry of Education for Bioreactor and Pharmaceutical Development, Jilin Agricultural University, Changchun 130118, Jilin, China. FAU - Liu, Wei-Can AU - Liu WC AD - College of Life Sciences, Engineering Research Center of the Chinese Ministry of Education for Bioreactor and Pharmaceutical Development, Jilin Agricultural University, Changchun 130118, Jilin, China. FAU - Wang, Fa-Wei AU - Wang FW AD - College of Life Sciences, Engineering Research Center of the Chinese Ministry of Education for Bioreactor and Pharmaceutical Development, Jilin Agricultural University, Changchun 130118, Jilin, China. fw-1980@163.com. FAU - Li, Hai-Yan AU - Li HY AD - College of Life Sciences, Engineering Research Center of the Chinese Ministry of Education for Bioreactor and Pharmaceutical Development, Jilin Agricultural University, Changchun 130118, Jilin, China. hyli99@163.com. LA - eng GR - 31601323, 31501366/National Natural Science Foundation of China/ PT - Journal Article DEP - 20190929 PL - Switzerland TA - Int J Mol Sci JT - International journal of molecular sciences JID - 101092791 RN - 0 (Calcium-Binding Proteins) SB - IM MH - Adaptation, Biological/*genetics MH - Amino Acid Sequence MH - Arabidopsis/classification/*physiology MH - Calcium-Binding Proteins/chemistry/*genetics/metabolism MH - Chemical Phenomena MH - *Droughts MH - *Gene Expression MH - Phylogeny MH - Glycine max/classification/*physiology MH - Stress, Physiological/*genetics PMC - PMC6801534 OTO - NOTNLM OT - CaM (Calmodulin) OT - arabidopsis OT - calmodulin-binding transcription activators (CAMTA) OT - cis-elements OT - drought OT - qPCR OT - soybean hairy roots COIS- The authors declare no conflict of interest. EDAT- 2019/10/02 06:00 MHDA- 2020/02/13 06:00 PMCR- 2019/10/01 CRDT- 2019/10/02 06:00 PHST- 2019/08/15 00:00 [received] PHST- 2019/09/24 00:00 [revised] PHST- 2019/09/26 00:00 [accepted] PHST- 2019/10/02 06:00 [entrez] PHST- 2019/10/02 06:00 [pubmed] PHST- 2020/02/13 06:00 [medline] PHST- 2019/10/01 00:00 [pmc-release] AID - ijms20194849 [pii] AID - ijms-20-04849 [pii] AID - 10.3390/ijms20194849 [doi] PST - epublish SO - Int J Mol Sci. 2019 Sep 29;20(19):4849. doi: 10.3390/ijms20194849. ##### PUB RECORD ##### ## 10.1371/journal.pone.0111959 25369033 Zabala, Vodkin, 2014 "Zabala G, Vodkin LO. Methylation affects transposition and splicing of a large CACTA transposon from a MYB transcription factor regulating anthocyanin synthase genes in soybean seed coats. PLoS One. 2014 Nov 4;9(11):e111959. doi: 10.1371/journal.pone.0111959. PMID: 25369033; PMCID: PMC4219821." ## PMID- 25369033 OWN - NLM STAT- MEDLINE DCOM- 20151224 LR - 20231213 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 9 IP - 11 DP - 2014 TI - Methylation affects transposition and splicing of a large CACTA transposon from a MYB transcription factor regulating anthocyanin synthase genes in soybean seed coats. PG - e111959 LID - 10.1371/journal.pone.0111959 [doi] LID - e111959 AB - We determined the molecular basis of three soybean lines that vary in seed coat color at the R locus which is thought to encode a MYB transcription factor. RM55-r(m) is homozygous for a mutable allele (r(m)) that specifies black and brown striped seeds; RM30-R* is a stable black revertant isoline derived from the mutable line; and RM38-r has brown seed coats due to a recessive r allele shown to translate a truncated MYB protein. Using long range PCR, 454 sequencing of amplicons, and whole genome re-sequencing, we determined that the variegated RM55-r(m) line had a 13 kb CACTA subfamily transposon insertion (designated TgmR*) at a position 110 bp from the beginning of Intron2 of the R locus, Glyma09g36983. Although the MYB encoded by R was expressed at only very low levels in older seed coats of the black revertant RM30-R* line, it upregulated expression of anthocyanidin synthase genes (ANS2, ANS3) to promote the synthesis of anthocyanins. Surprisingly, the RM30-R* revertant also carried the 13 kb TgmR* insertion in Intron2. Using RNA-Seq, we showed that intron splicing was accurate, albeit at lower levels, despite the presence of the 13 kb TgmR* element. As determined by whole genome methylation sequencing, we demonstrate that the TgmR* sequence was relatively more methylated in RM30-R* than in the mutable RM55-r(m) progenitor line. The stabilized and more methylated RM30-R* revertant line apparently lacks effective binding of a transposae to its subterminal repeats, thus allowing intron splicing to proceed resulting in sufficient MYB protein to stimulate anthocyanin production and thus black seed coats. In this regard, the TgmR* element in soybean resembles McClintock's Spm-suppressible and change-of-state alleles of maize. This comparison explains the opposite effects of the TgmR* element on intron splicing of the MYB gene in which it resides depending on the methylation state of the element. FAU - Zabala, Gracia AU - Zabala G AD - Department of Crop Sciences, University of Illinois, Urbana, Illinois, United States of America. FAU - Vodkin, Lila O AU - Vodkin LO AD - Department of Crop Sciences, University of Illinois, Urbana, Illinois, United States of America. LA - eng SI - GENBANK/KM077446 SI - GEO/GSE60593 SI - GEO/GSE61116 PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Research Support, U.S. Gov't, Non-P.H.S. DEP - 20141104 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (DNA Transposable Elements) RN - 0 (Oncogene Proteins v-myb) RN - 0 (Plant Proteins) RN - EC 1.13.- (Oxygenases) RN - EC 1.14.99.- (anthocyanidin synthase) SB - IM MH - Alternative Splicing MH - Amino Acid Sequence MH - Base Sequence MH - DNA Methylation MH - *DNA Transposable Elements MH - Gene Expression MH - Genetic Loci MH - Metabolic Networks and Pathways MH - Molecular Sequence Data MH - Oncogene Proteins v-myb/*physiology MH - Oxygenases/*genetics/metabolism MH - Plant Proteins/*genetics/metabolism MH - Seeds/enzymology/*genetics MH - Sequence Analysis, DNA MH - Glycine max/enzymology/*genetics MH - Translocation, Genetic PMC - PMC4219821 COIS- Competing Interests: United Soybean Board and the Illinois Soybean Association provided funding towards this study. There are no patents, products in development or marketed products to declare. This does not alter the authors' adherence to all the PLOS ONE policies on sharing data and materials. EDAT- 2014/11/05 06:00 MHDA- 2015/12/25 06:00 PMCR- 2014/11/04 CRDT- 2014/11/05 06:00 PHST- 2014/08/01 00:00 [received] PHST- 2014/10/07 00:00 [accepted] PHST- 2014/11/05 06:00 [entrez] PHST- 2014/11/05 06:00 [pubmed] PHST- 2015/12/25 06:00 [medline] PHST- 2014/11/04 00:00 [pmc-release] AID - PONE-D-14-34662 [pii] AID - 10.1371/journal.pone.0111959 [doi] PST - epublish SO - PLoS One. 2014 Nov 4;9(11):e111959. doi: 10.1371/journal.pone.0111959. eCollection 2014. ##### PUB RECORD ##### ## 10.1105/tpc.114.135103 25663621 Wang, Zhou et al., 2015 "Wang Z, Zhou Z, Liu Y, Liu T, Li Q, Ji Y, Li C, Fang C, Wang M, Wu M, Shen Y, Tang T, Ma J, Tian Z. Functional evolution of phosphatidylethanolamine binding proteins in soybean and Arabidopsis. Plant Cell. 2015 Feb;27(2):323-36. doi: 10.1105/tpc.114.135103. Epub 2015 Feb 6. PMID: 25663621; PMCID: PMC4456927." ## PMID- 25663621 OWN - NLM STAT- MEDLINE DCOM- 20151201 LR - 20231213 IS - 1532-298X (Electronic) IS - 1040-4651 (Print) IS - 1040-4651 (Linking) VI - 27 IP - 2 DP - 2015 Feb TI - Functional evolution of phosphatidylethanolamine binding proteins in soybean and Arabidopsis. PG - 323-36 LID - 10.1105/tpc.114.135103 [doi] AB - Gene duplication provides resources for novel gene functions. Identification of the amino acids responsible for functional conservation and divergence of duplicated genes will strengthen our understanding of their evolutionary course. Here, we conducted a systemic functional investigation of phosphatidylethanolamine binding proteins (PEBPs) in soybean (Glycine max) and Arabidopsis thaliana. Our results demonstrated that after the ancestral duplication, the lineage of the common ancestor of the FLOWERING LOCUS T (FT) and TERMINAL FLOWER1 (TFL1) subfamilies functionally diverged from the MOTHER OF FT AND TFL1 (MFT) subfamily to activate flowering and repress flowering, respectively. They also underwent further specialization after subsequent duplications. Although the functional divergence increased with duplication age, we observed rapid functional divergence for a few pairs of young duplicates in soybean. Association analysis between amino acids and functional variations identified critical amino acid residues that led to functional differences in PEBP members. Using transgenic analysis, we validated a subset of these differences. We report clear experimental evidence for the functional evolution of the PEBPs in the MFT, FT, and TFL1 subfamilies, which predate the origin of angiosperms. Our results highlight the role of amino acid divergence in driving evolutionary novelty after duplication. CI - (c) 2015 American Society of Plant Biologists. All rights reserved. FAU - Wang, Zheng AU - Wang Z AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China. FAU - Zhou, Zhengkui AU - Zhou Z AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China. FAU - Liu, Yunfeng AU - Liu Y AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907. FAU - Liu, Tengfei AU - Liu T AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China University of Chinese Academy of Sciences, Beijing 100039, China. FAU - Li, Qing AU - Li Q AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China University of Chinese Academy of Sciences, Beijing 100039, China. FAU - Ji, Yuanyuan AU - Ji Y AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China University of Chinese Academy of Sciences, Beijing 100039, China. FAU - Li, Congcong AU - Li C AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China University of Chinese Academy of Sciences, Beijing 100039, China. FAU - Fang, Chao AU - Fang C AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China University of Chinese Academy of Sciences, Beijing 100039, China. FAU - Wang, Min AU - Wang M AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China University of Chinese Academy of Sciences, Beijing 100039, China. FAU - Wu, Mian AU - Wu M AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China. FAU - Shen, Yanting AU - Shen Y AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China University of Chinese Academy of Sciences, Beijing 100039, China. FAU - Tang, Tian AU - Tang T AD - State Key Laboratory of Biocontrol and Key Laboratory of Biodiversity Dynamics and Conservation of Guangdong Higher Education Institutes, Grant School of Life Sciences, Sun Yat-Sen University, Guangzhou 510080, China lsstt@mail.sysu.edu.cn maj@purdue.edu zxtian@genetics.ac.cn. FAU - Ma, Jianxin AU - Ma J AD - Department of Agronomy, Purdue University, West Lafayette, Indiana 47907 lsstt@mail.sysu.edu.cn maj@purdue.edu zxtian@genetics.ac.cn. FAU - Tian, Zhixi AU - Tian Z AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, China lsstt@mail.sysu.edu.cn maj@purdue.edu zxtian@genetics.ac.cn. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20150206 PL - England TA - Plant Cell JT - The Plant cell JID - 9208688 RN - 0 (Amino Acids) RN - 0 (Phosphatidylethanolamine Binding Protein) RN - 0 (Plant Proteins) SB - IM MH - Amino Acid Sequence MH - Amino Acids/metabolism MH - Arabidopsis/*genetics/metabolism MH - *Evolution, Molecular MH - Flowers/physiology MH - Gene Expression Regulation, Plant MH - Genes, Duplicate MH - Genes, Plant MH - Molecular Sequence Data MH - Phosphatidylethanolamine Binding Protein/chemistry/*genetics/*metabolism MH - Plant Proteins/metabolism MH - Protein Binding MH - Protein Transport MH - Glycine max/*genetics/metabolism MH - Subcellular Fractions/metabolism PMC - PMC4456927 EDAT- 2015/02/11 06:00 MHDA- 2015/12/15 06:00 PMCR- 2016/02/01 CRDT- 2015/02/10 06:00 PHST- 2015/02/10 06:00 [entrez] PHST- 2015/02/11 06:00 [pubmed] PHST- 2015/12/15 06:00 [medline] PHST- 2016/02/01 00:00 [pmc-release] AID - tpc.114.135103 [pii] AID - 135103 [pii] AID - 10.1105/tpc.114.135103 [doi] PST - ppublish SO - Plant Cell. 2015 Feb;27(2):323-36. doi: 10.1105/tpc.114.135103. Epub 2015 Feb 6. ##### PUB RECORD ##### ## 10.1093/pcp/pcy215 30418611 Li, Liu et al., 2019 "Li MW, Liu W, Lam HM, Gendron JM. Characterization of Two Growth Period QTLs Reveals Modification of PRR3 Genes During Soybean Domestication. Plant Cell Physiol. 2019 Feb 1;60(2):407-420. doi: 10.1093/pcp/pcy215. PMID: 30418611." ## PMID- 30418611 OWN - NLM STAT- MEDLINE DCOM- 20190820 LR - 20231213 IS - 1471-9053 (Electronic) IS - 0032-0781 (Linking) VI - 60 IP - 2 DP - 2019 Feb 1 TI - Characterization of Two Growth Period QTLs Reveals Modification of PRR3 Genes During Soybean Domestication. PG - 407-420 LID - 10.1093/pcp/pcy215 [doi] AB - Soybean yield is largely dependent on growth period. We characterized two growth period quantitative trait loci, Gp11 and Gp12, from a recombinant inbred population generated from a cross of wild (W05) and cultivated (C08) soybean. Lines carrying Gp11C08 and Gp12C08 tend to have a shorter growth period and higher expression of GmFT2a and GmFT5a. Furthermore, multiple interval mapping suggests that Gp11 and Gp12 may be genetically interacting with the E2 locus. This is consistent with the observation that GmFT2a and GmFT5a are activated by Gp11C08 and Gp12C08 at ZT4 in the recessive e2 but not the dominant E2 background. Gp11 and Gp12 are duplicated genomic regions each containing a copy of the soybean ortholog of PSEUDO RESPONSE REGULATOR 3 (GmPRR3A and GmPRR3B). GmPRR3A and GmPRR3B from C08 carry mutations that delete the CCT domain in the encoded proteins. These mutations were selected during soybean improvement and they alter the subcellular localization of GmPRR3A and GmPRR3B. Furthermore, GmPRR3A and GmPRR3B can interact with TOPLESS-related transcription factors, suggesting that they function in a transcription repressor complex. This study addresses previously unexplored components of the genetic network that probably controls the growth period of soybean and puts these loci into context with the well-characterized growth period-regulating E loci. CI - i inverted question mark(1/2) The Author(s) 2018. Published by Oxford University Press on behalf of Japanese Society of Plant Physiologists. All rights reserved. For permissions, please email: journals.permissions@oup.com. FAU - Li, Man-Wah AU - Li MW AD - Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT, USA. FAU - Liu, Wei AU - Liu W AD - Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT, USA. FAU - Lam, Hon-Ming AU - Lam HM AD - Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong SAR. FAU - Gendron, Joshua M AU - Gendron JM AD - Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, CT, USA. LA - eng PT - Journal Article PL - Japan TA - Plant Cell Physiol JT - Plant & cell physiology JID - 9430925 RN - 0 (Plant Proteins) RN - 0 (Transcription Factors) MH - *Domestication MH - Gene Expression Regulation, Plant MH - Genes, Plant/*genetics/physiology MH - Phylogeny MH - Plant Proteins/*genetics/physiology MH - Quantitative Trait Loci/*genetics MH - Glycine max/*genetics/growth & development MH - Transcription Factors/*genetics/physiology OTO - NOTNLM OT - Domestication OT - Flowering OT - Growth period OT - Pseudo-response regulator OT - Soybean EDAT- 2018/11/13 06:00 MHDA- 2019/08/21 06:00 CRDT- 2018/11/13 06:00 PHST- 2018/06/19 00:00 [received] PHST- 2018/11/01 00:00 [accepted] PHST- 2018/11/13 06:00 [pubmed] PHST- 2019/08/21 06:00 [medline] PHST- 2018/11/13 06:00 [entrez] AID - 5168116 [pii] AID - 10.1093/pcp/pcy215 [doi] PST - ppublish SO - Plant Cell Physiol. 2019 Feb 1;60(2):407-420. doi: 10.1093/pcp/pcy215. ##### PUB RECORD ##### ## 10.1007/s00122-004-1887-2 15731930 Kim, Van et al., 2005 "Kim MY, Van K, Lestari P, Moon JK, Lee SH. SNP identification and SNAP marker development for a GmNARK gene controlling supernodulation in soybean. Theor Appl Genet. 2005 Apr;110(6):1003-10. doi: 10.1007/s00122-004-1887-2. Epub 2005 Feb 25. PMID: 15731930." ## PMID- 15731930 OWN - NLM STAT- MEDLINE DCOM- 20050627 LR - 20231213 IS - 0040-5752 (Print) IS - 0040-5752 (Linking) VI - 110 IP - 6 DP - 2005 Apr TI - SNP identification and SNAP marker development for a GmNARK gene controlling supernodulation in soybean. PG - 1003-10 AB - Supernodulation in soybean (Glycine max L. Merr.) is an important source of nitrogen supply to subterranean ecological systems. Single nucleotide-amplified polymorphism (SNAP) markers for supernodulation should allow rapid screening of the trait in early growth stages, without the need for inoculation and phenotyping. The gene GmNARK (Glycine max nodule autoregulation receptor kinase), controlling autoregulation of nodulation, was found to have a single nucleotide polymorphism (SNP) between the wild-type cultivar Sinpaldalkong 2 and its supernodulating mutant, SS2-2. Transversion of A to T at the 959-bp position of the GmNARK sequence results in a change of lysine (AAG) to a stop codon (TAG), thus terminating its translation in SS2-2. Based on the identified SNP in GmNARK, five primer pairs specific to each allele were designed using the WebSnaper program to develop a SNAP marker for supernodulation. One A-specific primer pair produced a band present in only Sinpaldalkong 2, while two T-specific pairs showed a band in only SS2-2. Both complementary PCRs, using each allele-specific primer pair were performed to genotype supernodulation against F2 progeny of Sinpaldalkong 2 x SS2-2. Among 28 individuals with the normal phenotype, eight individuals having only the A-allele-specific band were homozygous and normal, while 20 individuals were found to be heterozygous at the SNP having both A and T bands. Twelve supernodulating individuals showed only the band specific to the T allele. This SNAP marker for supernodulation could easily be analyzed through simple PCR and agarose gel electrophoresis. Therefore, use of this SNAP marker might be faster, cheaper, and more reproducible than using other genotyping methods, such as a cleaved amplified polymorphic sequence marker, which demand of restriction enzymes. FAU - Kim, M Y AU - Kim MY AD - Department of Plant Science, Seoul National University, San 56-1, Shillim-dong, Kwanak-gu, Seoul, 151-921, The Republic of Korea. FAU - Van, K AU - Van K FAU - Lestari, P AU - Lestari P FAU - Moon, J-K AU - Moon JK FAU - Lee, S-H AU - Lee SH LA - eng PT - Comparative Study PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20050225 PL - Germany TA - Theor Appl Genet JT - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik JID - 0145600 RN - 0 (DNA Primers) RN - 0 (Genetic Markers) SB - IM MH - Base Sequence MH - *Bradyrhizobium MH - Crosses, Genetic MH - DNA Primers MH - Gene Components MH - Genes, Plant/*genetics MH - Genetic Markers/*genetics MH - Molecular Sequence Data MH - Plant Roots/genetics/*microbiology MH - *Polymorphism, Single Nucleotide MH - Sequence Alignment MH - Sequence Analysis, DNA MH - Glycine max/*genetics/microbiology MH - Spectrometry, Fluorescence MH - *Symbiosis EDAT- 2005/02/26 09:00 MHDA- 2005/06/28 09:00 CRDT- 2005/02/26 09:00 PHST- 2004/10/16 00:00 [received] PHST- 2004/11/18 00:00 [accepted] PHST- 2005/02/26 09:00 [pubmed] PHST- 2005/06/28 09:00 [medline] PHST- 2005/02/26 09:00 [entrez] AID - 10.1007/s00122-004-1887-2 [doi] PST - ppublish SO - Theor Appl Genet. 2005 Apr;110(6):1003-10. doi: 10.1007/s00122-004-1887-2. Epub 2005 Feb 25. ##### PUB RECORD ##### ## 10.1073/pnas.1000088107 20421496 Tian, Wang, et al., 2010 "Tian Z, Wang X, Lee R, Li Y, Specht JE, Nelson RL, McClean PE, Qiu L, Ma J. Artificial selection for determinate growth habit in soybean. Proc Natl Acad Sci U S A. 2010 May 11;107(19):8563-8. doi: 10.1073/pnas.1000088107. Epub 2010 Apr 26. PMID: 20421496; PMCID: PMC2889302." ## PMID- 20421496 OWN - NLM STAT- MEDLINE DCOM- 20100602 LR - 20231213 IS - 1091-6490 (Electronic) IS - 0027-8424 (Print) IS - 0027-8424 (Linking) VI - 107 IP - 19 DP - 2010 May 11 TI - Artificial selection for determinate growth habit in soybean. PG - 8563-8 LID - 10.1073/pnas.1000088107 [doi] AB - Determinacy is an agronomically important trait associated with the domestication in soybean (Glycine max). Most soybean cultivars are classifiable into indeterminate and determinate growth habit, whereas Glycine soja, the wild progenitor of soybean, is indeterminate. Indeterminate (Dt1/Dt1) and determinate (dt1/dt1) genotypes, when mated, produce progeny that segregate in a monogenic pattern. Here, we show evidence that Dt1 is a homolog (designated as GmTfl1) of Arabidopsis terminal flower 1 (TFL1), a regulatory gene encoding a signaling protein of shoot meristems. The transition from indeterminate to determinate phenotypes in soybean is associated with independent human selections of four distinct single-nucleotide substitutions in the GmTfl1 gene, each of which led to a single amino acid change. Genetic diversity of a minicore collection of Chinese soybean landraces assessed by simple sequence repeat (SSR) markers and allelic variation at the GmTfl1 locus suggest that human selection for determinacy took place at early stages of landrace radiation. The GmTfl1 allele introduced into a determinate-type (tfl1/tfl1) Arabidopsis mutants fully restored the wild-type (TFL1/TFL1) phenotype, but the Gmtfl1 allele in tfl1/tfl1 mutants did not result in apparent phenotypic change. These observations indicate that GmTfl1 complements the functions of TFL1 in Arabidopsis. However, the GmTfl1 homeolog, despite its more recent divergence from GmTfl1 than from Arabidopsis TFL1, appears to be sub- or neo-functionalized, as revealed by the differential expression of the two genes at multiple plant developmental stages and by allelic analysis at both loci. FAU - Tian, Zhixi AU - Tian Z AD - Department of Agronomy, Purdue University, West Lafayette, IN 47907, USA. FAU - Wang, Xiaobo AU - Wang X FAU - Lee, Rian AU - Lee R FAU - Li, Yinghui AU - Li Y FAU - Specht, James E AU - Specht JE FAU - Nelson, Randall L AU - Nelson RL FAU - McClean, Phillip E AU - McClean PE FAU - Qiu, Lijuan AU - Qiu L FAU - Ma, Jianxin AU - Ma J LA - eng SI - GENBANK/GU046912 SI - GENBANK/GU046913 SI - GENBANK/GU046914 SI - GENBANK/GU046915 SI - GENBANK/GU046916 SI - GENBANK/GU046917 SI - GENBANK/GU046918 SI - GENBANK/GU046919 SI - GENBANK/GU046920 SI - GENBANK/GU046921 SI - GENBANK/GU046922 SI - GENBANK/GU046923 SI - GENBANK/GU046924 SI - GENBANK/GU046925 SI - GENBANK/GU046926 SI - GENBANK/GU046927 SI - GENBANK/GU046928 SI - GENBANK/GU046929 SI - GENBANK/GU046930 SI - GENBANK/GU046931 SI - GENBANK/GU046932 SI - GENBANK/GU046933 SI - GENBANK/GU046934 SI - GENBANK/GU046935 SI - GENBANK/GU046936 SI - GENBANK/GU046937 SI - GENBANK/GU046938 SI - GENBANK/GU046939 SI - GENBANK/GU046940 SI - GENBANK/GU046941 SI - GENBANK/GU046942 SI - GENBANK/GU046943 SI - GENBANK/GU046944 SI - GENBANK/GU046945 SI - GENBANK/GU046946 SI - GENBANK/GU046947 SI - GENBANK/GU046948 SI - GENBANK/GU046949 SI - GENBANK/GU046950 SI - GENBANK/GU046951 SI - GENBANK/GU046952 SI - GENBANK/GU046953 SI - GENBANK/GU046954 SI - GENBANK/GU046955 SI - GENBANK/GU046956 SI - GENBANK/GU046957 SI - GENBANK/GU046958 SI - GENBANK/GU046959 SI - GENBANK/GU046960 SI - GENBANK/GU046961 SI - GENBANK/GU046962 SI - GENBANK/GU046963 SI - GENBANK/GU046964 SI - GENBANK/GU046965 SI - GENBANK/GU046966 SI - GENBANK/GU046967 SI - GENBANK/GU046968 SI - GENBANK/GU046969 SI - GENBANK/GU046970 SI - GENBANK/GU046971 SI - GENBANK/GU046972 SI - GENBANK/GU046973 SI - GENBANK/GU046974 SI - GENBANK/GU046975 SI - GENBANK/GU046976 SI - GENBANK/GU046977 SI - GENBANK/GU046978 SI - GENBANK/GU046979 SI - GENBANK/GU046980 SI - GENBANK/GU046981 SI - GENBANK/GU046982 SI - GENBANK/GU046983 SI - GENBANK/GU046984 SI - GENBANK/GU046985 SI - GENBANK/GU046986 SI - GENBANK/GU046987 SI - GENBANK/GU046988 SI - GENBANK/GU046989 SI - GENBANK/GU046990 SI - 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GENBANK/GU047313 SI - GENBANK/GU047314 SI - GENBANK/GU047315 SI - GENBANK/GU047316 SI - GENBANK/GU047317 SI - GENBANK/GU047318 SI - GENBANK/GU047319 SI - GENBANK/GU047320 SI - GENBANK/GU047321 SI - GENBANK/GU047322 SI - GENBANK/GU047323 SI - GENBANK/GU047324 PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Research Support, U.S. Gov't, Non-P.H.S. DEP - 20100426 PL - United States TA - Proc Natl Acad Sci U S A JT - Proceedings of the National Academy of Sciences of the United States of America JID - 7505876 RN - 0 (Arabidopsis Proteins) RN - 0 (Genetic Markers) RN - 0 (TFL1 protein, Arabidopsis) SB - IM MH - Alleles MH - Arabidopsis/genetics MH - Arabidopsis Proteins/genetics MH - Base Sequence MH - Crops, Agricultural/genetics/*growth & development MH - Evolution, Molecular MH - Gene Expression Profiling MH - Gene Expression Regulation, Plant MH - Genes, Plant/genetics MH - Genetic Complementation Test MH - Genetic Markers MH - Genetic Variation MH - Molecular Sequence Data MH - Mutation/genetics MH - *Selection, Genetic MH - Sequence Homology, Nucleic Acid MH - Glycine max/genetics/*growth & development MH - Time Factors PMC - PMC2889302 COIS- The authors declare no conflict of interest. EDAT- 2010/04/28 06:00 MHDA- 2010/06/03 06:00 PMCR- 2010/04/26 CRDT- 2010/04/28 06:00 PHST- 2010/04/28 06:00 [entrez] PHST- 2010/04/28 06:00 [pubmed] PHST- 2010/06/03 06:00 [medline] PHST- 2010/04/26 00:00 [pmc-release] AID - 1000088107 [pii] AID - 201000088 [pii] AID - 10.1073/pnas.1000088107 [doi] PST - ppublish SO - Proc Natl Acad Sci U S A. 2010 May 11;107(19):8563-8. doi: 10.1073/pnas.1000088107. Epub 2010 Apr 26. ##### PUB RECORD ##### ## 10.1371/journal.pgen.1009114 33175845 Zhang, Goettel et al., 2020 "Zhang H, Goettel W, Song Q, Jiang H, Hu Z, Wang ML, An YC. Selection of GmSWEET39 for oil and protein improvement in soybean. PLoS Genet. 2020 Nov 11;16(11):e1009114. doi: 10.1371/journal.pgen.1009114. PMID: 33175845; PMCID: PMC7721174." ## PMID- 33175845 OWN - NLM STAT- MEDLINE DCOM- 20210106 LR - 20240330 IS - 1553-7404 (Electronic) IS - 1553-7390 (Print) IS - 1553-7390 (Linking) VI - 16 IP - 11 DP - 2020 Nov TI - Selection of GmSWEET39 for oil and protein improvement in soybean. PG - e1009114 LID - 10.1371/journal.pgen.1009114 [doi] LID - e1009114 AB - Soybean [Glycine max (L.) Merr.] was domesticated from wild soybean (G. soja Sieb. and Zucc.) and has been further improved as a dual-use seed crop to provide highly valuable oil and protein for food, feed, and industrial applications. However, the underlying genetic and molecular basis remains less understood. Having combined high-confidence bi-parental linkage mapping with high-resolution association analysis based on 631 whole sequenced genomes, we mapped major soybean protein and oil QTLs on chromosome15 to a sugar transporter gene (GmSWEET39). A two-nucleotide CC deletion truncating C-terminus of GmSWEET39 was strongly associated with high seed oil and low seed protein, suggesting its pleiotropic effect on protein and oil content. GmSWEET39 was predominantly expressed in parenchyma and integument of the seed coat, and likely regulates oil and protein accumulation by affecting sugar delivery from maternal seed coat to the filial embryo. We demonstrated that GmSWEET39 has a dual function for both oil and protein improvement and undergoes two different paths of artificial selection. A CC deletion (CC-) haplotype H1 has been intensively selected during domestication and extensively used in soybean improvement worldwide. H1 is fixed in North American soybean cultivars. The protein-favored (CC+) haplotype H3 still undergoes ongoing selection, reflecting its sustainable role for soybean protein improvement. The comprehensive knowledge on the molecular basis underlying the major QTL and GmSWEET39 haplotypes associated with soybean improvement would be valuable to design new strategies for soybean seed quality improvement using molecular breeding and biotechnological approaches. FAU - Zhang, Hengyou AU - Zhang H AUID- ORCID: 0000-0003-4103-8980 AD - Donald Danforth Plant Science Center, St. Louis, MO, United States of America. FAU - Goettel, Wolfgang AU - Goettel W AD - Donald Danforth Plant Science Center, St. Louis, MO, United States of America. FAU - Song, Qijian AU - Song Q AD - US Department of Agriculture, Agricultural Research Service, Soybean Genomics and Improvement Laboratory, Beltsville, MD, United States of America. FAU - Jiang, He AU - Jiang H AUID- ORCID: 0000-0001-7326-8882 AD - Donald Danforth Plant Science Center, St. Louis, MO, United States of America. FAU - Hu, Zhenbin AU - Hu Z AUID- ORCID: 0000-0002-1500-1255 AD - Donald Danforth Plant Science Center, St. Louis, MO, United States of America. FAU - Wang, Ming Li AU - Wang ML AD - US Department of Agriculture, Agricultural Research Service, Plant Genetics Resource Conservation Unit, Griffin, GA, United States of America. FAU - An, Yong-Qiang Charles AU - An YC AUID- ORCID: 0000-0003-4637-5716 AD - Donald Danforth Plant Science Center, St. Louis, MO, United States of America. AD - US Department of Agriculture, Agricultural Research Service, Plant Genetics Research Unit at Donald Danforth Plant Science Center, St. Louis, MO, United States of America. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Research Support, U.S. Gov't, Non-P.H.S. DEP - 20201111 PL - United States TA - PLoS Genet JT - PLoS genetics JID - 101239074 RN - 0 (Monosaccharide Transport Proteins) RN - 0 (Plant Oils) RN - 0 (Plant Proteins) RN - 0 (Plant Proteins, Dietary) SB - IM MH - Chromosome Mapping MH - Genome, Plant/genetics MH - Genome-Wide Association Study MH - Haplotypes MH - Monosaccharide Transport Proteins/*genetics/metabolism MH - North America MH - *Plant Breeding MH - Plant Oils/metabolism MH - Plant Proteins/*genetics/metabolism MH - Plant Proteins, Dietary/biosynthesis MH - Polymorphism, Single Nucleotide MH - Quantitative Trait Loci MH - Seeds/metabolism MH - Glycine max/*genetics/metabolism PMC - PMC7721174 COIS- The authors have declared that no competing interests exist. EDAT- 2020/11/12 06:00 MHDA- 2021/01/07 06:00 PMCR- 2020/11/11 CRDT- 2020/11/11 17:13 PHST- 2020/05/15 00:00 [received] PHST- 2020/09/12 00:00 [accepted] PHST- 2020/12/07 00:00 [revised] PHST- 2020/11/12 06:00 [pubmed] PHST- 2021/01/07 06:00 [medline] PHST- 2020/11/11 17:13 [entrez] PHST- 2020/11/11 00:00 [pmc-release] AID - PGENETICS-D-20-00782 [pii] AID - 10.1371/journal.pgen.1009114 [doi] PST - epublish SO - PLoS Genet. 2020 Nov 11;16(11):e1009114. doi: 10.1371/journal.pgen.1009114. eCollection 2020 Nov. ##### PUB RECORD ##### ## 10.3389/fpls.2023.1190503 37384360 Yang Y, Zhao T et al., 2023 "Yang Y, Zhao T, Wang F, Liu L, Liu B, Zhang K, Qin J, Yang C, Qiao Y. Identification of candidate genes for soybean seed coat-related traits using QTL mapping and GWAS. Front Plant Sci. 2023 Jun 13;14:1190503. doi: 10.3389/fpls.2023.1190503. PMID: 37384360; PMCID: PMC10293793." ## PMID- 37384360 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20230703 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 14 DP - 2023 TI - Identification of candidate genes for soybean seed coat-related traits using QTL mapping and GWAS. PG - 1190503 LID - 10.3389/fpls.2023.1190503 [doi] LID - 1190503 AB - Seed coat color is a typical morphological trait that can be used to reveal the evolution of soybean. The study of seed coat color-related traits in soybeans is of great significance for both evolutionary theory and breeding practices. In this study, 180 F(10) recombinant inbred lines (RILs) derived from the cross between the yellow-seed coat cultivar Jidou12 (ZDD23040, JD12) and the wild black-seed coat accession Y9 (ZYD02739) were used as materials. Three methods, single-marker analysis (SMA), interval mapping (IM), and inclusive composite interval mapping (ICIM), were used to identify quantitative trait loci (QTLs) controlling seed coat color and seed hilum color. Simultaneously, two genome-wide association study (GWAS) models, the generalized linear model (GLM) and mixed linear model (MLM), were used to jointly identify seed coat color and seed hilum color QTLs in 250 natural populations. By integrating the results from QTL mapping and GWAS analysis, we identified two stable QTLs (qSCC02 and qSCC08) associated with seed coat color and one stable QTL (qSHC08) related to seed hilum color. By combining the results of linkage analysis and association analysis, two stable QTLs (qSCC02, qSCC08) for seed coat color and one stable QTL (qSHC08) for seed hilum color were identified. Upon further investigation using Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis, we validated the previous findings that two candidate genes (CHS3C and CHS4A) reside within the qSCC08 region and identified a new QTL, qSCC02. There were a total of 28 candidate genes in the interval, among which Glyma.02G024600, Glyma.02G024700, and Glyma.02G024800 were mapped to the glutathione metabolic pathway, which is related to the transport or accumulation of anthocyanin. We considered the three genes as potential candidate genes for soybean seed coat-related traits. The QTLs and candidate genes detected in this study provide a foundation for further understanding the genetic mechanisms underlying soybean seed coat color and seed hilum color and are of significant value in marker-assisted breeding. CI - Copyright (c) 2023 Yang, Zhao, Wang, Liu, Liu, Zhang, Qin, Yang and Qiao. FAU - Yang, Yue AU - Yang Y AD - College of Agronomy and Biotechnology, Hebei Normal University of Science and Technology, Qinhuangdao, China. AD - Hebei Laboratory of Crop Genetics and Breeding, National Soybean Improvement Center Shijiazhuang Sub-Center, Huang-Huai-Hai Key Laboratory of Biology and Genetic Improvement of Soybean, Ministry of Agriculture and Rural Affairs, Institute of Cereal and Oil Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, Hebei, China. FAU - Zhao, Tiantian AU - Zhao T AD - Hebei Laboratory of Crop Genetics and Breeding, National Soybean Improvement Center Shijiazhuang Sub-Center, Huang-Huai-Hai Key Laboratory of Biology and Genetic Improvement of Soybean, Ministry of Agriculture and Rural Affairs, Institute of Cereal and Oil Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, Hebei, China. AD - Hebei Key Laboratory of Molecular and Cellular Biology, Key Laboratory of Molecular and Cellular Biology of Ministry of Education, Hebei Collaboration Innovation Center for Cell Signaling, College of Life Science, Hebei Normal University, Shijiazhuang, China. FAU - Wang, Fengmin AU - Wang F AD - Hebei Laboratory of Crop Genetics and Breeding, National Soybean Improvement Center Shijiazhuang Sub-Center, Huang-Huai-Hai Key Laboratory of Biology and Genetic Improvement of Soybean, Ministry of Agriculture and Rural Affairs, Institute of Cereal and Oil Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, Hebei, China. AD - Hebei Key Laboratory of Molecular and Cellular Biology, Key Laboratory of Molecular and Cellular Biology of Ministry of Education, Hebei Collaboration Innovation Center for Cell Signaling, College of Life Science, Hebei Normal University, Shijiazhuang, China. FAU - Liu, Luping AU - Liu L AD - Hebei Laboratory of Crop Genetics and Breeding, National Soybean Improvement Center Shijiazhuang Sub-Center, Huang-Huai-Hai Key Laboratory of Biology and Genetic Improvement of Soybean, Ministry of Agriculture and Rural Affairs, Institute of Cereal and Oil Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, Hebei, China. FAU - Liu, Bingqiang AU - Liu B AD - Hebei Laboratory of Crop Genetics and Breeding, National Soybean Improvement Center Shijiazhuang Sub-Center, Huang-Huai-Hai Key Laboratory of Biology and Genetic Improvement of Soybean, Ministry of Agriculture and Rural Affairs, Institute of Cereal and Oil Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, Hebei, China. FAU - Zhang, Kai AU - Zhang K AD - College of Agronomy and Biotechnology, Hebei Normal University of Science and Technology, Qinhuangdao, China. FAU - Qin, Jun AU - Qin J AD - Hebei Laboratory of Crop Genetics and Breeding, National Soybean Improvement Center Shijiazhuang Sub-Center, Huang-Huai-Hai Key Laboratory of Biology and Genetic Improvement of Soybean, Ministry of Agriculture and Rural Affairs, Institute of Cereal and Oil Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, Hebei, China. FAU - Yang, Chunyan AU - Yang C AD - Hebei Laboratory of Crop Genetics and Breeding, National Soybean Improvement Center Shijiazhuang Sub-Center, Huang-Huai-Hai Key Laboratory of Biology and Genetic Improvement of Soybean, Ministry of Agriculture and Rural Affairs, Institute of Cereal and Oil Crops, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, Hebei, China. FAU - Qiao, Yake AU - Qiao Y AD - College of Agronomy and Biotechnology, Hebei Normal University of Science and Technology, Qinhuangdao, China. LA - eng PT - Journal Article DEP - 20230613 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC10293793 OTO - NOTNLM OT - QTL OT - association analysis OT - glutathione-s-transferase OT - seed coat color OT - soybean COIS- The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. EDAT- 2023/06/29 13:42 MHDA- 2023/06/29 13:43 PMCR- 2023/01/01 CRDT- 2023/06/29 12:06 PHST- 2023/03/21 00:00 [received] PHST- 2023/04/17 00:00 [accepted] PHST- 2023/06/29 13:43 [medline] PHST- 2023/06/29 13:42 [pubmed] PHST- 2023/06/29 12:06 [entrez] PHST- 2023/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2023.1190503 [doi] PST - epublish SO - Front Plant Sci. 2023 Jun 13;14:1190503. doi: 10.3389/fpls.2023.1190503. eCollection 2023. ##### PUB RECORD ##### ## 10.1016/j.jplph.2019.153019 31437808 Zhau, Bi et al., 2019 "Zhao J, Bi R, Li S, Zhou D, Bai Y, Jing G, Zhang K, Zhang W. Genome-wide analysis and functional characterization of Acyl-CoA:diacylglycerol acyltransferase from soybean identify GmDGAT1A and 1B roles in oil synthesis in Arabidopsis seeds. J Plant Physiol. 2019 Nov;242:153019. doi: 10.1016/j.jplph.2019.153019. Epub 2019 Aug 11. PMID: 31437808." ## PMID- 31437808 OWN - NLM STAT- MEDLINE DCOM- 20200312 LR - 20231213 IS - 1618-1328 (Electronic) IS - 0176-1617 (Linking) VI - 242 DP - 2019 Nov TI - Genome-wide analysis and functional characterization of Acyl-CoA:diacylglycerol acyltransferase from soybean identify GmDGAT1A and 1B roles in oil synthesis in Arabidopsis seeds. PG - 153019 LID - S0176-1617(19)30131-2 [pii] LID - 10.1016/j.jplph.2019.153019 [doi] AB - Acyl-CoA:diacylglycerol acyltransferase (DGAT) is a key enzyme in the Kennedy pathway of triacylglycerol (TAG) synthesis. It catalyzes the acyl-CoA-dependent acylation of sn-1, 2-diacylglycerol to form TAG. DGATs in soybean (Glycine max) have been reported, but their functions are largely unclear. Here we cloned three members of DGAT1 and four members of DGAT2 family from soybean, named GmDGAT1A to GmDGAT1C, and GmDGAT2A to GmDGAT2D, respectively. GmDGAT1A and GmDGAT1C were expressed at a high level in immature seeds, GmDGAT2B in mature seeds, and GmDGAT2C in older leaves. The seven genes were transformed into the H1246 quadruple mutant yeast strain, in which GmDGAT1A, GmDGAT1B, GmDGAT1C, GmDGAT2A, and GmDGAT2B had the ability to produce TAG. Six genes were transformed into Arabidopsis respectively, and constitutive expression of GmDGAT1A and GmDGAT1B resulted in an increase in oil content at the cost of reduced protein content in seeds. Overexpression of GmDGAT1A produced heavier weight of individual seed, but did not affect the weight of total seeds from a plant. Our results reveal the functions of soybean DGATs in seed oil synthesis using transgenic Arabidopsis. The implications for the biotechnological modification of the oil contents in soybeans by altering DGAT expression are discussed. CI - Copyright (c) 2019. Published by Elsevier GmbH. FAU - Zhao, Jiangzhe AU - Zhao J AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, PR China; College of Chemistry and Life Science, Zhejiang Normal University, Jinhua 321004, PR China. Electronic address: nndzjz@126.com. FAU - Bi, Rongrong AU - Bi R AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, PR China. Electronic address: 764797786@qq.com. FAU - Li, Shuxiang AU - Li S AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, PR China. Electronic address: lsx9007@126.com. FAU - Zhou, Dan AU - Zhou D AD - College of Chemistry and Life Science, Zhejiang Normal University, Jinhua 321004, PR China. Electronic address: zhoudan06@163.com. FAU - Bai, Yang AU - Bai Y AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, PR China. Electronic address: baiyang.89@163.com. FAU - Jing, Guangqin AU - Jing G AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, PR China. Electronic address: 2015216027@njau.edu.cn. FAU - Zhang, Kewei AU - Zhang K AD - College of Chemistry and Life Science, Zhejiang Normal University, Jinhua 321004, PR China. Electronic address: kwzhang@zjnu.edu.cn. FAU - Zhang, Wenhua AU - Zhang W AD - College of Life Sciences, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, PR China. Electronic address: whzhang@njau.edu.cn. LA - eng PT - Journal Article DEP - 20190811 PL - Germany TA - J Plant Physiol JT - Journal of plant physiology JID - 9882059 RN - 0 (Plant Oils) RN - 0 (Triglycerides) RN - EC 2.3.1.20 (Diacylglycerol O-Acyltransferase) SB - IM MH - Arabidopsis/genetics/*metabolism MH - Diacylglycerol O-Acyltransferase/*genetics/metabolism MH - Gene Expression MH - Gene Expression Regulation, Plant MH - Genes, Plant MH - Genomics MH - Phylogeny MH - Plant Oils/*metabolism MH - Plants, Genetically Modified/metabolism MH - Seeds/genetics/metabolism MH - Glycine max/*enzymology/metabolism MH - Triglycerides/*biosynthesis/metabolism OTO - NOTNLM OT - Acyl-CoA:diacylglycerol acyltransferase OT - Oil OT - Soybean OT - Triacylglycerol EDAT- 2019/08/23 06:00 MHDA- 2020/03/13 06:00 CRDT- 2019/08/23 06:00 PHST- 2018/11/15 00:00 [received] PHST- 2019/08/03 00:00 [revised] PHST- 2019/08/04 00:00 [accepted] PHST- 2019/08/23 06:00 [pubmed] PHST- 2020/03/13 06:00 [medline] PHST- 2019/08/23 06:00 [entrez] AID - S0176-1617(19)30131-2 [pii] AID - 10.1016/j.jplph.2019.153019 [doi] PST - ppublish SO - J Plant Physiol. 2019 Nov;242:153019. doi: 10.1016/j.jplph.2019.153019. Epub 2019 Aug 11. ##### PUB RECORD ##### ## 10.1105/tpc.114.131607 25549672 Wang, Wang et al., 2014 "Wang Y, Wang L, Zou Y, Chen L, Cai Z, Zhang S, Zhao F, Tian Y, Jiang Q, Ferguson BJ, Gresshoff PM, Li X. Soybean miR172c targets the repressive AP2 transcription factor NNC1 to activate ENOD40 expression and regulate nodule initiation. Plant Cell. 2014 Dec;26(12):4782-801. doi: 10.1105/tpc.114.131607. Epub 2014 Dec 30. PMID: 25549672; PMCID: PMC4311200." ## PMID- 25549672 OWN - NLM STAT- MEDLINE DCOM- 20151019 LR - 20240322 IS - 1532-298X (Electronic) IS - 1040-4651 (Print) IS - 1040-4651 (Linking) VI - 26 IP - 12 DP - 2014 Dec TI - Soybean miR172c targets the repressive AP2 transcription factor NNC1 to activate ENOD40 expression and regulate nodule initiation. PG - 4782-801 LID - 10.1105/tpc.114.131607 [doi] AB - MicroRNAs are noncoding RNAs that act as master regulators to modulate various biological processes by posttranscriptionally repressing their target genes. Repression of their target mRNA(s) can modulate signaling cascades and subsequent cellular events. Recently, a role for miR172 in soybean (Glycine max) nodulation has been described; however, the molecular mechanism through which miR172 acts to regulate nodulation has yet to be explored. Here, we demonstrate that soybean miR172c modulates both rhizobium infection and nodule organogenesis. miR172c was induced in soybean roots inoculated with either compatible Bradyrhizobium japonicum or lipooligosaccharide Nod factor and was highly upregulated during nodule development. Reduced activity and overexpression of miR172c caused dramatic changes in nodule initiation and nodule number. We show that soybean miR172c regulates nodule formation by repressing its target gene, Nodule Number Control1, which encodes a protein that directly targets the promoter of the early nodulin gene, ENOD40. Interestingly, transcriptional levels of miR172c were regulated by both Nod Factor Receptor1alpha/5alpha-mediated activation and by autoregulation of nodulation-mediated inhibition. Thus, we established a direct link between miR172c and the Nod factor signaling pathway in addition to adding a new layer to the precise nodulation regulation mechanism of soybean. CI - (c) 2014 American Society of Plant Biologists. All rights reserved. FAU - Wang, Youning AU - Wang Y AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China. FAU - Wang, Lixiang AU - Wang L AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China University of the Chinese Academy of Sciences, Beijing 100049, China. FAU - Zou, Yanmin AU - Zou Y AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China. FAU - Chen, Liang AU - Chen L AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China. FAU - Cai, Zhaoming AU - Cai Z AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China University of the Chinese Academy of Sciences, Beijing 100049, China. FAU - Zhang, Senlei AU - Zhang S AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China University of the Chinese Academy of Sciences, Beijing 100049, China. FAU - Zhao, Fang AU - Zhao F AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China. FAU - Tian, Yinping AU - Tian Y AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China. FAU - Jiang, Qiong AU - Jiang Q AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China University of the Chinese Academy of Sciences, Beijing 100049, China. FAU - Ferguson, Brett J AU - Ferguson BJ AD - Centre for Integrative Legume Research, University of Queensland, Brisbane St. Lucia, Queensland 4072, Australia. FAU - Gresshoff, Peter M AU - Gresshoff PM AD - Centre for Integrative Legume Research, University of Queensland, Brisbane St. Lucia, Queensland 4072, Australia. FAU - Li, Xia AU - Li X AD - Key State Laboratory of Plant Cell and Chromosome Engineering, Center of Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang, Hebei 050021, China xli@genetics.ac.cn. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20141230 PL - England TA - Plant Cell JT - The Plant cell JID - 9208688 RN - 0 (MicroRNAs) RN - 0 (Transcription Factors) SB - IM MH - Base Sequence MH - Bradyrhizobium/*physiology MH - Gene Expression Regulation, Plant MH - MicroRNAs/genetics/metabolism/*physiology MH - Molecular Sequence Data MH - Plant Root Nodulation/*genetics MH - Root Nodules, Plant/genetics/metabolism MH - Sequence Alignment MH - Sequence Analysis, RNA MH - Signal Transduction MH - Glycine max/*genetics/metabolism/microbiology MH - Transcription Factors/genetics/metabolism/physiology PMC - PMC4311200 EDAT- 2015/01/01 06:00 MHDA- 2015/10/20 06:00 PMCR- 2015/12/01 CRDT- 2015/01/01 06:00 PHST- 2015/01/01 06:00 [entrez] PHST- 2015/01/01 06:00 [pubmed] PHST- 2015/10/20 06:00 [medline] PHST- 2015/12/01 00:00 [pmc-release] AID - tpc.114.131607 [pii] AID - 131607 [pii] AID - 10.1105/tpc.114.131607 [doi] PST - ppublish SO - Plant Cell. 2014 Dec;26(12):4782-801. doi: 10.1105/tpc.114.131607. Epub 2014 Dec 30. ##### PUB RECORD ##### ## 10.1111/j.1365-313X.2010.04214.x 20345602 Yi, Jinxin et al., 2010 "Yi J, Derynck MR, Li X, Telmer P, Marsolais F, Dhaubhadel S. A single-repeat MYB transcription factor, GmMYB176, regulates CHS8 gene expression and affects isoflavonoid biosynthesis in soybean. Plant J. 2010 Jun 1;62(6):1019-34. doi: 10.1111/j.1365-313X.2010.04214.x. Epub 2010 Mar 25. PMID: 20345602." ## PMID- 20345602 OWN - NLM STAT- MEDLINE DCOM- 20100927 LR - 20231213 IS - 1365-313X (Electronic) IS - 0960-7412 (Linking) VI - 62 IP - 6 DP - 2010 Jun 1 TI - A single-repeat MYB transcription factor, GmMYB176, regulates CHS8 gene expression and affects isoflavonoid biosynthesis in soybean. PG - 1019-34 LID - 10.1111/j.1365-313X.2010.04214.x [doi] AB - Here we demonstrate that GmMYB176 regulates CHS8 expression and affects isoflavonoid synthesis in soybean. We previously established that CHS8 expression determines the isoflavonoid level in soybean seeds by comparing the transcript profiles of cultivars with different isoflavonoid contents. In the present study, a functional genomic approach was used to identify the factor that regulates CHS8 expression and isoflavonoid synthesis. Candidate genes were cloned, and co-transfection assays were performed in Arabidopsis leaf protoplasts. The results showed that GmMYB176 can trans-activate the CHS8 promoter with maximum activity. Transient expression of GmMYB176 in soybean embryo protoplasts increased endogenous CHS8 transcript levels up to 169-fold after 48 h. GmMYB176 encodes an R1 MYB protein, and is expressed in soybean seed during maturation. Furthermore, GmMYB176 recognizes a 23 bp motif containing a TAGT(T/A)(A/T) sequence within the CHS8 promoter. A subcellular localization study confirmed nuclear localization of GmMYB176. A predicted pST binding site for 14-3-3 protein is required for subcellular localization of GmMYB176. RNAi silencing of GmMYB176 in hairy roots resulted in reduced levels of isoflavonoids, showing that GmMYB176 is necessary for isoflavonoid biosynthesis. However, over-expression of GmMYB176 was not sufficient to increase CHS8 transcript and isoflavonoid levels in hairy roots. We conclude that an R1 MYB transcription factor, GmMYB176, regulates CHS8 expression and isoflavonoid synthesis in soybean. FAU - Yi, Jinxin AU - Yi J AD - Southern Crop Protection and Food Research Center, Agriculture and Agri-Food Canada, London, Ontario, N5V 4T3, Canada. FAU - Derynck, Michael R AU - Derynck MR FAU - Li, Xuyan AU - Li X FAU - Telmer, Patrick AU - Telmer P FAU - Marsolais, Frederic AU - Marsolais F FAU - Dhaubhadel, Sangeeta AU - Dhaubhadel S LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20100325 PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 RN - 0 (Flavonoids) RN - 0 (Plant Proteins) RN - 0 (RNA, Plant) RN - 0 (Transcription Factors) SB - IM CIN - Plant Signal Behav. 2010 Jul;5(7):921-3. doi: 10.4161/psb.5.7.12133. PMID: 20622511 MH - Amino Acid Sequence MH - Flavonoids/*biosynthesis MH - Gene Expression Profiling MH - Gene Expression Regulation, Plant MH - Molecular Sequence Data MH - Mutagenesis, Site-Directed MH - Phylogeny MH - Plant Proteins/genetics/*metabolism MH - Plant Roots/metabolism MH - Promoter Regions, Genetic MH - RNA Interference MH - RNA, Plant/genetics MH - Seeds/*metabolism MH - Sequence Alignment MH - Sequence Analysis, DNA MH - Glycine max/genetics/metabolism MH - Transcription Factors/genetics/*metabolism EDAT- 2010/03/30 06:00 MHDA- 2010/09/29 06:00 CRDT- 2010/03/30 06:00 PHST- 2010/03/30 06:00 [entrez] PHST- 2010/03/30 06:00 [pubmed] PHST- 2010/09/29 06:00 [medline] AID - TPJ4214 [pii] AID - 10.1111/j.1365-313X.2010.04214.x [doi] PST - ppublish SO - Plant J. 2010 Jun 1;62(6):1019-34. doi: 10.1111/j.1365-313X.2010.04214.x. Epub 2010 Mar 25. ##### PUB RECORD ##### ## 10.1007/s11248-013-9713-8 23645501 Zhang, Luo et al., 2013 "Zhang L, Luo Y, Zhu Y, Zhang L, Zhang W, Chen R, Xu M, Fan Y, Wang L. GmTMT2a from soybean elevates the α-tocopherol content in corn and Arabidopsis. Transgenic Res. 2013 Oct;22(5):1021-8. doi: 10.1007/s11248-013-9713-8. Epub 2013 May 4. PMID: 23645501." ## PMID- 23645501 OWN - NLM STAT- MEDLINE DCOM- 20140421 LR - 20231213 IS - 1573-9368 (Electronic) IS - 0962-8819 (Linking) VI - 22 IP - 5 DP - 2013 Oct TI - GmTMT2a from soybean elevates the alpha-tocopherol content in corn and Arabidopsis. PG - 1021-8 LID - 10.1007/s11248-013-9713-8 [doi] AB - Tocochromanol, or vitamin E, plays a crucial role in human and animal nutrition and is synthesized only by photosynthetic organisms. gamma-Tocopherol methyltransferase (gamma-TMT), one of the key enzymes in the tocopherol biosynthetic pathway in plants, converts gamma, delta-tocopherols into alpha-, beta-tocopherols. Tocopherol content was investigated in 15 soybean cultivars and GmTMT2 was isolated from five varieties based on tocopherol content. GmTMT2a was expressed in E. coli and the purified protein effectively converted gamma-tocopherol into alpha-tocopherol in vitro. Overexpression of GmTMT2a enhanced alpha-tocopherol content 4-6-fold in transgenic Arabidopsis, and alpha-tocopherol content increased 3-4.5-fold in transgenic maize seed, which correlated with the accumulation of GmTMT2a. Transgenic corn that is alpha-tocopherol-rich may be beneficial for animal health and growth. FAU - Zhang, Lan AU - Zhang L AD - Biotechnology Research Institute, National Key Facility of Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. FAU - Luo, Yanzhong AU - Luo Y FAU - Zhu, Yongxing AU - Zhu Y FAU - Zhang, Liang AU - Zhang L FAU - Zhang, Wei AU - Zhang W FAU - Chen, Rumei AU - Chen R FAU - Xu, Miaoyun AU - Xu M FAU - Fan, Yunliu AU - Fan Y FAU - Wang, Lei AU - Wang L LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20130504 PL - Netherlands TA - Transgenic Res JT - Transgenic research JID - 9209120 RN - 0 (DNA Primers) RN - EC 2.1.1.- (Methyltransferases) RN - EC 2.1.1.95 (gamma-tocopherol methyltransferase) RN - H4N855PNZ1 (alpha-Tocopherol) SB - IM MH - Arabidopsis/genetics/*metabolism MH - Chromatography, High Pressure Liquid MH - DNA Primers/genetics MH - Enzyme-Linked Immunosorbent Assay MH - Escherichia coli MH - Methyltransferases/*genetics/metabolism MH - Plants, Genetically Modified/genetics/*metabolism MH - Glycine max/*genetics MH - Zea mays/genetics/*metabolism MH - alpha-Tocopherol/*metabolism EDAT- 2013/05/07 06:00 MHDA- 2014/04/22 06:00 CRDT- 2013/05/07 06:00 PHST- 2012/11/09 00:00 [received] PHST- 2013/04/25 00:00 [accepted] PHST- 2013/05/07 06:00 [entrez] PHST- 2013/05/07 06:00 [pubmed] PHST- 2014/04/22 06:00 [medline] AID - 10.1007/s11248-013-9713-8 [doi] PST - ppublish SO - Transgenic Res. 2013 Oct;22(5):1021-8. doi: 10.1007/s11248-013-9713-8. Epub 2013 May 4. ##### PUB RECORD ##### ## 10.1016/j.plantsci.2023.111677 36931563 Kong, Xu et al., 2023 "Kong K, Xu M, Xu Z, Lv W, Lv P, Begum N, Liu B, Liu B, Zhao T. Dysfunction of GmVPS8a causes compact plant architecture in soybean. Plant Sci. 2023 Jun;331:111677. doi: 10.1016/j.plantsci.2023.111677. Epub 2023 Mar 15. PMID: 36931563." ## PMID- 36931563 OWN - NLM STAT- MEDLINE DCOM- 20230425 LR - 20231213 IS - 1873-2259 (Electronic) IS - 0168-9452 (Linking) VI - 331 DP - 2023 Jun TI - Dysfunction of GmVPS8a causes compact plant architecture in soybean. PG - 111677 LID - S0168-9452(23)00094-8 [pii] LID - 10.1016/j.plantsci.2023.111677 [doi] AB - Vacuolar Protein Sorting 8 (Vps8) protein is a specific subunit of the class C core vacuole/endosome tethering (CORVET) complex that plays a key role in endosomal trafficking in yeast (Saccharomyces cerevisiae). However, its functions remain largely unclear in plant vegetative growth. Here, we identified a soybean (Glycine max) T4219 mutant characterized with compact plant architecture. Map-based cloning targeted to a candidate gene GmVPS8a (Glyma.07g049700) and further found that two nucleotides deletion in the first exon of GmVPS8a causes a premature termination of the encoded protein in the T4219 mutant. Its functions were validated by CRISPR/Cas9-engineered mutation in the GmVPS8a gene that recapitulated the T4219 mutant phenotypes. Furthermore, NbVPS8a-silenced tobacco (Nicotiana benthamiana) plants exhibited similar phenotypes to the T4219 mutant, suggesting its conserved roles in plant growth. The GmVPS8a is widely expressed in multiple organs and its protein interacts with GmAra6a and GmRab5a. Combined analysis of transcriptomic and proteomic data revealed that dysfunction of GmVPS8a mainly affects pathways on auxin signal transduction, sugar transport and metabolism, and lipid metabolism. Collectively, our work reveals the function of GmVPS8a in plant architecture, which may extend a new way for genetic improvement of ideal plant-architecture breeding in soybean and other crops. CI - Copyright (c) 2023 Elsevier B.V. All rights reserved. FAU - Kong, Keke AU - Kong K AD - Soybean Research Institute, Key Laboratory of Biology and Genetic Improvement of Soybean, National Center for Soybean Improvement (Ministry of Agriculture), National Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Xu, Mengge AU - Xu M AD - Soybean Research Institute, Key Laboratory of Biology and Genetic Improvement of Soybean, National Center for Soybean Improvement (Ministry of Agriculture), National Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Xu, Zhiyong AU - Xu Z AD - Soybean Research Institute, Key Laboratory of Biology and Genetic Improvement of Soybean, National Center for Soybean Improvement (Ministry of Agriculture), National Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Lv, Wenhuan AU - Lv W AD - Soybean Research Institute, Key Laboratory of Biology and Genetic Improvement of Soybean, National Center for Soybean Improvement (Ministry of Agriculture), National Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Lv, Peiyun AU - Lv P AD - Soybean Research Institute, Key Laboratory of Biology and Genetic Improvement of Soybean, National Center for Soybean Improvement (Ministry of Agriculture), National Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Begum, Naheeda AU - Begum N AD - Soybean Research Institute, Key Laboratory of Biology and Genetic Improvement of Soybean, National Center for Soybean Improvement (Ministry of Agriculture), National Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Liu, Bingqiang AU - Liu B AD - National Soybean Improvement Center Shijiazhuang Sub-Center, North China Key Laboratory of Biology and Genetic Improvement of Soybean, Ministry of Agriculture, Laboratory of Crop Genetics and Breeding of Hebei, Cereal & Oil Crop Institute, Hebei Academy of Agricultural and Forestry Sciences, Shijiazhuang, China. FAU - Liu, Bin AU - Liu B AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, China. Electronic address: liubin05@caas.cn. FAU - Zhao, Tuanjie AU - Zhao T AD - Soybean Research Institute, Key Laboratory of Biology and Genetic Improvement of Soybean, National Center for Soybean Improvement (Ministry of Agriculture), National Key Laboratory for Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. Electronic address: tjzhao@njau.edu.cn. LA - eng PT - Journal Article DEP - 20230315 PL - Ireland TA - Plant Sci JT - Plant science : an international journal of experimental plant biology JID - 9882015 SB - IM MH - *Glycine max/genetics MH - *Proteomics MH - Plant Breeding MH - Endosomes/metabolism MH - Vacuoles/metabolism MH - Saccharomyces cerevisiae/metabolism OTO - NOTNLM OT - Auxin and sugar signaling OT - GmVPS8a OT - Plant architecture OT - Proteome sequencing OT - Soybean (Glycine max (L.) Merr.) OT - Transcriptome sequencing COIS- Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper. EDAT- 2023/03/18 06:00 MHDA- 2023/04/25 06:42 CRDT- 2023/03/17 20:33 PHST- 2022/10/24 00:00 [received] PHST- 2023/03/12 00:00 [revised] PHST- 2023/03/14 00:00 [accepted] PHST- 2023/04/25 06:42 [medline] PHST- 2023/03/18 06:00 [pubmed] PHST- 2023/03/17 20:33 [entrez] AID - S0168-9452(23)00094-8 [pii] AID - 10.1016/j.plantsci.2023.111677 [doi] PST - ppublish SO - Plant Sci. 2023 Jun;331:111677. doi: 10.1016/j.plantsci.2023.111677. Epub 2023 Mar 15. ##### PUB RECORD ##### ## 10.1038/s41598-018-25910-x 29769571 Yan, Wang et. al., 2018 "Yan Q, Wang L, Li X. GmBEHL1, a BES1/BZR1 family protein, negatively regulates soybean nodulation. Sci Rep. 2018 May 16;8(1):7614. doi: 10.1038/s41598-018-25910-x. PMID: 29769571; PMCID: PMC5955893." ## PMID- 29769571 OWN - NLM STAT- MEDLINE DCOM- 20191023 LR - 20231213 IS - 2045-2322 (Electronic) IS - 2045-2322 (Linking) VI - 8 IP - 1 DP - 2018 May 16 TI - GmBEHL1, a BES1/BZR1 family protein, negatively regulates soybean nodulation. PG - 7614 LID - 10.1038/s41598-018-25910-x [doi] LID - 7614 AB - Brassinosteroids (BRs) play an essential role in plant growth, and BRI1-EMS suppressor 1 (BES1)/brassinazole-resistant 1 (BZR1) family transcription factors integrate a variety of plant signaling pathways. Despite the fact that BRs inhibit nodulation in leguminous plants, how BRs modulate rhizobia-host interactions and nodule morphogenesis is unknown. Here, we show that GmBEHL1, a soybean homolog of Arabidopsis BES1/BZR1 homolog 1 (BEH1), is an interacting partner of Nodule Number Control 1, a transcriptional repressor that mediates soybean nodulation. GmBEHL1 was highly expressed at the basal parts of emerging nodules, and its expression gradually expanded during nodule maturation. The overexpression and downregulation of GmBEHL1 inhibited and enhanced the number of nodules, respectively, in soybean. Intriguingly, alterations in GmBEHL1 expression repressed the expression of genes in the BR biosynthesis pathway, including homologs of Arabidopsis Constitutive Photomorphogenesis and Dwarf and Dwarf 4. We also detected an interaction between GmBEHL1 and GmBIN2, a putative BR-insensitive 2 (BIN2) homolog, in soybean. Moreover, BR treatment reduced the number, but increased the size, of soybean nodules. Our results reveal GmBEHL1 to be a potent gene that integrates BR signaling with nodulation signaling pathways to regulate symbiotic nodulation. FAU - Yan, Qiqi AU - Yan Q AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, P.R. China. FAU - Wang, Lixiang AU - Wang L AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, P.R. China. FAU - Li, Xia AU - Li X AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, P.R. China. xli@mail.hzau.edu.cn. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20180516 PL - England TA - Sci Rep JT - Scientific reports JID - 101563288 RN - 0 (Brassinosteroids) RN - 0 (Nucleocytoplasmic Transport Proteins) RN - 0 (Plant Growth Regulators) RN - 0 (Plant Proteins) RN - 0 (Triazoles) RN - N9XRW3TF90 (brassinazole) SB - IM MH - Brassinosteroids/pharmacology MH - *Gene Expression Regulation, Plant MH - *Morphogenesis MH - Nucleocytoplasmic Transport Proteins/genetics/*metabolism MH - Phosphorylation MH - Plant Growth Regulators/pharmacology MH - Plant Proteins/genetics/*metabolism MH - Root Nodules, Plant/genetics/*growth & development/metabolism MH - Signal Transduction MH - Glycine max/drug effects/genetics/*growth & development/metabolism MH - Triazoles/pharmacology PMC - PMC5955893 COIS- The authors declare no competing interests. EDAT- 2018/05/18 06:00 MHDA- 2019/10/24 06:00 PMCR- 2018/05/16 CRDT- 2018/05/18 06:00 PHST- 2017/11/30 00:00 [received] PHST- 2018/04/05 00:00 [accepted] PHST- 2018/05/18 06:00 [entrez] PHST- 2018/05/18 06:00 [pubmed] PHST- 2019/10/24 06:00 [medline] PHST- 2018/05/16 00:00 [pmc-release] AID - 10.1038/s41598-018-25910-x [pii] AID - 25910 [pii] AID - 10.1038/s41598-018-25910-x [doi] PST - epublish SO - Sci Rep. 2018 May 16;8(1):7614. doi: 10.1038/s41598-018-25910-x. ##### PUB RECORD ##### ## 10.1186/1471-2229-10-195 20828382 Pham, Lee et al., 2010 "Pham AT, Lee JD, Shannon JG, Bilyeu KD. Mutant alleles of FAD2-1A and FAD2-1B combine to produce soybeans with the high oleic acid seed oil trait. BMC Plant Biol. 2010 Sep 9;10:195. doi: 10.1186/1471-2229-10-195. PMID: 20828382; PMCID: PMC2956544." ## PMID- 20828382 OWN - NLM STAT- MEDLINE DCOM- 20101123 LR - 20240104 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 10 DP - 2010 Sep 9 TI - Mutant alleles of FAD2-1A and FAD2-1B combine to produce soybeans with the high oleic acid seed oil trait. PG - 195 LID - 10.1186/1471-2229-10-195 [doi] AB - BACKGROUND: The alteration of fatty acid profiles in soybean [Glycine max (L.) Merr.] to improve soybean oil quality is an important and evolving theme in soybean research to meet nutritional needs and industrial criteria in the modern market. Soybean oil with elevated oleic acid is desirable because this monounsaturated fatty acid improves the nutrition and oxidative stability of the oil. Commodity soybean oil typically contains 20% oleic acid and the target for high oleic acid soybean oil is approximately 80% of the oil; previous conventional plant breeding research to raise the oleic acid level to just 50-60% of the oil was hindered by the genetic complexity and environmental instability of the trait. The objective of this work was to create the high oleic acid trait in soybeans by identifying and combining mutations in two delta-twelve fatty acid desaturase genes, FAD2-1A and FAD2-1B. RESULTS: Three polymorphisms found in the FAD2-1B alleles of two soybean lines resulted in missense mutations. For each of the two soybean lines, there was one unique amino acid change within a highly conserved region of the protein. The mutant FAD2-1B alleles were associated with an increase in oleic acid levels, although the FAD2-1B mutant alleles alone were not capable of producing a high oleic acid phenotype. When existing FAD2-1A mutations were combined with the novel mutant FAD2-1B alleles, a high oleic acid phenotype was recovered only for those lines which were homozygous for both of the mutant alleles. CONCLUSIONS: We were able to produce conventional soybean lines with 80% oleic acid in the oil in two different ways, each requiring the contribution of only two genes. The high oleic acid soybean germplasm developed contained a desirable fatty acid profile, and it was stable in two production environments. The presumed causative sequence polymorphisms in the FAD2-1B alleles were developed into highly efficient molecular markers for tracking the mutant alleles. The resources described here for the creation of high oleic acid soybeans provide a framework to efficiently develop soybean varieties to meet changing market demands. FAU - Pham, Anh-Tung AU - Pham AT AD - University of Missouri, Division of Plant Sciences, 110 Waters Hall, Columbia, MO 65211, USA. FAU - Lee, Jeong-Dong AU - Lee JD FAU - Shannon, J Grover AU - Shannon JG FAU - Bilyeu, Kristin D AU - Bilyeu KD LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Research Support, U.S. Gov't, Non-P.H.S. DEP - 20100909 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (DNA, Plant) RN - 0 (Oleic Acids) RN - 0 (Plant Proteins) RN - 8001-22-7 (Soybean Oil) RN - EC 1.14.19.- (Fatty Acid Desaturases) SB - IM MH - Alleles MH - Amino Acid Sequence MH - DNA, Plant/genetics MH - Fatty Acid Desaturases/genetics/*metabolism MH - Molecular Sequence Data MH - Mutation, Missense MH - Oleic Acids/*biosynthesis MH - Phenotype MH - Plant Proteins/genetics/*metabolism MH - Polymorphism, Genetic MH - Seeds/*chemistry MH - Sequence Analysis, DNA MH - Soybean Oil/chemistry MH - Glycine max/chemistry/enzymology/*genetics PMC - PMC2956544 EDAT- 2010/09/11 06:00 MHDA- 2010/12/14 06:00 PMCR- 2010/09/09 CRDT- 2010/09/11 06:00 PHST- 2010/05/03 00:00 [received] PHST- 2010/09/09 00:00 [accepted] PHST- 2010/09/11 06:00 [entrez] PHST- 2010/09/11 06:00 [pubmed] PHST- 2010/12/14 06:00 [medline] PHST- 2010/09/09 00:00 [pmc-release] AID - 1471-2229-10-195 [pii] AID - 10.1186/1471-2229-10-195 [doi] PST - epublish SO - BMC Plant Biol. 2010 Sep 9;10:195. doi: 10.1186/1471-2229-10-195. ##### PUB RECORD ##### ## 10.1371/journal.pone.0094150 24727730 Langewisch, Zhang, 2014 "Langewisch T, Zhang H, Vincent R, Joshi T, Xu D, Bilyeu K. Major soybean maturity gene haplotypes revealed by SNPViz analysis of 72 sequenced soybean genomes. PLoS One. 2014 Apr 11;9(4):e94150. doi: 10.1371/journal.pone.0094150. PMID: 24727730; PMCID: PMC3984090." ## PMID- 24727730 OWN - NLM STAT- MEDLINE DCOM- 20141231 LR - 20231213 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 9 IP - 4 DP - 2014 TI - Major soybean maturity gene haplotypes revealed by SNPViz analysis of 72 sequenced soybean genomes. PG - e94150 LID - 10.1371/journal.pone.0094150 [doi] LID - e94150 AB - In this Genomics Era, vast amounts of next-generation sequencing data have become publicly available for multiple genomes across hundreds of species. Analyses of these large-scale datasets can become cumbersome, especially when comparing nucleotide polymorphisms across many samples within a dataset and among different datasets or organisms. To facilitate the exploration of allelic variation and diversity, we have developed and deployed an in-house computer software to categorize and visualize these haplotypes. The SNPViz software enables users to analyze region-specific haplotypes from single nucleotide polymorphism (SNP) datasets for different sequenced genomes. The examination of allelic variation and diversity of important soybean [Glycine max (L.) Merr.] flowering time and maturity genes may provide additional insight into flowering time regulation and enhance researchers' ability to target soybean breeding for particular environments. For this study, we utilized two available soybean genomic datasets for a total of 72 soybean genotypes encompassing cultivars, landraces, and the wild species Glycine soja. The major soybean maturity genes E1, E2, E3, and E4 along with the Dt1 gene for plant growth architecture were analyzed in an effort to determine the number of major haplotypes for each gene, to evaluate the consistency of the haplotypes with characterized variant alleles, and to identify evidence of artificial selection. The results indicated classification of a small number of predominant haplogroups for each gene and important insights into possible allelic diversity for each gene within the context of known causative mutations. The software has both a stand-alone and web-based version and can be used to analyze other genes, examine additional soybean datasets, and view similar genome sequence and SNP datasets from other species. FAU - Langewisch, Tiffany AU - Langewisch T AD - Plant Genetics Research Unit, United States Department of Agriculture-Agricultural Research Service, University of Missouri, Columbia, Missouri, United States of America. FAU - Zhang, Hongxin AU - Zhang H AD - Department of Computer Science, University of Missouri, Columbia, Missouri, United States of America. FAU - Vincent, Ryan AU - Vincent R AD - Division of Computing, McKendree University, Lebanon, Illinois, United States of America. FAU - Joshi, Trupti AU - Joshi T AD - Department of Computer Science, University of Missouri, Columbia, Missouri, United States of America; National Center for Soybean Biotechnology, University of Missouri, Columbia, Missouri, United States of America; Informatics Institute, University of Missouri, Columbia, Missouri, United States of America; Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, Missouri, United States of America. FAU - Xu, Dong AU - Xu D AD - Department of Computer Science, University of Missouri, Columbia, Missouri, United States of America; National Center for Soybean Biotechnology, University of Missouri, Columbia, Missouri, United States of America; Informatics Institute, University of Missouri, Columbia, Missouri, United States of America; Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, Missouri, United States of America. FAU - Bilyeu, Kristin AU - Bilyeu K AD - Plant Genetics Research Unit, United States Department of Agriculture-Agricultural Research Service, University of Missouri, Columbia, Missouri, United States of America. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140411 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Plant Proteins) SB - IM MH - Genotype MH - Haplotypes/genetics MH - Plant Proteins/*genetics MH - Polymorphism, Single Nucleotide/genetics MH - Glycine max/*genetics PMC - PMC3984090 COIS- Competing Interests: The authors have declared that no competing interests exist. EDAT- 2014/04/15 06:00 MHDA- 2015/01/01 06:00 PMCR- 2014/04/11 CRDT- 2014/04/15 06:00 PHST- 2013/09/30 00:00 [received] PHST- 2014/03/14 00:00 [accepted] PHST- 2014/04/15 06:00 [entrez] PHST- 2014/04/15 06:00 [pubmed] PHST- 2015/01/01 06:00 [medline] PHST- 2014/04/11 00:00 [pmc-release] AID - PONE-D-13-40091 [pii] AID - 10.1371/journal.pone.0094150 [doi] PST - epublish SO - PLoS One. 2014 Apr 11;9(4):e94150. doi: 10.1371/journal.pone.0094150. eCollection 2014. ##### PUB RECORD ##### ## 10.1371/journal.pone.0159064 27404272 Song J, Liu Z et al., 2016 "Song J, Liu Z, Hong H, Ma Y, Tian L, Li X, Li YH, Guan R, Guo Y, Qiu LJ. Identification and Validation of Loci Governing Seed Coat Color by Combining Association Mapping and Bulk Segregation Analysis in Soybean. PLoS One. 2016 Jul 12;11(7):e0159064. doi: 10.1371/journal.pone.0159064. PMID: 27404272; PMCID: PMC4942065." ## PMID- 27404272 OWN - NLM STAT- MEDLINE DCOM- 20170719 LR - 20240327 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 11 IP - 7 DP - 2016 TI - Identification and Validation of Loci Governing Seed Coat Color by Combining Association Mapping and Bulk Segregation Analysis in Soybean. PG - e0159064 LID - 10.1371/journal.pone.0159064 [doi] LID - e0159064 AB - Soybean seed coat exists in a range of colors from yellow, green, brown, black, to bicolor. Classical genetic analysis suggested that soybean seed color was a moderately complex trait controlled by multi-loci. However, only a couple of loci could be detected using a single biparental segregating population. In this study, a combination of association mapping and bulk segregation analysis was employed to identify genes/loci governing this trait in soybean. A total of 14 loci, including nine novel and five previously reported ones, were identified using 176,065 coding SNPs selected from entire SNP dataset among 56 soybean accessions. Four of these loci were confirmed and further mapped using a biparental population developed from the cross between ZP95-5383 (yellow seed color) and NY279 (brown seed color), in which different seed coat colors were further dissected into simple trait pairs (green/yellow, green/black, green/brown, yellow/black, yellow/brown, and black/brown) by continuously developing residual heterozygous lines. By genotyping entire F2 population using flanking markers located in fine-mapping regions, the genetic basis of seed coat color was fully dissected and these four loci could explain all variations of seed colors in this population. These findings will be useful for map-based cloning of genes as well as marker-assisted breeding in soybean. This work also provides an alternative strategy for systematically isolating genes controlling relative complex trait by association analysis followed by biparental mapping. FAU - Song, Jian AU - Song J AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. FAU - Liu, Zhangxiong AU - Liu Z AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. FAU - Hong, Huilong AU - Hong H AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. FAU - Ma, Yansong AU - Ma Y AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. FAU - Tian, Long AU - Tian L AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. FAU - Li, Xinxiu AU - Li X AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. FAU - Li, Ying-Hui AU - Li YH AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. FAU - Guan, Rongxia AU - Guan R AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. FAU - Guo, Yong AU - Guo Y AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. FAU - Qiu, Li-Juan AU - Qiu LJ AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI) and MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, P. R. China. LA - eng PT - Journal Article DEP - 20160712 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Genetic Markers) SB - IM MH - Breeding MH - *Chromosome Mapping MH - Genetic Loci/*genetics MH - Genetic Markers/genetics MH - Genotype MH - *Pigmentation MH - Polymorphism, Single Nucleotide MH - Seeds/*metabolism MH - Glycine max/*genetics/metabolism PMC - PMC4942065 COIS- Competing Interests: The authors have declared that no competing interests exist. EDAT- 2016/07/13 06:00 MHDA- 2017/07/20 06:00 PMCR- 2016/07/12 CRDT- 2016/07/13 06:00 PHST- 2016/02/05 00:00 [received] PHST- 2016/06/27 00:00 [accepted] PHST- 2016/07/13 06:00 [entrez] PHST- 2016/07/13 06:00 [pubmed] PHST- 2017/07/20 06:00 [medline] PHST- 2016/07/12 00:00 [pmc-release] AID - PONE-D-16-05357 [pii] AID - 10.1371/journal.pone.0159064 [doi] PST - epublish SO - PLoS One. 2016 Jul 12;11(7):e0159064. doi: 10.1371/journal.pone.0159064. eCollection 2016. ##### PUB RECORD ##### ## 10.1186/s12870-016-0704-9 26786479 Zhao, Takeshima et al., 2016 "Zhao C, Takeshima R, Zhu J, Xu M, Sato M, Watanabe S, Kanazawa A, Liu B, Kong F, Yamada T, Abe J. A recessive allele for delayed flowering at the soybean maturity locus E9 is a leaky allele of FT2a, a FLOWERING LOCUS T ortholog. BMC Plant Biol. 2016 Jan 19;16:20. doi: 10.1186/s12870-016-0704-9. PMID: 26786479; PMCID: PMC4719747." ## PMID- 26786479 OWN - NLM STAT- MEDLINE DCOM- 20160906 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 16 DP - 2016 Jan 19 TI - A recessive allele for delayed flowering at the soybean maturity locus E9 is a leaky allele of FT2a, a FLOWERING LOCUS T ortholog. PG - 20 LID - 10.1186/s12870-016-0704-9 [doi] LID - 20 AB - BACKGROUND: Understanding the molecular mechanisms of flowering and maturity is important for improving the adaptability and yield of seed crops in different environments. In soybean, a facultative short-day plant, genetic variation at four maturity genes, E1 to E4, plays an important role in adaptation to environments with different photoperiods. However, the molecular basis of natural variation in time to flowering and maturity is poorly understood. Using a cross between early-maturing soybean cultivars, we performed a genetic and molecular study of flowering genes. The progeny of this cross segregated for two maturity loci, E1 and E9. The latter locus was subjected to detailed molecular analysis to identify the responsible gene. RESULTS: Fine mapping, sequencing, and expression analysis revealed that E9 is FT2a, an ortholog of Arabidopsis FLOWERING LOCUS T. Regardless of daylength conditions, the e9 allele was transcribed at a very low level in comparison with the E9 allele and delayed flowering. Despite identical coding sequences, a number of single nucleotide polymorphisms and insertions/deletions were detected in the promoter, untranslated regions, and introns between the two cultivars. Furthermore, the e9 allele had a Ty1/copia-like retrotransposon, SORE-1, inserted in the first intron. Comparison of the expression levels of different alleles among near-isogenic lines and photoperiod-insensitive cultivars indicated that the SORE-1 insertion attenuated FT2a expression by its allele-specific transcriptional repression. SORE-1 was highly methylated, and did not appear to disrupt FT2a RNA processing. CONCLUSIONS: The soybean maturity gene E9 is FT2a, and its recessive allele delays flowering because of lower transcript abundance that is caused by allele-specific transcriptional repression due to the insertion of SORE-1. The FT2a transcript abundance is thus directly associated with the variation in flowering time in soybean. The e9 allele may maintain vegetative growth in early-flowering genetic backgrounds, and also be useful as a long-juvenile allele, which causes late flowering under short-daylength conditions, in low-latitude regions. FAU - Zhao, Chen AU - Zhao C AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, 060-8589, Japan. zhaochen_1112@126.com. FAU - Takeshima, Ryoma AU - Takeshima R AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, 060-8589, Japan. take-ryo@res.agr.hokudai.ac.jp. FAU - Zhu, Jianghui AU - Zhu J AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, 060-8589, Japan. zhu622@res.agr.hokudai.ac.jp. FAU - Xu, Meilan AU - Xu M AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. xumeilan_1984@yahoo.co.jp. FAU - Sato, Masako AU - Sato M AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, 060-8589, Japan. satomasa@res.agr.hokudai.ac.jp. FAU - Watanabe, Satoshi AU - Watanabe S AD - Faculty of Agriculture, Saga University, Saga, 840-0027, Japan. nabemame@cc.saga-u.ac.jp. FAU - Kanazawa, Akira AU - Kanazawa A AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, 060-8589, Japan. kanazawa@res.agr.hokudai.ac.jp. FAU - Liu, Baohui AU - Liu B AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. liubh@neigaehrb.ac.cn. FAU - Kong, Fanjiang AU - Kong F AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. kongfj@iga.ac.cn. FAU - Yamada, Tetsuya AU - Yamada T AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, 060-8589, Japan. tetsuyay@res.agr.hokudai.ac.jp. FAU - Abe, Jun AU - Abe J AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, 060-8589, Japan. jabe@res.agr.hokudai.ac.jp. LA - eng GR - FC001003/ARC_/Arthritis Research UK/United Kingdom PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20160119 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 SB - IM MH - Alleles MH - Flowers/*genetics/growth & development MH - *Genes, Plant MH - Genes, Recessive MH - Glycine max/*genetics/growth & development PMC - PMC4719747 EDAT- 2016/01/21 06:00 MHDA- 2016/09/07 06:00 PMCR- 2016/01/19 CRDT- 2016/01/21 06:00 PHST- 2015/10/16 00:00 [received] PHST- 2016/01/06 00:00 [accepted] PHST- 2016/01/21 06:00 [entrez] PHST- 2016/01/21 06:00 [pubmed] PHST- 2016/09/07 06:00 [medline] PHST- 2016/01/19 00:00 [pmc-release] AID - 10.1186/s12870-016-0704-9 [pii] AID - 704 [pii] AID - 10.1186/s12870-016-0704-9 [doi] PST - epublish SO - BMC Plant Biol. 2016 Jan 19;16:20. doi: 10.1186/s12870-016-0704-9. ##### PUB RECORD ##### ## 10.1016/j.tplants.2022.07.002 35840482 Hasan, Corpas et al., 2022 "Hasan MM, Corpas FJ, Fang XW. Light: a crucial factor for rhizobium-induced root nodulation. Trends Plant Sci. 2022 Oct;27(10):955-957. doi: 10.1016/j.tplants.2022.07.002. Epub 2022 Jul 12. PMID: 35840482." ## PMID- 35840482 OWN - NLM STAT- MEDLINE DCOM- 20220919 LR - 20231213 IS - 1878-4372 (Electronic) IS - 1360-1385 (Linking) VI - 27 IP - 10 DP - 2022 Oct TI - Light: a crucial factor for rhizobium-induced root nodulation. PG - 955-957 LID - S1360-1385(22)00180-7 [pii] LID - 10.1016/j.tplants.2022.07.002 [doi] AB - Wang et al. recently showed that, in soybean (Glycine max), root nodule formation is induced by a light-triggered signal that moves from the upper part of the plant to the roots. This novel signaling process opens a new area of research aimed to optimize the carbon-nitrogen balance in plant-rhizobium symbiosis. CI - Copyright (c) 2022 Elsevier Ltd. All rights reserved. FAU - Hasan, Md Mahadi AU - Hasan MM AD - State Key Laboratory of Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, Gansu Province, China. FAU - Corpas, Francisco J AU - Corpas FJ AD - Group of Antioxidants, Free Radicals and Nitric Oxide in Biotechnology, Food and Agriculture, Department of Biochemistry and Cell and Molecular Biology of Plants, Estacion Experimental del Zaidin, Consejo Superior de Investigaciones Cientificas (CSIC), Profesor Albareda 1, 18008, Granada, Spain. FAU - Fang, Xiang-Wen AU - Fang XW AD - State Key Laboratory of Grassland Agro-ecosystems, College of Ecology, Lanzhou University, Lanzhou 730000, Gansu Province, China. Electronic address: fangxw@lzu.edu.cn. LA - eng PT - Comment PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20220712 PL - England TA - Trends Plant Sci JT - Trends in plant science JID - 9890299 RN - 0 (Plant Proteins) RN - 7440-44-0 (Carbon) RN - N762921K75 (Nitrogen) SB - IM CON - Science. 2021 Oct;374(6563):65-71. doi: 10.1126/science.abh2890. PMID: 34591638 MH - Carbon MH - *Fabaceae/metabolism MH - Gene Expression Regulation, Plant MH - Nitrogen/metabolism MH - Plant Proteins/metabolism MH - Plant Root Nodulation MH - Plant Roots/metabolism MH - *Rhizobium MH - Glycine max/metabolism MH - Symbiosis COIS- Declaration of interests No interests are declared. EDAT- 2022/07/16 06:00 MHDA- 2022/09/20 06:00 CRDT- 2022/07/15 22:06 PHST- 2022/02/10 00:00 [received] PHST- 2022/07/01 00:00 [revised] PHST- 2022/07/01 00:00 [accepted] PHST- 2022/07/16 06:00 [pubmed] PHST- 2022/09/20 06:00 [medline] PHST- 2022/07/15 22:06 [entrez] AID - S1360-1385(22)00180-7 [pii] AID - 10.1016/j.tplants.2022.07.002 [doi] PST - ppublish SO - Trends Plant Sci. 2022 Oct;27(10):955-957. doi: 10.1016/j.tplants.2022.07.002. Epub 2022 Jul 12. ##### PUB RECORD ##### ## 10.1111/tpj.12419 24372721 Fang, Li et al., 2014 "Fang C, Li C, Li W, Wang Z, Zhou Z, Shen Y, Wu M, Wu Y, Li G, Kong LA, Liu C, Jackson SA, Tian Z. Concerted evolution of D1 and D2 to regulate chlorophyll degradation in soybean. Plant J. 2014 Mar;77(5):700-12. doi: 10.1111/tpj.12419. Epub 2014 Feb 4. PMID: 24372721." ## PMID- 24372721 OWN - NLM STAT- MEDLINE DCOM- 20150330 LR - 20231213 IS - 1365-313X (Electronic) IS - 0960-7412 (Linking) VI - 77 IP - 5 DP - 2014 Mar TI - Concerted evolution of D1 and D2 to regulate chlorophyll degradation in soybean. PG - 700-12 LID - 10.1111/tpj.12419 [doi] AB - Polyploidy is a common phenomenon, particularly in plants. The soybean (Glycine max [L.] Merr.) genome has undergone two whole genome duplication (WGD) events. The conservation and divergence of duplicated gene pairs are major contributors to genome evolution. D1 and D2 are two unlinked, paralogous nuclear genes, whose double-recessive mutant (d1d1d2d2) results in chlorophyll retention, called 'stay-green'. Through molecular cloning and functional analyses, we demonstrated that D1 and D2 are homologs of the STAY-GREEN (SGR) genes from other plant species and were duplicated as a result of the most recent WGD in soybean. Transcriptional analysis showed that both D1 and D2 were more highly expressed in older tissues, and chlorophyll degradation and programmed cell death-related genes were suppressed in a d1d2 double mutant, this situation indicated that these genes are probably involved in the early stages of tissue senescence. Investigation of genes that flank D1 and D2 revealed that evolution within collinear duplicated blocks may affect the conservation of individual gene pairs within the blocks. Moreover, we found that a long terminal repeat retrotransposon, GmD2IN, resulted in the d2 mutation. Further analysis of this retrotransposon family showed that insertion in or near the coding regions can affect gene expression or splicing patterns, and may be an important force to promote the divergence of duplicated gene pairs. CI - (c) 2013 The Authors The Plant Journal (c) 2013 John Wiley & Sons Ltd. FAU - Fang, Chao AU - Fang C AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China; University of Chinese Academy of Sciences, Beijing, 100039, China. FAU - Li, Congcong AU - Li C FAU - Li, Weiyu AU - Li W FAU - Wang, Zheng AU - Wang Z FAU - Zhou, Zhengkui AU - Zhou Z FAU - Shen, Yanting AU - Shen Y FAU - Wu, Mian AU - Wu M FAU - Wu, Yunshuai AU - Wu Y FAU - Li, Guiquan AU - Li G FAU - Kong, Ling-An AU - Kong LA FAU - Liu, Cuimin AU - Liu C FAU - Jackson, Scott A AU - Jackson SA FAU - Tian, Zhixi AU - Tian Z LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140204 PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 RN - 1406-65-1 (Chlorophyll) SB - IM MH - Cell Death MH - Chlorophyll/*metabolism MH - *Evolution, Molecular MH - Gene Duplication MH - Gene Expression Regulation, Plant MH - Phenotype MH - Glycine max/*genetics/metabolism MH - Terminal Repeat Sequences OTO - NOTNLM OT - Glycine max [L.] Merr OT - duplicated genes OT - evolution OT - soybean OT - stay-green EDAT- 2014/01/01 06:00 MHDA- 2015/03/31 06:00 CRDT- 2013/12/31 06:00 PHST- 2013/10/14 00:00 [received] PHST- 2013/12/06 00:00 [revised] PHST- 2013/12/17 00:00 [accepted] PHST- 2013/12/31 06:00 [entrez] PHST- 2014/01/01 06:00 [pubmed] PHST- 2015/03/31 06:00 [medline] AID - 10.1111/tpj.12419 [doi] PST - ppublish SO - Plant J. 2014 Mar;77(5):700-12. doi: 10.1111/tpj.12419. Epub 2014 Feb 4. ##### PUB RECORD ##### ## 10.1094/MPMI-01-20-0017-R 32186464 Shi, Zhang et al., 2020 "Shi Y, Zhang Z, Wen Y, Yu G, Zou J, Huang S, Wang J, Zhu J, Wang J, Chen L, Ma C, Liu X, Zhu R, Li Q, Li J, Guo M, Liu H, Zhu Y, Sun Z, Han L, Jiang H, Wu X, Wang N, Zhang W, Yin Z, Li C, Hu Z, Qi Z, Liu C, Chen Q, Xin D. RNA Sequencing-Associated Study Identifies GmDRR1 as Positively Regulating the Establishment of Symbiosis in Soybean. Mol Plant Microbe Interact. 2020 Jun;33(6):798-807. doi: 10.1094/MPMI-01-20-0017-R. Epub 2020 May 7. PMID: 32186464." ## PMID- 32186464 OWN - NLM STAT- MEDLINE DCOM- 20200904 LR - 20231213 IS - 0894-0282 (Print) IS - 0894-0282 (Linking) VI - 33 IP - 6 DP - 2020 Jun TI - RNA Sequencing-Associated Study Identifies GmDRR1 as Positively Regulating the Establishment of Symbiosis in Soybean. PG - 798-807 LID - 10.1094/MPMI-01-20-0017-R [doi] AB - In soybean (Glycine max)-rhizobium interactions, the type III secretion system (T3SS) of rhizobium plays a key role in regulating host specificity. However, the lack of information on the role of T3SS in signaling networks limits our understanding of symbiosis. Here, we conducted an RNA sequencing analysis of three soybean chromosome segment substituted lines, one female parent and two derived lines with different chromosome-substituted segments of wild soybean and opposite nodulation patterns. By analyzing chromosome-linked differentially expressed genes in the substituted segments and quantitative trait loci (QTL)-assisted selection in the substituted-segment region, genes that may respond to type III effectors to mediate plant immunity-related signaling were identified. To narrow down the number of candidate genes, QTL assistant was used to identify the candidate region consistent with the substituted segments. Furthermore, one candidate gene, GmDRR1, was identified in the substituted segment. To investigate the role of GmDRR1 in symbiosis establishment, GmDRR1-overexpression and RNA interference soybean lines were constructed. The nodule number increased in the former compared with wild-type soybean. Additionally, the T3SS-regulated effectors appeared to interact with the GmDDR1 signaling pathway. This finding will allow the detection of T3SS-regulated effectors involved in legume-rhizobium interactions. FAU - Shi, Yan AU - Shi Y AUID- ORCID: 0000-0003-0320-3244 AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Zhang, Zhanguo AU - Zhang Z AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Wen, Yingnan AU - Wen Y AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Yu, Guolong AU - Yu G AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Zou, Jianan AU - Zou J AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Huang, Shiyu AU - Huang S AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Wang, Jinhui AU - Wang J AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Zhu, Jingyi AU - Zhu J AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Wang, Jieqi AU - Wang J AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Chen, Lin AU - Chen L AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Ma, Chao AU - Ma C AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Liu, Xueying AU - Liu X AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Zhu, Rongsheng AU - Zhu R AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Li, Qingying AU - Li Q AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Li, Jianyi AU - Li J AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Guo, Miaoxin AU - Guo M AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Liu, Hanxi AU - Liu H AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Zhu, Yongxu AU - Zhu Y AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Sun, Zhijun AU - Sun Z AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Han, Lu AU - Han L AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Jiang, Hongwei AU - Jiang H AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. AD - Jilin Academy of Agricultural Sciences, Soybean Research Institute, Changchun, People's Republic of China. FAU - Wu, Xiaoxia AU - Wu X AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Wang, Nannan AU - Wang N AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. AD - Jiamusi Branch of Heilongjiang Academy of Agricultural, Jiamusi, People's Republic of China. FAU - Zhang, Weiyao AU - Zhang W AD - Suihua Branch of Heilongjiang Academy of Agricultural, Suihua, China, Crop Breeding Institute, Heilongjiang Academy of Agricultural Sciences, Harbin, Heilongjiang, People's Republic of China. FAU - Yin, Zhengong AU - Yin Z AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. AD - Suihua Branch of Heilongjiang Academy of Agricultural, Suihua, China, Crop Breeding Institute, Heilongjiang Academy of Agricultural Sciences, Harbin, Heilongjiang, People's Republic of China. FAU - Li, Candong AU - Li C AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. AD - Jiamusi Branch of Heilongjiang Academy of Agricultural, Jiamusi, People's Republic of China. FAU - Hu, Zhenbang AU - Hu Z AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Qi, Zhaoming AU - Qi Z AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Liu, Chunyan AU - Liu C AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Chen, Qingshan AU - Chen Q AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. FAU - Xin, Dawei AU - Xin D AUID- ORCID: 0000-0002-1264-5135 AD - Key Laboratory of Soybean Biology of Chinese Ministry of Education, Key Laboratory of Soybean Biology and Breeding/Genetics of Chinese Agriculture Ministry, College of Science, Northeast Agricultural University, Harbin, Heilongjiang Province, People's Republic of China. LA - eng PT - Journal Article DEP - 20200507 PL - United States TA - Mol Plant Microbe Interact JT - Molecular plant-microbe interactions : MPMI JID - 9107902 RN - 0 (Type III Secretion Systems) SB - IM MH - *Genes, Plant MH - Quantitative Trait Loci MH - Rhizobium/*physiology MH - Sequence Analysis, RNA MH - Signal Transduction MH - Glycine max/*genetics/microbiology MH - *Symbiosis MH - *Type III Secretion Systems OTO - NOTNLM OT - GmDRR1 OT - RNA-seq OT - dirigent protein OT - segment-substituted lines OT - soybean OT - wild soybean EDAT- 2020/03/19 06:00 MHDA- 2020/09/05 06:00 CRDT- 2020/03/19 06:00 PHST- 2020/03/19 06:00 [pubmed] PHST- 2020/09/05 06:00 [medline] PHST- 2020/03/19 06:00 [entrez] AID - 10.1094/MPMI-01-20-0017-R [doi] PST - ppublish SO - Mol Plant Microbe Interact. 2020 Jun;33(6):798-807. doi: 10.1094/MPMI-01-20-0017-R. Epub 2020 May 7. ##### PUB RECORD ##### ## 10.1038/s41467-023-42991-z 38040709 Li, Sun et al., 2023 "Li S, Sun Z, Sang Q, Qin C, Kong L, Huang X, Liu H, Su T, Li H, He M, Fang C, Wang L, Liu S, Liu B, Liu B, Fu X, Kong F, Lu S. Soybean reduced internode 1 determines internode length and improves grain yield at dense planting. Nat Commun. 2023 Dec 1;14(1):7939. doi: 10.1038/s41467-023-42991-z. PMID: 38040709; PMCID: PMC10692089." ## PMID- 38040709 OWN - NLM STAT- MEDLINE DCOM- 20231204 LR - 20250506 IS - 2041-1723 (Electronic) IS - 2041-1723 (Linking) VI - 14 IP - 1 DP - 2023 Dec 1 TI - Soybean reduced internode 1 determines internode length and improves grain yield at dense planting. PG - 7939 LID - 10.1038/s41467-023-42991-z [doi] LID - 7939 AB - Major cereal crops have benefitted from Green Revolution traits such as shorter and more compact plants that permit high-density planting, but soybean has remained relatively overlooked. To balance ideal soybean yield with plant height under dense planting, shortening of internodes without reducing the number of nodes and pods is desired. Here, we characterized a short-internode soybean mutant, reduced internode 1 (rin1). Partial loss of SUPPRESSOR OF PHYA 105 3a (SPA3a) underlies rin1. RIN1 physically interacts with two homologs of ELONGATED HYPOCOTYL 5 (HY5), STF1 and STF2, to promote their degradation. RIN1 regulates gibberellin metabolism to control internode development through a STF1/STF2-GA2ox7 regulatory module. In field trials, rin1 significantly enhances grain yield under high-density planting conditions comparing to its wild type of elite cultivar. rin1 mutants therefore could serve as valuable resources for improving grain yield under high-density cultivation and in soybean-maize intercropping systems. CI - (c) 2023. The Author(s). FAU - Li, Shichen AU - Li S AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. FAU - Sun, Zhihui AU - Sun Z AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Sang, Qing AU - Sang Q AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Qin, Chao AU - Qin C AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. FAU - Kong, Lingping AU - Kong L AUID- ORCID: 0000-0001-7787-0088 AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Huang, Xin AU - Huang X AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Liu, Huan AU - Liu H AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Su, Tong AU - Su T AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Li, Haiyang AU - Li H AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - He, Milan AU - He M AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Fang, Chao AU - Fang C AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Wang, Lingshuang AU - Wang L AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Liu, Shuangrong AU - Liu S AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. FAU - Liu, Bin AU - Liu B AUID- ORCID: 0000-0002-5836-2333 AD - The National Key Facility for Crop Gene Resources and Genetic Improvement (NFCRI), Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. liubin05@caas.cn. FAU - Liu, Baohui AU - Liu B AUID- ORCID: 0000-0003-3491-8293 AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. liubh@gzhu.edu.cn. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. liubh@gzhu.edu.cn. FAU - Fu, Xiangdong AU - Fu X AUID- ORCID: 0000-0001-9285-7543 AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovation Academy for Seed Design, Chinese Academy of Sciences, Beijing, 100101, China. xdfu@genetics.ac.cn. FAU - Kong, Fanjiang AU - Kong F AUID- ORCID: 0000-0001-7138-1478 AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. kongfj@gzhu.edu.cn. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. kongfj@gzhu.edu.cn. FAU - Lu, Sijia AU - Lu S AUID- ORCID: 0000-0002-3110-0915 AD - Guangdong Key Laboratory of Plant Adaptation and Molecular Design, Guangzhou Key Laboratory of Crop Gene Editing, Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510006, China. lusijia@gzhu.edu.cn. LA - eng SI - SRA/SRP045129 GR - 32090064/National Natural Science Foundation of China (National Science Foundation of China)/ PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20231201 PL - England TA - Nat Commun JT - Nature communications JID - 101528555 SB - IM MH - *Edible Grain MH - *Glycine max MH - Crops, Agricultural/physiology MH - Plant Leaves/metabolism PMC - PMC10692089 COIS- The authors declare no competing interests EDAT- 2023/12/02 00:42 MHDA- 2023/12/04 12:41 PMCR- 2023/12/01 CRDT- 2023/12/01 23:17 PHST- 2023/03/24 00:00 [received] PHST- 2023/10/26 00:00 [accepted] PHST- 2023/12/04 12:41 [medline] PHST- 2023/12/02 00:42 [pubmed] PHST- 2023/12/01 23:17 [entrez] PHST- 2023/12/01 00:00 [pmc-release] AID - 10.1038/s41467-023-42991-z [pii] AID - 42991 [pii] AID - 10.1038/s41467-023-42991-z [doi] PST - epublish SO - Nat Commun. 2023 Dec 1;14(1):7939. doi: 10.1038/s41467-023-42991-z. ##### PUB RECORD ##### ## 10.1094/MPMI-09-10-0207 21198362 Reid, Ferguson et al., 2011 "Reid DE, Ferguson BJ, Gresshoff PM. Inoculation- and nitrate-induced CLE peptides of soybean control NARK-dependent nodule formation. Mol Plant Microbe Interact. 2011 May;24(5):606-18. doi: 10.1094/MPMI-09-10-0207. PMID: 21198362." ## PMID- 21198362 OWN - NLM STAT- MEDLINE DCOM- 20120412 LR - 20240109 IS - 0894-0282 (Print) IS - 0894-0282 (Linking) VI - 24 IP - 5 DP - 2011 May TI - Inoculation- and nitrate-induced CLE peptides of soybean control NARK-dependent nodule formation. PG - 606-18 LID - 10.1094/MPMI-09-10-0207 [doi] AB - Systemic autoregulation of nodulation in legumes involves a root-derived signal (Q) that is perceived by a CLAVATA1-like leucine-rich repeat receptor kinase (e.g. GmNARK). Perception of Q triggers the production of a shoot-derived inhibitor that prevents further nodule development. We have identified three candidate CLE peptide-encoding genes (GmRIC1, GmRIC2, and GmNIC1) in soybean (Glycine max) that respond to Bradyrhizobium japonicum inoculation or nitrate treatment. Ectopic overexpression of all three CLE peptide genes in transgenic roots inhibited nodulation in a GmNARK-dependent manner. The peptides share a high degree of amino acid similarity in a 12-amino-acid C-terminal domain, deemed to represent the functional ligand of GmNARK. GmRIC1 was expressed early (12 h) in response to Bradyrhizobium-sp.-produced nodulation factor while GmRIC2 was induced later (48 to 72 h) but was more persistent during later nodule development. Neither GmRIC1 nor GmRIC2 were induced by nitrate. In contrast, GmNIC1 was strongly induced by nitrate (2 mM) treatment but not by Bradyrhizobium sp. inoculation and, unlike the other two GmCLE peptides, functioned locally to inhibit nodulation. Grafting demonstrated a requirement for root GmNARK activity for nitrate regulation of nodulation whereas Bradyrhizobium sp.-induced regulation was contingent on GmNARK function in the shoot. FAU - Reid, Dugald E AU - Reid DE AD - Australian Research Council Centre of Excellence for Integrative Legume Research, John Hines Building, The University of Queensland, St. Lucia, Brisbane, Queensland 4072, Australia. FAU - Ferguson, Brett J AU - Ferguson BJ FAU - Gresshoff, Peter M AU - Gresshoff PM LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PL - United States TA - Mol Plant Microbe Interact JT - Molecular plant-microbe interactions : MPMI JID - 9107902 RN - 0 (Nitrates) RN - 0 (Peptides) SB - IM MH - Amino Acid Motifs MH - Bradyrhizobium/*genetics/metabolism/physiology MH - Cloning, Molecular MH - Gene Expression Regulation, Plant MH - Genes, Plant MH - Nitrates/metabolism MH - Peptides/genetics/*metabolism MH - Plant Root Nodulation/*physiology MH - Plant Roots/genetics/metabolism/*physiology MH - Plant Shoots/genetics/metabolism/physiology MH - Plants, Genetically Modified/genetics/metabolism/physiology MH - Sequence Alignment MH - Sequence Analysis, DNA MH - Glycine max/genetics/microbiology/*physiology MH - Symbiosis EDAT- 2011/01/05 06:00 MHDA- 2012/04/13 06:00 CRDT- 2011/01/05 06:00 PHST- 2011/01/05 06:00 [entrez] PHST- 2011/01/05 06:00 [pubmed] PHST- 2012/04/13 06:00 [medline] AID - 10.1094/MPMI-09-10-0207 [doi] PST - ppublish SO - Mol Plant Microbe Interact. 2011 May;24(5):606-18. doi: 10.1094/MPMI-09-10-0207. ##### PUB RECORD ##### ## 10.1534/g3.116.038596 28235823 Dobbels, Michno et al., 2017 "Dobbels AA, Michno JM, Campbell BW, Virdi KS, Stec AO, Muehlbauer GJ, Naeve SL, Stupar RM. An Induced Chromosomal Translocation in Soybean Disrupts a KASI Ortholog and Is Associated with a High-Sucrose and Low-Oil Seed Phenotype. G3 (Bethesda). 2017 Apr 3;7(4):1215-1223. doi: 10.1534/g3.116.038596. PMID: 28235823; PMCID: PMC5386870." ## PMID- 28235823 OWN - NLM STAT- MEDLINE DCOM- 20180710 LR - 20240528 IS - 2160-1836 (Electronic) IS - 2160-1836 (Linking) VI - 7 IP - 4 DP - 2017 Apr 3 TI - An Induced Chromosomal Translocation in Soybean Disrupts a KASI Ortholog and Is Associated with a High-Sucrose and Low-Oil Seed Phenotype. PG - 1215-1223 LID - 10.1534/g3.116.038596 [doi] AB - Mutagenesis is a useful tool in many crop species to induce heritable genetic variability for trait improvement and gene discovery. In this study, forward screening of a soybean fast neutron (FN) mutant population identified an individual that produced seed with nearly twice the amount of sucrose (8.1% on dry matter basis) and less than half the amount of oil (8.5% on dry matter basis) as compared to wild type. Bulked segregant analysis (BSA), comparative genomic hybridization, and genome resequencing were used to associate the seed composition phenotype with a reciprocal translocation between chromosomes 8 and 13. In a backcross population, the translocation perfectly cosegregated with the seed composition phenotype and exhibited non-Mendelian segregation patterns. We hypothesize that the translocation is responsible for the altered seed composition by disrupting a beta-ketoacyl-[acyl carrier protein] synthase 1 (KASI) ortholog. KASI is a core fatty acid synthesis enzyme that is involved in the conversion of sucrose into oil in developing seeds. This finding may lead to new research directions for developing soybean cultivars with modified carbohydrate and oil seed composition. CI - Copyright (c) 2017 Dobbels et al. FAU - Dobbels, Austin A AU - Dobbels AA AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Michno, Jean-Michel AU - Michno JM AUID- ORCID: 0000-0003-3723-2246 AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Campbell, Benjamin W AU - Campbell BW AUID- ORCID: 0000-0002-5510-8583 AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Virdi, Kamaldeep S AU - Virdi KS AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Stec, Adrian O AU - Stec AO AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Muehlbauer, Gary J AU - Muehlbauer GJ AUID- ORCID: 0000-0001-9320-2629 AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. AD - Department of Plant Biology, University of Minnesota, St. Paul, Minnesota 55108. FAU - Naeve, Seth L AU - Naeve SL AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Stupar, Robert M AU - Stupar RM AUID- ORCID: 0000-0002-8836-2924 AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108 stup0004@umn.edu. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Research Support, U.S. Gov't, Non-P.H.S. DEP - 20170403 PL - England TA - G3 (Bethesda) JT - G3 (Bethesda, Md.) JID - 101566598 RN - 0 (Plant Proteins) RN - 57-50-1 (Sucrose) RN - 8001-22-7 (Soybean Oil) SB - IM MH - Chromosome Mapping MH - Chromosomes, Plant/*genetics MH - Genes, Plant MH - Heterozygote MH - Homozygote MH - Mutation/genetics MH - Phenotype MH - Plant Proteins/*genetics MH - Reproducibility of Results MH - Seeds/*genetics MH - *Sequence Homology, Nucleic Acid MH - Soybean Oil/*metabolism MH - Glycine max/*genetics MH - Sucrose/*metabolism MH - *Translocation, Genetic PMC - PMC5386870 OTO - NOTNLM OT - fast neutron OT - oil OT - soybean OT - sucrose OT - translocation EDAT- 2017/02/27 06:00 MHDA- 2018/07/11 06:00 PMCR- 2017/02/22 CRDT- 2017/02/26 06:00 PHST- 2017/02/27 06:00 [pubmed] PHST- 2018/07/11 06:00 [medline] PHST- 2017/02/26 06:00 [entrez] PHST- 2017/02/22 00:00 [pmc-release] AID - g3.116.038596 [pii] AID - GGG_038596 [pii] AID - 10.1534/g3.116.038596 [doi] PST - epublish SO - G3 (Bethesda). 2017 Apr 3;7(4):1215-1223. doi: 10.1534/g3.116.038596. ##### PUB RECORD ##### ## 10.1186/s12870-014-0263-x 25287450 Hu, Jin et al., 2014 "Hu Q, Jin Y, Shi H, Yang W. GmFLD, a soybean homolog of the autonomous pathway gene FLOWERING LOCUS D, promotes flowering in Arabidopsis thaliana. BMC Plant Biol. 2014 Oct 7;14:263. doi: 10.1186/s12870-014-0263-x. PMID: 25287450; PMCID: PMC4190295." ## PMID- 25287450 OWN - NLM STAT- MEDLINE DCOM- 20150708 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 14 DP - 2014 Oct 7 TI - GmFLD, a soybean homolog of the autonomous pathway gene FLOWERING LOCUS D, promotes flowering in Arabidopsis thaliana. PG - 263 LID - 10.1186/s12870-014-0263-x [doi] LID - 263 AB - BACKGROUND: Flowering at an appropriate time is crucial for seed maturity and reproductive success in all flowering plants. Soybean (Glycine max) is a typical short day plant, and both photoperiod and autonomous pathway genes exist in soybean genome. However, little is known about the functions of soybean autonomous pathway genes. In this article, we examined the functions of a soybean homolog of the autonomous pathway gene FLOWERING LOCUS D (FLD), GmFLD in the flowering transition of A. thaliana. RESULTS: In soybean, GmFLD is highly expressed in expanded cotyledons of seedlings, roots, and young pods. However, the expression levels are low in leaves and shoot apexes. Expression of GmFLD in A. thaliana (Col) resulted in early flowering of the transgenic plants, and rescued the late flowering phenotype of the A. thaliana fld mutant. In GmFLD transgenic plants (Col or fld background), the FLC (FLOWERING LOCUS C) transcript levels decreased whereas the floral integrators, FT and SOC1, were up-regulated when compared with the corresponding non-transgenic genotypes. Furthermore, chromatin immuno-precipitation analysis showed that in the transgenic rescued lines (fld background), the levels of both tri-methylation of histone H3 Lys-4 and acetylation of H4 decreased significantly around the transcriptional start site of FLC. This is consistent with the function of GmFLD as a histone demethylase. CONCLUSIONS: Our results suggest that GmFLD is a functional ortholog of the Arabidopsis FLD and may play an important role in the regulation of chromatin state in soybean. The present data provides the first evidence for the evolutionary conservation of the components in the autonomous pathway in soybean. FAU - Hu, Qin AU - Hu Q FAU - Jin, Ye AU - Jin Y FAU - Shi, Huazhong AU - Shi H FAU - Yang, Wannian AU - Yang W AD - Hubei Key Laboratory of Genetic Regulation and Integrative Biology, School of Life Sciences, Central China Normal University, Wuhan 430079, People's Republic of China. yangwn@mail.ccnu.edu.cn. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20141007 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (Arabidopsis Proteins) SB - IM MH - Arabidopsis/*genetics/*metabolism MH - Arabidopsis Proteins/genetics/metabolism MH - Flowers/*genetics/*metabolism MH - Gene Expression Regulation, Plant MH - Plant Leaves/genetics/metabolism/physiology MH - Plants, Genetically Modified/genetics/metabolism MH - Glycine max/*genetics/metabolism PMC - PMC4190295 EDAT- 2014/10/08 06:00 MHDA- 2015/07/15 06:00 PMCR- 2014/10/07 CRDT- 2014/10/08 06:00 PHST- 2014/07/21 00:00 [received] PHST- 2014/09/25 00:00 [accepted] PHST- 2014/10/08 06:00 [entrez] PHST- 2014/10/08 06:00 [pubmed] PHST- 2015/07/15 06:00 [medline] PHST- 2014/10/07 00:00 [pmc-release] AID - s12870-014-0263-x [pii] AID - 263 [pii] AID - 10.1186/s12870-014-0263-x [doi] PST - epublish SO - BMC Plant Biol. 2014 Oct 7;14:263. doi: 10.1186/s12870-014-0263-x. ##### PUB RECORD ##### ## 10.1007/s00299-013-1419-0 23636663 Na, Jian et al., 2013 "Na X, Jian B, Yao W, Wu C, Hou W, Jiang B, Bi Y, Han T. Cloning and functional analysis of the flowering gene GmSOC1-like, a putative SUPPRESSOR OF OVEREXPRESSION CO1/AGAMOUS-LIKE 20 (SOC1/AGL20) ortholog in soybean. Plant Cell Rep. 2013 Aug;32(8):1219-29. doi: 10.1007/s00299-013-1419-0. Epub 2013 May 1. PMID: 23636663." ## PMID- 23636663 OWN - NLM STAT- MEDLINE DCOM- 20140205 LR - 20231213 IS - 1432-203X (Electronic) IS - 0721-7714 (Linking) VI - 32 IP - 8 DP - 2013 Aug TI - Cloning and functional analysis of the flowering gene GmSOC1-like, a putative SUPPRESSOR OF OVEREXPRESSION CO1/AGAMOUS-LIKE 20 (SOC1/AGL20) ortholog in soybean. PG - 1219-29 LID - 10.1007/s00299-013-1419-0 [doi] AB - The major insight in this manuscript is that we identified a new flowering regulator, GmSOC1-like, which may participate in the initiation and maintenance of flowering in soybean. Flowering is pivotal for the reproductive behavior of plants, and it is regulated by complex and coordinated genetic networks that are fine-tuned by endogenous cues and environmental signals. To better understand the molecular basis of flowering regulation in soybean, we isolated GmSOC1 and GmSOC1-like, two putative soybean orthologs for the Arabidopsis SUPPRESSOR OF OVEREXPRESSION OF CO1/AGAMOUS-LIKE 20 (SOC1/AGL20). The expression pattern of GmSOC1-like was analyzed by qRT-PCR in Zigongdongdou, a photoperiod-sensitive soybean cultivar. GmSOC1-like was widely expressed at different levels in most organs of the soybean, with the highest expression in the shoot apex during the early stage of floral transition. In addition, its expression showed a circadian rhythm pattern, with the highest expression at midnight under short-day (SD) condition. Intriguingly, GmSOC1-like was induced 4 days earlier than GmSOC1 during flowering transition in SD, suggesting that GmSOC1 and GmSOC1-like expression might be differentially regulated. However, under long-day (LD) condition, the expression of GmSOC1 and GmSOC1-like decreased gradually in the shoot apex of Zigongdongdou, which is in accordance with the fact that Zigongdongdou maintains vegetative growth in LD. In addition, overexpression of GmSOC1-like stimulated the flowering of Lotus corniculatus cv. supperroot plants. In conclusion, the results of this study indicate that GmSOC1-like may act as a flowering inducer in soybean. FAU - Na, Xiaofan AU - Na X AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Jian, Bo AU - Jian B FAU - Yao, Weiwei AU - Yao W FAU - Wu, Cunxiang AU - Wu C FAU - Hou, Wensheng AU - Hou W FAU - Jiang, Bingjun AU - Jiang B FAU - Bi, Yurong AU - Bi Y FAU - Han, Tianfu AU - Han T LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20130501 PL - Germany TA - Plant Cell Rep JT - Plant cell reports JID - 9880970 RN - 0 (MADS Domain Proteins) RN - 0 (Plant Proteins) SB - IM MH - Amino Acid Sequence MH - Base Sequence MH - Circadian Rhythm/genetics MH - Cloning, Molecular MH - Flowers/*genetics/*physiology MH - Gene Expression Profiling MH - Gene Expression Regulation, Developmental MH - Gene Expression Regulation, Plant MH - Genes, Plant/*genetics MH - MADS Domain Proteins/chemistry/genetics/metabolism MH - Models, Molecular MH - Molecular Sequence Data MH - Photoperiod MH - Plant Proteins/chemistry/*genetics/metabolism MH - Plant Shoots/genetics/growth & development MH - Plants, Genetically Modified MH - Protein Transport MH - *Sequence Homology, Amino Acid MH - Glycine max/*genetics/growth & development MH - Subcellular Fractions/metabolism EDAT- 2013/05/03 06:00 MHDA- 2014/02/06 06:00 CRDT- 2013/05/03 06:00 PHST- 2013/01/17 00:00 [received] PHST- 2013/03/06 00:00 [accepted] PHST- 2013/03/05 00:00 [revised] PHST- 2013/05/03 06:00 [entrez] PHST- 2013/05/03 06:00 [pubmed] PHST- 2014/02/06 06:00 [medline] AID - 10.1007/s00299-013-1419-0 [doi] PST - ppublish SO - Plant Cell Rep. 2013 Aug;32(8):1219-29. doi: 10.1007/s00299-013-1419-0. Epub 2013 May 1. ##### PUB RECORD ##### ## 10.1111/pce.13678 31724182 Wang, Yuan, et. al., 2019 "Wang Y, Yuan L, Su T, Wang Q, Gao Y, Zhang S, Jia Q, Yu G, Fu Y, Cheng Q, Liu B, Kong F, Zhang X, Song CP, Xu X, Xie Q. Light- and temperature-entrainable circadian clock in soybean development. Plant Cell Environ. 2020 Mar;43(3):637-648. doi: 10.1111/pce.13678. Epub 2019 Dec 1. PMID: 31724182." ## PMID- 31724182 OWN - NLM STAT- MEDLINE DCOM- 20201230 LR - 20231213 IS - 1365-3040 (Electronic) IS - 0140-7791 (Linking) VI - 43 IP - 3 DP - 2020 Mar TI - Light- and temperature-entrainable circadian clock in soybean development. PG - 637-648 LID - 10.1111/pce.13678 [doi] AB - In plants, the spatiotemporal expression of circadian oscillators provides adaptive advantages in diverse species. However, the molecular basis of circadian clock in soybean is not known. In this study, we used soybean hairy roots expression system to monitor endogenous circadian rhythms and the sensitivity of circadian clock to environmental stimuli. We discovered in experiments with constant light and temperature conditions that the promoters of clock genes GmLCLb2 and GmPRR9b1 drive a self-sustained, robust oscillation of about 24-h in soybean hairy roots. Moreover, we demonstrate that circadian clock is entrainable by ambient light/dark or temperature cycles. Specifically, we show that light and cold temperature pulses can induce phase shifts of circadian rhythm, and we found that the magnitude and direction of phase responses depends on the specific time of these two zeitgeber stimuli. We obtained a quadruple mutant lacking the soybean gene GmLCLa1, LCLa2, LCLb1, and LCLb2 using CRISPR, and found that loss-of-function of these four GmLCL orthologs leads to an extreme short-period circadian rhythm and late-flowering phenotype in transgenic soybean. Our study establishes that the morning-phased GmLCLs genes act constitutively to maintain circadian rhythmicity and demonstrates that their absence delays the transition from vegetative growth to reproductive development. CI - (c) 2019 John Wiley & Sons Ltd. FAU - Wang, Yu AU - Wang Y AD - Key Laboratory of Molecular and Cell Biology, College of Life Sciences, Hebei Normal University, Shijiazhuang, China. FAU - Yuan, Li AU - Yuan L AD - Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, China. FAU - Su, Tong AU - Su T AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Wang, Qiao AU - Wang Q AD - Key Laboratory of Molecular and Cell Biology, College of Life Sciences, Hebei Normal University, Shijiazhuang, China. FAU - Gao, Ya AU - Gao Y AD - Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, China. FAU - Zhang, Siyuan AU - Zhang S AD - Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, China. FAU - Jia, Qian AU - Jia Q AD - Key Laboratory of Molecular and Cell Biology, College of Life Sciences, Hebei Normal University, Shijiazhuang, China. FAU - Yu, Guolong AU - Yu G AD - MOA Key Lab of Soybean Biology, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Fu, Yongfu AU - Fu Y AUID- ORCID: 0000-0002-1486-0146 AD - MOA Key Lab of Soybean Biology, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Cheng, Qun AU - Cheng Q AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Liu, Baohui AU - Liu B AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Kong, Fanjiang AU - Kong F AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Zhang, Xiao AU - Zhang X AD - Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, China. FAU - Song, Chun-Peng AU - Song CP AUID- ORCID: 0000-0001-8774-4309 AD - Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, China. FAU - Xu, Xiaodong AU - Xu X AUID- ORCID: 0000-0002-8795-7651 AD - Key Laboratory of Molecular and Cell Biology, College of Life Sciences, Hebei Normal University, Shijiazhuang, China. AD - Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, China. FAU - Xie, Qiguang AU - Xie Q AD - Key Laboratory of Molecular and Cell Biology, College of Life Sciences, Hebei Normal University, Shijiazhuang, China. AD - Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20191201 PL - United States TA - Plant Cell Environ JT - Plant, cell & environment JID - 9309004 SB - IM MH - Circadian Clocks/genetics/*radiation effects MH - Gene Expression Regulation, Plant/radiation effects MH - *Light MH - Models, Biological MH - Phenotype MH - Photoperiod MH - Plant Roots/genetics/radiation effects MH - Plants, Genetically Modified MH - Glycine max/genetics/*physiology/*radiation effects MH - *Temperature OTO - NOTNLM OT - Circadian clock OT - Flowering time OT - GmLCLs OT - Hairy roots OT - Transgenic Soybean EDAT- 2019/11/15 06:00 MHDA- 2020/12/31 06:00 CRDT- 2019/11/15 06:00 PHST- 2019/03/19 00:00 [received] PHST- 2019/10/13 00:00 [revised] PHST- 2019/11/08 00:00 [accepted] PHST- 2019/11/15 06:00 [pubmed] PHST- 2020/12/31 06:00 [medline] PHST- 2019/11/15 06:00 [entrez] AID - 10.1111/pce.13678 [doi] PST - ppublish SO - Plant Cell Environ. 2020 Mar;43(3):637-648. doi: 10.1111/pce.13678. Epub 2019 Dec 1. ##### PUB RECORD ##### ## 10.1093/jxb/erw425 28204559 Tang, Su et al., 2017 "Tang X, Su T, Han M, Wei L, Wang W, Yu Z, Xue Y, Wei H, Du Y, Greiner S, Rausch T, Liu L. Suppression of extracellular invertase inhibitor gene expression improves seed weight in soybean (Glycine max). J Exp Bot. 2017 Jan 1;68(3):469-482. doi: 10.1093/jxb/erw425. PMID: 28204559; PMCID: PMC5441900." ## PMID- 28204559 OWN - NLM STAT- MEDLINE DCOM- 20180710 LR - 20231213 IS - 1460-2431 (Electronic) IS - 0022-0957 (Print) IS - 0022-0957 (Linking) VI - 68 IP - 3 DP - 2017 Jan 1 TI - Suppression of extracellular invertase inhibitor gene expression improves seed weight in soybean (Glycine max). PG - 469-482 LID - 10.1093/jxb/erw425 [doi] AB - Cell wall invertase (CWI) and vacuolar invertase (VI) play multiple functions in plant growth. As well as depending on transcriptional and post-transcriptional regulation, there is growing evidence that CWI and VI are also subject to post-translational control by small inhibitory proteins. Despite the significance of this, genes encoding inhibitors, their molecular and biochemical properties, and their potential roles in regulating seed production have not been well documented in soybean (Glycine max). In this study, two invertase inhibitor isoforms, GmCIF1 and GmC/VIF2, were characterized to possess inhibitory activities in vitro via heterologous expression. Transcript analyses showed that they were predominantly expressed in developing seeds and in response to ABA. In accordance with this, surveys of primary targets showed subcellular localizations to the apoplast in tobacco epidermis after expressing YFP-fusion constructs. Investigations using RNAi transgenic plants demonstrated marked elevations of CWI activities and improvements in seed weight in conjunction with higher accumulations of hexoses, starch, and protein in mature seeds. Further co-expression analyses of GmCIF1 with several putative CWI genes corroborated the notion that GmCIF1 modulation of CWI that affects seed weight is mainly contingent on post-translational mechanisms. Overall, the results suggest that post-translational elevation of CWI by silencing of GmCIF1 expression orchestrates the process of seed maturation through fine-tuning sucrose metabolism and sink strength. FAU - Tang, Xiaofei AU - Tang X AD - Soybean Research Institute, Academy of Agricultural Sciences, Harbin, China. AD - Plant Molecular Physiology, Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld, Heidelberg, Germany. FAU - Su, Tao AU - Su T AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and Environment, Nanjing Forestry University, Nanjing, China. AD - Plant Molecular Physiology, Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld, Heidelberg, Germany. FAU - Han, Mei AU - Han M AD - Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and Environment, Nanjing Forestry University, Nanjing, China. FAU - Wei, Lai AU - Wei L AD - Soybean Research Institute, Academy of Agricultural Sciences, Harbin, China. FAU - Wang, Weiwei AU - Wang W AD - Soybean Research Institute, Academy of Agricultural Sciences, Harbin, China. FAU - Yu, Zhiyuan AU - Yu Z AD - Soybean Research Institute, Academy of Agricultural Sciences, Harbin, China. FAU - Xue, Yongguo AU - Xue Y AD - Soybean Research Institute, Academy of Agricultural Sciences, Harbin, China. FAU - Wei, Hongbin AU - Wei H AD - Plant Molecular Physiology, Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld, Heidelberg, Germany. FAU - Du, Yejie AU - Du Y AD - Plant Molecular Physiology, Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld, Heidelberg, Germany. FAU - Greiner, Steffen AU - Greiner S AD - Plant Molecular Physiology, Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld, Heidelberg, Germany. FAU - Rausch, Thomas AU - Rausch T AD - Plant Molecular Physiology, Centre for Organismal Studies (COS), Heidelberg University, Im Neuenheimer Feld, Heidelberg, Germany. FAU - Liu, Lijun AU - Liu L AD - Soybean Research Institute, Academy of Agricultural Sciences, Harbin, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PL - England TA - J Exp Bot JT - Journal of experimental botany JID - 9882906 RN - 0 (Plant Proteins) RN - EC 3.2.1.26 (beta-Fructofuranosidase) SB - IM MH - Amino Acid Sequence MH - *Gene Expression Regulation, Plant MH - Plant Proteins/chemistry/*genetics/metabolism MH - Seeds/*physiology MH - Sequence Alignment MH - Glycine max/genetics/*physiology MH - beta-Fructofuranosidase/chemistry/*genetics/metabolism PMC - PMC5441900 OTO - NOTNLM OT - Cell wall invertase OT - Glycine max OT - invertase inhibitor OT - post-translational regulation OT - seed weight OT - source and sink EDAT- 2017/02/17 06:00 MHDA- 2018/07/11 06:00 PMCR- 2016/12/07 CRDT- 2017/02/17 06:00 PHST- 2017/02/17 06:00 [entrez] PHST- 2017/02/17 06:00 [pubmed] PHST- 2018/07/11 06:00 [medline] PHST- 2016/12/07 00:00 [pmc-release] AID - 2645555 [pii] AID - erw425 [pii] AID - 10.1093/jxb/erw425 [doi] PST - ppublish SO - J Exp Bot. 2017 Jan 1;68(3):469-482. doi: 10.1093/jxb/erw425. ##### PUB RECORD ##### ## 10.1007/s00122-021-03917-9 34319424 Zhou, Lakhssassi et. al., 2021 "Zhou Z, Lakhssassi N, Knizia D, Cullen MA, El Baz A, Embaby MG, Liu S, Badad O, Vuong TD, AbuGhazaleh A, Nguyen HT, Meksem K. Genome-wide identification and analysis of soybean acyl-ACP thioesterase gene family reveals the role of GmFAT to improve fatty acid composition in soybean seed. Theor Appl Genet. 2021 Nov;134(11):3611-3623. doi: 10.1007/s00122-021-03917-9. Epub 2021 Jul 28. PMID: 34319424." ## PMID- 34319424 OWN - NLM STAT- MEDLINE DCOM- 20211028 LR - 20231213 IS - 1432-2242 (Electronic) IS - 0040-5752 (Linking) VI - 134 IP - 11 DP - 2021 Nov TI - Genome-wide identification and analysis of soybean acyl-ACP thioesterase gene family reveals the role of GmFAT to improve fatty acid composition in soybean seed. PG - 3611-3623 LID - 10.1007/s00122-021-03917-9 [doi] AB - Soybean acyl-ACP thioesterase gene family have been characterized; GmFATA1A mutants were discovered to confer high oleic acid, while GmFATB mutants presented low palmitic and high oleic acid seed content. Soybean oil stability and quality are primarily determined by the relative proportions of saturated versus unsaturated fatty acids. Commodity soybean typically contains 11% palmitic acid, as the primary saturated fatty acids. Reducing palmitic acid content is the principal approach to minimize the levels of saturated fatty acids in soybean. Though high palmitic acid enhances oxidative stability of soybean oil, it is negatively correlated with oil and oleic acid content and can cause coronary heart diseases for humans. For plants, acyl-acyl carrier protein (ACP) thioesterases (TEs) are a group of enzymes to hydrolyze acyl group and release free fatty acid from plastid. Among them, GmFATB1A has become the main target to genetically reduce the palmitic acid content in soybean. However, the role of members in soybean acyl-ACP thioesterase gene family is largely unknown. In this study, we characterized two classes of TEs, GmFATA, and GmFATB in soybean. We also denominated two GmFATA members and discovered six additional members that belong to GmFATB gene family through phylogenetic, syntenic, and in silico analysis. Using TILLING-by-Sequencing(+), we identified an allelic series of mutations in five soybean acyl-ACP thioesterase genes, including GmFATA1A, GmFATB1A, GmFATB1B, GmFATB2A, and GmFATB2B. Additionally, we discovered mutations at GmFATA1A to confer high oleic acid (up to 34.5%) content, while mutations at GmFATB presented low palmitic acid (as low as 5.6%) and high oleic acid (up to 36.5%) phenotypes. The obtained soybean mutants with altered fatty acid content can be used in soybean breeding program for improving soybean oil composition traits. CI - (c) 2021. The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature. FAU - Zhou, Zhou AU - Zhou Z AD - Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA. AD - Plant Science Department, McGill University, Montreal, QC, H9X 3V9, Canada. FAU - Lakhssassi, Naoufal AU - Lakhssassi N AD - Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA. FAU - Knizia, Dounya AU - Knizia D AD - Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA. FAU - Cullen, Mallory A AU - Cullen MA AD - Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA. FAU - El Baz, Abdelhalim AU - El Baz A AD - Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA. FAU - Embaby, Mohamed G AU - Embaby MG AD - Department of Animal Science, Food, and Nutrition, Southern Illinois University, Carbondale, IL, 62901, USA. FAU - Liu, Shiming AU - Liu S AD - Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA. FAU - Badad, Oussama AU - Badad O AD - Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA. FAU - Vuong, Tri D AU - Vuong TD AD - Division of Plant Sciences, University of Missouri, Columbia, MO, 65211, USA. FAU - AbuGhazaleh, Amer AU - AbuGhazaleh A AD - Department of Animal Science, Food, and Nutrition, Southern Illinois University, Carbondale, IL, 62901, USA. FAU - Nguyen, Henry T AU - Nguyen HT AD - Division of Plant Sciences, University of Missouri, Columbia, MO, 65211, USA. FAU - Meksem, Khalid AU - Meksem K AUID- ORCID: 0000-0002-9469-9718 AD - Department of Plant, Soil, and Agricultural Systems, Southern Illinois University, Carbondale, IL, 62901, USA. meksem@siu.edu. LA - eng GR - USB-2020-162-0127/United Soybean Board/ PT - Journal Article DEP - 20210728 PL - Germany TA - Theor Appl Genet JT - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik JID - 0145600 RN - 0 (Fatty Acids) RN - 0 (Plant Proteins) RN - 2UMI9U37CP (Oleic Acid) RN - 2V16EO95H1 (Palmitic Acid) RN - 8001-22-7 (Soybean Oil) RN - EC 3.1.2.- (Thiolester Hydrolases) RN - EC 3.1.2.14 (oleoyl-(acyl-carrier-protein) hydrolase) SB - IM MH - Fatty Acids/*chemistry MH - Multigene Family MH - Oleic Acid MH - Palmitic Acid MH - Phylogeny MH - Plant Breeding MH - Plant Proteins/*genetics MH - Seeds/chemistry MH - Soybean Oil/*chemistry MH - Glycine max/enzymology/*genetics MH - Thiolester Hydrolases/*genetics OTO - NOTNLM OT - Acyl-ACP thioesterase gene family OT - EMS mutagenesis OT - FATA OT - FATB OT - Glycine max OT - Oleic acid OT - Palmitic acid OT - TILLING-by-sequencing+ EDAT- 2021/07/29 06:00 MHDA- 2021/10/29 06:00 CRDT- 2021/07/28 12:50 PHST- 2021/04/12 00:00 [received] PHST- 2021/07/13 00:00 [accepted] PHST- 2021/07/29 06:00 [pubmed] PHST- 2021/10/29 06:00 [medline] PHST- 2021/07/28 12:50 [entrez] AID - 10.1007/s00122-021-03917-9 [pii] AID - 10.1007/s00122-021-03917-9 [doi] PST - ppublish SO - Theor Appl Genet. 2021 Nov;134(11):3611-3623. doi: 10.1007/s00122-021-03917-9. Epub 2021 Jul 28. ##### PUB RECORD ##### ## 10.1186/s12870-018-1551-7 30509166 Du, Zhao et al., 2018 "Du YT, Zhao MJ, Wang CT, Gao Y, Wang YX, Liu YW, Chen M, Chen J, Zhou YB, Xu ZS, Ma YZ. Identification and characterization of GmMYB118 responses to drought and salt stress. BMC Plant Biol. 2018 Dec 3;18(1):320. doi: 10.1186/s12870-018-1551-7. PMID: 30509166; PMCID: PMC6276260." ## PMID- 30509166 OWN - NLM STAT- MEDLINE DCOM- 20190117 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 18 IP - 1 DP - 2018 Dec 3 TI - Identification and characterization of GmMYB118 responses to drought and salt stress. PG - 320 LID - 10.1186/s12870-018-1551-7 [doi] LID - 320 AB - BACKGROUND: Abiotic stress severely influences plant growth and development. MYB transcription factors (TFs), which compose one of the largest TF families, play an important role in abiotic stress responses. RESULT: We identified 139 soybean MYB-related genes; these genes were divided into six groups based on their conserved domain and were distributed among 20 chromosomes (Chrs). Quantitative real-time PCR (qRT-PCR) indicated that GmMYB118 highly responsive to drought, salt and high temperature stress; thus, this gene was selected for further analysis. Subcellular localization revealed that the GmMYB118 protein located in the nucleus. Ectopic expression (EX) of GmMYB118 increased tolerance to drought and salt stress and regulated the expression of several stress-associated genes in transgenic Arabidopsis plants. Similarly, GmMYB118-overexpressing (OE) soybean plants generated via Agrobacterium rhizogenes (A. rhizogenes)-mediated transformation of the hairy roots showed improved drought and salt tolerance. Furthermore, compared with the control (CK) plants, the clustered, regularly interspaced, short palindromic repeat (CRISPR)-transformed plants exhibited reduced drought and salt tolerance. The contents of proline and chlorophyll in the OE plants were significantly greater than those in the CK plants, whose contents were greater than those in the CRISPR plants under drought and salt stress conditions. In contrast, the reactive oxygen species (ROS) and malondialdehyde (MDA) contents were significantly lower in the OE plants than in the CK plants, whose contents were lower than those in the CRISPR plants under stress conditions. CONCLUSIONS: These results indicated that GmMYB118 could improve tolerance to drought and salt stress by promoting expression of stress-associated genes and regulating osmotic and oxidizing substances to maintain cell homeostasis. FAU - Du, Yong-Tao AU - Du YT AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing, 100081, China. FAU - Zhao, Meng-Jie AU - Zhao MJ AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing, 100081, China. FAU - Wang, Chang-Tao AU - Wang CT AD - Beijing Advanced Innovation Center for Food Nutrition and Human Health/Beijing Key Lab of Plant Resource Research and Development, Beijing Technology and Business University, Beijing, 100048, China. FAU - Gao, Yuan AU - Gao Y AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing, 100081, China. FAU - Wang, Yan-Xia AU - Wang YX AD - Shijiazhuang Academy of Agricultural and Forestry Sciences, Research Center of Wheat Engineering Technology of Hebei, Shijiazhuang, 050041, Hebei, China. FAU - Liu, Yong-Wei AU - Liu YW AD - Institute of Genetics and Physiology, Hebei Academy of Agriculture and Forestry Sciences/Plant Genetic Engineering Center of Hebei Province, Shijiazhuang, 050051, Hebei, China. FAU - Chen, Ming AU - Chen M AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing, 100081, China. FAU - Chen, Jun AU - Chen J AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing, 100081, China. FAU - Zhou, Yong-Bin AU - Zhou YB AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing, 100081, China. FAU - Xu, Zhao-Shi AU - Xu ZS AUID- ORCID: 0000-0001-8028-6413 AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing, 100081, China. xuzhaoshi@caas.cn. FAU - Ma, You-Zhi AU - Ma YZ AD - Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS)/National Key Facility for Crop Gene Resources and Genetic Improvement, Key Laboratory of Biology and Genetic Improvement of Triticeae Crops, Ministry of Agriculture, Beijing, 100081, China. LA - eng GR - 2018ZX0800909B/National Transgenic Key Project of the Ministry of Agriculture of China/ GR - 1639630D/Introduction of Wheat Germplasm with Fusarium Crown Rot Resistance and Molecular Marker-Assisted Breeding/ PT - Journal Article DEP - 20181203 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (Plant Proteins) RN - 0 (Transcription Factors) SB - IM MH - Agrobacterium/metabolism MH - Arabidopsis/metabolism/physiology MH - Dehydration MH - Gene Expression Regulation, Plant MH - Genes, Plant/genetics MH - Phylogeny MH - Plant Proteins/genetics/*metabolism/physiology MH - Plant Roots/microbiology MH - Plants, Genetically Modified MH - Real-Time Polymerase Chain Reaction MH - Salt Stress MH - Glycine max/genetics/metabolism/physiology MH - Transcription Factors/genetics/*metabolism/physiology PMC - PMC6276260 OTO - NOTNLM OT - CRISPR OT - Drought tolerance OT - Genome-wide analysis OT - MYB transcription factor OT - Salt tolerance OT - Soybean COIS- ETHICS APPROVAL AND CONSENT TO PARTICIPATE: Not applicable. CONSENT FOR PUBLICATION: Not applicable. COMPETING INTERESTS: The authors declare that they have no competing interests. PUBLISHER'S NOTE: Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations. EDAT- 2018/12/05 06:00 MHDA- 2019/01/18 06:00 PMCR- 2018/12/03 CRDT- 2018/12/05 06:00 PHST- 2018/08/22 00:00 [received] PHST- 2018/11/21 00:00 [accepted] PHST- 2018/12/05 06:00 [entrez] PHST- 2018/12/05 06:00 [pubmed] PHST- 2019/01/18 06:00 [medline] PHST- 2018/12/03 00:00 [pmc-release] AID - 10.1186/s12870-018-1551-7 [pii] AID - 1551 [pii] AID - 10.1186/s12870-018-1551-7 [doi] PST - epublish SO - BMC Plant Biol. 2018 Dec 3;18(1):320. doi: 10.1186/s12870-018-1551-7. ##### PUB RECORD ##### ## 10.1371/journal.pone.0136601 26371882 Guo, Xu et al., 2015 "Guo G, Xu K, Zhang X, Zhu J, Lu M, Chen F, Liu L, Xi ZY, Bachmair A, Chen Q, Fu YF. Extensive Analysis of GmFTL and GmCOL Expression in Northern Soybean Cultivars in Field Conditions. PLoS One. 2015 Sep 15;10(9):e0136601. doi: 10.1371/journal.pone.0136601. PMID: 26371882; PMCID: PMC4570765." ## PMID- 26371882 OWN - NLM STAT- MEDLINE DCOM- 20160519 LR - 20240214 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 10 IP - 9 DP - 2015 TI - Extensive Analysis of GmFTL and GmCOL Expression in Northern Soybean Cultivars in Field Conditions. PG - e0136601 LID - 10.1371/journal.pone.0136601 [doi] LID - e0136601 AB - The FLOWERING LOCUS T (FT) gene is a highly conserved florigen gene among flowering plants. Soybean genome encodes six homologs of FT, which display flowering activity in Arabidopsis thaliana. However, their contributions to flowering time in different soybean cultivars, especially in field conditions, are unclear. We employed six soybean cultivars with different maturities to extensively investigate expression patterns of GmFTLs (Glycine max FT-like) and GmCOLs (Glycine max CO-like) in the field conditions. The results show that GmFTL3 is an FT homolog with the highest transcript abundance in soybean, but other GmFTLs may also contribute to flower induction with different extents, because they have more or less similar expression patterns in developmental-, leaf-, and circadian-specific modes. And four GmCOL genes (GmCOL1/2/5/13) may confer to the expression of GmFTL genes. Artificial manipulation of GmFTL expression by transgenic strategy (overexpression and RNAi) results in a distinct change in soybean flowering time, indicating that GmFTLs not only impact on the control of flowering time, but have potential applications in the manipulation of photoperiodic adaptation in soybean. Additionally, transgenic plants show that GmFTLs play a role in formation of the first flowers and in vegetative growth. FAU - Guo, Guangyu AU - Guo G AD - College of Agriculture, Northeast Agricultural University, Harbin, China. FAU - Xu, Kun AU - Xu K AD - MOA Key Lab of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Haidian District, Beijing, China; Graduate School of Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Zhang, Xiaomei AU - Zhang X AD - MOA Key Lab of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Haidian District, Beijing, China. FAU - Zhu, Jinlong AU - Zhu J AD - MOA Key Lab of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Haidian District, Beijing, China. FAU - Lu, Mingyang AU - Lu M AD - MOA Key Lab of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Haidian District, Beijing, China; Graduate School of Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Chen, Fulu AU - Chen F AD - MOA Key Lab of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Haidian District, Beijing, China. FAU - Liu, Linpo AU - Liu L AD - MOA Key Lab of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Haidian District, Beijing, China. FAU - Xi, Zhang-Ying AU - Xi ZY AD - College of Agronomy, Henan Agricultural University, Zhengzhou, China. FAU - Bachmair, Andreas AU - Bachmair A AD - Dept. of Biochemistry and Cell Biology, Max F. Perutz Laboratories, University of Vienna, Vienna Biocenter, Dr. Bohr Gasse 9, A-1030 Vienna, Austria. FAU - Chen, Qingshan AU - Chen Q AD - College of Agriculture, Northeast Agricultural University, Harbin, China. FAU - Fu, Yong-Fu AU - Fu YF AD - MOA Key Lab of Soybean Biology (Beijing), National Key Facility of Crop Gene Resource and Genetic Improvement, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, 12 Zhongguancun Nandajie, Haidian District, Beijing, China. LA - eng GR - P 25488/FWF_/Austrian Science Fund FWF/Austria PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20150915 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Plant Proteins) RN - 0 (Transcription Factors) SB - IM MH - Arabidopsis/genetics/metabolism MH - Flowers/genetics/*metabolism MH - Gene Expression Regulation, Plant/*physiology MH - Plant Proteins/*biosynthesis/genetics MH - Glycine max/genetics/*metabolism MH - Transcription Factors/genetics/*metabolism PMC - PMC4570765 COIS- Competing Interests: The authors have declared that no competing interests exist. EDAT- 2015/09/16 06:00 MHDA- 2016/05/20 06:00 PMCR- 2015/09/15 CRDT- 2015/09/16 06:00 PHST- 2015/04/28 00:00 [received] PHST- 2015/08/06 00:00 [accepted] PHST- 2015/09/16 06:00 [entrez] PHST- 2015/09/16 06:00 [pubmed] PHST- 2016/05/20 06:00 [medline] PHST- 2015/09/15 00:00 [pmc-release] AID - PONE-D-15-18351 [pii] AID - 10.1371/journal.pone.0136601 [doi] PST - epublish SO - PLoS One. 2015 Sep 15;10(9):e0136601. doi: 10.1371/journal.pone.0136601. eCollection 2015. ##### PUB RECORD ##### ## 10.1111/pbi.13536 33368860 Jin, Sun et al., 2021 "Jin T, Sun Y, Shan Z, He J, Wang N, Gai J, Li Y. Natural variation in the promoter of GsERD15B affects salt tolerance in soybean. Plant Biotechnol J. 2021 Jun;19(6):1155-1169. doi: 10.1111/pbi.13536. Epub 2021 Jan 19. PMID: 33368860; PMCID: PMC8196659." ## PMID- 33368860 OWN - NLM STAT- MEDLINE DCOM- 20210628 LR - 20231213 IS - 1467-7652 (Electronic) IS - 1467-7644 (Print) IS - 1467-7644 (Linking) VI - 19 IP - 6 DP - 2021 Jun TI - Natural variation in the promoter of GsERD15B affects salt tolerance in soybean. PG - 1155-1169 LID - 10.1111/pbi.13536 [doi] AB - Salt stress has detrimental effects on crop growth and yield, and the area of salt-affected land is increasing. Soybean is a major source of vegetable protein, oil and feed, but considered as a salt-sensitive crop. Cultivated soybean (Glycine max) is domesticated from wild soybean (G. soja) but lost considerable amount of genetic diversity during the artificial selection. Therefore, it is important to exploit the gene pool of wild soybean. In this study, we identified 34 salt-tolerant accessions from wild soybean germplasm and found that a 7-bp insertion/deletion (InDel) in the promoter of GsERD15B (early responsive to dehydration 15B) significantly affects the salt tolerance of soybean. GsERD15B encodes a protein with transcriptional activation function and contains a PAM2 domain to mediate its interaction with poly(A)-binding (PAB) proteins. The 7-bp deletion in GsERD15B promoter enhanced the salt tolerance of soybean, with increased up-regulation of GsERD15B, two GmPAB genes, the known stress-related genes including GmABI1, GmABI2, GmbZIP1, GmP5CS, GmCAT4, GmPIP1:6, GmMYB84 and GmSOS1 in response to salt stress. We propose that natural variation in GsERD15B promoter affects soybean salt tolerance, and overexpression of GsERD15B enhanced salt tolerance probably by increasing the expression levels of genes related to ABA-signalling, proline content, catalase peroxidase, dehydration response and cation transport. CI - (c) 2020 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd. FAU - Jin, Ting AU - Jin T AD - National Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China. FAU - Sun, Yangyang AU - Sun Y AD - National Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China. FAU - Shan, Zhong AU - Shan Z AD - National Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China. FAU - He, Jianbo AU - He J AD - National Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China. FAU - Wang, Ning AU - Wang N AD - National Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China. FAU - Gai, Junyi AU - Gai J AD - National Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China. FAU - Li, Yan AU - Li Y AUID- ORCID: 0000-0002-1627-7763 AD - National Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Key Laboratory for Biology and Genetic Improvement of Soybean (General, Ministry of Agriculture), Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20210119 PL - England TA - Plant Biotechnol J JT - Plant biotechnology journal JID - 101201889 SB - IM MH - *Fabaceae MH - Gene Expression Regulation, Plant/genetics MH - Plants, Genetically Modified/genetics MH - Promoter Regions, Genetic/genetics MH - Salt Tolerance/genetics MH - *Glycine max/genetics PMC - PMC8196659 OTO - NOTNLM OT - GsERD15B OT - GWAS OT - InDel OT - haplotype OT - salt stress OT - soybean COIS- The authors have patents pending related to this work. EDAT- 2020/12/29 06:00 MHDA- 2021/06/29 06:00 PMCR- 2021/01/19 CRDT- 2020/12/28 12:36 PHST- 2020/12/11 00:00 [revised] PHST- 2019/10/09 00:00 [received] PHST- 2020/12/16 00:00 [accepted] PHST- 2020/12/29 06:00 [pubmed] PHST- 2021/06/29 06:00 [medline] PHST- 2020/12/28 12:36 [entrez] PHST- 2021/01/19 00:00 [pmc-release] AID - PBI13536 [pii] AID - 10.1111/pbi.13536 [doi] PST - ppublish SO - Plant Biotechnol J. 2021 Jun;19(6):1155-1169. doi: 10.1111/pbi.13536. Epub 2021 Jan 19. ##### PUB RECORD ##### ## 10.3390/ijms22083877 33918544 Ma, Sun et. al., 2021 "Ma J, Sun S, Whelan J, Shou H. CRISPR/Cas9-Mediated Knockout of GmFATB1 Significantly Reduced the Amount of Saturated Fatty Acids in Soybean Seeds. Int J Mol Sci. 2021 Apr 9;22(8):3877. doi: 10.3390/ijms22083877. PMID: 33918544; PMCID: PMC8069101." ## PMID- 33918544 OWN - NLM STAT- MEDLINE DCOM- 20210525 LR - 20240401 IS - 1422-0067 (Electronic) IS - 1422-0067 (Linking) VI - 22 IP - 8 DP - 2021 Apr 9 TI - CRISPR/Cas9-Mediated Knockout of GmFATB1 Significantly Reduced the Amount of Saturated Fatty Acids in Soybean Seeds. LID - 10.3390/ijms22083877 [doi] LID - 3877 AB - Soybean (Glycine max) oil is one of the most widely used vegetable oils across the world. Breeding of soybean to reduce the saturated fatty acid (FA) content, which is linked to cardiovascular disease, would be of great significance for nutritional improvement. Acyl-acyl carrier protein thioesterases (FATs) can release free FAs and acyl-ACP, which ultimately affects the FA profile. In this study, we identified a pair of soybean FATB coding genes, GmFATB1a and GmFATB1b. Mutants that knock out either or both of the GmFATB1 genes were obtained via CRISPR/Cas9. Single mutants, fatb1a and fatb1b, showed a decrease in leaf palmitic and stearic acid contents, ranging from 11% to 21%. The double mutant, fatb1a:1b, had a 42% and 35% decrease in palmitic and stearic acid content, displayed growth defects, and were male sterility. Analysis of the seed oil profile revealed that fatb1a and fatb1b had significant lower palmitic and stearic acid contents, 39-53% and 17-37%, respectively, while that of the unsaturated FAs were the same. The relative content of the beneficial FA, linoleic acid, was increased by 1.3-3.6%. The oil profile changes in these mutants were confirmed for four generations. Overall, our data illustrate that GmFATB1 knockout mutants have great potential in improving the soybean oil quality for human health. FAU - Ma, Jing AU - Ma J AUID- ORCID: 0000-0002-5033-9286 AD - State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China. AD - The Provincial International Science and Technology Cooperation Base on Engineering Biology, International Campus of Zhejiang University, Haining 314400, China. FAU - Sun, Shuo AU - Sun S AUID- ORCID: 0000-0003-3812-583X AD - State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China. AD - The Provincial International Science and Technology Cooperation Base on Engineering Biology, International Campus of Zhejiang University, Haining 314400, China. FAU - Whelan, James AU - Whelan J AD - State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China. AD - The Provincial International Science and Technology Cooperation Base on Engineering Biology, International Campus of Zhejiang University, Haining 314400, China. AD - Australian Research Council Centre of Excellence in Plant Energy Biology, Department of Animal, Plant and Soil Science, School of Life Science, La Trobe University, Bundoora, VIC 3086, Australia. FAU - Shou, Huixia AU - Shou H AD - State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou 310058, China. AD - The Provincial International Science and Technology Cooperation Base on Engineering Biology, International Campus of Zhejiang University, Haining 314400, China. AD - Hainan Institute, Zhejiang University, Sanya 572025, China. LA - eng GR - 111 project (B14027)/National Science Foundation of China (31771689)/ PT - Journal Article DEP - 20210409 PL - Switzerland TA - Int J Mol Sci JT - International journal of molecular sciences JID - 101092791 RN - 0 (Fatty Acids) RN - 0 (Plant Proteins) RN - 8001-22-7 (Soybean Oil) RN - EC 3.1.2.- (Thiolester Hydrolases) SB - IM MH - *CRISPR-Cas Systems MH - Fatty Acids/*metabolism MH - Gene Expression MH - *Gene Knockout Techniques MH - *Gene Targeting MH - Genetic Association Studies MH - Genetic Engineering MH - Humans MH - Mutation MH - Phenotype MH - Plant Proteins/genetics MH - Soybean Oil/genetics/metabolism MH - Glycine max/*genetics/*metabolism MH - Thiolester Hydrolases/*deficiency PMC - PMC8069101 OTO - NOTNLM OT - CRISPR/Cas9 OT - acyl-acyl carrier protein thioesterases OT - oil composition OT - soybean COIS- The authors declare no conflict of interest. EDAT- 2021/05/01 06:00 MHDA- 2021/05/26 06:00 PMCR- 2021/04/09 CRDT- 2021/04/30 01:09 PHST- 2021/03/23 00:00 [received] PHST- 2021/04/03 00:00 [revised] PHST- 2021/04/07 00:00 [accepted] PHST- 2021/04/30 01:09 [entrez] PHST- 2021/05/01 06:00 [pubmed] PHST- 2021/05/26 06:00 [medline] PHST- 2021/04/09 00:00 [pmc-release] AID - ijms22083877 [pii] AID - ijms-22-03877 [pii] AID - 10.3390/ijms22083877 [doi] PST - epublish SO - Int J Mol Sci. 2021 Apr 9;22(8):3877. doi: 10.3390/ijms22083877. ##### PUB RECORD ##### ## 10.3389/fpls.2022.817544 35371153 Awal Khan, Zhang et al., 2022 "Awal Khan MA, Zhang S, Emon RM, Chen F, Song W, Wu T, Yuan S, Wu C, Hou W, Sun S, Fu Y, Jiang B, Han T. CONSTANS Polymorphism Modulates Flowering Time and Maturity in Soybean. Front Plant Sci. 2022 Mar 17;13:817544. doi: 10.3389/fpls.2022.817544. PMID: 35371153; PMCID: PMC8969907." ## PMID- 35371153 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20231103 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 13 DP - 2022 TI - CONSTANS Polymorphism Modulates Flowering Time and Maturity in Soybean. PG - 817544 LID - 10.3389/fpls.2022.817544 [doi] LID - 817544 AB - CONSTANS (CO) plays a critical role in the photoperiodic flowering pathway. However, the function of soybean CO orthologs and the molecular mechanisms in regulating flowering remain largely unknown. This study characterized the natural variations in CO family genes and their association with flowering time and maturity in soybeans. A total of 21 soybean CO family genes (GmCOLs) were cloned and sequenced in 128 varieties covering 14 known maturity groups (MG 0000-MG X from earliest to latest maturity). Regarding the whole genomic region involving these genes, GmCOL1, GmCOL3, GmCOL8, GmCOL9, GmCOL10, and GmCOL13 were conserved, and the remaining 15 genes showed genetic variation that was brought about by mutation, namely, all single-nucleotide polymorphisms (SNPs) and insertions-deletions (InDels). In addition, a few genes showed some strong linkage disequilibrium. Point mutations were found in 15 GmCOL genes, which can lead to changes in the potential protein structure. Early flowering and maturation were related to eight genes (GmCOL1/3/4/8/13/15/16/19). For flowering and maturation, 11 genes (GmCOL2/5/6/14/20/22/23/24/25/26/28) expressed divergent physiognomy. Haplotype analysis indicated that the haplotypes of GmCOL5-Hap2, GmCOL13-Hap2/3, and GmCOL28-Hap2 were associated with flowering dates and soybean maturity. This study helps address the role of GmCOL family genes in adapting to diverse environments, particularly when it is necessary to regulate soybean flowering dates and maturity. CI - Copyright (c) 2022 Awal Khan, Zhang, Emon, Chen, Song, Wu, Yuan, Wu, Hou, Sun, Fu, Jiang and Han. FAU - Awal Khan, Mohammad Abdul AU - Awal Khan MA AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Zhang, Shouwei AU - Zhang S AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Emon, Reza Mohammad AU - Emon RM AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. AD - Plant Breeding Division, Bangladesh Institute of Nuclear Agriculture, Mymensingh, Bangladesh. FAU - Chen, Fulu AU - Chen F AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Song, Wenwen AU - Song W AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wu, Tingting AU - Wu T AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Yuan, Shan AU - Yuan S AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wu, Cunxiang AU - Wu C AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Hou, Wensheng AU - Hou W AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Sun, Shi AU - Sun S AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Fu, Yongfu AU - Fu Y AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Jiang, Bingjun AU - Jiang B AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Han, Tianfu AU - Han T AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. LA - eng PT - Journal Article DEP - 20220317 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC8969907 OTO - NOTNLM OT - GmCOL orthologue OT - flowering time OT - maturity group OT - natural variation OT - soybean COIS- The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. EDAT- 2022/04/05 06:00 MHDA- 2022/04/05 06:01 PMCR- 2022/01/01 CRDT- 2022/04/04 05:29 PHST- 2021/11/18 00:00 [received] PHST- 2022/02/15 00:00 [accepted] PHST- 2022/04/04 05:29 [entrez] PHST- 2022/04/05 06:00 [pubmed] PHST- 2022/04/05 06:01 [medline] PHST- 2022/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2022.817544 [doi] PST - epublish SO - Front Plant Sci. 2022 Mar 17;13:817544. doi: 10.3389/fpls.2022.817544. eCollection 2022. ##### PUB RECORD ##### ## 10.1073/pnas.1117982109 22619331 Xia, Watanabe et al., 2012 "Xia Z, Watanabe S, Yamada T, Tsubokura Y, Nakashima H, Zhai H, Anai T, Sato S, Yamazaki T, Lü S, Wu H, Tabata S, Harada K. Positional cloning and characterization reveal the molecular basis for soybean maturity locus E1 that regulates photoperiodic flowering. Proc Natl Acad Sci U S A. 2012 Aug 7;109(32):E2155-64. doi: 10.1073/pnas.1117982109. Epub 2012 May 22. PMID: 22619331; PMCID: PMC3420212." ## PMID- 22619331 OWN - NLM STAT- MEDLINE DCOM- 20121015 LR - 20240109 IS - 1091-6490 (Electronic) IS - 0027-8424 (Print) IS - 0027-8424 (Linking) VI - 109 IP - 32 DP - 2012 Aug 7 TI - Positional cloning and characterization reveal the molecular basis for soybean maturity locus E1 that regulates photoperiodic flowering. PG - E2155-64 LID - 10.1073/pnas.1117982109 [doi] AB - The complex and coordinated regulation of flowering has high ecological and agricultural significance. The maturity locus E1 has a large impact on flowering time in soybean, but the molecular basis for the E1 locus is largely unknown. Through positional cloning, we delimited the E1 locus to a 17.4-kb region containing an intron-free gene (E1). The E1 protein contains a putative bipartite nuclear localization signal and a region distantly related to B3 domain. In the recessive allele, a nonsynonymous substitution occurred in the putative nuclear localization signal, leading to the loss of localization specificity of the E1 protein and earlier flowering. The early-flowering phenotype was consistently observed in three ethylmethanesulfonate-induced mutants and two natural mutations that harbored a premature stop codon or a deletion of the entire E1 gene. E1 expression was significantly suppressed under short-day conditions and showed a bimodal diurnal pattern under long-day conditions, suggesting its response to photoperiod and its dominant effect induced by long day length. When a functional E1 gene was transformed into the early-flowering cultivar Kariyutaka with low E1 expression, transgenic plants carrying exogenous E1 displayed late flowering. Furthermore, the transcript abundance of E1 was negatively correlated with that of GmFT2a and GmFT5a, homologues of FLOWERING LOCUS T that promote flowering. These findings demonstrated the key role of E1 in repressing flowering and delaying maturity in soybean. The molecular identification of the maturity locus E1 will contribute to our understanding of the molecular mechanisms by which a short-day plant regulates flowering time and maturity. FAU - Xia, Zhengjun AU - Xia Z AD - Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China. xiazhj@neigaehrb.ac.cn FAU - Watanabe, Satoshi AU - Watanabe S FAU - Yamada, Tetsuya AU - Yamada T FAU - Tsubokura, Yasutaka AU - Tsubokura Y FAU - Nakashima, Hiroko AU - Nakashima H FAU - Zhai, Hong AU - Zhai H FAU - Anai, Toyoaki AU - Anai T FAU - Sato, Shusei AU - Sato S FAU - Yamazaki, Toshimasa AU - Yamazaki T FAU - Lu, Shixiang AU - Lu S FAU - Wu, Hongyan AU - Wu H FAU - Tabata, Satoshi AU - Tabata S FAU - Harada, Kyuya AU - Harada K LA - eng SI - GENBANK/AB552962 SI - GENBANK/AB552963 SI - GENBANK/AB552971 SI - GENBANK/AP011812 SI - GENBANK/AP011814 SI - GENBANK/AP011815 SI - GENBANK/AP011816 SI - GENBANK/AP011817 SI - GENBANK/AP011818 SI - GENBANK/AP011819 SI - GENBANK/AP011820 SI - GENBANK/AP011823 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20120522 PL - United States TA - Proc Natl Acad Sci U S A JT - Proceedings of the National Academy of Sciences of the United States of America JID - 7505876 RN - 0 (DNA Primers) RN - 9H154DI0UP (Ethyl Methanesulfonate) SB - IM MH - Base Sequence MH - Blotting, Southern MH - Chromosome Mapping MH - Chromosomes, Artificial, Bacterial/genetics MH - Cloning, Molecular MH - Cluster Analysis MH - DNA Primers/genetics MH - Ethyl Methanesulfonate MH - Flowers/genetics/*physiology MH - Gene Expression Regulation, Plant/*genetics MH - Genes, Plant/*genetics MH - Genetic Loci/*genetics MH - Genetic Variation MH - Models, Genetic MH - Molecular Sequence Data MH - Mutagenesis MH - *Photoperiod MH - Phylogeny MH - Real-Time Polymerase Chain Reaction MH - Reverse Transcriptase Polymerase Chain Reaction MH - Sequence Analysis, DNA MH - Glycine max/*genetics/*growth & development PMC - PMC3420212 COIS- The authors declare no conflict of interest. EDAT- 2012/05/24 06:00 MHDA- 2012/10/16 06:00 PMCR- 2012/05/22 CRDT- 2012/05/24 06:00 PHST- 2012/05/24 06:00 [entrez] PHST- 2012/05/24 06:00 [pubmed] PHST- 2012/10/16 06:00 [medline] PHST- 2012/05/22 00:00 [pmc-release] AID - 1117982109 [pii] AID - 201117982 [pii] AID - 10.1073/pnas.1117982109 [doi] PST - ppublish SO - Proc Natl Acad Sci U S A. 2012 Aug 7;109(32):E2155-64. doi: 10.1073/pnas.1117982109. Epub 2012 May 22. ##### PUB RECORD ##### ## 10.1126/science.1077937 12411574 Searle, Men et al., 2003 "Searle IR, Men AE, Laniya TS, Buzas DM, Iturbe-Ormaetxe I, Carroll BJ, Gresshoff PM. Long-distance signaling in nodulation directed by a CLAVATA1-like receptor kinase. Science. 2003 Jan 3;299(5603):109-12. doi: 10.1126/science.1077937. Epub 2002 Oct 31. PMID: 12411574." ## PMID- 12411574 OWN - NLM STAT- MEDLINE DCOM- 20030122 LR - 20240109 IS - 1095-9203 (Electronic) IS - 0036-8075 (Linking) VI - 299 IP - 5603 DP - 2003 Jan 3 TI - Long-distance signaling in nodulation directed by a CLAVATA1-like receptor kinase. PG - 109-12 AB - Proliferation of legume nodule primordia is controlled by shoot-root signaling known as autoregulation of nodulation (AON). Mutants defective in AON show supernodulation and increased numbers of lateral roots. Here, we demonstrate that AON in soybean is controlled by the receptor-like protein kinase GmNARK (Glycine max nodule autoregulation receptor kinase), similar to Arabidopsis CLAVATA1 (CLV1). Whereas CLV1 functions in a protein complex controlling stem cell proliferation by short-distance signaling in shoot apices, GmNARK expression in the leaf has a major role in long-distance communication with nodule and lateral root primordia. FAU - Searle, Iain R AU - Searle IR AD - Biochemistry and Molecular Biology, School of Molecular and Microbial Sciences, School of Land and Food Sciences, Botany, School of Life Sciences, The University of Queensland, Brisbane, St. Lucia, QLD 4072, Australia. FAU - Men, Artem E AU - Men AE FAU - Laniya, Titeki S AU - Laniya TS FAU - Buzas, Diana M AU - Buzas DM FAU - Iturbe-Ormaetxe, Inaki AU - Iturbe-Ormaetxe I FAU - Carroll, Bernard J AU - Carroll BJ FAU - Gresshoff, Peter M AU - Gresshoff PM LA - eng SI - GENBANK/AY166655 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20021031 PL - United States TA - Science JT - Science (New York, N.Y.) JID - 0404511 RN - 0 (Arabidopsis Proteins) RN - EC 2.7.- (Protein Kinases) RN - EC 2.7.10.1 (Receptor Protein-Tyrosine Kinases) RN - EC 2.7.11.1 (CLV1 protein, Arabidopsis) RN - EC 2.7.11.1 (Protein Serine-Threonine Kinases) SB - IM MH - Amino Acid Sequence MH - Arabidopsis/enzymology/genetics MH - Arabidopsis Proteins/chemistry/genetics/metabolism MH - Biological Evolution MH - Chromosomes, Artificial, Bacterial MH - Chromosomes, Plant/genetics MH - Cloning, Molecular MH - Gene Duplication MH - *Genes, Plant MH - Meristem/cytology/enzymology MH - Molecular Sequence Data MH - Mutation MH - Phenotype MH - Phylogeny MH - Physical Chromosome Mapping MH - Plant Leaves/enzymology MH - Plant Roots/enzymology/metabolism MH - Plant Shoots/enzymology/metabolism MH - Polymerase Chain Reaction MH - Polymorphism, Restriction Fragment Length MH - Protein Kinases/chemistry/*genetics/*metabolism MH - Protein Serine-Threonine Kinases MH - Receptor Protein-Tyrosine Kinases/chemistry/genetics/metabolism MH - *Signal Transduction MH - Glycine max/*enzymology/*genetics/physiology MH - Synteny EDAT- 2002/11/02 04:00 MHDA- 2003/01/23 04:00 CRDT- 2002/11/02 04:00 PHST- 2002/11/02 04:00 [pubmed] PHST- 2003/01/23 04:00 [medline] PHST- 2002/11/02 04:00 [entrez] AID - 1077937 [pii] AID - 10.1126/science.1077937 [doi] PST - ppublish SO - Science. 2003 Jan 3;299(5603):109-12. doi: 10.1126/science.1077937. Epub 2002 Oct 31. ##### PUB RECORD ##### ## 10.1038/s41588-020-0604-7 32231277 Lu, Dong et al., 2020 "Lu S, Dong L, Fang C, Liu S, Kong L, Cheng Q, Chen L, Su T, Nan H, Zhang D, Zhang L, Wang Z, Yang Y, Yu D, Liu X, Yang Q, Lin X, Tang Y, Zhao X, Yang X, Tian C, Xie Q, Li X, Yuan X, Tian Z, Liu B, Weller JL, Kong F. Stepwise selection on homeologous PRR genes controlling flowering and maturity during soybean domestication. Nat Genet. 2020 Apr;52(4):428-436. doi: 10.1038/s41588-020-0604-7. Epub 2020 Mar 30. PMID: 32231277." ## PMID- 32231277 OWN - NLM STAT- MEDLINE DCOM- 20200626 LR - 20231213 IS - 1546-1718 (Electronic) IS - 1061-4036 (Linking) VI - 52 IP - 4 DP - 2020 Apr TI - Stepwise selection on homeologous PRR genes controlling flowering and maturity during soybean domestication. PG - 428-436 LID - 10.1038/s41588-020-0604-7 [doi] AB - Adaptive changes in plant phenology are often considered to be a feature of the so-called 'domestication syndrome' that distinguishes modern crops from their wild progenitors, but little detailed evidence supports this idea. In soybean, a major legume crop, flowering time variation is well characterized within domesticated germplasm and is critical for modern production, but its importance during domestication is unclear. Here, we identify sequential contributions of two homeologous pseudo-response-regulator genes, Tof12 and Tof11, to ancient flowering time adaptation, and demonstrate that they act via LHY homologs to promote expression of the legume-specific E1 gene and delay flowering under long photoperiods. We show that Tof12-dependent acceleration of maturity accompanied a reduction in dormancy and seed dispersal during soybean domestication, possibly predisposing the incipient crop to latitudinal expansion. Better understanding of this early phase of crop evolution will help to identify functional variation lost during domestication and exploit its potential for future crop improvement. FAU - Lu, Sijia AU - Lu S AUID- ORCID: 0000-0002-3110-0915 AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. FAU - Dong, Lidong AU - Dong L AUID- ORCID: 0000-0002-8085-1678 AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Fang, Chao AU - Fang C AUID- ORCID: 0000-0003-0564-7586 AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Liu, Shulin AU - Liu S AUID- ORCID: 0000-0002-0154-2966 AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Kong, Lingping AU - Kong L AUID- ORCID: 0000-0002-2671-7443 AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Cheng, Qun AU - Cheng Q AUID- ORCID: 0000-0001-5595-2058 AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Chen, Liyu AU - Chen L AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Su, Tong AU - Su T AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Nan, Haiyang AU - Nan H AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Zhang, Dan AU - Zhang D AD - Collaborative Innovation Center of Henan Grain Crops, Henan Agricultural University, Zhengzhou, China. FAU - Zhang, Lei AU - Zhang L AD - Anhui Academy of Agricultural Sciences, Hefei, China. FAU - Wang, Zhijuan AU - Wang Z AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Yang, Yongqing AU - Yang Y AD - Root Biology Center, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou, China. FAU - Yu, Deyue AU - Yu D AD - National Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China. FAU - Liu, Xiaolei AU - Liu X AD - Key Laboratory of Agricultural Animal Genetics, Breeding and Reproduction, Ministry of Education & College of Animal Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Yang, Qingyong AU - Yang Q AUID- ORCID: 0000-0002-3510-8906 AD - Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, China. FAU - Lin, Xiaoya AU - Lin X AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Tang, Yang AU - Tang Y AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Zhao, Xiaohui AU - Zhao X AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Yang, Xinquan AU - Yang X AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Tian, Changen AU - Tian C AUID- ORCID: 0000-0002-8410-6624 AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Xie, Qiguang AU - Xie Q AD - Key Laboratory of Plant Stress Biology, School of Life Sciences, Henan University, Kaifeng, China. FAU - Li, Xia AU - Li X AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Yuan, Xiaohui AU - Yuan X AUID- ORCID: 0000-0003-0661-5332 AD - School of Computer Science and Technology, Wuhan University of Technology, Wuhan, China. yuanxiaohui@whut.edu.cn. FAU - Tian, Zhixi AU - Tian Z AUID- ORCID: 0000-0001-6051-9670 AD - State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Innovative Academy of Seed Design, Chinese Academy of Sciences, Beijing, China. zxtian@genetics.ac.cn. AD - University of Chinese Academy of Sciences, Beijing, China. zxtian@genetics.ac.cn. FAU - Liu, Baohui AU - Liu B AUID- ORCID: 0000-0003-3491-8293 AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. liubh@iga.ac.cn. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. liubh@iga.ac.cn. FAU - Weller, James L AU - Weller JL AUID- ORCID: 0000-0003-2423-8286 AD - School of Natural Sciences, University of Tasmania, Hobart, Tasmania, Australia. jim.weller@utas.edu.au. FAU - Kong, Fanjiang AU - Kong F AUID- ORCID: 0000-0001-7138-1478 AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, China. kongfj@gzhu.edu.cn. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. kongfj@gzhu.edu.cn. AD - University of Chinese Academy of Sciences, Beijing, China. kongfj@gzhu.edu.cn. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20200330 PL - United States TA - Nat Genet JT - Nature genetics JID - 9216904 SB - IM MH - Crops, Agricultural/*genetics MH - Domestication MH - Fabaceae/genetics MH - Flowers/*genetics MH - Genes, Plant/*genetics MH - Photoperiod MH - Seeds/genetics MH - Glycine max/*genetics EDAT- 2020/04/02 06:00 MHDA- 2020/06/27 06:00 CRDT- 2020/04/02 06:00 PHST- 2019/10/09 00:00 [received] PHST- 2020/02/27 00:00 [accepted] PHST- 2020/04/02 06:00 [pubmed] PHST- 2020/06/27 06:00 [medline] PHST- 2020/04/02 06:00 [entrez] AID - 10.1038/s41588-020-0604-7 [pii] AID - 10.1038/s41588-020-0604-7 [doi] PST - ppublish SO - Nat Genet. 2020 Apr;52(4):428-436. doi: 10.1038/s41588-020-0604-7. Epub 2020 Mar 30. ##### PUB RECORD ##### ## 10.1038/ncomms5340 25004933 Qi, Li et al., 2014 "Qi X, Li MW, Xie M, Liu X, Ni M, Shao G, Song C, Kay-Yuen Yim A, Tao Y, Wong FL, Isobe S, Wong CF, Wong KS, Xu C, Li C, Wang Y, Guan R, Sun F, Fan G, Xiao Z, Zhou F, Phang TH, Liu X, Tong SW, Chan TF, Yiu SM, Tabata S, Wang J, Xu X, Lam HM. Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing. Nat Commun. 2014 Jul 9;5:4340. doi: 10.1038/ncomms5340. PMID: 25004933; PMCID: PMC4104456." ## PMID- 25004933 OWN - NLM STAT- MEDLINE DCOM- 20151116 LR - 20231213 IS - 2041-1723 (Electronic) IS - 2041-1723 (Linking) VI - 5 DP - 2014 Jul 9 TI - Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing. PG - 4340 LID - 10.1038/ncomms5340 [doi] LID - 4340 AB - Using a whole-genome-sequencing approach to explore germplasm resources can serve as an important strategy for crop improvement, especially in investigating wild accessions that may contain useful genetic resources that have been lost during the domestication process. Here we sequence and assemble a draft genome of wild soybean and construct a recombinant inbred population for genotyping-by-sequencing and phenotypic analyses to identify multiple QTLs relevant to traits of interest in agriculture. We use a combination of de novo sequencing data from this work and our previous germplasm re-sequencing data to identify a novel ion transporter gene, GmCHX1, and relate its sequence alterations to salt tolerance. Rapid gain-of-function tests show the protective effects of GmCHX1 towards salt stress. This combination of whole-genome de novo sequencing, high-density-marker QTL mapping by re-sequencing and functional analyses can serve as an effective strategy to unveil novel genomic information in wild soybean to facilitate crop improvement. FAU - Qi, Xinpeng AU - Qi X AD - 1] School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong [2]. FAU - Li, Man-Wah AU - Li MW AD - 1] School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong [2]. FAU - Xie, Min AU - Xie M AD - 1] BGI-Shenzhen, Shenzhen 518083, PR China [2]. FAU - Liu, Xin AU - Liu X AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Ni, Meng AU - Ni M AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Shao, Guihua AU - Shao G AD - Institute of Crop Sciences, The Chinese Academy of Agricultural Sciences, Beijing 100081, PR China. FAU - Song, Chi AU - Song C AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Kay-Yuen Yim, Aldrin AU - Kay-Yuen Yim A AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Tao, Ye AU - Tao Y AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Wong, Fuk-Ling AU - Wong FL AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Isobe, Sachiko AU - Isobe S AD - Kazusa DNA Research Institute, Chiba 292-0818, Japan. FAU - Wong, Chi-Fai AU - Wong CF AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Wong, Kwong-Sen AU - Wong KS AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Xu, Chunyan AU - Xu C AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Li, Chunqing AU - Li C AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Wang, Ying AU - Wang Y AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Guan, Rui AU - Guan R AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Sun, Fengming AU - Sun F AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Fan, Guangyi AU - Fan G AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Xiao, Zhixia AU - Xiao Z AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Zhou, Feng AU - Zhou F AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Phang, Tsui-Hung AU - Phang TH AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Liu, Xuan AU - Liu X AD - Department of Computer Science, The University of Hong Kong, Pokfulam HKSAR, Hong Kong. FAU - Tong, Suk-Wah AU - Tong SW AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Chan, Ting-Fung AU - Chan TF AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. FAU - Yiu, Siu-Ming AU - Yiu SM AD - Department of Computer Science, The University of Hong Kong, Pokfulam HKSAR, Hong Kong. FAU - Tabata, Satoshi AU - Tabata S AD - Kazusa DNA Research Institute, Chiba 292-0818, Japan. FAU - Wang, Jian AU - Wang J AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Xu, Xun AU - Xu X AD - BGI-Shenzhen, Shenzhen 518083, PR China. FAU - Lam, Hon-Ming AU - Lam HM AD - School of Life Sciences and Center for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin HKSAR, Hong Kong. LA - eng SI - GENBANK/AZNC00000000 SI - GENBANK/KF879911 SI - GENBANK/KF879912 SI - SRA/SRR1185321 SI - SRA/SRR1185322 SI - SRA/SRR1185323 SI - SRA/SRR1185926 SI - SRA/SRR1185927 SI - SRA/SRR1185928 SI - SRA/SRR1185929 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140709 PL - England TA - Nat Commun JT - Nature communications JID - 101528555 RN - 0 (Ion Pumps) RN - 0 (Plant Proteins) RN - 451W47IQ8X (Sodium Chloride) SB - IM MH - Chromosome Mapping MH - *Genome, Plant MH - Genotype MH - Ion Pumps/*genetics/metabolism MH - Molecular Sequence Data MH - Plant Proteins/*genetics MH - Quantitative Trait Loci MH - *Salt Tolerance MH - Sodium Chloride/metabolism MH - Glycine max/*genetics/physiology PMC - PMC4104456 EDAT- 2014/07/10 06:00 MHDA- 2015/11/17 06:00 PMCR- 2014/07/21 CRDT- 2014/07/10 06:00 PHST- 2014/03/01 00:00 [received] PHST- 2014/06/09 00:00 [accepted] PHST- 2014/07/10 06:00 [entrez] PHST- 2014/07/10 06:00 [pubmed] PHST- 2015/11/17 06:00 [medline] PHST- 2014/07/21 00:00 [pmc-release] AID - ncomms5340 [pii] AID - 10.1038/ncomms5340 [doi] PST - epublish SO - Nat Commun. 2014 Jul 9;5:4340. doi: 10.1038/ncomms5340. ##### PUB RECORD ##### ## 10.1534/g3.114.015255 25452420 Campbell, Mani et al., 2014 "Campbell BW, Mani D, Curtin SJ, Slattery RA, Michno JM, Ort DR, Schaus PJ, Palmer RG, Orf JH, Stupar RM. Identical substitutions in magnesium chelatase paralogs result in chlorophyll-deficient soybean mutants. G3 (Bethesda). 2014 Dec 1;5(1):123-31. doi: 10.1534/g3.114.015255. PMID: 25452420; PMCID: PMC4291463." ## PMID- 25452420 OWN - NLM STAT- MEDLINE DCOM- 20150917 LR - 20231213 IS - 2160-1836 (Electronic) IS - 2160-1836 (Linking) VI - 5 IP - 1 DP - 2014 Dec 1 TI - Identical substitutions in magnesium chelatase paralogs result in chlorophyll-deficient soybean mutants. PG - 123-31 LID - 10.1534/g3.114.015255 [doi] AB - The soybean [Glycine max (L.) Merr.] chlorophyll-deficient line MinnGold is a spontaneous mutant characterized by yellow foliage. Map-based cloning and transgenic complementation revealed that the mutant phenotype is caused by a nonsynonymous nucleotide substitution in the third exon of a Mg-chelatase subunit gene (ChlI1a) on chromosome 13. This gene was selected as a candidate for a different yellow foliage mutant, T219H (Y11y11), that had been previously mapped to chromosome 13. Although the phenotypes of MinnGold and T219H are clearly distinct, sequencing of ChlI1a in T219H identified a different nonsynonymous mutation in the third exon, only six base pairs from the MinnGold mutation. This information, along with previously published allelic tests, were used to identify and clone a third yellow foliage mutation, CD-5, which was previously mapped to chromosome 15. This mutation was identified in the ChlI1b gene, a paralog of ChlI1a. Sequencing of the ChlI1b allele in CD-5 identified a nonsynonymous substitution in the third exon that confers an identical amino acid change as the T219H substitution at ChlI1a. Protein sequence alignments of the two Mg-chelatase subunits indicated that the sites of amino acid modification in MinnGold, T219H, and CD-5 are highly conserved among photosynthetic species. These results suggest that amino acid alterations in this critical domain may create competitive inhibitory interactions between the mutant and wild-type ChlI1a and ChlI1b proteins. CI - Copyright (c) 2015 Campbell et al. FAU - Campbell, Benjamin W AU - Campbell BW AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Mani, Dhananjay AU - Mani D AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Curtin, Shaun J AU - Curtin SJ AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Slattery, Rebecca A AU - Slattery RA AD - Department of Plant Biology, University of Illinois, Urbana, Illinois 61801. FAU - Michno, Jean-Michel AU - Michno JM AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Ort, Donald R AU - Ort DR AD - Department of Plant Biology, University of Illinois, Urbana, Illinois 61801 US Department of Agriculture/Agricultural Research Service, Global Change and Photosynthesis Research Unit, Urbana, Illinois 61801. FAU - Schaus, Philip J AU - Schaus PJ AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Palmer, Reid G AU - Palmer RG AD - Department of Agronomy, Iowa State University, Ames, Iowa 50011. FAU - Orf, James H AU - Orf JH AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108. FAU - Stupar, Robert M AU - Stupar RM AD - Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108 rstupar@umn.edu. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20141201 PL - England TA - G3 (Bethesda) JT - G3 (Bethesda, Md.) JID - 101566598 RN - 0 (Protein Subunits) RN - 1406-65-1 (Chlorophyll) RN - EC 4.- (Lyases) RN - EC 4.99.1- (magnesium chelatase) SB - IM MH - Amino Acid Sequence MH - Chlorophyll/*deficiency MH - Lyases/*genetics MH - Mutation MH - Plant Leaves MH - Protein Subunits/genetics MH - Glycine max/*genetics PMC - PMC4291463 OTO - NOTNLM OT - chlorophyll OT - duplication OT - paralog OT - photosynthesis OT - soybean EDAT- 2014/12/03 06:00 MHDA- 2015/09/18 06:00 PMCR- 2014/12/01 CRDT- 2014/12/03 06:00 PHST- 2014/12/03 06:00 [entrez] PHST- 2014/12/03 06:00 [pubmed] PHST- 2015/09/18 06:00 [medline] PHST- 2014/12/01 00:00 [pmc-release] AID - g3.114.015255 [pii] AID - GGG_015255 [pii] AID - 10.1534/g3.114.015255 [doi] PST - epublish SO - G3 (Bethesda). 2014 Dec 1;5(1):123-31. doi: 10.1534/g3.114.015255. ##### PUB RECORD ##### ## 10.1111/jipb.13207 34962095 Yang, Lan et al., 2022 "Yang J, Lan L, Jin Y, Yu N, Wang D, Wang E. Mechanisms underlying legume-rhizobium symbioses. J Integr Plant Biol. 2022 Feb;64(2):244-267. doi: 10.1111/jipb.13207. PMID: 34962095." ## PMID- 34962095 OWN - NLM STAT- MEDLINE DCOM- 20220404 LR - 20220405 IS - 1744-7909 (Electronic) IS - 1672-9072 (Linking) VI - 64 IP - 2 DP - 2022 Feb TI - Mechanisms underlying legume-rhizobium symbioses. PG - 244-267 LID - 10.1111/jipb.13207 [doi] AB - Legumes, unlike most land plants, can form symbiotic root nodules with nitrogen-fixing bacteria to secure nitrogen for growth. The formation of nitrogen-fixing nodules on legume roots requires the coordination of rhizobial infection at the root epidermis with cell division in the cortex. The nodules house the nitrogen-fixing rhizobia in organelle-like structures known as symbiosomes, which enable nitrogen fixation and facilitate the exchange of metabolites between the host and symbionts. In addition to this beneficial interaction, legumes are continuously exposed to would-be pathogenic microbes; therefore the ability to discriminate pathogens from symbionts is a major determinant of plant survival under natural conditions. Here, we summarize recent advances in the understanding of root nodule symbiosis signaling, transcriptional regulation, and regulation of plant immunity during legume-rhizobium symbiosis. In addition, we propose several important questions to be addressed and provide insights into the potential for engineering the capacity to fix nitrogen in legume and non-legume plants. CI - (c) 2022 Institute of Botany, Chinese Academy of Sciences. FAU - Yang, Jun AU - Yang J AD - National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, the Chinese Academy of Sciences, Shanghai, 200234, China. FAU - Lan, Liying AU - Lan L AD - National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, the Chinese Academy of Sciences, Shanghai, 200234, China. FAU - Jin, Yue AU - Jin Y AD - Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai, 200234, China. FAU - Yu, Nan AU - Yu N AD - Shanghai Key Laboratory of Plant Molecular Sciences, College of Life Sciences, Shanghai Normal University, Shanghai, 200234, China. FAU - Wang, Dong AU - Wang D AD - Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst, 01003, USA. FAU - Wang, Ertao AU - Wang E AD - National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, the Chinese Academy of Sciences, Shanghai, 200234, China. LA - eng GR - National Natural Science Foundation of China/ PT - Journal Article PT - Review PL - China (Republic : 1949- ) TA - J Integr Plant Biol JT - Journal of integrative plant biology JID - 101250502 RN - N762921K75 (Nitrogen) SB - IM MH - *Fabaceae/metabolism MH - Nitrogen/metabolism MH - Nitrogen Fixation MH - *Rhizobium/physiology MH - Root Nodules, Plant/microbiology MH - Symbiosis OTO - NOTNLM OT - nodule organogenesis OT - plant immunity OT - root nodule symbiosis EDAT- 2021/12/29 06:00 MHDA- 2022/04/05 06:00 CRDT- 2021/12/28 06:57 PHST- 2021/11/15 00:00 [received] PHST- 2022/12/27 00:00 [accepted] PHST- 2021/12/29 06:00 [pubmed] PHST- 2022/04/05 06:00 [medline] PHST- 2021/12/28 06:57 [entrez] AID - 10.1111/jipb.13207 [doi] PST - ppublish SO - J Integr Plant Biol. 2022 Feb;64(2):244-267. doi: 10.1111/jipb.13207. ##### PUB RECORD ##### ## 10.1038/nature08670 20075913 Schmutz et al., 2010 "Schmutz J, Cannon SB, Schlueter J, Ma J, Mitros T, Nelson W, Hyten DL, Song Q, Thelen JJ, Cheng J, Xu D, Hellsten U, May GD, Yu Y, Sakurai T, Umezawa T, Bhattacharyya MK, Sandhu D, Valliyodan B, Lindquist E, Peto M, Grant D, Shu S, Goodstein D, Barry K, Futrell-Griggs M, Abernathy B, Du J, Tian Z, Zhu L, Gill N, Joshi T, Libault M, Sethuraman A, Zhang XC, Shinozaki K, Nguyen HT, Wing RA, Cregan P, Specht J, Grimwood J, Rokhsar D, Stacey G, Shoemaker RC, Jackson SA. Genome sequence of the palaeopolyploid soybean. Nature. 2010 Jan 14;463(7278):178-83. doi: 10.1038/nature08670. Erratum in: Nature. 2010 May 6;465(7294):120. PMID: 20075913." ## PMID- 20075913 OWN - NLM STAT- MEDLINE DCOM- 20100224 LR - 20240109 IS - 1476-4687 (Electronic) IS - 0028-0836 (Linking) VI - 463 IP - 7278 DP - 2010 Jan 14 TI - Genome sequence of the palaeopolyploid soybean. PG - 178-83 LID - 10.1038/nature08670 [doi] AB - Soybean (Glycine max) is one of the most important crop plants for seed protein and oil content, and for its capacity to fix atmospheric nitrogen through symbioses with soil-borne microorganisms. We sequenced the 1.1-gigabase genome by a whole-genome shotgun approach and integrated it with physical and high-density genetic maps to create a chromosome-scale draft sequence assembly. We predict 46,430 protein-coding genes, 70% more than Arabidopsis and similar to the poplar genome which, like soybean, is an ancient polyploid (palaeopolyploid). About 78% of the predicted genes occur in chromosome ends, which comprise less than one-half of the genome but account for nearly all of the genetic recombination. Genome duplications occurred at approximately 59 and 13 million years ago, resulting in a highly duplicated genome with nearly 75% of the genes present in multiple copies. The two duplication events were followed by gene diversification and loss, and numerous chromosome rearrangements. An accurate soybean genome sequence will facilitate the identification of the genetic basis of many soybean traits, and accelerate the creation of improved soybean varieties. FAU - Schmutz, Jeremy AU - Schmutz J AD - HudsonAlpha Genome Sequencing Center, 601 Genome Way, Huntsville, Alabama 35806, USA. FAU - Cannon, Steven B AU - Cannon SB FAU - Schlueter, Jessica AU - Schlueter J FAU - Ma, Jianxin AU - Ma J FAU - Mitros, Therese AU - Mitros T FAU - Nelson, William AU - Nelson W FAU - Hyten, David L AU - Hyten DL FAU - Song, Qijian AU - Song Q FAU - Thelen, Jay J AU - Thelen JJ FAU - Cheng, Jianlin AU - Cheng J FAU - Xu, Dong AU - Xu D FAU - Hellsten, Uffe AU - Hellsten U FAU - May, Gregory D AU - May GD FAU - Yu, Yeisoo AU - Yu Y FAU - Sakurai, Tetsuya AU - Sakurai T FAU - Umezawa, Taishi AU - Umezawa T FAU - Bhattacharyya, Madan K AU - Bhattacharyya MK FAU - Sandhu, Devinder AU - Sandhu D FAU - Valliyodan, Babu AU - Valliyodan B FAU - Lindquist, Erika AU - Lindquist E FAU - Peto, Myron AU - Peto M FAU - Grant, David AU - Grant D FAU - Shu, Shengqiang AU - Shu S FAU - Goodstein, David AU - Goodstein D FAU - Barry, Kerrie AU - Barry K FAU - Futrell-Griggs, Montona AU - Futrell-Griggs M FAU - Abernathy, Brian AU - Abernathy B FAU - Du, Jianchang AU - Du J FAU - Tian, Zhixi AU - Tian Z FAU - Zhu, Liucun AU - Zhu L FAU - Gill, Navdeep AU - Gill N FAU - Joshi, Trupti AU - Joshi T FAU - Libault, Marc AU - Libault M FAU - Sethuraman, Anand AU - Sethuraman A FAU - Zhang, Xue-Cheng AU - Zhang XC FAU - Shinozaki, Kazuo AU - Shinozaki K FAU - Nguyen, Henry T AU - Nguyen HT FAU - Wing, Rod A AU - Wing RA FAU - Cregan, Perry AU - Cregan P FAU - Specht, James AU - Specht J FAU - Grimwood, Jane AU - Grimwood J FAU - Rokhsar, Dan AU - Rokhsar D FAU - Stacey, Gary AU - Stacey G FAU - Shoemaker, Randy C AU - Shoemaker RC FAU - Jackson, Scott A AU - Jackson SA LA - eng SI - GENBANK/ACUP00000000 SI - GENBANK/ACUP01000000 PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Research Support, U.S. Gov't, Non-P.H.S. PL - England TA - Nature JT - Nature JID - 0410462 RN - 0 (Transcription Factors) RN - 8001-22-7 (Soybean Oil) SB - IM EIN - Nature. 2010 May 6;465(7294):120 MH - Arabidopsis/genetics MH - Breeding MH - Chromosomes, Plant/genetics MH - Evolution, Molecular MH - Gene Duplication MH - Genes, Duplicate/genetics MH - Genes, Plant/genetics MH - Genome, Plant/*genetics MH - *Genomics MH - Molecular Sequence Data MH - Multigene Family/genetics MH - Phylogeny MH - Plant Root Nodulation/genetics MH - *Polyploidy MH - Quantitative Trait Loci/genetics MH - Recombination, Genetic MH - Repetitive Sequences, Nucleic Acid/genetics MH - Soybean Oil/biosynthesis MH - Glycine max/*genetics MH - Synteny/genetics MH - Transcription Factors/genetics EDAT- 2010/01/16 06:00 MHDA- 2010/02/25 06:00 CRDT- 2010/01/16 06:00 PHST- 2009/08/19 00:00 [received] PHST- 2009/11/12 00:00 [accepted] PHST- 2010/01/16 06:00 [entrez] PHST- 2010/01/16 06:00 [pubmed] PHST- 2010/02/25 06:00 [medline] AID - nature08670 [pii] AID - 10.1038/nature08670 [doi] PST - ppublish SO - Nature. 2010 Jan 14;463(7278):178-83. doi: 10.1038/nature08670. ##### PUB RECORD ##### ## 10.1590/1678-4685-GMB-2021-0016 34919115 Molinari, Fuganti-Pagliarini et al., 2021 "Molinari MDC, Fuganti-Pagliarini R, Barbosa DA, Marin SRR, Marin DR, Rech EL, Mertz-Henning LM, Nepomuceno AL. Flowering process in soybean under water deficit conditions: A review on genetic aspects. Genet Mol Biol. 2021 Dec 13;45(1):e20210016. doi: 10.1590/1678-4685-GMB-2021-0016. PMID: 34919115; PMCID: PMC8679260." ## PMID- 34919115 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20211229 IS - 1415-4757 (Print) IS - 1678-4685 (Electronic) IS - 1415-4757 (Linking) VI - 45 IP - 1 DP - 2021 TI - Flowering process in soybean under water deficit conditions: A review on genetic aspects. PG - e20210016 LID - S1415-47572022000100301 [pii] LID - 10.1590/1678-4685-GMB-2021-0016 [doi] LID - e20210016 AB - Soybean is a key crop in many countries, being used from human food to the animal industry due to its nutritional properties. Financially, the grain chain moves large sums of money into the economy of producing countries. However, like other agricultural commodities around the world, it can have its final yield seriously compromised by abiotic environmental stressors, like drought. As flowers imply in pods and in grains inside it to minimize damages caused by water restriction, researchers have focused on understanding flowering-process related genes and their interactions. Here a review dedicated to the soybean flowering process and gene network involved in it is presented, describing gene interactions and how genes act in this complex mechanism, also ruled by environmental triggers such as day-light and circadian cycle. The objective was to gather information and insights on the soybean flowering process, aiming to provide knowledge useful to assist in the development of drought-tolerant soybean lines, minimizing losses due to delays or anticipation of flowering and, consequently, restraining financial and productivity losses. FAU - Molinari, Mayla Daiane Correa AU - Molinari MDC AUID- ORCID: 0000-0002-9135-0422 AD - Universidade Estadual de Londrina, Departamento de Biologia Geral, Londrina, PR, Brazil. AD - Embrapa Soja, Londrina, PR, Brazil. FAU - Fuganti-Pagliarini, Renata AU - Fuganti-Pagliarini R AUID- ORCID: 0000-0001-9282-2826 AD - Embrapa Soja, Londrina, PR, Brazil. FAU - Barbosa, Daniel de Amorim AU - Barbosa DA AD - Universidade Estadual de Londrina, Departamento de Biologia Geral, Londrina, PR, Brazil. AD - Embrapa Soja, Londrina, PR, Brazil. FAU - Marin, Silvana Regina Rockenbach AU - Marin SRR AD - Embrapa Soja, Londrina, PR, Brazil. FAU - Marin, Daniel Rockenbach AU - Marin DR AD - Embrapa Soja, Londrina, PR, Brazil. FAU - Rech, Elibio Leopoldo AU - Rech EL AD - Embrapa Recursos Geneticos e Biotecnologia, Instituto Nacional de Ciencia e Tecnologia em Biologia Sintetica, Brasilia, DF, Brazil. FAU - Mertz-Henning, Liliane Marcia AU - Mertz-Henning LM AD - Embrapa Soja, Londrina, PR, Brazil. FAU - Nepomuceno, Alexandre Lima AU - Nepomuceno AL AD - Embrapa Soja, Londrina, PR, Brazil. LA - eng PT - Journal Article DEP - 20211213 PL - Brazil TA - Genet Mol Biol JT - Genetics and molecular biology JID - 100883590 PMC - PMC8679260 COIS- Conflict of interest: The authors declare that there is no conflict of interest that could be perceived as prejudicial to the impartiality of the reported research. EDAT- 2021/12/18 06:00 MHDA- 2021/12/18 06:01 PMCR- 2021/12/13 CRDT- 2021/12/17 12:21 PHST- 2021/01/24 00:00 [received] PHST- 2021/09/30 00:00 [accepted] PHST- 2021/12/17 12:21 [entrez] PHST- 2021/12/18 06:00 [pubmed] PHST- 2021/12/18 06:01 [medline] PHST- 2021/12/13 00:00 [pmc-release] AID - S1415-47572022000100301 [pii] AID - 10.1590/1678-4685-GMB-2021-0016 [doi] PST - epublish SO - Genet Mol Biol. 2021 Dec 13;45(1):e20210016. doi: 10.1590/1678-4685-GMB-2021-0016. eCollection 2021. ##### PUB RECORD ##### ## 10.1111/mpp.12741 30113770 Zhang, Gao et al., 2018 "Zhang C, Gao H, Li R, Han D, Wang L, Wu J, Xu P, Zhang S. GmBTB/POZ, a novel BTB/POZ domain-containing nuclear protein, positively regulates the response of soybean to Phytophthora sojae infection. Mol Plant Pathol. 2019 Jan;20(1):78-91. doi: 10.1111/mpp.12741. Epub 2018 Oct 16. PMID: 30113770; PMCID: PMC6430474." ## PMID- 30113770 OWN - NLM STAT- MEDLINE DCOM- 20190808 LR - 20231213 IS - 1364-3703 (Electronic) IS - 1464-6722 (Print) IS - 1364-3703 (Linking) VI - 20 IP - 1 DP - 2019 Jan TI - GmBTB/POZ, a novel BTB/POZ domain-containing nuclear protein, positively regulates the response of soybean to Phytophthora sojae infection. PG - 78-91 LID - 10.1111/mpp.12741 [doi] AB - Phytophthora sojae is a destructive pathogen of soybean [Glycine max (L.) Merr.] which causes stem and root rot on soybean plants worldwide. However, the pathogenesis and molecular mechanism of plant defence responses against P. sojae are largely unclear. Herein, we document the underlying mechanisms and function of a novel BTB/POZ protein, GmBTB/POZ, which contains a BTB/POZ domain found in certain animal transcriptional regulators, in host soybean plants in response to P. sojae. It is located in the cell nucleus and is transcriptionally up-regulated by P. sojae. Overexpression of GmBTB/POZ in soybean resulted in enhanced resistance to P. sojae. The activities and expression levels of enzymatic superoxide dismutase (SOD) and peroxidase (POD) antioxidants were significantly higher in GmBTB/POZ-overexpressing (GmBTB/POZ-OE) transgenic soybean plants than in wild-type (WT) plants treated with sterile water or infected with P. sojae. The transcript levels of defence-associated genes were also higher in overexpressing plants than in WT on infection. Moreover, salicylic acid (SA) levels and the transcript levels of SA biosynthesis-related genes were markedly higher in GmBTB/POZ-OE transgenic soybean than in WT, but there were almost no differences in jasmonic acid (JA) levels or JA biosynthesis-related gene expression between GmBTB/POZ-OE and WT soybean lines. Furthermore, exogenous SA application induced the expression of GmBTB/POZ and inhibited the increase in P. sojae biomass in both WT and GmBTB/POZ-OE transgenic soybean plants. Taken together, these results suggest that GmBTB/POZ plays a positive role in P. sojae resistance and the defence response in soybean via a process that might be dependent on SA. CI - (c) 2018 BSPP and John Wiley & Sons Ltd. FAU - Zhang, Chuanzhong AU - Zhang C AD - Soybean Research Institute/Key Laboratory of Soybean Biology of Chinese Education Ministry, Northeast Agricultural University, Harbin, 150030, PR China. FAU - Gao, Hong AU - Gao H AD - Soybean Research Institute/Key Laboratory of Soybean Biology of Chinese Education Ministry, Northeast Agricultural University, Harbin, 150030, PR China. FAU - Li, Rongpeng AU - Li R AD - Soybean Research Institute/Key Laboratory of Soybean Biology of Chinese Education Ministry, Northeast Agricultural University, Harbin, 150030, PR China. FAU - Han, Dan AU - Han D AD - Soybean Research Institute/Key Laboratory of Soybean Biology of Chinese Education Ministry, Northeast Agricultural University, Harbin, 150030, PR China. FAU - Wang, Le AU - Wang L AD - Soybean Research Institute/Key Laboratory of Soybean Biology of Chinese Education Ministry, Northeast Agricultural University, Harbin, 150030, PR China. FAU - Wu, Junjiang AU - Wu J AD - Soybean Research Institute of Heilongjiang Academy of Agricultural Sciences, Key Laboratory of Soybean Cultivation of Ministry of Agriculture P. R. China, Harbin, 150086, PR China. FAU - Xu, Pengfei AU - Xu P AD - Soybean Research Institute/Key Laboratory of Soybean Biology of Chinese Education Ministry, Northeast Agricultural University, Harbin, 150030, PR China. FAU - Zhang, Shuzhen AU - Zhang S AUID- ORCID: 0000-0002-3311-0092 AD - Soybean Research Institute/Key Laboratory of Soybean Biology of Chinese Education Ministry, Northeast Agricultural University, Harbin, 150030, PR China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20181016 PL - England TA - Mol Plant Pathol JT - Molecular plant pathology JID - 100954969 RN - 0 (Antioxidants) RN - 0 (Plant Proteins) RN - 0 (Reactive Oxygen Species) RN - O414PZ4LPZ (Salicylic Acid) MH - Antioxidants/metabolism MH - *BTB-POZ Domain MH - Disease Resistance MH - Gene Expression Regulation, Plant MH - Oxidative Stress MH - Phytophthora/*physiology MH - Plant Diseases/*microbiology MH - Plant Proteins/*chemistry/*metabolism MH - Plants, Genetically Modified MH - Reactive Oxygen Species/metabolism MH - Salicylic Acid/metabolism MH - Signal Transduction MH - Glycine max/genetics/*microbiology MH - Transcriptional Activation/genetics PMC - PMC6430474 OTO - NOTNLM OT - Phytophthora sojae OT - BTB/POZ domain OT - enzymatic antioxidants OT - salicylic acid EDAT- 2018/08/17 06:00 MHDA- 2019/08/09 06:00 PMCR- 2018/10/16 CRDT- 2018/08/17 06:00 PHST- 2018/08/17 06:00 [pubmed] PHST- 2019/08/09 06:00 [medline] PHST- 2018/08/17 06:00 [entrez] PHST- 2018/10/16 00:00 [pmc-release] AID - MPP12741 [pii] AID - 10.1111/mpp.12741 [doi] PST - ppublish SO - Mol Plant Pathol. 2019 Jan;20(1):78-91. doi: 10.1111/mpp.12741. Epub 2018 Oct 16. ##### PUB RECORD ##### ## 10.1038/s41598-019-44255-7 31123331 Kumar, Kumar et al., 2019 "Kumar A, Kumar V, Krishnan V, Hada A, Marathe A, C P, Jolly M, Sachdev A. Seed targeted RNAi-mediated silencing of GmMIPS1 limits phytate accumulation and improves mineral bioavailability in soybean. Sci Rep. 2019 May 23;9(1):7744. doi: 10.1038/s41598-019-44255-7. PMID: 31123331; PMCID: PMC6533290." ## PMID- 31123331 OWN - NLM STAT- MEDLINE DCOM- 20201029 LR - 20231213 IS - 2045-2322 (Electronic) IS - 2045-2322 (Linking) VI - 9 IP - 1 DP - 2019 May 23 TI - Seed targeted RNAi-mediated silencing of GmMIPS1 limits phytate accumulation and improves mineral bioavailability in soybean. PG - 7744 LID - 10.1038/s41598-019-44255-7 [doi] LID - 7744 AB - Phytic acid (PA), the major phosphorus reserve in soybean seeds (60-80%), is a potent ion chelator, causing deficiencies that leads to malnutrition. Several forward and reverse genetics approaches have ever since been explored to reduce its phytate levels to improve the micronutrient and phosphorous availability. Transgenic technology has met with success by suppressing the expression of the PA biosynthesis-related genes in several crops for manipulating their phytate content. In our study, we targeted the disruption of the expression of myo-inositol-3-phosphate synthase (MIPS1), the first and the rate limiting enzyme in PA biosynthesis in soybean seeds, by both antisense (AS) and RNAi approaches, using a seed specific promoter, vicilin. PCR and Southern analysis revealed stable integration of transgene in the advanced progenies. The transgenic seeds (T(4)) of AS (MS14-28-12-29-3-5) and RNAi (MI51-32-22-1-13-6) soybean lines showed 38.75% and 41.34% reduction in phytate levels respectively, compared to non-transgenic (NT) controls without compromised growth and seed development. The electron microscopic examination also revealed reduced globoid crystals in the Protein storage vacoules (PSVs) of mature T(4) seeds compared to NT seed controls. A significant increase in the contents of Fe(2+) (15.4%, 21.7%), Zn(2+) (7.45%, 11.15%) and Ca(2+) (10.4%, 15.35%) were observed in MS14-28-12-29-3-5 and MI51-32-22-1-13-6 transgenic lines, respectively, compared to NT implicating improved mineral bioavailability. This study signifies proof-of-concept demonstration of seed-specific PA reduction and paves the path towards low phytate soybean through pathway engineering using the new and precise editing tools. FAU - Kumar, Awadhesh AU - Kumar A AD - Division of Biochemistry, ICAR-Indian Agricultural Research Institute, New Delhi, 110 012, India. AD - Division of Crop Physiology and Biochemistry, ICAR-National Rice Research Institute, Cuttack, Odisha, India. FAU - Kumar, Varun AU - Kumar V AD - Division of Biochemistry, ICAR-Indian Agricultural Research Institute, New Delhi, 110 012, India. AD - Department of Biotechnology and Bioinformatics, Jaypee University of Information Technology, Waknaghat, (H.P.), India. FAU - Krishnan, Veda AU - Krishnan V AD - Division of Biochemistry, ICAR-Indian Agricultural Research Institute, New Delhi, 110 012, India. FAU - Hada, Alkesh AU - Hada A AD - Division of Biochemistry, ICAR-Indian Agricultural Research Institute, New Delhi, 110 012, India. FAU - Marathe, Ashish AU - Marathe A AD - Division of Biochemistry, ICAR-Indian Agricultural Research Institute, New Delhi, 110 012, India. FAU - C, Parameswaran AU - C P AD - Division of Biochemistry, ICAR-Indian Agricultural Research Institute, New Delhi, 110 012, India. AD - Division of Crop Physiology and Biochemistry, ICAR-National Rice Research Institute, Cuttack, Odisha, India. FAU - Jolly, Monica AU - Jolly M AD - Division of Biochemistry, ICAR-Indian Agricultural Research Institute, New Delhi, 110 012, India. FAU - Sachdev, Archana AU - Sachdev A AD - Division of Biochemistry, ICAR-Indian Agricultural Research Institute, New Delhi, 110 012, India. arcs_bio@yahoo.com. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20190523 PL - England TA - Sci Rep JT - Scientific reports JID - 101563288 RN - 0 (Minerals) RN - 0 (RNA, Antisense) RN - 0 (Seed Storage Proteins) RN - 27YLU75U4W (Phosphorus) RN - 7IGF0S7R8I (Phytic Acid) RN - 9067-60-1 (vicilin protein, plant) RN - EC 5.5.1.4 (Myo-Inositol-1-Phosphate Synthase) SB - IM MH - Biological Availability MH - Fabaceae/genetics/growth & development MH - Gene Expression Regulation, Plant/genetics MH - Genetic Engineering/methods MH - Minerals/metabolism MH - Myo-Inositol-1-Phosphate Synthase/*genetics/metabolism MH - Phosphorus/metabolism MH - Phytic Acid/adverse effects/chemistry/*metabolism MH - Plants, Genetically Modified/genetics/metabolism MH - Promoter Regions, Genetic/genetics MH - RNA Interference/physiology MH - RNA, Antisense/genetics MH - Seed Storage Proteins/genetics MH - Seeds/genetics MH - Glycine max/*genetics/growth & development PMC - PMC6533290 COIS- The authors declare no competing interests. EDAT- 2019/05/28 06:00 MHDA- 2020/10/30 06:00 PMCR- 2019/05/23 CRDT- 2019/05/25 06:00 PHST- 2018/07/24 00:00 [received] PHST- 2019/03/26 00:00 [accepted] PHST- 2019/05/25 06:00 [entrez] PHST- 2019/05/28 06:00 [pubmed] PHST- 2020/10/30 06:00 [medline] PHST- 2019/05/23 00:00 [pmc-release] AID - 10.1038/s41598-019-44255-7 [pii] AID - 44255 [pii] AID - 10.1038/s41598-019-44255-7 [doi] PST - epublish SO - Sci Rep. 2019 May 23;9(1):7744. doi: 10.1038/s41598-019-44255-7. ##### PUB RECORD ##### ## 10.1007/s00122-012-1922-7 22733447 Yuan, Zhu et al., 2012 "Yuan FJ, Zhu DH, Tan YY, Dong DK, Fu XJ, Zhu SL, Li BQ, Shu QY. Identification and characterization of the soybean IPK1 ortholog of a low phytic acid mutant reveals an exon-excluding splice-site mutation. Theor Appl Genet. 2012 Nov;125(7):1413-23. doi: 10.1007/s00122-012-1922-7. Epub 2012 Jun 26. PMID: 22733447." ## PMID- 22733447 OWN - NLM STAT- MEDLINE DCOM- 20130306 LR - 20231213 IS - 1432-2242 (Electronic) IS - 0040-5752 (Linking) VI - 125 IP - 7 DP - 2012 Nov TI - Identification and characterization of the soybean IPK1 ortholog of a low phytic acid mutant reveals an exon-excluding splice-site mutation. PG - 1413-23 LID - 10.1007/s00122-012-1922-7 [doi] AB - Phytic acid (myo-inositol 1, 2, 3, 4, 5, 6 hexakisphosphate) is an important constituent of soybean meal. Since phytic acid and its mineral salts (phytates) are almost indigestible for monogastrics, their abundance in grain food/feed causes nutritional and environmental problems; interest in breeding low phytic acid has therefore increased considerably. Based on gene mapping and the characteristics of inositol polyphosphates profile in the seeds of a soybean mutant line Gm-lpa-ZC-2, the soybean ortholog of inositol 1,3,4,5,6 pentakisphosphate (InsP(5)) 2-kinase (IPK1), which transforms InsP(5) into phytic acid, was first hypothesized as the candidate gene responsible for the low phytic acid alteration in Gm-lpa-ZC-2. One IPK1 ortholog (Glyma14g07880, GmIPK1) was then identified in the mapped region on chromosome 14. Sequencing revealed a G --> A point mutation in the genomic DNA sequence and the exclusion of the entire fifth exon in the cDNA sequence of GmIPK1 in Gm-lpa-ZC-2 compared with its wild-type progenitor Zhechun No. 3. The excluded exon encodes 37 amino acids that spread across two conserved IPK1 motifs. Furthermore, complete co-segregation of low phytic acid phenotype with the G --> A mutation was observed in the F(2) population of ZC-lpa x Zhexiandou No. 4 (a wild-type cultivar). Put together, the G --> A point mutation affected the pre-mRNA splicing and resulted in the exclusion of the fifth exon of GmIPK1 which is expected to disrupt the GmIPK1 functionality, leading to low phytic acid level in Gm-lpa-ZC-2. Gm-lpa-ZC-2, would be a good germplasm source in low phytic acid soybean breeding. FAU - Yuan, Feng-Jie AU - Yuan FJ AD - Institute of Crop Science and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou, 310021, China. FAU - Zhu, Dan-Hua AU - Zhu DH FAU - Tan, Yuan-Yuan AU - Tan YY FAU - Dong, De-Kun AU - Dong DK FAU - Fu, Xu-Jun AU - Fu XJ FAU - Zhu, Shen-Long AU - Zhu SL FAU - Li, Bai-Quan AU - Li BQ FAU - Shu, Qing-Yao AU - Shu QY LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20120626 PL - Germany TA - Theor Appl Genet JT - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik JID - 0145600 RN - 0 (DNA, Complementary) RN - 0 (DNA, Plant) RN - 0 (Phosphates) RN - 0 (RNA Splice Sites) RN - 7IGF0S7R8I (Phytic Acid) RN - EC 2.7.1.- (Phosphotransferases (Alcohol Group Acceptor)) SB - IM MH - Base Sequence MH - Crosses, Genetic MH - DNA, Complementary/genetics MH - DNA, Plant/genetics MH - Exons/*genetics MH - Gene Expression Regulation, Plant MH - Genes, Plant/genetics MH - Homozygote MH - Molecular Sequence Data MH - Mutation/*genetics MH - Phenotype MH - Phosphates/metabolism MH - Phosphotransferases (Alcohol Group Acceptor)/genetics MH - Physical Chromosome Mapping MH - Phytic Acid/*metabolism MH - RNA Splice Sites/*genetics MH - Seeds/genetics/metabolism MH - *Sequence Homology, Amino Acid MH - Glycine max/embryology/*enzymology/*genetics MH - Transcription, Genetic EDAT- 2012/06/27 06:00 MHDA- 2013/03/07 06:00 CRDT- 2012/06/27 06:00 PHST- 2012/02/02 00:00 [received] PHST- 2012/06/11 00:00 [accepted] PHST- 2012/06/27 06:00 [entrez] PHST- 2012/06/27 06:00 [pubmed] PHST- 2013/03/07 06:00 [medline] AID - 10.1007/s00122-012-1922-7 [doi] PST - ppublish SO - Theor Appl Genet. 2012 Nov;125(7):1413-23. doi: 10.1007/s00122-012-1922-7. Epub 2012 Jun 26. ##### PUB RECORD ##### ## 10.1073/pnas.2100136118 33846264 Pan, Yu et al., 2021 "Pan L, Yu Q, Wang J, Han H, Mao L, Nyporko A, Maguza A, Fan L, Bai L, Powles S. An ABCC-type transporter endowing glyphosate resistance in plants. Proc Natl Acad Sci U S A. 2021 Apr 20;118(16):e2100136118. doi: 10.1073/pnas.2100136118. PMID: 33846264; PMCID: PMC8072331." ## PMID- 33846264 OWN - NLM STAT- MEDLINE DCOM- 20211207 LR - 20231213 IS - 1091-6490 (Electronic) IS - 0027-8424 (Print) IS - 0027-8424 (Linking) VI - 118 IP - 16 DP - 2021 Apr 20 TI - An ABCC-type transporter endowing glyphosate resistance in plants. LID - 10.1073/pnas.2100136118 [doi] LID - e2100136118 AB - Glyphosate is the most widely used herbicide in world agriculture and for general vegetation control in a wide range of situations. Global and often intensive glyphosate selection of very large weedy plant populations has resulted in widespread glyphosate resistance evolution in populations of many weed species. Here, working with a glyphosate-resistant (GR) Echinochloa colona population that evolved in a Western Australia agricultural field, we identified an ATP-binding cassette (ABC) transporter (EcABCC8) that is consistently up-regulated in GR plants. When expressed in transgenic rice, this EcABCC8 transporter endowed glyphosate resistance. Equally, rice, maize, and soybean overexpressing the EcABCC8 ortholog genes were made resistant to glyphosate. Conversely, CRISPR/Cas9-mediated knockout of the EcABCC8 ortholog gene OsABCC8 increased rice susceptibility to glyphosate. Subcellular localization analysis and quantification of glyphosate cellular levels in treated ABCC8 transgenic rice plants and isolated leaf protoplasts as well as structural modeling support that EcABCC8 is likely a plasma membrane-localized transporter extruding cytoplasmic glyphosate to the apoplast, lowering the cellular glyphosate level. This is a report of a membrane transporter effluxing glyphosate in a GR plant species, and its function is likely conserved in crop plant species. FAU - Pan, Lang AU - Pan L AUID- ORCID: 0000-0001-8248-2055 AD - Hunan Weed Science Key Laboratory, Hunan Academy of Agricultural Sciences, 410125 Changsha, China. AD - College of Plant Protection, Hunan Agricultural University, 410128 Changsha, China. AD - Australian Herbicide Resistance Initiative, School of Agriculture and Environment, University of Western Australia, WA 6009, Australia. FAU - Yu, Qin AU - Yu Q AUID- ORCID: 0000-0001-6379-9444 AD - Australian Herbicide Resistance Initiative, School of Agriculture and Environment, University of Western Australia, WA 6009, Australia; qin.yu@uwa.edu.au lybai@hunaas.cn stephen.powles@uwa.edu.au. FAU - Wang, Junzhi AU - Wang J AUID- ORCID: 0000-0002-9987-4888 AD - Hunan Weed Science Key Laboratory, Hunan Academy of Agricultural Sciences, 410125 Changsha, China. FAU - Han, Heping AU - Han H AUID- ORCID: 0000-0002-0918-2598 AD - Australian Herbicide Resistance Initiative, School of Agriculture and Environment, University of Western Australia, WA 6009, Australia. FAU - Mao, Lingfeng AU - Mao L AUID- ORCID: 0000-0002-5021-8628 AD - Institute of Crop Science, Zhejiang University-Xuan Gu Agricultural Joint Innovation Center, Zhejiang University, 310058 Hangzhou, China. FAU - Nyporko, Alex AU - Nyporko A AUID- ORCID: 0000-0003-1664-6837 AD - Department of Molecular Biotechnology and Bioinformatics, Taras Shevchenko National University of Kyiv, 01033 Kiev, Ukraine. FAU - Maguza, Anna AU - Maguza A AUID- ORCID: 0000-0001-5634-9971 AD - Department of Molecular Biotechnology and Bioinformatics, Taras Shevchenko National University of Kyiv, 01033 Kiev, Ukraine. FAU - Fan, Longjiang AU - Fan L AUID- ORCID: 0000-0003-4846-0500 AD - Institute of Crop Science, Zhejiang University-Xuan Gu Agricultural Joint Innovation Center, Zhejiang University, 310058 Hangzhou, China. FAU - Bai, Lianyang AU - Bai L AUID- ORCID: 0000-0003-1605-9173 AD - Hunan Weed Science Key Laboratory, Hunan Academy of Agricultural Sciences, 410125 Changsha, China; qin.yu@uwa.edu.au lybai@hunaas.cn stephen.powles@uwa.edu.au. AD - College of Plant Protection, Hunan Agricultural University, 410128 Changsha, China. FAU - Powles, Stephen AU - Powles S AD - Australian Herbicide Resistance Initiative, School of Agriculture and Environment, University of Western Australia, WA 6009, Australia; qin.yu@uwa.edu.au lybai@hunaas.cn stephen.powles@uwa.edu.au. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PL - United States TA - Proc Natl Acad Sci U S A JT - Proceedings of the National Academy of Sciences of the United States of America JID - 7505876 RN - 0 (ATP-Binding Cassette Transporters) RN - 0 (Herbicides) RN - 0 (Membrane Transport Proteins) RN - TE7660XO1C (Glycine) SB - IM CIN - doi: 10.1073/pnas.2104746118 MH - ATP-Binding Cassette Transporters/genetics/*metabolism MH - Cell Membrane/metabolism MH - Echinochloa/drug effects/genetics/metabolism MH - Glycine/*analogs & derivatives/metabolism MH - Herbicide Resistance/*genetics MH - Herbicides/pharmacology MH - Membrane Transport Proteins/genetics/metabolism MH - Oryza/genetics MH - Plant Leaves/drug effects MH - Plant Weeds/genetics MH - Plants/metabolism MH - Plants, Genetically Modified/drug effects MH - Glycine max/genetics MH - Zea mays/genetics MH - Glyphosate PMC - PMC8072331 OTO - NOTNLM OT - ABC transporter OT - Echinochloa colona OT - glyphosate exporter OT - glyphosate resistance OT - plasma membrane COIS- The authors declare no competing interest. EDAT- 2021/04/14 06:00 MHDA- 2021/12/15 06:00 PMCR- 2021/10/12 CRDT- 2021/04/13 05:50 PHST- 2021/04/13 05:50 [entrez] PHST- 2021/04/14 06:00 [pubmed] PHST- 2021/12/15 06:00 [medline] PHST- 2021/10/12 00:00 [pmc-release] AID - 2100136118 [pii] AID - 202100136 [pii] AID - 10.1073/pnas.2100136118 [doi] PST - ppublish SO - Proc Natl Acad Sci U S A. 2021 Apr 20;118(16):e2100136118. doi: 10.1073/pnas.2100136118. ##### PUB RECORD ##### ## 10.1016/j.yrtph.2017.01.004 28132846 Fang, Feng, et al., 2017 "Fang J, Feng Y, Zhi Y, Zhang L, Yu Z, Jia X. A 90-day toxicity study of GmTMT transgenic maize in Sprague-Dawley rats. Regul Toxicol Pharmacol. 2017 Apr;85:48-54. doi: 10.1016/j.yrtph.2017.01.004. Epub 2017 Jan 27. PMID: 28132846." ## PMID- 28132846 OWN - NLM STAT- MEDLINE DCOM- 20170327 LR - 20231213 IS - 1096-0295 (Electronic) IS - 0273-2300 (Linking) VI - 85 DP - 2017 Apr TI - A 90-day toxicity study of GmTMT transgenic maize in Sprague-Dawley rats. PG - 48-54 LID - S0273-2300(17)30004-1 [pii] LID - 10.1016/j.yrtph.2017.01.004 [doi] AB - GmTMT transgenic maize is a genetically modified maize plant that overexpresses the gamma-tocopherol methyltransferase (gamma-TMT) from Glycine max (Gm). The gamma-TMT gene was introduced into maize line Zhen58 to encode the GmTMT2a protein which can convert gamma-tocopherol into alpha-tocopherol. Overexpression of GmTMT2a significantly increased the alpha-tocopherol content in transgenic maize. The present study was designed to investigate any potential effects of GmTMT maize grain in a 90-day subchronic rodent feeding study. Maize grains from GmTMT or Zhen58 were incorporated into rodent diets at low (12.5%), medium (25%) or high (50%) concentrations and administered to Sprague-Dawley rats (n = 10/sex/group) for 90 days. The negative control group of rats (n = 10/sex/group) were fed with common maize diets. Results from body weights, feed consumption, clinical chemistry, hematology, absolute and relative organ weights indicated no treatment-related side effects of GmTMT maize grain on rats in comparison with rats consuming diets containing Zhen58 maize grain. In addition, no treatment-related changes were found in necropsy and histopathology examinations. Altogether, our data indicates that GmTMT transgenic maize is as safe and nutritious as its conventional non-transgenic maize. CI - Copyright (c) 2017 Elsevier Inc. All rights reserved. FAU - Fang, Jin AU - Fang J AD - Key Laboratory of Food Safety Risk Assessment of Ministry of Health, National Center for Food Safety Risk Assessment, Beijing 100021, China. FAU - Feng, Yongquan AU - Feng Y AD - Key Laboratory of Food Safety Risk Assessment of Ministry of Health, National Center for Food Safety Risk Assessment, Beijing 100021, China. FAU - Zhi, Yuan AU - Zhi Y AD - Key Laboratory of Food Safety Risk Assessment of Ministry of Health, National Center for Food Safety Risk Assessment, Beijing 100021, China. FAU - Zhang, Lan AU - Zhang L AD - Biotechnology Research Institute, National Key Facility of Crop Gene Resources and Genetic Improvement, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Yu, Zhou AU - Yu Z AD - Key Laboratory of Food Safety Risk Assessment of Ministry of Health, National Center for Food Safety Risk Assessment, Beijing 100021, China. Electronic address: yuzhou310@163.com. FAU - Jia, Xudong AU - Jia X AD - Key Laboratory of Food Safety Risk Assessment of Ministry of Health, National Center for Food Safety Risk Assessment, Beijing 100021, China. Electronic address: jiaxudong@cfsa.net.cn. LA - eng PT - Journal Article DEP - 20170127 PL - Netherlands TA - Regul Toxicol Pharmacol JT - Regulatory toxicology and pharmacology : RTP JID - 8214983 RN - 0 (Plant Proteins) RN - EC 2.1.1.- (Methyltransferases) RN - EC 2.1.1.95 (gamma-tocopherol methyltransferase) SB - IM MH - Animals MH - Female MH - Male MH - Methyltransferases/*genetics MH - Plant Proteins/*genetics MH - Plants, Genetically Modified/*toxicity MH - Rats, Sprague-Dawley MH - Glycine max/*enzymology MH - Toxicity Tests, Subchronic MH - Zea mays/*genetics OTO - NOTNLM OT - Feeding study OT - Rats OT - Toxicity OT - Transgenic maize EDAT- 2017/01/31 06:00 MHDA- 2017/03/28 06:00 CRDT- 2017/01/31 06:00 PHST- 2016/09/21 00:00 [received] PHST- 2017/01/22 00:00 [revised] PHST- 2017/01/24 00:00 [accepted] PHST- 2017/01/31 06:00 [pubmed] PHST- 2017/03/28 06:00 [medline] PHST- 2017/01/31 06:00 [entrez] AID - S0273-2300(17)30004-1 [pii] AID - 10.1016/j.yrtph.2017.01.004 [doi] PST - ppublish SO - Regul Toxicol Pharmacol. 2017 Apr;85:48-54. doi: 10.1016/j.yrtph.2017.01.004. Epub 2017 Jan 27. ##### PUB RECORD ##### ## 10.1371/journal.pone.0089030 24586488 Zhai, Lu et al., 2014 "Zhai H, Lü S, Liang S, Wu H, Zhang X, Liu B, Kong F, Yuan X, Li J, Xia Z. GmFT4, a homolog of FLOWERING LOCUS T, is positively regulated by E1 and functions as a flowering repressor in soybean. PLoS One. 2014 Feb 19;9(2):e89030. doi: 10.1371/journal.pone.0089030. PMID: 24586488; PMCID: PMC3929636." ## PMID- 24586488 OWN - NLM STAT- MEDLINE DCOM- 20150110 LR - 20240109 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 9 IP - 2 DP - 2014 TI - GmFT4, a homolog of FLOWERING LOCUS T, is positively regulated by E1 and functions as a flowering repressor in soybean. PG - e89030 LID - 10.1371/journal.pone.0089030 [doi] LID - e89030 AB - The major maturity gene E1 has the most prominent effect on flowering time and photoperiod sensitivity of soybean, but the pathway mediated by E1 is largely unknown. Here, we found the expression of GmFT4, a homolog of Flowering Locus T, was strongly up-regulated in transgenic soybean overexpressing E1, whereas expression of flowering activators, GmFT2a and GmFT5a, was suppressed. GmFT4 expression was strongly up-regulated by long days exhibiting a diurnal rhythm, but down-regulated by short days. Notably, the basal expression level of GmFT4 was elevated when transferred to continous light, whereas repressed when transferred to continuous dark. GmFT4 was primarily expressed in fully expanded leaves. Transcript abundance of GmFT4 was significantly correlated with that of functional E1, as well as flowering time phenotype in different cultivars. Overexpression of GmFT4 delayed the flowering time in transgenic Arabidopsis. Taken together, we propose that GmFT4 acts downstream of E1 and functions as a flowering repressor, and the balance of two antagonistic factors (GmFT4 vs GmFT2a/5a) determines the flowering time of soybean. FAU - Zhai, Hong AU - Zhai H AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, Heilongjiang, China. FAU - Lu, Shixiang AU - Lu S AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, Heilongjiang, China. FAU - Liang, Shuang AU - Liang S AD - College of Life Science, Northeast Agricultural University, Harbin, Heilongjiang, China. FAU - Wu, Hongyan AU - Wu H AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, Heilongjiang, China. FAU - Zhang, Xingzheng AU - Zhang X AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, Heilongjiang, China. FAU - Liu, Baohui AU - Liu B AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, Heilongjiang, China. FAU - Kong, Fanjiang AU - Kong F AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, Heilongjiang, China. FAU - Yuan, Xiaohui AU - Yuan X AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, Heilongjiang, China. FAU - Li, Jing AU - Li J AD - College of Life Science, Northeast Agricultural University, Harbin, Heilongjiang, China. FAU - Xia, Zhengjun AU - Xia Z AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, Heilongjiang, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140219 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Arabidopsis Proteins) RN - 0 (FT protein, Arabidopsis) RN - 0 (Plant Proteins) RN - 0 (Repressor Proteins) RN - 0 (Transcription Factors) SB - IM MH - Amino Acid Sequence MH - Arabidopsis/genetics MH - Arabidopsis Proteins/genetics MH - Flowers/*genetics MH - Gene Expression Regulation, Plant MH - Molecular Sequence Data MH - Phylogeny MH - Plant Proteins/*genetics MH - Plants, Genetically Modified MH - Repressor Proteins/*genetics MH - Sequence Homology MH - Glycine max/*genetics MH - Transcription Factors/*genetics PMC - PMC3929636 COIS- Competing Interests: The authors have declared that no competing interests exist. EDAT- 2014/03/04 06:00 MHDA- 2015/01/13 06:00 PMCR- 2014/02/19 CRDT- 2014/03/04 06:00 PHST- 2013/09/14 00:00 [received] PHST- 2014/01/19 00:00 [accepted] PHST- 2014/03/04 06:00 [entrez] PHST- 2014/03/04 06:00 [pubmed] PHST- 2015/01/13 06:00 [medline] PHST- 2014/02/19 00:00 [pmc-release] AID - PONE-D-13-37961 [pii] AID - 10.1371/journal.pone.0089030 [doi] PST - epublish SO - PLoS One. 2014 Feb 19;9(2):e89030. doi: 10.1371/journal.pone.0089030. eCollection 2014. ##### PUB RECORD ##### ## 10.1007/s11033-011-0875-2 21617948 Xue, Zhang et al., 2012 "Xue ZG, Zhang XM, Lei CF, Chen XJ, Fu YF. Molecular cloning and functional analysis of one ZEITLUPE homolog GmZTL3 in soybean. Mol Biol Rep. 2012 Feb;39(2):1411-8. doi: 10.1007/s11033-011-0875-2. Epub 2011 May 27. PMID: 21617948." ## PMID- 21617948 OWN - NLM STAT- MEDLINE DCOM- 20120501 LR - 20231213 IS - 1573-4978 (Electronic) IS - 0301-4851 (Linking) VI - 39 IP - 2 DP - 2012 Feb TI - Molecular cloning and functional analysis of one ZEITLUPE homolog GmZTL3 in soybean. PG - 1411-8 LID - 10.1007/s11033-011-0875-2 [doi] AB - ZEITLUPE (ZTL) plays an important role in the control of flowering time and photomorpogenesis in Arabidopsis and is highly conserved throughout the plant kingdom. Here, we report the characterization of a soybean ZTL homolog GmZTL3 (Glycine max ZTL 3). The absorption spectrum of the recombinant GmZTL3 proteins indicates that it may be a UV/blue photoreceptor. The GmZTL3 expression is independent of diurnal cycles and varies in different tissues along with developmental stages. Before the unifoliolates open fully, GmZTL3 transcripts concentrate in the roots and hypocotyls, while at flowering GmZTL3 accumulates at higher abundance in stems and petioles. Furthermore, the GmZTL3 mRNA accumulates in all kinds of leaves before flowering and concentrates in maturation seeds. In Arabidopsis, the ectopic expression of GmZTL3 delays flowering, implicating GmZTL3 is an inhibitor of flowering induction. Our data indicate that GmZTL3 probably functions as a photoreceptor and plays a role in multiple developmental processes, including the control of flowering time. FAU - Xue, Zheng-Gang AU - Xue ZG AD - College of Agronomy, Henan Agricultural University, 63 Nongye Road, Jinshui District, Zhengzhou 450002, China. FAU - Zhang, Xiao-Mei AU - Zhang XM FAU - Lei, Chen-Fang AU - Lei CF FAU - Chen, Xin-Jian AU - Chen XJ FAU - Fu, Yong-Fu AU - Fu YF LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20110527 PL - Netherlands TA - Mol Biol Rep JT - Molecular biology reports JID - 0403234 RN - 0 (Arabidopsis Proteins) RN - 0 (DNA Primers) RN - 0 (DNA, Complementary) RN - 0 (Photoreceptors, Plant) RN - 0 (ZTL protein, Arabidopsis) SB - IM MH - Arabidopsis/metabolism MH - Arabidopsis Proteins/genetics MH - Circadian Rhythm/*genetics MH - Cloning, Molecular MH - Computational Biology MH - DNA Primers/genetics MH - DNA, Complementary/genetics MH - Flowers/*genetics/physiology MH - Genetic Vectors/genetics MH - Microscopy, Confocal MH - Photoreceptors, Plant/*genetics/*metabolism MH - Saccharomyces cerevisiae MH - Glycine max/*genetics/growth & development/metabolism MH - Spectrophotometry, Atomic EDAT- 2011/05/28 06:00 MHDA- 2012/05/02 06:00 CRDT- 2011/05/28 06:00 PHST- 2011/03/02 00:00 [received] PHST- 2011/05/14 00:00 [accepted] PHST- 2011/05/28 06:00 [entrez] PHST- 2011/05/28 06:00 [pubmed] PHST- 2012/05/02 06:00 [medline] AID - 10.1007/s11033-011-0875-2 [doi] PST - ppublish SO - Mol Biol Rep. 2012 Feb;39(2):1411-8. doi: 10.1007/s11033-011-0875-2. Epub 2011 May 27. ##### PUB RECORD ##### ## 10.1270/jsbbs.16201 29085246 Sayama, Tanabata et. al., 2017 "Sayama T, Tanabata T, Saruta M, Yamada T, Anai T, Kaga A, Ishimoto M. Confirmation of the pleiotropic control of leaflet shape and number of seeds per pod by the Ln gene in induced soybean mutants. Breed Sci. 2017 Sep;67(4):363-369. doi: 10.1270/jsbbs.16201. Epub 2017 Jul 28. PMID: 29085246; PMCID: PMC5654458." ## PMID- 29085246 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20200930 IS - 1344-7610 (Print) IS - 1347-3735 (Electronic) IS - 1344-7610 (Linking) VI - 67 IP - 4 DP - 2017 Sep TI - Confirmation of the pleiotropic control of leaflet shape and number of seeds per pod by the Ln gene in induced soybean mutants. PG - 363-369 LID - 10.1270/jsbbs.16201 [doi] AB - Most soybean cultivars possess broad leaflets; however, a recessive allele on the Ln locus is known to cause the alteration of broad to narrow leaflets. The recessive allele ln has also been considered to increase the number of seeds per pod (NSP) and has the potential to improve yield. Recently, Gm-JAG1 (Glyma20g25000), a gene controlling Ln, has been shown to complement leaf shape and silique length in Arabidopsis mutants. However, whether Gm-JAG1 is responsible for those traits in soybean is not yet known. In this study, we investigated the pleiotropic effect of soybean Ln gene on leaflet shape and NSP by using two independent soybean Gm-jag1 mutants and four ln near isogenic lines (NILs). The leaflet shape was evaluated using a leaf image analysis software, SmartLeaf, which was customized from SmartGrain. The leaflets of both the Gm-jag1 mutants were longer and narrower than those of the wild-type plants. Interestingly, the image analysis results clarified that the perimeter of the mutant leaflets did not change, although their leaflet area decreased. Furthermore, one mutant line with narrow leaflets showed significantly higher NSP than that in the wild (or Ln) genotype, indicating that soybean Ln gene pleiotropically controls leaflet shape and NSP. FAU - Sayama, Takashi AU - Sayama T AD - Institute of Crop Science, National Agriculture and Food Research Organization (NARO), 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518, Japan. AD - Western Region Agricultural Research Center, NARO, 1-3-1 Senyu, Zentsuji, Kagawa 765-8508, Japan. FAU - Tanabata, Takanari AU - Tanabata T AD - Kazusa DNA Research Institute, 2-6-7 Kazusa-kamatari, Kisarazu, Chiba 292-0818, Japan. FAU - Saruta, Masayasu AU - Saruta M AD - Western Region Agricultural Research Center, NARO, 1-3-1 Senyu, Zentsuji, Kagawa 765-8508, Japan. AD - Present address: Agriculture, Forestry and Fisheries Research Council, Ministry of Agriculture, Forestry and Fisheries, 1-2-1 Kasumigaseki, Chiyoda, Tokyo 100-8950, Japan. FAU - Yamada, Testsuya AU - Yamada T AD - Institute of Crop Science, National Agriculture and Food Research Organization (NARO), 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518, Japan. FAU - Anai, Toyoaki AU - Anai T AD - Laboratory of Plant Genetics and Breeding, Faculty of Agriculture, Saga University, Honjyo-machi 1, Saga 840-8502, Japan. FAU - Kaga, Akito AU - Kaga A AD - Institute of Crop Science, National Agriculture and Food Research Organization (NARO), 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518, Japan. FAU - Ishimoto, Masao AU - Ishimoto M AD - Institute of Crop Science, National Agriculture and Food Research Organization (NARO), 2-1-2 Kannondai, Tsukuba, Ibaraki 305-8518, Japan. LA - eng PT - Journal Article DEP - 20170728 PL - Japan TA - Breed Sci JT - Breeding science JID - 9888571 PMC - PMC5654458 OTO - NOTNLM OT - Glycine max (L.) Merrill OT - Ln gene OT - leaflet shape OT - pleiotropic effect OT - seed number per pod EDAT- 2017/11/01 06:00 MHDA- 2017/11/01 06:01 PMCR- 2017/09/01 CRDT- 2017/11/01 06:00 PHST- 2016/12/26 00:00 [received] PHST- 2017/05/15 00:00 [accepted] PHST- 2017/11/01 06:00 [entrez] PHST- 2017/11/01 06:00 [pubmed] PHST- 2017/11/01 06:01 [medline] PHST- 2017/09/01 00:00 [pmc-release] AID - 67_16201 [pii] AID - 10.1270/jsbbs.16201 [doi] PST - ppublish SO - Breed Sci. 2017 Sep;67(4):363-369. doi: 10.1270/jsbbs.16201. Epub 2017 Jul 28. ##### PUB RECORD ##### ## 10.1104/pp.107.1.253 12228359 Chao et al., 1995 "Chao WS, Liu V, Thomson WW, Platt K, Walling LL. The Impact of Chlorophyll-Retention Mutations, d1d2 and cyt-G1, during Embryogeny in Soybean. Plant Physiol. 1995 Jan;107(1):253-262. doi: 10.1104/pp.107.1.253. PMID: 12228359; PMCID: PMC161196." ## PMID- 12228359 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20191120 IS - 1532-2548 (Electronic) IS - 0032-0889 (Print) IS - 0032-0889 (Linking) VI - 107 IP - 1 DP - 1995 Jan TI - The Impact of Chlorophyll-Retention Mutations, d1d2 and cyt-G1, during Embryogeny in Soybean. PG - 253-262 AB - The ultrastructural, physiological, and molecular changes in developing and mature seeds were monitored in a control line (Glycine max [L.] Merr., cv Clark) that exhibited seed degreening and two mutant lines (d1d2 and cyt-G1) that retained chlorophyll upon seed maturation. Ultrastructural studies showed that the control line had no internal membranes, whereas stacked thylakoid membranes were detected in the green seed from the mutant lines. Pigment analyses indicated that total chlorophyll was lowest in the mature seeds of the control line. Mature d1d2 and cyt-G1 seed had elevated Chl a and Chl b levels, respectively. In both control and mutant lines, Lhcb1, Lhcb2, and RbcS mRNAs were abundant in embryos prior to cotyledon filling, declined after the onset of storage protein accumulation, and were barely detectable or undetectable in all later stages of seed development. Therefore, the chlorophyll-retention phenotype must be a result of the alteration of a process that occurs after translation of photosynthesis-related mRNAs to stabilize apoprotein and pigment levels. Furthermore, different elements controlling either the synthesis or turnover of Chl a and Chl b must be impaired in the d1d2 and cyt-G1 lines. No reproducible differences in total leaf, embryonic, and chloroplast protein profiles and plastid DNAs could be correlated with the mutations that induced chlorophyll retention. FAU - Chao, W S AU - Chao WS AD - Department of Botany and Plant Sciences, University of California, Riverside, California 92521-0124. FAU - Liu, V AU - Liu V FAU - Thomson, W W AU - Thomson WW FAU - Platt, K AU - Platt K FAU - Walling, L L AU - Walling LL LA - eng PT - Journal Article PL - United States TA - Plant Physiol JT - Plant physiology JID - 0401224 PMC - PMC161196 EDAT- 1995/01/01 00:00 MHDA- 2002/09/14 10:00 PMCR- 1996/01/01 CRDT- 1995/01/01 00:00 PHST- 1995/01/01 00:00 [pubmed] PHST- 2002/09/14 10:00 [medline] PHST- 1995/01/01 00:00 [entrez] PHST- 1996/01/01 00:00 [pmc-release] AID - 107/1/253 [pii] AID - 10.1104/pp.107.1.253 [doi] PST - ppublish SO - Plant Physiol. 1995 Jan;107(1):253-262. doi: 10.1104/pp.107.1.253. ##### PUB RECORD ##### ## 10.1111/jipb.13070 33458938 Yue, Li et al., 2021 "Yue L, Li X, Fang C, Chen L, Yang H, Yang J, Chen Z, Nan H, Chen L, Zhang Y, Li H, Hou X, Dong Z, Weller JL, Abe J, Liu B, Kong F. FT5a interferes with the Dt1-AP1 feedback loop to control flowering time and shoot determinacy in soybean. J Integr Plant Biol. 2021 Jun;63(6):1004-1020. doi: 10.1111/jipb.13070. Epub 2021 Mar 26. PMID: 33458938." ## PMID- 33458938 OWN - NLM STAT- MEDLINE DCOM- 20210804 LR - 20231213 IS - 1744-7909 (Electronic) IS - 1672-9072 (Linking) VI - 63 IP - 6 DP - 2021 Jun TI - FT5a interferes with the Dt1-AP1 feedback loop to control flowering time and shoot determinacy in soybean. PG - 1004-1020 LID - 10.1111/jipb.13070 [doi] AB - Flowering time and stem growth habit determine inflorescence architecture in soybean, which in turn influences seed yield. Dt1, a homolog of Arabidopsis TERMINAL FLOWER 1 (TFL1), is a major controller of stem growth habit, but its underlying molecular mechanisms remain unclear. Here, we demonstrate that Dt1 affects node number and plant height, as well as flowering time, in soybean under long-day conditions. The bZIP transcription factor FDc1 physically interacts with Dt1, and the FDc1-Dt1 complex directly represses the expression of APETALA1 (AP1). We propose that FT5a inhibits Dt1 activity via a competitive interaction with FDc1 and directly upregulates AP1. Moreover, AP1 represses Dt1 expression by directly binding to the Dt1 promoter, suggesting that AP1 and Dt1 form a suppressive regulatory feedback loop to determine the fate of the shoot apical meristem. These findings provide novel insights into the roles of Dt1 and FT5a in controlling the stem growth habit and flowering time in soybean, which determine the adaptability and grain yield of this important crop. CI - (c) 2021 Institute of Botany, Chinese Academy of Sciences. FAU - Yue, Lin AU - Yue L AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. FAU - Li, Xiaoming AU - Li X AD - Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement & Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, the Chinese Academy of Sciences, Guangzhou, 510650, China. FAU - Fang, Chao AU - Fang C AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. FAU - Chen, Liyu AU - Chen L AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. FAU - Yang, Hui AU - Yang H AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. FAU - Yang, Jie AU - Yang J AD - Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement & Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, the Chinese Academy of Sciences, Guangzhou, 510650, China. FAU - Chen, Zhonghui AU - Chen Z AD - Key Laboratory of South China Agricultural Plant Molecular Analysis and Genetic Improvement & Guangdong Provincial Key Laboratory of Applied Botany, South China Botanical Garden, the Chinese Academy of Sciences, Guangzhou, 510650, China. AD - University of the Chinese Academy of Sciences, Beijing, 100049, China. FAU - Nan, Haiyang AU - Nan H AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. FAU - Chen, Linnan AU - Chen L AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. FAU - Zhang, Yuhang AU - Zhang Y AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. FAU - Li, Haiyang AU - Li H AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. AD - National Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Nanjing Agricultural University, Nanjing, 210095, China. FAU - Hou, Xingliang AU - Hou X AD - School of Natural Sciences, University of Tasmania, Hobart, Tasmania, 7001, Australia. FAU - Dong, Zhicheng AU - Dong Z AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. FAU - Weller, James L AU - Weller JL AD - School of Natural Sciences, University of Tasmania, Hobart, Tasmania, 7001, Australia. FAU - Abe, Jun AU - Abe J AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, 060-8589, Japan. FAU - Liu, Baohui AU - Liu B AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, the Chinese Academy of Sciences, Harbin, 1500000, China. FAU - Kong, Fanjiang AU - Kong F AD - School of Life Sciences, Innovative Center of Molecular Genetics and Evolution, Guangzhou University, Guangzhou, 510006, China. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, the Chinese Academy of Sciences, Harbin, 1500000, China. LA - eng GR - Major Program of Guangdong Basic and Applied Research/ GR - National Natural Science Foundation of China/ GR - China Postdoctoral Science Foundation/ PT - Journal Article DEP - 20210326 PL - China (Republic : 1949- ) TA - J Integr Plant Biol JT - Journal of integrative plant biology JID - 101250502 RN - 0 (Plant Proteins) SB - IM MH - Arabidopsis/genetics/metabolism/physiology MH - Flowers/genetics/metabolism/physiology MH - Habits MH - Meristem/genetics/*metabolism/*physiology MH - Plant Proteins/genetics/metabolism MH - Glycine max/genetics/*metabolism/*physiology OTO - NOTNLM OT - AP1 OT - Dt1 OT - FDc1 OT - FT5a OT - flowering OT - soybean OT - stem growth habit EDAT- 2021/01/19 06:00 MHDA- 2021/08/05 06:00 CRDT- 2021/01/18 05:39 PHST- 2020/10/30 00:00 [received] PHST- 2021/01/08 00:00 [accepted] PHST- 2021/01/19 06:00 [pubmed] PHST- 2021/08/05 06:00 [medline] PHST- 2021/01/18 05:39 [entrez] AID - 10.1111/jipb.13070 [doi] PST - ppublish SO - J Integr Plant Biol. 2021 Jun;63(6):1004-1020. doi: 10.1111/jipb.13070. Epub 2021 Mar 26. ##### PUB RECORD ##### ## 10.1093/jxb/ert238 23963672 Song, Li et al., 2013 "Song QX, Li QT, Liu YF, Zhang FX, Ma B, Zhang WK, Man WQ, Du WG, Wang GD, Chen SY, Zhang JS. Soybean GmbZIP123 gene enhances lipid content in the seeds of transgenic Arabidopsis plants. J Exp Bot. 2013 Nov;64(14):4329-41. doi: 10.1093/jxb/ert238. Epub 2013 Aug 20. PMID: 23963672; PMCID: PMC3808315." ## PMID- 23963672 OWN - NLM STAT- MEDLINE DCOM- 20140527 LR - 20231213 IS - 1460-2431 (Electronic) IS - 0022-0957 (Print) IS - 0022-0957 (Linking) VI - 64 IP - 14 DP - 2013 Nov TI - Soybean GmbZIP123 gene enhances lipid content in the seeds of transgenic Arabidopsis plants. PG - 4329-41 LID - 10.1093/jxb/ert238 [doi] AB - Soybean is one of most important oil crops and a significant increase in lipid content in soybean seeds would facilitate vegetable oil production in the world. Although the pathways for lipid biosynthesis in higher plants have been uncovered, our understanding of regulatory mechanism controlling lipid accumulation is still limited. In this study, we identified 87 transcription factor genes with a higher abundance at the stage of lipid accumulation in soybean seeds. One of these genes, GmbZIP123, was selected to further study its function in regulation of lipid accumulation. Overexpression of GmbZIP123 enhanced lipid content in the seeds of transgenic Arabidopsis thaliana plants. The GmbZIP123 transgene promoted expression of two sucrose transporter genes (SUC1 and SUC5) and three cell-wall invertase genes (cwINV1, cwINV3, and cwINV6) by binding directly to the promoters of these genes. Consistently, the cell-wall invertase activity and sugar translocation were all enhanced in siliques of GmbZIP123 transgenic plants. Higher levels of glucose, fructose, and sucrose were also found in seeds of GmbZIP123 transgenic plants. These results suggest that GmbZIP123 may participate in regulation of lipid accumulation in soybean seeds by controlling sugar transport into seeds from photoautotrophic tissues. This study provides novel insights into the regulatory mechanism for lipid accumulation in seeds and may facilitate improvements in oil production in soybean and other oil crops through genetic manipulation of the GmbZIP123 gene. FAU - Song, Qing-Xin AU - Song QX AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing 100101, PR China. FAU - Li, Qing-Tian AU - Li QT FAU - Liu, Yun-Feng AU - Liu YF FAU - Zhang, Feng-Xia AU - Zhang FX FAU - Ma, Biao AU - Ma B FAU - Zhang, Wan-Ke AU - Zhang WK FAU - Man, Wei-Qun AU - Man WQ FAU - Du, Wei-Guang AU - Du WG FAU - Wang, Guo-Dong AU - Wang GD FAU - Chen, Shou-Yi AU - Chen SY FAU - Zhang, Jin-Song AU - Zhang JS LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20130820 PL - England TA - J Exp Bot JT - Journal of experimental botany JID - 9882906 RN - 0 (Lipids) RN - 0 (Plant Oils) RN - 0 (Plant Proteins) RN - 0 (Transcription Factors) SB - IM MH - Arabidopsis/*genetics MH - Carbohydrate Metabolism/genetics MH - Gene Expression Regulation, Plant MH - Genes, Plant/*genetics MH - Genetic Association Studies MH - Lipid Metabolism/*genetics MH - Lipids/biosynthesis MH - Plant Oils/metabolism MH - Plant Proteins/*genetics/metabolism MH - Plants, Genetically Modified MH - Promoter Regions, Genetic/genetics MH - Protein Binding/genetics MH - Protein Multimerization MH - Protein Transport MH - Seeds/*genetics MH - Glycine max/*genetics MH - Subcellular Fractions/metabolism MH - Transcription Factors/metabolism MH - Transcriptional Activation/genetics PMC - PMC3808315 OTO - NOTNLM OT - Cell-wall intertase OT - GmbZIP123 overexpression OT - seed lipid OT - soybean OT - sucrose transporter. OT - sugar transport EDAT- 2013/08/22 06:00 MHDA- 2014/05/28 06:00 PMCR- 2013/08/20 CRDT- 2013/08/22 06:00 PHST- 2013/08/22 06:00 [entrez] PHST- 2013/08/22 06:00 [pubmed] PHST- 2014/05/28 06:00 [medline] PHST- 2013/08/20 00:00 [pmc-release] AID - ert238 [pii] AID - 10.1093/jxb/ert238 [doi] PST - ppublish SO - J Exp Bot. 2013 Nov;64(14):4329-41. doi: 10.1093/jxb/ert238. Epub 2013 Aug 20. ##### PUB RECORD ##### ## 10.1371/journal.pone.0097891 24846334 Carrero-Colon, Abshire et al., 2014 "Carrero-Colón M, Abshire N, Sweeney D, Gaskin E, Hudson K. Mutations in SACPD-C result in a range of elevated stearic acid concentration in soybean seed. PLoS One. 2014 May 20;9(5):e97891. doi: 10.1371/journal.pone.0097891. PMID: 24846334; PMCID: PMC4028252." ## PMID- 24846334 OWN - NLM STAT- MEDLINE DCOM- 20150115 LR - 20231213 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 9 IP - 5 DP - 2014 TI - Mutations in SACPD-C result in a range of elevated stearic acid concentration in soybean seed. PG - e97891 LID - 10.1371/journal.pone.0097891 [doi] LID - e97891 AB - Soybean oil has a wide variety of uses, and stearic acid, which is a relatively minor component of soybean oil is increasingly desired for both industrial and food applications. New soybean mutants containing high levels of the saturated fatty acid stearate in seeds were recently identified from a chemically mutagenized population. Six mutants ranged in stearate content from 6-14% stearic acid, which is 1.5 to 3 times the levels contained in wild-type seed of the Williams 82 cultivar. Candidate gene sequencing revealed that all of these lines carried amino acid substitutions in the gene encoding the delta-9-stearoyl-acyl-carrier protein desaturase enzyme (SACPD-C) required for the conversion of stearic acid to oleic acid. Five of these missense mutations were in highly conserved residues clustered around the predicted di-iron center of the SACPD-C enzyme. Co-segregation analysis demonstrated a positive association of the elevated stearate trait with the SACPD-C mutation for three populations. These missense mutations may provide additional alleles that may be used in the development of new soybean cultivars with increased levels of stearic acid. FAU - Carrero-Colon, Militza AU - Carrero-Colon M AD - Crop Production and Pest Control Research Unit, Agricultural Research Service (ARS), United States Department of Agriculture (USDA), West Lafayette, Indiana, United States of America. FAU - Abshire, Nathan AU - Abshire N AD - Department of Agronomy, Purdue University, West Lafayette, Indiana, United States of America. FAU - Sweeney, Daniel AU - Sweeney D AD - Department of Agronomy, Purdue University, West Lafayette, Indiana, United States of America. FAU - Gaskin, Erik AU - Gaskin E AD - Department of Agronomy, Purdue University, West Lafayette, Indiana, United States of America. FAU - Hudson, Karen AU - Hudson K AD - Crop Production and Pest Control Research Unit, Agricultural Research Service (ARS), United States Department of Agriculture (USDA), West Lafayette, Indiana, United States of America. LA - eng SI - GENBANK/KJ522450 SI - GENBANK/KJ522451 SI - GENBANK/KJ522452 SI - GENBANK/KJ522453 SI - GENBANK/KJ522454 SI - GENBANK/KJ522455 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140520 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Fatty Acids) RN - 0 (Stearic Acids) RN - 4ELV7Z65AP (stearic acid) RN - EC 1.- (Mixed Function Oxygenases) RN - EC 1.14.19.2 (acyl-(acyl-carrier-protein)desaturase) SB - IM MH - Amino Acid Sequence MH - Fatty Acids/metabolism MH - Genotype MH - Mixed Function Oxygenases/chemistry/*genetics MH - Molecular Sequence Data MH - *Mutation MH - Phenotype MH - Seeds/*genetics/*metabolism MH - Sequence Alignment MH - Glycine max/*genetics/*metabolism MH - Stearic Acids/*metabolism PMC - PMC4028252 COIS- Competing Interests: The authors have declared that no competing interests exist. EDAT- 2014/05/23 06:00 MHDA- 2015/01/16 06:00 PMCR- 2014/05/20 CRDT- 2014/05/22 06:00 PHST- 2013/11/07 00:00 [received] PHST- 2014/04/24 00:00 [accepted] PHST- 2014/05/22 06:00 [entrez] PHST- 2014/05/23 06:00 [pubmed] PHST- 2015/01/16 06:00 [medline] PHST- 2014/05/20 00:00 [pmc-release] AID - PONE-D-13-46353 [pii] AID - 10.1371/journal.pone.0097891 [doi] PST - epublish SO - PLoS One. 2014 May 20;9(5):e97891. doi: 10.1371/journal.pone.0097891. eCollection 2014. ##### PUB RECORD ##### ## 10.1111/nph.14632 28598036 Cai, Wang et al., 2017 "Cai Z, Wang Y, Zhu L, Tian Y, Chen L, Sun Z, Ullah I, Li X. GmTIR1/GmAFB3-based auxin perception regulated by miR393 modulates soybean nodulation. New Phytol. 2017 Jul;215(2):672-686. doi: 10.1111/nph.14632. Epub 2017 Jun 9. PMID: 28598036." ## PMID- 28598036 OWN - NLM STAT- MEDLINE DCOM- 20180411 LR - 20231213 IS - 1469-8137 (Electronic) IS - 0028-646X (Linking) VI - 215 IP - 2 DP - 2017 Jul TI - GmTIR1/GmAFB3-based auxin perception regulated by miR393 modulates soybean nodulation. PG - 672-686 LID - 10.1111/nph.14632 [doi] AB - Auxins play important roles in the nodulation of legumes. However, the mechanism by which auxin signaling regulates root nodulation is largely unknown. In particular, the role of auxin receptors and their regulation in determinate nodule development remains elusive. We checked the expression pattern of the auxin receptor GmTIR1/GmAFB3 genes in soybean. We analyzed the functions of GmTIR1/AFB3 in the regulation of rhizobial infection and nodule number, and also tested the functions of miR393 during nodulation and its relationship with GmTIR1/AFB3. The results showed that GmTIR1 and GmAFB3 genes exhibit diverse expression patterns during nodulation and overexpression of GmTIR1 genes significantly increased inflection foci and eventual nodule number. GmTIR1/AFB3 genes were post-transcriptionally cleaved by miR393 family and knock-down of the miR393 family members significantly increased rhizobial infection and the nodule number. Overexpression of the mutated form of GmTIR1C at the miR393 cleavage site that is resistant to miR393 cleavage led to a further increase in the number of infection foci and nodules, suggesting that miR393s modulate nodulation by directly targeting GmTIR1C. This study demonstrated that GmTIR1- and GmAFB3-mediated auxin signaling, that is spatio-temporally regulated by miR393, plays a crucial role in determinate nodule development in soybean. CI - (c) 2017 The Authors. New Phytologist (c) 2017 New Phytologist Trust. FAU - Cai, Zhaoming AU - Cai Z AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China. AD - College of Life Science and Technology, Yangtze Normal University, Chongqing, 408100, China. FAU - Wang, Youning AU - Wang Y AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China. FAU - Zhu, Lin AU - Zhu L AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China. FAU - Tian, Yinping AU - Tian Y AD - Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang, Hebei, 050021, China. FAU - Chen, Liang AU - Chen L AD - Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang, Hebei, 050021, China. FAU - Sun, Zhengxi AU - Sun Z AD - Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang, Hebei, 050021, China. AD - University of Chinese Academy of Sciences, Beijing, 100049, China. FAU - Ullah, Ihteram AU - Ullah I AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China. AD - Center for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, 286 Huaizhong Road, Shijiazhuang, Hebei, 050021, China. FAU - Li, Xia AU - Li X AD - State Key Laboratory of Agricultural Microbiology, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, 430070, China. LA - eng PT - Journal Article DEP - 20170609 PL - England TA - New Phytol JT - The New phytologist JID - 9882884 RN - 0 (Indoleacetic Acids) RN - 0 (MicroRNAs) RN - 0 (Plant Proteins) SB - IM MH - Gene Expression Regulation, Plant MH - Indoleacetic Acids/*metabolism MH - MicroRNAs/metabolism MH - Multigene Family MH - Plant Proteins/genetics/*metabolism MH - Plant Root Nodulation/*genetics/physiology MH - Plants, Genetically Modified MH - Glycine max/*genetics/*metabolism OTO - NOTNLM OT - Glycine max (Soybean) OT - GmTIR1/AFB3 OT - auxin OT - miR393 OT - nodule number OT - rhizobial infection EDAT- 2017/06/10 06:00 MHDA- 2018/04/12 06:00 CRDT- 2017/06/10 06:00 PHST- 2017/01/16 00:00 [received] PHST- 2017/04/09 00:00 [accepted] PHST- 2017/06/10 06:00 [pubmed] PHST- 2018/04/12 06:00 [medline] PHST- 2017/06/10 06:00 [entrez] AID - 10.1111/nph.14632 [doi] PST - ppublish SO - New Phytol. 2017 Jul;215(2):672-686. doi: 10.1111/nph.14632. Epub 2017 Jun 9. ##### PUB RECORD ##### ## 10.3389/fpls.2022.889066 35574141 Dietz, Chan et al., 2023 "Dietz N, Chan YO, Scaboo A, Graef G, Hyten D, Happ M, Diers B, Lorenz A, Wang D, Joshi T, Bilyeu K. Candidate Genes Modulating Reproductive Timing in Elite US Soybean Lines Identified in Soybean Alleles of Arabidopsis Flowering Orthologs With Divergent Latitude Distribution. Front Plant Sci. 2022 Apr 29;13:889066. doi: 10.3389/fpls.2022.889066. PMID: 35574141; PMCID: PMC9100572." ## PMID- 35574141 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20240827 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 13 DP - 2022 TI - Candidate Genes Modulating Reproductive Timing in Elite US Soybean Lines Identified in Soybean Alleles of Arabidopsis Flowering Orthologs With Divergent Latitude Distribution. PG - 889066 LID - 10.3389/fpls.2022.889066 [doi] LID - 889066 AB - Adaptation of soybean cultivars to the photoperiod in which they are grown is critical for optimizing plant yield. However, despite its importance, only the major loci conferring variation in flowering time and maturity of US soybean have been isolated. By contrast, over 200 genes contributing to floral induction in the model organism Arabidopsis thaliana have been described. In this work, putative alleles of a library of soybean orthologs of these Arabidopsis flowering genes were tested for their latitudinal distribution among elite US soybean lines developed in the United States. Furthermore, variants comprising the alleles of genes with significant differences in latitudinal distribution were assessed for amino acid conservation across disparate genera to infer their impact on gene function. From these efforts, several candidate genes from various biological pathways were identified that are likely being exploited toward adaptation of US soybean to various maturity groups. CI - Copyright (c) 2022 Dietz, Chan, Scaboo, Graef, Hyten, Happ, Diers, Lorenz, Wang, Joshi and Bilyeu. FAU - Dietz, Nicholas AU - Dietz N AD - Division of Plant Science and Technology, University of Missouri, Columbia, MO, United States. FAU - Chan, Yen On AU - Chan YO AD - Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, United States. AD - MU Data Science and Informatics Institute, University of Missouri, Columbia, MO, United States. FAU - Scaboo, Andrew AU - Scaboo A AD - Division of Plant Science and Technology, University of Missouri, Columbia, MO, United States. FAU - Graef, George AU - Graef G AD - Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE, United States. FAU - Hyten, David AU - Hyten D AD - Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE, United States. FAU - Happ, Mary AU - Happ M AD - Department of Agronomy and Horticulture, University of Nebraska, Lincoln, NE, United States. FAU - Diers, Brian AU - Diers B AD - Department of Crop Sciences, University of Illinois, Urbana, IL, United States. FAU - Lorenz, Aaron AU - Lorenz A AD - Department of Agronomy and Plant Genetics, University of Minnesota, Saint Paul, MN, United States. FAU - Wang, Dechun AU - Wang D AD - Department of Plant, Soil and Microbial Sciences, Michigan State University, East Lansing, MI, United States. FAU - Joshi, Trupti AU - Joshi T AD - Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, United States. AD - MU Data Science and Informatics Institute, University of Missouri, Columbia, MO, United States. AD - Department of Electrical Engineering and Computer Science, University of Missouri, Columbia, MO, United States. AD - Department of Health Management and Informatics, School of Medicine, University of Missouri, Columbia, MO, United States. FAU - Bilyeu, Kristin AU - Bilyeu K AD - USDA/ARS Plant Genetics Research Unit, Columbia, MO, United States. LA - eng PT - Journal Article DEP - 20220429 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC9100572 OTO - NOTNLM OT - development OT - flowering time OT - genomics OT - orthologs OT - reproductive phase OT - soybean OT - vegetative phase COIS- The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. EDAT- 2022/05/17 06:00 MHDA- 2022/05/17 06:01 PMCR- 2022/01/01 CRDT- 2022/05/16 04:37 PHST- 2022/03/03 00:00 [received] PHST- 2022/04/08 00:00 [accepted] PHST- 2022/05/16 04:37 [entrez] PHST- 2022/05/17 06:00 [pubmed] PHST- 2022/05/17 06:01 [medline] PHST- 2022/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2022.889066 [doi] PST - epublish SO - Front Plant Sci. 2022 Apr 29;13:889066. doi: 10.3389/fpls.2022.889066. eCollection 2022. ##### PUB RECORD ##### ## 10.1111/jipb.13021 33090664 Lin, Liu et al., 2021 "Lin X, Liu B, Weller JL, Abe J, Kong F. Molecular mechanisms for the photoperiodic regulation of flowering in soybean. J Integr Plant Biol. 2021 Jun;63(6):981-994. doi: 10.1111/jipb.13021. Epub 2021 Apr 26. PMID: 33090664." ## PMID- 33090664 OWN - NLM STAT- MEDLINE DCOM- 20210804 LR - 20231213 IS - 1744-7909 (Electronic) IS - 1672-9072 (Linking) VI - 63 IP - 6 DP - 2021 Jun TI - Molecular mechanisms for the photoperiodic regulation of flowering in soybean. PG - 981-994 LID - 10.1111/jipb.13021 [doi] AB - Photoperiodic flowering is one of the most important factors affecting regional adaptation and yield in soybean (Glycine max). Plant adaptation to long-day conditions at higher latitudes requires early flowering and a reduction or loss of photoperiod sensitivity; adaptation to short-day conditions at lower latitudes involves delayed flowering, which prolongs vegetative growth for maximum yield potential. Due to the influence of numerous major loci and quantitative trait loci (QTLs), soybean has broad adaptability across latitudes. Forward genetic approaches have uncovered the molecular basis for several of these major maturity genes and QTLs. Moreover, the molecular characterization of orthologs of Arabidopsis thaliana flowering genes has enriched our understanding of the photoperiodic flowering pathway in soybean. Building on early insights into the importance of the photoreceptor phytochrome A, several circadian clock components have been integrated into the genetic network controlling flowering in soybean: E1, a repressor of FLOWERING LOCUS T orthologs, plays a central role in this network. Here, we provide an overview of recent progress in elucidating photoperiodic flowering in soybean, how it contributes to our fundamental understanding of flowering time control, and how this information could be used for molecular design and breeding of high-yielding soybean cultivars. CI - (c) 2020 Institute of Botany, Chinese Academy of Sciences. FAU - Lin, Xiaoya AU - Lin X AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510642, China. FAU - Liu, Baohui AU - Liu B AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510642, China. AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. FAU - Weller, James L AU - Weller JL AD - School of Natural Sciences, University of Tasmania, Hobart, Tasmania, 7001, Australia. FAU - Abe, Jun AU - Abe J AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, 060-8589, Japan. FAU - Kong, Fanjiang AU - Kong F AD - Innovative Center of Molecular Genetics and Evolution, School of Life Sciences, Guangzhou University, Guangzhou, 510642, China. AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. LA - eng GR - National Natural Science Foundation of China/ GR - State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources/ PT - Journal Article PT - Review DEP - 20210426 PL - China (Republic : 1949- ) TA - J Integr Plant Biol JT - Journal of integrative plant biology JID - 101250502 SB - IM MH - Circadian Rhythm/genetics/physiology MH - Flowers/genetics/*physiology MH - Gene Expression Regulation, Plant/genetics/physiology MH - Gene Regulatory Networks/genetics/physiology MH - *Photoperiod MH - Plant Breeding MH - Quantitative Trait Loci/genetics MH - Glycine max/genetics/*physiology OTO - NOTNLM OT - molecular-designed breeding OT - photoperiodic flowering OT - soybean EDAT- 2020/10/23 06:00 MHDA- 2021/08/05 06:00 CRDT- 2020/10/22 12:22 PHST- 2020/08/08 00:00 [received] PHST- 2020/09/27 00:00 [accepted] PHST- 2020/10/23 06:00 [pubmed] PHST- 2021/08/05 06:00 [medline] PHST- 2020/10/22 12:22 [entrez] AID - 10.1111/jipb.13021 [doi] PST - ppublish SO - J Integr Plant Biol. 2021 Jun;63(6):981-994. doi: 10.1111/jipb.13021. Epub 2021 Apr 26. ##### PUB RECORD ##### ## 10.3390/ijms23084116 35456933 Qian, Jin et. al., 2022 "Qian L, Jin H, Yang Q, Zhu L, Yu X, Fu X, Zhao M, Yuan F. A Sequence Variation in GmBADH2 Enhances Soybean Aroma and Is a Functional Marker for Improving Soybean Flavor. Int J Mol Sci. 2022 Apr 8;23(8):4116. doi: 10.3390/ijms23084116. PMID: 35456933; PMCID: PMC9030070." ## PMID- 35456933 OWN - NLM STAT- MEDLINE DCOM- 20220426 LR - 20231213 IS - 1422-0067 (Electronic) IS - 1422-0067 (Linking) VI - 23 IP - 8 DP - 2022 Apr 8 TI - A Sequence Variation in GmBADH2 Enhances Soybean Aroma and Is a Functional Marker for Improving Soybean Flavor. LID - 10.3390/ijms23084116 [doi] LID - 4116 AB - The vegetable soybean (Glycine max L. Merr.) plant is commonly consumed in Southeast Asian countries because of its nutritional value and desirable taste. A "pandan-like" aroma is an important value-added quality trait that is rarely found in commercial vegetable soybean varieties. In this study, three novel aromatic soybean cultivars with a fragrant volatile compound were isolated. We confirmed that the aroma of these cultivars is due to the potent volatile compound 2-acetyl-1-pyrroline (2AP) that was previously identified in soybean. A sequence comparison of GmBADH1/2 (encoding an aminoaldehyde dehydrogenase) between aromatic and non-aromatic soybean varieties revealed a mutation with 10 SNPs and an 11-nucleotide deletion in exon 1 of GmBADH2 in Quxian No. 1 and Xiangdou. Additionally, a 2-bp deletion was detected in exon 10 of GmBADH2 in ZK1754. The mutations resulted in a frame shift and the introduction of premature stop codons. Moreover, genetic analyses indicated that the aromatic trait in these three varieties was inherited according to a single recessive gene model. These results suggested that a mutated GmBADH2 may be responsible for the aroma of these three aromatic soybean cultivars. The expression and function of GmBADH2 in aromatic soybean seeds were confirmed by qRT-PCR and CRISPR/Cas9. A functional marker developed on the basis of the mutated GmBADH2 sequence in Quxian No. 1 and Xiangdou was validated in an F(2) population. A perfect association between the marker genotypes and aroma phenotypes implied that GmBADH2 is a major aroma-conferring gene. The results of this study are potentially useful for an in-depth analysis of the molecular basis of 2-AP formation in soybean and the marker-assisted breeding of aromatic vegetable soybean cultivars. FAU - Qian, Linlin AU - Qian L AD - Hangzhou Sub-Center of National Soybean Improvement, Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. AD - Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture and Rural Affairs of China, Hangzhou 310021, China. AD - The National and Local Joint Engineering Research Center for Bio-Manufacturing of Chiral Chemicals, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, China. FAU - Jin, Hangxia AU - Jin H AD - Hangzhou Sub-Center of National Soybean Improvement, Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. AD - Zhejiang Key Laboratory of Digital Dry Land Crops, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. FAU - Yang, Qinghua AU - Yang Q AD - Hangzhou Sub-Center of National Soybean Improvement, Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. AD - Key Laboratory of Information Traceability for Agricultural Products, Ministry of Agriculture and Rural Affairs of China, Hangzhou 310021, China. AD - Zhejiang Key Laboratory of Digital Dry Land Crops, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. FAU - Zhu, Longming AU - Zhu L AD - Hangzhou Sub-Center of National Soybean Improvement, Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. AD - Zhejiang Key Laboratory of Digital Dry Land Crops, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. FAU - Yu, Xiaomin AU - Yu X AUID- ORCID: 0000-0003-2530-2809 AD - Hangzhou Sub-Center of National Soybean Improvement, Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. AD - Zhejiang Key Laboratory of Digital Dry Land Crops, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. FAU - Fu, Xujun AU - Fu X AD - Hangzhou Sub-Center of National Soybean Improvement, Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. AD - Zhejiang Key Laboratory of Digital Dry Land Crops, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. FAU - Zhao, Man AU - Zhao M AUID- ORCID: 0000-0003-2631-1977 AD - The National and Local Joint Engineering Research Center for Bio-Manufacturing of Chiral Chemicals, College of Biotechnology and Bioengineering, Zhejiang University of Technology, Hangzhou 310014, China. FAU - Yuan, Fengjie AU - Yuan F AD - Hangzhou Sub-Center of National Soybean Improvement, Institute of Crop and Nuclear Technology Utilization, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. AD - Zhejiang Key Laboratory of Digital Dry Land Crops, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China. LA - eng GR - 2021C02064-5/Major Science and Technology Special Program for Crop Breeding in Zhejiang of China/ PT - Journal Article DEP - 20220408 PL - Switzerland TA - Int J Mol Sci JT - International journal of molecular sciences JID - 101092791 SB - IM MH - Genotype MH - *Odorants/analysis MH - Phenotype MH - Plant Breeding MH - *Glycine max/genetics/metabolism PMC - PMC9030070 OTO - NOTNLM OT - CRISPR/Cas9 gene editing OT - HRM molecular marker OT - aromatic vegetable soybean OT - gene sequence comparison OT - soybean breeding COIS- The authors have no relevant financial or non-financial interest to disclose. EDAT- 2022/04/24 06:00 MHDA- 2022/04/27 06:00 PMCR- 2022/04/08 CRDT- 2022/04/23 01:10 PHST- 2022/01/07 00:00 [received] PHST- 2022/03/25 00:00 [revised] PHST- 2022/04/03 00:00 [accepted] PHST- 2022/04/23 01:10 [entrez] PHST- 2022/04/24 06:00 [pubmed] PHST- 2022/04/27 06:00 [medline] PHST- 2022/04/08 00:00 [pmc-release] AID - ijms23084116 [pii] AID - ijms-23-04116 [pii] AID - 10.3390/ijms23084116 [doi] PST - epublish SO - Int J Mol Sci. 2022 Apr 8;23(8):4116. doi: 10.3390/ijms23084116. ##### PUB RECORD ##### ## 10.1111/pbi.13346 31981443 Wang, Sun et al., 2020 "Wang L, Sun S, Wu T, Liu L, Sun X, Cai Y, Li J, Jia H, Yuan S, Chen L, Jiang B, Wu C, Hou W, Han T. Natural variation and CRISPR/Cas9-mediated mutation in GmPRR37 affect photoperiodic flowering and contribute to regional adaptation of soybean. Plant Biotechnol J. 2020 Sep;18(9):1869-1881. doi: 10.1111/pbi.13346. Epub 2020 Feb 13. PMID: 31981443; PMCID: PMC7415786." ## PMID- 31981443 OWN - NLM STAT- MEDLINE DCOM- 20201102 LR - 20231213 IS - 1467-7652 (Electronic) IS - 1467-7644 (Print) IS - 1467-7644 (Linking) VI - 18 IP - 9 DP - 2020 Sep TI - Natural variation and CRISPR/Cas9-mediated mutation in GmPRR37 affect photoperiodic flowering and contribute to regional adaptation of soybean. PG - 1869-1881 LID - 10.1111/pbi.13346 [doi] AB - Flowering time is a critical determinant of the geographic distribution and regional adaptability of soybean (Glycine max) and is strongly regulated by photoperiod and temperature. In this study, quantitative trait locus (QTL) mapping and subsequent candidate gene analysis revealed that GmPRR37, encoding a pseudo-response regulator protein, is responsible for the major QTL qFT12-2, which was identified from a population of 308 recombinant inbred lines (RILs) derived from a cross between a very late-flowering soybean cultivar, 'Zigongdongdou (ZGDD)', and an extremely early-flowering cultivar, 'Heihe27 (HH27)', in multiple environments. Comparative analysis of parental sequencing data confirmed that HH27 contains a non-sense mutation that causes the loss of the CCT domain in the GmPRR37 protein. CRISPR/Cas9-induced Gmprr37-ZGDD mutants in soybean exhibited early flowering under natural long-day (NLD) conditions. Overexpression of GmPRR37 significantly delayed the flowering of transgenic soybean plants compared with wild-type under long photoperiod conditions. In addition, both the knockout and overexpression of GmPRR37 in soybean showed no significant phenotypic alterations in flowering time under short-day (SD) conditions. Furthermore, GmPRR37 down-regulated the expression of the flowering-promoting FT homologues GmFT2a and GmFT5a, and up-regulated flowering-inhibiting FT homologue GmFT1a expression under long-day (LD) conditions. We analysed haplotypes of GmPRR37 among 180 cultivars collected across China and found natural Gmprr37 mutants flower earlier and enable soybean to be cultivated at higher latitudes. This study demonstrates that GmPRR37 controls soybean photoperiodic flowering and provides opportunities to breed optimized cultivars with adaptation to specific regions and farming systems. CI - (c) 2020 The Authors. Plant Biotechnology Journal published by Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd. FAU - Wang, Liwei AU - Wang L AUID- ORCID: 0000-0001-5246-2424 AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Sun, Shi AU - Sun S AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wu, Tingting AU - Wu T AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Liu, Luping AU - Liu L AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Sun, Xuegang AU - Sun X AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Cai, Yupeng AU - Cai Y AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Li, Jicun AU - Li J AD - Jining Academy of Agricultural Sciences, Jining, Shandong, China. FAU - Jia, Hongchang AU - Jia H AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Yuan, Shan AU - Yuan S AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Chen, Li AU - Chen L AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Jiang, Bingjun AU - Jiang B AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wu, Cunxiang AU - Wu C AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Hou, Wensheng AU - Hou W AUID- ORCID: 0000-0002-6342-4308 AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Han, Tianfu AU - Han T AD - Ministry of Agriculture and Rural Affairs Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20200213 PL - England TA - Plant Biotechnol J JT - Plant biotechnology journal JID - 101201889 RN - 0 (Plant Proteins) SB - IM MH - CRISPR-Cas Systems/genetics MH - China MH - Flowers/genetics/metabolism MH - Gene Expression Regulation, Plant/genetics MH - Mutation/genetics MH - *Photoperiod MH - Plant Proteins/genetics/metabolism MH - *Glycine max/genetics/metabolism PMC - PMC7415786 OTO - NOTNLM OT - GmPRR37 OT - CRISPR/Cas9 OT - QTL OT - adaptation OT - flowering time OT - soybean (Glycine max (L.) Merr.) COIS- The authors declare that they have no conflicts of interest. EDAT- 2020/01/26 06:00 MHDA- 2020/11/03 06:00 PMCR- 2020/02/13 CRDT- 2020/01/26 06:00 PHST- 2019/11/04 00:00 [received] PHST- 2020/01/20 00:00 [accepted] PHST- 2020/01/26 06:00 [pubmed] PHST- 2020/11/03 06:00 [medline] PHST- 2020/01/26 06:00 [entrez] PHST- 2020/02/13 00:00 [pmc-release] AID - PBI13346 [pii] AID - 10.1111/pbi.13346 [doi] PST - ppublish SO - Plant Biotechnol J. 2020 Sep;18(9):1869-1881. doi: 10.1111/pbi.13346. Epub 2020 Feb 13. ##### PUB RECORD ##### ## 10.1111/j.1365-313X.2004.02072.x 15125772 Noh, Bizzell et al., 2004 "Noh YS, Bizzell CM, Noh B, Schomburg FM, Amasino RM. EARLY FLOWERING 5 acts as a floral repressor in Arabidopsis. Plant J. 2004 May;38(4):664-72. doi: 10.1111/j.1365-313X.2004.02072.x. PMID: 15125772." ## PMID- 15125772 OWN - NLM STAT- MEDLINE DCOM- 20040709 LR - 20061115 IS - 0960-7412 (Print) IS - 0960-7412 (Linking) VI - 38 IP - 4 DP - 2004 May TI - EARLY FLOWERING 5 acts as a floral repressor in Arabidopsis. PG - 664-72 AB - EARLY FLOWERING 5 (ELF5) is a single-copy gene involved in flowering time regulation in Arabidopsis. ELF5 encodes a nuclear-targeted protein that is related to the human nuclear protein containing a WW domain (Npw)38-binding protein (NpwBP). Lesions in ELF5 cause early flowering in both long days and short days. elf5 mutations partially suppress the late flowering of both autonomous-pathway mutants and FRIGIDA (FRI)-containing lines by reducing the expression of FLOWERING LOCUS C (FLC), a floral repressor upon which many of the flowering pathways converge. elf5 mutations also partially suppress photoperiod-pathway mutants, and this, along with the ability of elf5 mutations to cause early flowering in short days, indicates that ELF5 also affects flowering independently of FLC. FAU - Noh, Yoo-Sun AU - Noh YS AD - Department of Biochemistry, College of Agricultural and Life Sciences, University of Wisconsin, Madison, WI 53706-1544, USA. FAU - Bizzell, Colleen M AU - Bizzell CM FAU - Noh, Bosl AU - Noh B FAU - Schomburg, Fritz M AU - Schomburg FM FAU - Amasino, Richard M AU - Amasino RM LA - eng SI - GENBANK/AY526094 PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Research Support, U.S. Gov't, Non-P.H.S. PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 RN - 0 (5' Untranslated Regions) RN - 0 (Arabidopsis Proteins) RN - 0 (DNA Primers) RN - 0 (ELF5 protein, Arabidopsis) RN - 0 (Repressor Proteins) SB - IM MH - 5' Untranslated Regions/genetics MH - Amino Acid Sequence MH - Arabidopsis/*genetics MH - Arabidopsis Proteins/*genetics MH - Base Sequence MH - Circadian Rhythm MH - DNA Primers MH - Flowers/genetics MH - Molecular Sequence Data MH - Polymerase Chain Reaction MH - Protein Biosynthesis/genetics MH - Repressor Proteins/*genetics MH - Seasons MH - Sequence Alignment MH - Sequence Homology, Amino Acid EDAT- 2004/05/06 05:00 MHDA- 2004/07/10 05:00 CRDT- 2004/05/06 05:00 PHST- 2004/05/06 05:00 [pubmed] PHST- 2004/07/10 05:00 [medline] PHST- 2004/05/06 05:00 [entrez] AID - TPJ2072 [pii] AID - 10.1111/j.1365-313X.2004.02072.x [doi] PST - ppublish SO - Plant J. 2004 May;38(4):664-72. doi: 10.1111/j.1365-313X.2004.02072.x. ##### PUB RECORD ##### ## 10.1093/jxb/erw394 28338712 Cao, Takeshima, et al., 2017 "Cao D, Takeshima R, Zhao C, Liu B, Jun A, Kong F. Molecular mechanisms of flowering under long days and stem growth habit in soybean. J Exp Bot. 2017 Apr 1;68(8):1873-1884. doi: 10.1093/jxb/erw394. PMID: 28338712." ## PMID- 28338712 OWN - NLM STAT- MEDLINE DCOM- 20180130 LR - 20231213 IS - 1460-2431 (Electronic) IS - 0022-0957 (Linking) VI - 68 IP - 8 DP - 2017 Apr 1 TI - Molecular mechanisms of flowering under long days and stem growth habit in soybean. PG - 1873-1884 LID - 10.1093/jxb/erw394 [doi] AB - Precise timing of flowering is critical to crop adaptation and productivity in a given environment. A number of classical E genes controlling flowering time and maturity have been identified in soybean [Glycine max (L.) Merr.]. The public availability of the soybean genome sequence has accelerated the identification of orthologues of Arabidopsis flowering genes and their functional analysis, and has allowed notable progress towards understanding the molecular mechanisms of flowering in soybean. Great progress has been made particularly in identifying genes and modules that inhibit flowering in long-day conditions, because a reduced or absent inhibition of flowering by long daylengths is an essential trait for soybean, a short-day (SD) plant, to expand its adaptability toward higher latitude environments. In contrast, the molecular mechanism of floral induction by SDs remains elusive in soybean. Here we present an update on recent work on molecular mechanisms of flowering under long days and of stem growth habit, outlining the progress in the identification of genes responsible, the interplay between photoperiod and age-dependent miRNA-mediated modules, and the conservation and divergence in photoperiodic flowering and stem growth habit in soybean relative to other legumes, Arabidopsis, and rice (Oryza sativa L.). CI - (c) The Author 2016. Published by Oxford University Press on behalf of the Society for Experimental Biology. All rights reserved. For permissions, please email: journals.permissions@oup.com. FAU - Cao, Dong AU - Cao D AD - School of Life Sciences, Guangzhou University, Guangzhou 510006, China. AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China. FAU - Takeshima, Ryoma AU - Takeshima R AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan. FAU - Zhao, Chen AU - Zhao C AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan. FAU - Liu, Baohui AU - Liu B AD - School of Life Sciences, Guangzhou University, Guangzhou 510006, China. AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China. FAU - Jun, Abe AU - Jun A AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan. FAU - Kong, Fanjiang AU - Kong F AD - School of Life Sciences, Guangzhou University, Guangzhou 510006, China. AD - The Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PL - England TA - J Exp Bot JT - Journal of experimental botany JID - 9882906 SB - IM MH - Circadian Rhythm/genetics/*physiology MH - Crops, Agricultural/genetics/physiology MH - Gene Expression Regulation, Plant MH - Magnoliopsida/*genetics/*physiology MH - Photoperiod MH - Plant Stems/*genetics/*physiology MH - Glycine max/*genetics/*physiology OTO - NOTNLM OT - Adaptation OT - flowering OT - long day OT - miRNA OT - photoperiod OT - soybean OT - stem growth habit. EDAT- 2016/01/01 00:00 MHDA- 2018/01/31 06:00 CRDT- 2017/03/25 06:00 PHST- 2016/01/01 00:00 [pubmed] PHST- 2018/01/31 06:00 [medline] PHST- 2017/03/25 06:00 [entrez] AID - 2339779 [pii] AID - 10.1093/jxb/erw394 [doi] PST - ppublish SO - J Exp Bot. 2017 Apr 1;68(8):1873-1884. doi: 10.1093/jxb/erw394. ##### PUB RECORD ##### ## 10.1007/s11103-013-0062-z 23636865 Zhao, Wang et al., 2013 "Zhao L, Wang Z, Lu Q, Wang P, Li Y, Lv Q, Song X, Li D, Gu Y, Liu L, Li W. Overexpression of a GmGBP1 ortholog of soybean enhances the responses to flowering, stem elongation and heat tolerance in transgenic tobaccos. Plant Mol Biol. 2013 Jun;82(3):279-99. doi: 10.1007/s11103-013-0062-z. Epub 2013 May 1. PMID: 23636865." ## PMID- 23636865 OWN - NLM STAT- MEDLINE DCOM- 20130821 LR - 20231213 IS - 1573-5028 (Electronic) IS - 0167-4412 (Linking) VI - 82 IP - 3 DP - 2013 Jun TI - Overexpression of a GmGBP1 ortholog of soybean enhances the responses to flowering, stem elongation and heat tolerance in transgenic tobaccos. PG - 279-99 LID - 10.1007/s11103-013-0062-z [doi] AB - Soybean is a typical short-day crop, and its photoperiodic and gibberellin (GA) responses for the control of flowering are critical to seed yield. The GmGBP1 mRNA abundance in leaves was dramatically increased in short-days (SDs) compared to that in long-days in which it was consistently low at all time points from 0 to 6 days (days after transfer to SDs). GmGBP1 was highly expressed in leaves and exhibited a circadian rhythm in SDs. Ectopic overexpression of GmGBP1 in tobaccos caused photoperiod-insensitive early flowering by increasing NtCO mRNA levels. GmGBP1 mRNA abundance was also increased by GAs. Transgenic GmGBP1 overexpressing (-ox) tobacco plants exhibited increased GA signaling-related phenotypes including flowering and plant height promotion. Furthermore, the hypocotyl elongation, early-flowering and longer internode phenotypes were largely accelerated by GA3 application in the GmGBP1-ox tobacco seedlings. Being consistent, overexpression of GmGBP1 resulted in significantly enhanced GA signaling (evidenced suppressed expression of NtGA20ox) both with and without GA treatments. GmGBP1 was a positive regulator of both photoperiod and GA-mediated flowering responses. In addition, GmGBP1-ox tobaccos were hypersensitive to ABA, salt and osmotic stresses during seed germination. Heat-inducible GmGBP1 also enhanced thermotolerance in transgenic GmGBP1-ox tobaccos during seed germination and growth. GmGBP1 protein was localized in the nucleus. Analyses of a series of 5'-deletions of the GmGBP1 promoter suggested that several cis-acting elements, including P-BOX, TCA-motif and three HSE elements necessary to induce gene expression by GA, salicic acid and heat stress, were specifically localized in the GmGBP1 promoter region. FAU - Zhao, Lin AU - Zhao L AD - Key Laboratory of Soybean Biology of Chinese Education Ministry (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China), Northeast Agricultural University, Harbin 150030, China. zlhappy1981@yahoo.com.cn FAU - Wang, Zhixin AU - Wang Z FAU - Lu, Qingyao AU - Lu Q FAU - Wang, Pengpeng AU - Wang P FAU - Li, Yongguang AU - Li Y FAU - Lv, Qingxue AU - Lv Q FAU - Song, Xianping AU - Song X FAU - Li, Dongmei AU - Li D FAU - Gu, Yuejiao AU - Gu Y FAU - Liu, Lixue AU - Liu L FAU - Li, Wenbin AU - Li W LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20130501 PL - Netherlands TA - Plant Mol Biol JT - Plant molecular biology JID - 9106343 RN - 0 (Gibberellins) RN - 0 (Plant Growth Regulators) RN - 0 (Plant Proteins) RN - 0 (Soybean Proteins) RN - 147336-22-9 (Green Fluorescent Proteins) RN - 451W47IQ8X (Sodium Chloride) SB - IM MH - Adaptation, Physiological/genetics MH - Arabidopsis/genetics/growth & development MH - Base Sequence MH - Cell Nucleus MH - Flowers/*genetics/growth & development MH - Gene Expression Regulation, Developmental/drug effects/radiation effects MH - Gene Expression Regulation, Plant/drug effects/radiation effects MH - Gibberellins/pharmacology MH - Green Fluorescent Proteins/genetics/metabolism MH - *Hot Temperature MH - Microscopy, Electron, Scanning MH - Microscopy, Fluorescence MH - Molecular Sequence Data MH - Photoperiod MH - Plant Growth Regulators/pharmacology MH - Plant Proteins/*genetics/metabolism MH - Plant Stems/*genetics/growth & development/ultrastructure MH - Plants, Genetically Modified MH - Promoter Regions, Genetic/genetics MH - Reverse Transcriptase Polymerase Chain Reaction MH - Sodium Chloride/pharmacology MH - Soybean Proteins/*genetics/metabolism MH - Glycine max/*genetics/metabolism MH - Nicotiana/*genetics/growth & development EDAT- 2013/05/03 06:00 MHDA- 2013/08/22 06:00 CRDT- 2013/05/03 06:00 PHST- 2013/01/16 00:00 [received] PHST- 2013/04/14 00:00 [accepted] PHST- 2013/05/03 06:00 [entrez] PHST- 2013/05/03 06:00 [pubmed] PHST- 2013/08/22 06:00 [medline] AID - 10.1007/s11103-013-0062-z [doi] PST - ppublish SO - Plant Mol Biol. 2013 Jun;82(3):279-99. doi: 10.1007/s11103-013-0062-z. Epub 2013 May 1. ##### PUB RECORD ##### ## 10.1093/aob/mcu147 25074550 Yao, Tian et al., 2014 "Yao Z, Tian J, Liao H. Comparative characterization of GmSPX members reveals that GmSPX3 is involved in phosphate homeostasis in soybean. Ann Bot. 2014 Sep;114(3):477-88. doi: 10.1093/aob/mcu147. Epub 2014 Jul 29. PMID: 25074550; PMCID: PMC4204674." ## PMID- 25074550 OWN - NLM STAT- MEDLINE DCOM- 20150408 LR - 20240321 IS - 1095-8290 (Electronic) IS - 0305-7364 (Print) IS - 0305-7364 (Linking) VI - 114 IP - 3 DP - 2014 Sep TI - Comparative characterization of GmSPX members reveals that GmSPX3 is involved in phosphate homeostasis in soybean. PG - 477-88 LID - 10.1093/aob/mcu147 [doi] AB - BACKGROUND AND AIMS: Proteins containing the SPX (SYG1/Pho81/XPR1) domain are vital components in the phosphorus (P) signalling pathway, and regulate phosphate (Pi) homeostasis in plants. However, the characteristics and functions of GmSPX members in soybean (Glycine max) remain largely unknown. METHODS: BLAST searching revealed nine GmSPX members in the soybean genome. Subsequently, expression patterns of GmSPX members were investigated in various tissues of soybean grown in nutrient solution or sand culture through quantitative real-time PCR (qPCR) analysis. Sub-cellular localization of GmSPX was examined via transient expression of 35S:GmSPX-GFP in epidermal cells of onion (Allium cepa). Finally, soybean transgenic composite plants were generated to study GmSPX3 functions. KEY RESULTS: Nine GmSPX members were identified, which were classified into three groups based on phylogenetic analysis. Diverse responses of GmSPX members to deficiencies of nutrients (nitrogen, phosphorus, potassium and iron) or inoculation of arbuscular mycorrhizal fungi and rhizobia were observed in soybean. In addition, variations of sub-cellular localization of GmSPX members were found. Among them, GmSPX3, GmSPX7 and GmSPX8 were localized in the nuclei, and the other GmSPX members were confined to the nuclei and cytoplasm. The nuclear-localized and Pi starvation responsive-gene, GmSPX3, was functionally analysed in soybean transgenic composite plants. Overexpression of GmSPX3 led to increased P concentrations in both shoots and roots in the high-P treatment, and increased transcription of seven Pi starvation-responsive genes in soybean hairy roots. CONCLUSIONS: Taken together, the results suggest that GmSPX3 is a positive regulator in the P signalling network, and controls Pi homeostasis in soybean. CI - (c) The Author 2014. Published by Oxford University Press on behalf of the Annals of Botany Company. All rights reserved. For Permissions, please email: journals.permissions@oup.com. FAU - Yao, Zhufang AU - Yao Z AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, PR China. FAU - Tian, Jiang AU - Tian J AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, PR China jtian@scau.edu.cn. FAU - Liao, Hong AU - Liao H AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Root Biology Center, South China Agricultural University, Guangzhou 510642, PR China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20140729 PL - England TA - Ann Bot JT - Annals of botany JID - 0372347 RN - 0 (Phosphates) RN - 0 (Plant Proteins) SB - IM MH - *Gene Expression Regulation, Plant MH - *Homeostasis MH - Molecular Sequence Data MH - Phosphates/*metabolism MH - Phylogeny MH - Plant Proteins/*genetics/metabolism MH - Plant Roots/metabolism MH - Plant Shoots/metabolism MH - Plants, Genetically Modified/metabolism/physiology MH - Real-Time Polymerase Chain Reaction MH - Sequence Analysis, DNA MH - Glycine max/metabolism/*physiology PMC - PMC4204674 OTO - NOTNLM OT - Expression pattern OT - Glycine max OT - GmSPX members OT - Pi homeostasis OT - SPX domain OT - phosphate starvation OT - phosporus signalling OT - soybean EDAT- 2014/07/31 06:00 MHDA- 2015/04/09 06:00 PMCR- 2015/09/01 CRDT- 2014/07/31 06:00 PHST- 2014/07/31 06:00 [entrez] PHST- 2014/07/31 06:00 [pubmed] PHST- 2015/04/09 06:00 [medline] PHST- 2015/09/01 00:00 [pmc-release] AID - mcu147 [pii] AID - 10.1093/aob/mcu147 [doi] PST - ppublish SO - Ann Bot. 2014 Sep;114(3):477-88. doi: 10.1093/aob/mcu147. Epub 2014 Jul 29. ##### PUB RECORD ##### ## 10.3389/fpls.2019.01221 31787988 Wu, Kang et al., 2019 "Wu F, Kang X, Wang M, Haider W, Price WB, Hajek B, Hanzawa Y. Transcriptome-Enabled Network Inference Revealed the GmCOL1 Feed-Forward Loop and Its Roles in Photoperiodic Flowering of Soybean. Front Plant Sci. 2019 Nov 8;10:1221. doi: 10.3389/fpls.2019.01221. PMID: 31787988; PMCID: PMC6856076." ## PMID- 31787988 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20201001 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 10 DP - 2019 TI - Transcriptome-Enabled Network Inference Revealed the GmCOL1 Feed-Forward Loop and Its Roles in Photoperiodic Flowering of Soybean. PG - 1221 LID - 10.3389/fpls.2019.01221 [doi] LID - 1221 AB - Photoperiodic flowering, a plant response to seasonal photoperiod changes in the control of reproductive transition, is an important agronomic trait that has been a central target of crop domestication and modern breeding programs. However, our understanding about the molecular mechanisms of photoperiodic flowering regulation in crop species is lagging behind. To better understand the regulatory gene networks controlling photoperiodic flowering of soybeans, we elucidated global gene expression patterns under different photoperiod regimes using the near isogenic lines (NILs) of maturity loci (E loci). Transcriptome signatures identified the unique roles of the E loci in photoperiodic flowering and a set of genes controlled by these loci. To elucidate the regulatory gene networks underlying photoperiodic flowering regulation, we developed the network inference algorithmic package CausNet that integrates sparse linear regression and Granger causality heuristics, with Gaussian approximation of bootstrapping to provide reliability scores for predicted regulatory interactions. Using the transcriptome data, CausNet inferred regulatory interactions among soybean flowering genes. Published reports in the literature provided empirical verification for several of CausNet's inferred regulatory interactions. We further confirmed the inferred regulatory roles of the flowering suppressors GmCOL1a and GmCOL1b using GmCOL1 RNAi transgenic soybean plants. Combinations of the alleles of GmCOL1 and the major maturity locus E1 demonstrated positive interaction between these genes, leading to enhanced suppression of flowering transition. Our work provides novel insights and testable hypotheses in the complex molecular mechanisms of photoperiodic flowering control in soybean and lays a framework for de novo prediction of biological networks controlling important agronomic traits in crops. CI - Copyright (c) 2019 Wu, Kang, Wang, Haider, Price, Hajek and Hanzawa. FAU - Wu, Faqiang AU - Wu F AD - Department of Biology, California State University, Northridge, CA, United States. FAU - Kang, Xiaohan AU - Kang X AD - Department of Electrical Computer Engineering, University of Illinois at Urbana-Champaign, Champaign, IL, United States. FAU - Wang, Minglei AU - Wang M AD - Department of Crop Sciences, University of Illinois at Urbana-Champaign, Champaign, IL, United States. FAU - Haider, Waseem AU - Haider W AD - Department of Biosciences, COMSATS University Islamabad, Pakistan. FAU - Price, William B AU - Price WB AD - Department of Electrical Computer Engineering, University of Illinois at Urbana-Champaign, Champaign, IL, United States. FAU - Hajek, Bruce AU - Hajek B AD - Department of Crop Sciences, University of Illinois at Urbana-Champaign, Champaign, IL, United States. FAU - Hanzawa, Yoshie AU - Hanzawa Y AD - Department of Biology, California State University, Northridge, CA, United States. LA - eng PT - Journal Article DEP - 20191108 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC6856076 OTO - NOTNLM OT - Glycine max OT - feedforward loop OT - network inference OT - photoperiodic flowering OT - transcriptome EDAT- 2019/12/04 06:00 MHDA- 2019/12/04 06:01 PMCR- 2019/01/01 CRDT- 2019/12/03 06:00 PHST- 2019/06/21 00:00 [received] PHST- 2019/09/04 00:00 [accepted] PHST- 2019/12/03 06:00 [entrez] PHST- 2019/12/04 06:00 [pubmed] PHST- 2019/12/04 06:01 [medline] PHST- 2019/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2019.01221 [doi] PST - epublish SO - Front Plant Sci. 2019 Nov 8;10:1221. doi: 10.3389/fpls.2019.01221. eCollection 2019. ##### PUB RECORD ##### ## 10.3390/ijms23052497 35269637 Su, Chen et al., 2022 "Su Q, Chen L, Cai Y, Chen Y, Yuan S, Li M, Zhang J, Sun S, Han T, Hou W. Functional Redundancy of FLOWERING LOCUS T 3b in Soybean Flowering Time Regulation. Int J Mol Sci. 2022 Feb 24;23(5):2497. doi: 10.3390/ijms23052497. PMID: 35269637; PMCID: PMC8910378." ## PMID- 35269637 OWN - NLM STAT- MEDLINE DCOM- 20220408 LR - 20231213 IS - 1422-0067 (Electronic) IS - 1422-0067 (Linking) VI - 23 IP - 5 DP - 2022 Feb 24 TI - Functional Redundancy of FLOWERING LOCUS T 3b in Soybean Flowering Time Regulation. LID - 10.3390/ijms23052497 [doi] LID - 2497 AB - Photoperiodic flowering is an important agronomic trait that determines adaptability and yield in soybean and is strongly influenced by FLOWERING LOCUS T (FT) genes. Due to the presence of multiple FT homologs in the genome, their functions in soybean are not fully understood. Here, we show that GmFT3b exhibits functional redundancy in regulating soybean photoperiodic flowering. Bioinformatic analysis revealed that GmFT3b is a typical floral inducer FT homolog and that the protein is localized to the nucleus. Moreover, GmFT3b expression was induced by photoperiod and circadian rhythm and was more responsive to long-day (LD) conditions. We generated a homozygous ft3b knockout and three GmFT3b-overexpressing soybean lines for evaluation under different photoperiods. There were no significant differences in flowering time between the wild-type, the GmFT3b overexpressors, and the ft3b knockouts under natural long-day, short-day, or LD conditions. Although the downstream flowering-related genes GmFUL1 (a, b), GmAP1d, and GmLFY1 were slightly down-regulated in ft3b plants, the floral inducers GmFT5a and GmFT5b were highly expressed, indicating potential compensation for the loss of GmFT3b. We suggest that GmFT3b acts redundantly in flowering time regulation and may be compensated by other FT homologs in soybean. FAU - Su, Qiang AU - Su Q AUID- ORCID: 0000-0002-3506-5395 AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Chen, Li AU - Chen L AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Cai, Yupeng AU - Cai Y AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Chen, Yingying AU - Chen Y AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Yuan, Shan AU - Yuan S AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Li, Min AU - Li M AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Zhang, Jialing AU - Zhang J AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Sun, Shi AU - Sun S AUID- ORCID: 0000-0003-1422-5334 AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Han, Tianfu AU - Han T AUID- ORCID: 0000-0002-2362-2414 AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Hou, Wensheng AU - Hou W AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China. LA - eng GR - 31871644/National Natural Science Foundation of China/ GR - 2016ZX08010-004/Major Science and Technology Projects of China/ PT - Journal Article DEP - 20220224 PL - Switzerland TA - Int J Mol Sci JT - International journal of molecular sciences JID - 101092791 RN - 0 (Plant Proteins) SB - IM MH - *Flowers/metabolism MH - Gene Expression Regulation, Plant MH - Phenotype MH - Photoperiod MH - Plant Proteins/genetics/metabolism MH - *Glycine max/metabolism PMC - PMC8910378 OTO - NOTNLM OT - GmFT3b OT - flowering time OT - functional redundancy OT - photoperiod OT - soybean COIS- The authors declare no conflict of interest. EDAT- 2022/03/11 06:00 MHDA- 2022/04/09 06:00 PMCR- 2022/02/24 CRDT- 2022/03/10 15:35 PHST- 2022/01/24 00:00 [received] PHST- 2022/02/21 00:00 [revised] PHST- 2022/02/22 00:00 [accepted] PHST- 2022/03/10 15:35 [entrez] PHST- 2022/03/11 06:00 [pubmed] PHST- 2022/04/09 06:00 [medline] PHST- 2022/02/24 00:00 [pmc-release] AID - ijms23052497 [pii] AID - ijms-23-02497 [pii] AID - 10.3390/ijms23052497 [doi] PST - epublish SO - Int J Mol Sci. 2022 Feb 24;23(5):2497. doi: 10.3390/ijms23052497. ##### PUB RECORD ##### ## 10.1007/s10142-012-0306-z 23322364 Li, Hatanaka et al., 2013 "Li R, Hatanaka T, Yu K, Wu Y, Fukushige H, Hildebrand D. Soybean oil biosynthesis: role of diacylglycerol acyltransferases. Funct Integr Genomics. 2013 Mar;13(1):99-113. doi: 10.1007/s10142-012-0306-z. Epub 2013 Jan 16. PMID: 23322364." ## PMID- 23322364 OWN - NLM STAT- MEDLINE DCOM- 20130828 LR - 20231213 IS - 1438-7948 (Electronic) IS - 1438-793X (Linking) VI - 13 IP - 1 DP - 2013 Mar TI - Soybean oil biosynthesis: role of diacylglycerol acyltransferases. PG - 99-113 LID - 10.1007/s10142-012-0306-z [doi] AB - Diacylglycerol acyltransferase (DGAT) catalyzes the acyl-CoA-dependent acylation of sn-1,2-diacylglycerol to form seed oil triacylglycerol (TAG). To understand the features of genes encoding soybean (Glycine max) DGATs and possible roles in soybean seed oil synthesis and accumulation, two full-length cDNAs encoding type 1 diacylglycerol acyltransferases (GmDGAT1A and GmDGAT1B) were cloned from developing soybean seeds. These coding sequences share identities of 94 % and 95 % in protein and DNA sequences. The genomic architectures of GmDGAT1A and GmDGAT1B both contain 15 introns and 16 exons. Differences in the lengths of the first exon and most of the introns were found between GmDGAT1A and GmDGAT1B genomic sequences. Furthermore, detailed in silico analysis revealed a third predicted DGAT1, GmDGAT1C. GmDGAT1A and GmDGAT1B were found to have similar activity levels and substrate specificities. Oleoyl-CoA and sn-1,2-diacylglycerol were preferred substrates over vernoloyl-CoA and sn-1,2-divernoloylglycerol. Both transcripts are much more abundant in developing seeds than in other tissues including leaves, stem, roots, and flowers. Both soybean DGAT1A and DGAT1B are highly expressed at developing seed stages of maximal TAG accumulation with DGAT1B showing highest expression at somewhat later stages than DGAT1A. DGAT1A and DGAT1B show expression profiles consistent with important roles in soybean seed oil biosynthesis and accumulation. FAU - Li, Runzhi AU - Li R AD - Shanxi Agricultural University, Taigu 030801, China. FAU - Hatanaka, Tomoko AU - Hatanaka T FAU - Yu, Keshun AU - Yu K FAU - Wu, Yongmei AU - Wu Y FAU - Fukushige, Hirotada AU - Fukushige H FAU - Hildebrand, David AU - Hildebrand D LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20130116 PL - Germany TA - Funct Integr Genomics JT - Functional & integrative genomics JID - 100939343 RN - 0 (Diglycerides) RN - 0 (Plant Proteins) RN - 8001-22-7 (Soybean Oil) RN - EC 2.3.1.20 (Diacylglycerol O-Acyltransferase) SB - IM MH - Amino Acid Sequence MH - Diacylglycerol O-Acyltransferase/genetics/*metabolism MH - Diglycerides/metabolism MH - Exons MH - Gene Expression Regulation, Developmental MH - Gene Expression Regulation, Plant MH - Introns MH - Molecular Sequence Data MH - Plant Proteins/genetics/*metabolism MH - Seeds/metabolism MH - Soybean Oil/*biosynthesis/genetics MH - Glycine max/enzymology/*genetics/metabolism MH - Transcription, Genetic EDAT- 2013/01/17 06:00 MHDA- 2013/08/29 06:00 CRDT- 2013/01/17 06:00 PHST- 2012/07/06 00:00 [received] PHST- 2012/12/26 00:00 [accepted] PHST- 2012/12/17 00:00 [revised] PHST- 2013/01/17 06:00 [entrez] PHST- 2013/01/17 06:00 [pubmed] PHST- 2013/08/29 06:00 [medline] AID - 10.1007/s10142-012-0306-z [doi] PST - ppublish SO - Funct Integr Genomics. 2013 Mar;13(1):99-113. doi: 10.1007/s10142-012-0306-z. Epub 2013 Jan 16. ##### PUB RECORD ##### ## 10.1073/pnas.1611763113 27791139 Ge, Yu et al., 2016 "Ge L, Yu J, Wang H, Luth D, Bai G, Wang K, Chen R. Increasing seed size and quality by manipulating BIG SEEDS1 in legume species. Proc Natl Acad Sci U S A. 2016 Nov 1;113(44):12414-12419. doi: 10.1073/pnas.1611763113. Epub 2016 Oct 17. PMID: 27791139; PMCID: PMC5098654." ## PMID- 27791139 OWN - NLM STAT- MEDLINE DCOM- 20180326 LR - 20231213 IS - 1091-6490 (Electronic) IS - 0027-8424 (Print) IS - 0027-8424 (Linking) VI - 113 IP - 44 DP - 2016 Nov 1 TI - Increasing seed size and quality by manipulating BIG SEEDS1 in legume species. PG - 12414-12419 AB - Plant organs, such as seeds, are primary sources of food for both humans and animals. Seed size is one of the major agronomic traits that have been selected in crop plants during their domestication. Legume seeds are a major source of dietary proteins and oils. Here, we report a conserved role for the BIG SEEDS1 (BS1) gene in the control of seed size and weight in the model legume Medicago truncatula and the grain legume soybean (Glycine max). BS1 encodes a plant-specific transcription regulator and plays a key role in the control of the size of plant organs, including seeds, seed pods, and leaves, through a regulatory module that targets primary cell proliferation. Importantly, down-regulation of BS1 orthologs in soybean by an artificial microRNA significantly increased soybean seed size, weight, and amino acid content. Our results provide a strategy for the increase in yield and seed quality in legumes. FAU - Ge, Liangfa AU - Ge L AD - Plant Biology Division, Samuel Roberts Noble Foundation, Ardmore, OK 73401. FAU - Yu, Jianbin AU - Yu J AD - Department of Agronomy, Kansas State University, Manhattan, KS 66506. FAU - Wang, Hongliang AU - Wang H AD - Plant Biology Division, Samuel Roberts Noble Foundation, Ardmore, OK 73401. FAU - Luth, Diane AU - Luth D AD - Center for Plant Transformation, Plant Sciences Institute, Iowa State University, Ames, IA 50011. AD - Department of Agronomy, Iowa State University, Ames, IA 50011. FAU - Bai, Guihua AU - Bai G AD - Department of Agronomy, Kansas State University, Manhattan, KS 66506. AD - Hard Winter Wheat Genetics Research Unit, Agricultural Research Service, United States Department of Agriculture, Manhattan, KS 66506. FAU - Wang, Kan AU - Wang K AD - Center for Plant Transformation, Plant Sciences Institute, Iowa State University, Ames, IA 50011. AD - Department of Agronomy, Iowa State University, Ames, IA 50011. FAU - Chen, Rujin AU - Chen R AUID- ORCID: 0000-0001-5444-2144 AD - Plant Biology Division, Samuel Roberts Noble Foundation, Ardmore, OK 73401; rchen@noble.org. LA - eng SI - GENBANK/KM668032 SI - GENBANK/KM668033 SI - GENBANK/KM668027 SI - GENBANK/KM668028 PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Research Support, U.S. Gov't, Non-P.H.S. DEP - 20161017 PL - United States TA - Proc Natl Acad Sci U S A JT - Proceedings of the National Academy of Sciences of the United States of America JID - 7505876 RN - 0 (Plant Proteins) RN - 0 (Transcription Factors) SB - IM MH - Chromosome Mapping MH - Chromosomes, Plant/genetics MH - Edible Grain/anatomy & histology/genetics/metabolism MH - Gene Expression Profiling MH - Gene Expression Regulation, Plant MH - Medicago truncatula/genetics/growth & development/*metabolism MH - Mutation MH - Phenotype MH - Plant Leaves/genetics/growth & development/metabolism MH - Plant Proteins/genetics/*metabolism MH - Quantitative Trait Loci/genetics MH - Seeds/anatomy & histology/genetics/*metabolism MH - Glycine max/genetics/growth & development/*metabolism MH - Transcription Factors/genetics/metabolism PMC - PMC5098654 OTO - NOTNLM OT - Medicago OT - forage quality OT - plant organ size OT - seed size OT - soybean COIS- The authors declare no conflict of interest. EDAT- 2016/11/03 06:00 MHDA- 2018/03/27 06:00 PMCR- 2016/10/17 CRDT- 2016/11/03 06:00 PHST- 2016/11/03 06:00 [pubmed] PHST- 2018/03/27 06:00 [medline] PHST- 2016/11/03 06:00 [entrez] PHST- 2016/10/17 00:00 [pmc-release] AID - 1611763113 [pii] AID - 201611763 [pii] AID - 10.1073/pnas.1611763113 [doi] PST - ppublish SO - Proc Natl Acad Sci U S A. 2016 Nov 1;113(44):12414-12419. doi: 10.1073/pnas.1611763113. Epub 2016 Oct 17. ##### PUB RECORD ##### ## 10.1111/nph.14884 29120038 Liu, Jiang et al., 2008 "Liu W, Jiang B, Ma L, Zhang S, Zhai H, Xu X, Hou W, Xia Z, Wu C, Sun S, Wu T, Chen L, Han T. Functional diversification of Flowering Locus T homologs in soybean: GmFT1a and GmFT2a/5a have opposite roles in controlling flowering and maturation. New Phytol. 2018 Feb;217(3):1335-1345. doi: 10.1111/nph.14884. Epub 2017 Nov 9. PMID: 29120038; PMCID: PMC5900889." ## PMID- 29120038 OWN - NLM STAT- MEDLINE DCOM- 20191002 LR - 20231213 IS - 1469-8137 (Electronic) IS - 0028-646X (Print) IS - 0028-646X (Linking) VI - 217 IP - 3 DP - 2018 Feb TI - Functional diversification of Flowering Locus T homologs in soybean: GmFT1a and GmFT2a/5a have opposite roles in controlling flowering and maturation. PG - 1335-1345 LID - 10.1111/nph.14884 [doi] AB - Soybean flowering and maturation are strictly regulated by photoperiod. Photoperiod-sensitive soybean varieties can undergo flowering reversion when switched from short-day (SD) to long-day (LD) conditions, suggesting the presence of a 'floral-inhibitor' under LD conditions. We combined gene expression profiling with a study of transgenic plants and confirmed that GmFT1a, soybean Flowering Locus T (FT) homolog, is a floral inhibitor. GmFT1a is expressed specifically in leaves, similar to the flowering-promoting FT homologs GmFT2a/5a. However, in Zigongdongdou (ZGDD), a model variety for studying flowering reversion, GmFT1a expression was induced by LD but inhibited by SD conditions. This was unexpected, as it is the complete opposite of the expression of flowering promoters GmFT2a/5a. Moreover, the key soybean maturity gene E1 may up-regulate GmFT1a expression. It is also notable that GmFT1a expression was conspicuously high in late-flowering varieties. Transgenic overexpression of GmFT1a delayed flowering and maturation in soybean, confirming that GmFT1a functions as a flowering inhibitor. This discovery highlights the complex impacts of the functional diversification of the FT gene family in soybean, and implies that antagonism between flowering-inhibiting and flowering-promoting FT homologs in this highly photoperiod-sensitive plant may specify vegetative vs reproductive development. CI - (c) 2017 The Authors. New Phytologist (c) 2017 New Phytologist Trust. FAU - Liu, Wei AU - Liu W AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Jiang, Bingjun AU - Jiang B AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Ma, Liming AU - Ma L AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Zhang, Shouwei AU - Zhang S AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Zhai, Hong AU - Zhai H AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. FAU - Xu, Xin AU - Xu X AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Hou, Wensheng AU - Hou W AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Xia, Zhengjun AU - Xia Z AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, 150081, China. FAU - Wu, Cunxiang AU - Wu C AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Sun, Shi AU - Sun S AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Wu, Tingting AU - Wu T AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Chen, Li AU - Chen L AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Han, Tianfu AU - Han T AD - MOA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. LA - eng SI - GENBANK/MG030499 SI - GENBANK/MG030623 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20171109 PL - England TA - New Phytol JT - The New phytologist JID - 9882884 RN - 0 (Plant Proteins) SB - IM MH - Flowers/genetics/*physiology MH - Gene Expression Regulation, Plant MH - Haplotypes/genetics MH - Models, Biological MH - Phenotype MH - Plant Proteins/*genetics/metabolism MH - Plants, Genetically Modified MH - *Sequence Homology, Amino Acid MH - Glycine max/*genetics MH - Transcriptome/genetics PMC - PMC5900889 OTO - NOTNLM OT - Flowering Locus T (FT) homolog OT - GmFT1a OT - flowering inhibitor OT - maturation OT - soybean EDAT- 2017/11/10 06:00 MHDA- 2019/10/03 06:00 PMCR- 2018/04/16 CRDT- 2017/11/10 06:00 PHST- 2017/05/01 00:00 [received] PHST- 2017/10/03 00:00 [accepted] PHST- 2017/11/10 06:00 [pubmed] PHST- 2019/10/03 06:00 [medline] PHST- 2017/11/10 06:00 [entrez] PHST- 2018/04/16 00:00 [pmc-release] AID - NPH14884 [pii] AID - 10.1111/nph.14884 [doi] PST - ppublish SO - New Phytol. 2018 Feb;217(3):1335-1345. doi: 10.1111/nph.14884. Epub 2017 Nov 9. ##### PUB RECORD ##### ## 10.1111/pce.13695 31981430 Chen, Cai et al., 2020 "Chen L, Cai Y, Qu M, Wang L, Sun H, Jiang B, Wu T, Liu L, Sun S, Wu C, Yao W, Yuan S, Han T, Hou W. Soybean adaption to high-latitude regions is associated with natural variations of GmFT2b, an ortholog of FLOWERING LOCUS T. Plant Cell Environ. 2020 Apr;43(4):934-944. doi: 10.1111/pce.13695. Epub 2020 Jan 25. PMID: 31981430; PMCID: PMC7154755." ## PMID- 31981430 OWN - NLM STAT- MEDLINE DCOM- 20210108 LR - 20231213 IS - 1365-3040 (Electronic) IS - 0140-7791 (Print) IS - 0140-7791 (Linking) VI - 43 IP - 4 DP - 2020 Apr TI - Soybean adaption to high-latitude regions is associated with natural variations of GmFT2b, an ortholog of FLOWERING LOCUS T. PG - 934-944 LID - 10.1111/pce.13695 [doi] AB - Day length has an important influence on flowering and growth habit in many plant species. In crops such as soybean, photoperiod sensitivity determines the geographical range over which a given cultivar can grow and flower. The soybean genome contains ~10 genes homologous to FT, a central regulator of flowering from Arabidopsis thaliana. However, the precise roles of these soybean FTs are not clearly. Here we show that one such gene, GmFT2b, promotes flowering under long-days (LDs). Overexpression of GmFT2b upregulates expression of flowering-related genes which are important in regulating flowering time. We propose a 'weight' model for soybean flowering under short-day (SD) and LD conditions. Furthermore, we examine GmFT2b sequences in 195 soybean cultivars, as well as flowering phenotypes, geographical distributions and maturity groups. We found that Hap3, a major GmFT2b haplotype, is associated with significantly earlier flowering at higher latitudes. We anticipate our assay to provide important resources for the genetic improvement of soybean, including new germplasm for soybean breeding, and also increase our understanding of functional diversity in the soybean FT gene family. CI - (c) 2020 The Authors. Plant, Cell & Environment published by Wiley Periodicals, Inc. FAU - Chen, Li AU - Chen L AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Cai, Yupeng AU - Cai Y AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Qu, Mengnan AU - Qu M AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wang, Liwei AU - Wang L AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Sun, Hongbo AU - Sun H AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Jiang, Bingjun AU - Jiang B AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wu, Tingting AU - Wu T AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Liu, Luping AU - Liu L AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Sun, Shi AU - Sun S AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Wu, Cunxiang AU - Wu C AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Yao, Weiwei AU - Yao W AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Yuan, Shan AU - Yuan S AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Han, Tianfu AU - Han T AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. FAU - Hou, Wensheng AU - Hou W AUID- ORCID: 0000-0002-6342-4308 AD - National Center for Transgenic Research in Plants, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. AD - Ministry of Agriculture Key Laboratory of Soybean Biology (Beijing), Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20200125 PL - United States TA - Plant Cell Environ JT - Plant, cell & environment JID - 9309004 RN - 0 (Arabidopsis Proteins) RN - 0 (FT protein, Arabidopsis) RN - 0 (Plant Proteins) RN - 0 (Transcription Factors) RN - EC 3.1.- (CRISPR-Associated Protein 9) SB - IM MH - Adaptation, Physiological/genetics MH - Arabidopsis Proteins/genetics/physiology MH - CRISPR-Associated Protein 9 MH - CRISPR-Cas Systems MH - Cloning, Molecular MH - Flowers/growth & development MH - Gene Editing MH - Gene Expression Regulation, Plant/genetics MH - Genetic Variation/genetics/physiology MH - Geography MH - Photoperiod MH - Plant Proteins/*genetics/physiology MH - Glycine max/genetics/growth & development/*physiology MH - Transcription Factors/*genetics/physiology MH - Transcriptome PMC - PMC7154755 OTO - NOTNLM OT - Glycine max (L.) Merr. OT - GmFT2b OT - Soybean OT - flowering promoter OT - gene haplotype OT - photoperiod COIS- The authors declare that they have no conflict of interest. EDAT- 2020/01/26 06:00 MHDA- 2021/01/09 06:00 PMCR- 2020/04/14 CRDT- 2020/01/26 06:00 PHST- 2019/09/03 00:00 [received] PHST- 2019/11/25 00:00 [revised] PHST- 2019/12/01 00:00 [accepted] PHST- 2020/01/26 06:00 [pubmed] PHST- 2021/01/09 06:00 [medline] PHST- 2020/01/26 06:00 [entrez] PHST- 2020/04/14 00:00 [pmc-release] AID - PCE13695 [pii] AID - 10.1111/pce.13695 [doi] PST - ppublish SO - Plant Cell Environ. 2020 Apr;43(4):934-944. doi: 10.1111/pce.13695. Epub 2020 Jan 25. ##### PUB RECORD ##### ## 10.1021/jf2033939 22107112 Kovinich, Saleem et al., 2012 "Kovinich N, Saleem A, Arnason JT, Miki B. Identification of two anthocyanidin reductase genes and three red-brown soybean accessions with reduced anthocyanidin reductase 1 mRNA, activity, and seed coat proanthocyanidin amounts. J Agric Food Chem. 2012 Jan 18;60(2):574-84. doi: 10.1021/jf2033939. Epub 2012 Jan 4. PMID: 22107112." ## PMID- 22107112 OWN - NLM STAT- MEDLINE DCOM- 20120820 LR - 20231213 IS - 1520-5118 (Electronic) IS - 0021-8561 (Linking) VI - 60 IP - 2 DP - 2012 Jan 18 TI - Identification of two anthocyanidin reductase genes and three red-brown soybean accessions with reduced anthocyanidin reductase 1 mRNA, activity, and seed coat proanthocyanidin amounts. PG - 574-84 LID - 10.1021/jf2033939 [doi] AB - Anthocyanidin reductase (ANR; EC 1.3.1.77) catalyzes a key step in the biosynthesis of proanthocyanidins (PAs; also known as condensed tannins), flavonoid metabolites responsible for the brown pigmentation of seeds. Here, two ANR genes (ANR1 and ANR2) from the seed coat of brown soybean (Glycine max (L.) Merr.) have been isolated and their enzymatic function confirmed for the reduction of cyanidin to (-)-epicatechin in vitro. Biochemical and genetic comparisons of soybean lines differing in seed coat color revealed three red-brown lines to exhibit major reductions in the amounts of soluble PAs in the seed coat compared to brown soybean lines. Two spontaneous mutants with red-brown grain color had reduced ANR1 gene expression in the seed coat, and an EMS-mutagenized red-brown mutant had nonsynonymous substitutions that resulted in slightly reduced ANR1 activity in vitro. These results suggest that defects in the ANR1 gene can be associated with red-brown soybean grain color. These results suggest that suppressing ANR1 gene expression or activity may be a rational approach toward engineering seed coat color to enable the visual identification of genetically modified soybean grains. FAU - Kovinich, Nik AU - Kovinich N AD - Bioproducts and Bioprocesses, Research Branch, Agriculture and Agri-Food Canada, Ottawa, Ontario, Canada. FAU - Saleem, Ammar AU - Saleem A FAU - Arnason, John T AU - Arnason JT FAU - Miki, Brian AU - Miki B LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20120104 PL - United States TA - J Agric Food Chem JT - Journal of agricultural and food chemistry JID - 0374755 RN - 0 (Proanthocyanidins) RN - 0 (RNA, Messenger) RN - 0 (Recombinant Proteins) RN - 8R1V1STN48 (Catechin) RN - EC 1.6.- (NADH, NADPH Oxidoreductases) SB - IM MH - Catechin/metabolism MH - Color MH - Gene Expression Regulation, Plant MH - Genes, Plant MH - Multigene Family MH - Mutation MH - NADH, NADPH Oxidoreductases/*genetics/*metabolism MH - Phylogeny MH - Proanthocyanidins/genetics/metabolism MH - RNA, Messenger/genetics MH - Recombinant Proteins/genetics/metabolism MH - Seeds/genetics/metabolism/*physiology MH - Glycine max/*genetics/metabolism EDAT- 2011/11/24 06:00 MHDA- 2012/08/21 06:00 CRDT- 2011/11/24 06:00 PHST- 2011/11/24 06:00 [entrez] PHST- 2011/11/24 06:00 [pubmed] PHST- 2012/08/21 06:00 [medline] AID - 10.1021/jf2033939 [doi] PST - ppublish SO - J Agric Food Chem. 2012 Jan 18;60(2):574-84. doi: 10.1021/jf2033939. Epub 2012 Jan 4. ##### PUB RECORD ##### ## 10.1104/pp.125.4.1941 11299373 Hegeman, Good et al., 2001 "Hegeman CE, Good LL, Grabau EA. Expression of D-myo-inositol-3-phosphate synthase in soybean. Implications for phytic acid biosynthesis. Plant Physiol. 2001 Apr;125(4):1941-8. doi: 10.1104/pp.125.4.1941. PMID: 11299373; PMCID: PMC88849." ## PMID- 11299373 OWN - NLM STAT- MEDLINE DCOM- 20010802 LR - 20231213 IS - 0032-0889 (Print) IS - 1532-2548 (Electronic) IS - 0032-0889 (Linking) VI - 125 IP - 4 DP - 2001 Apr TI - Expression of D-myo-inositol-3-phosphate synthase in soybean. Implications for phytic acid biosynthesis. PG - 1941-8 AB - Phytic acid, a phosphorylated derivative of myo-inositol, functions as the major storage form of phosphorus in plant seeds. Myo-inositol phosphates, including phytic acid, play diverse roles in plants as signal transduction molecules, osmoprotectants, and cell wall constituents. D-myo-inositol-3-phosphate synthase (MIPS EC 5.5.1.4) catalyzes the first step in de novo synthesis of myo-inositol. A soybean (Glycine max) MIPS cDNA (GmMIPS1) was isolated by reverse transcriptase-PCR using consensus primers designed from highly conserved regions in other plant MIPS sequences. Southern-blot analysis and database searches indicated the presence of at least four MIPS genes in the soybean genome. Northern-blot and immunoblot analyses indicated higher MIPS expression and accumulation in immature seeds than in other soybean tissues. MIPS was expressed early in the cotyledonary stage of seed development. The GmMIPS1 expression pattern suggested that it encodes a MIPS isoform that functions in seeds to generate D-myo-inositol-3-phosphate as a substrate for phytic acid biosynthesis. FAU - Hegeman, C E AU - Hegeman CE AD - Department of Plant Pathology, Physiology, and Weed Science, Fralin Biotechnology Center, Virginia Polytechnic Institute and State University, Blacksburg, Virginia 24061-0346, USA. FAU - Good, L L AU - Good LL FAU - Grabau, E A AU - Grabau EA LA - eng PT - Journal Article PT - Research Support, U.S. Gov't, Non-P.H.S. PL - United States TA - Plant Physiol JT - Plant physiology JID - 0401224 RN - 0 (DNA, Complementary) RN - 0 (Isoenzymes) RN - 0 (RNA, Messenger) RN - 7IGF0S7R8I (Phytic Acid) RN - EC 5.5.- (Intramolecular Lyases) RN - EC 5.5.1.- (D-myo-inositol-3-phosphate synthase) SB - IM MH - Base Sequence MH - Consensus Sequence MH - Conserved Sequence MH - Cotyledon/enzymology MH - DNA, Complementary MH - Gene Expression Regulation, Enzymologic MH - *Gene Expression Regulation, Plant MH - Intramolecular Lyases/*genetics/*metabolism MH - Isoenzymes/genetics/metabolism MH - Phytic Acid/*biosynthesis MH - Plant Leaves/enzymology MH - Plant Roots/enzymology MH - Plant Stems/enzymology MH - RNA, Messenger/genetics MH - Reverse Transcriptase Polymerase Chain Reaction MH - Glycine max/*enzymology/*genetics MH - Transcription, Genetic PMC - PMC88849 EDAT- 2001/04/12 10:00 MHDA- 2001/08/03 10:01 PMCR- 2002/04/01 CRDT- 2001/04/12 10:00 PHST- 2001/04/12 10:00 [pubmed] PHST- 2001/08/03 10:01 [medline] PHST- 2001/04/12 10:00 [entrez] PHST- 2002/04/01 00:00 [pmc-release] AID - 6572 [pii] AID - 10.1104/pp.125.4.1941 [doi] PST - ppublish SO - Plant Physiol. 2001 Apr;125(4):1941-8. doi: 10.1104/pp.125.4.1941. ##### PUB RECORD ##### ## 10.1186/s12864-019-5577-5 30894121 Jiang, Zhang, et al., 2019 "Jiang B, Zhang S, Song W, Khan MAA, Sun S, Zhang C, Wu T, Wu C, Han T. Natural variations of FT family genes in soybean varieties covering a wide range of maturity groups. BMC Genomics. 2019 Mar 20;20(1):230. doi: 10.1186/s12864-019-5577-5. PMID: 30894121; PMCID: PMC6425728." ## PMID- 30894121 OWN - NLM STAT- MEDLINE DCOM- 20190708 LR - 20231213 IS - 1471-2164 (Electronic) IS - 1471-2164 (Linking) VI - 20 IP - 1 DP - 2019 Mar 20 TI - Natural variations of FT family genes in soybean varieties covering a wide range of maturity groups. PG - 230 LID - 10.1186/s12864-019-5577-5 [doi] LID - 230 AB - BACKGROUND: Flowering time and maturity are among the most important adaptive traits in soybean (Glycine max (L.) Merill). Flowering Locus T (FT) family genes function as key flowering integrators, with flowering-promoting members GmFT2a/GmFT5a and flowering-inhibiting members GmFT4/GmFT1a antagonistically regulating vegetative and reproductive growth. However, to date, the relations between natural variations of FT family genes and the diversity of flowering time and maturity in soybean are not clear. Therefore, we conducted this study to discover natural variations in FT family genes in association with flowering time and maturity. RESULTS: Ten FT family genes, GmFT1a, GmFT1b, GmFT2a, GmFT2b, GmFT3a, GmFT3b, GmFT4, GmFT5a, GmFT5b and GmFT6, were cloned and sequenced in the 127 varieties evenly covering all 14 known maturity groups (MG0000-MGX). They were diversified at the genome sequence polymorphism level. GmFT3b and GmFT5b might have experienced breeding selection in the process of soybean domestication and breeding. Haplotype analysis showed that a total of 17 haplotypes had correlative relationships with flowering time and maturity among the 10 FT genes, namely, 1a-H3, 1b-H1, 1b-H6, 1b-H7, 2a-H1, 2a-H3, 2a-H4, 2a-H9, 2b-H3, 2b-H4, 2b-H6, 2b-H7, 3b-H4, 5a-H1, 5a-H2, 5a-H4 and 5b-H1. Based on the association analysis, 38 polymorphic sites had a significant association with flowering time at the level of p < 0.01. CONCLUSIONS: Some natural variations exist within the 10 FT family genes, which might be involved in soybean adaptation to different environments and have an influence on diverse flowering time and maturity. This study will facilitate the understanding of the roles of FTs in flowering and maturity. FAU - Jiang, Bingjun AU - Jiang B AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, the Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Zhang, Shouwei AU - Zhang S AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, the Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Song, Wenwen AU - Song W AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, the Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Khan, Mohammad Abdul Awal AU - Khan MAA AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, the Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Sun, Shi AU - Sun S AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, the Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Zhang, Chengsheng AU - Zhang C AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, the Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Wu, Tingting AU - Wu T AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, the Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Wu, Cunxiang AU - Wu C AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, the Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. FAU - Han, Tianfu AU - Han T AD - MARA Key Laboratory of Soybean Biology (Beijing), Institute of Crop Science, the Chinese Academy of Agricultural Sciences, 12 Zhongguancun South Street, Beijing, 100081, China. hantianfu@caas.cn. LA - eng GR - 2017YFD0101400/the State Key R&D Project of China/ GR - CARS-04/China Agriculture Research System/ PT - Journal Article DEP - 20190320 PL - England TA - BMC Genomics JT - BMC genomics JID - 100965258 RN - 0 (Plant Proteins) SB - IM MH - *Genetic Variation MH - Haplotypes MH - Plant Proteins/*genetics MH - Polymorphism, Genetic MH - Glycine max/*genetics/*growth & development MH - Time Factors PMC - PMC6425728 OTO - NOTNLM OT - FT family genes OT - Flowering time OT - Haplotype OT - Maturity group OT - Soybean COIS- ETHICS APPROVAL AND CONSENT TO PARTICIPATE: All the plant materials used in the current study were collected from the Institute of Crop Sciences, the Chinese Academy of Agricultural Sciences, which are public and available for non-commercial purpose. No specific permits were required for the field studies described here. The study area is not privately owned or protected in any way, and the field studies did not involve endangered or protected species. Experimental researches on this study comply with institutional, national and international guidelines. CONSENT FOR PUBLICATION: Not applicable. COMPETING INTERESTS: The authors declared that they have no competing interests. PUBLISHER'S NOTE: Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations. EDAT- 2019/03/22 06:00 MHDA- 2019/07/10 06:00 PMCR- 2019/03/20 CRDT- 2019/03/22 06:00 PHST- 2018/11/20 00:00 [received] PHST- 2019/02/28 00:00 [accepted] PHST- 2019/03/22 06:00 [entrez] PHST- 2019/03/22 06:00 [pubmed] PHST- 2019/07/10 06:00 [medline] PHST- 2019/03/20 00:00 [pmc-release] AID - 10.1186/s12864-019-5577-5 [pii] AID - 5577 [pii] AID - 10.1186/s12864-019-5577-5 [doi] PST - epublish SO - BMC Genomics. 2019 Mar 20;20(1):230. doi: 10.1186/s12864-019-5577-5. ##### PUB RECORD ##### ## 10.1371/journal.pone.0054154 23342093 Cheng, Wang, et al., 2013 "Cheng H, Wang J, Chu S, Yan HL, Yu D. Diversifying selection on flavanone 3-hydroxylase and isoflavone synthase genes in cultivated soybean and its wild progenitors. PLoS One. 2013;8(1):e54154. doi: 10.1371/journal.pone.0054154. Epub 2013 Jan 16. PMID: 23342093; PMCID: PMC3546919." ## PMID- 23342093 OWN - NLM STAT- MEDLINE DCOM- 20130802 LR - 20231213 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 8 IP - 1 DP - 2013 TI - Diversifying selection on flavanone 3-hydroxylase and isoflavone synthase genes in cultivated soybean and its wild progenitors. PG - e54154 LID - 10.1371/journal.pone.0054154 [doi] LID - e54154 AB - Soybean isoflavone synthase (IFS) and flavanone 3-hydroxylase (F3H) are two key enzymes catalyzing the biosynthesis of isoflavonoids and flavonoids, both of which play diverse roles in stress responses. However, little is known about the evolutionary pattern of these genes in cultivated soybean and its wild progenitors. Herein, we investigated the nucleotide polymorphisms in Isoflavone synthase (IFS1, IFS2) and Flavanone 3-hydroxylase (F3H2) genes from 33 soybean accessions, including 17 cultivars (Glycine max) and 16 their wild progenitors (Glycine soja). Our data showed that the target genes shared the levels of nucleotide polymorphism with three reference genes involved in plant-microbe interactions, but possessed a much higher nucleotide polymorphism than other reference genes. Moreover, no significant genetic differentiation was found between cultivated soybean and its wild relatives in three target genes, despite of considering bottleneck and founder effect during domestication. These results indicate that IFS and F3H genes could have experienced gene introgressions or diversifying selection events during domestication process. Especially, F3H2 gene appears to evolve under positive selection and enjoy a faster evolutionary rate than IFS1 and IFS2 genes. FAU - Cheng, Hao AU - Cheng H AD - National Center for Soybean Improvement, National Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing, China. FAU - Wang, Jiao AU - Wang J FAU - Chu, Shanshan AU - Chu S FAU - Yan, Hong-Lang AU - Yan HL FAU - Yu, Deyue AU - Yu D LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20130116 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Plant Proteins) RN - EC 1.- (Mixed Function Oxygenases) RN - EC 1.13.- (Oxygenases) RN - EC 1.14.11.9 (flavanone 3-dioxygenase) RN - EC 1.14.13.- (isoflavone synthase) SB - IM MH - Mixed Function Oxygenases/classification/*genetics MH - Oxygenases/classification/*genetics MH - Phylogeny MH - Plant Proteins/classification/*genetics MH - Polymorphism, Genetic/genetics MH - Glycine max/*enzymology/genetics PMC - PMC3546919 COIS- Competing Interests: The authors have declared that no competing interests exist. EDAT- 2013/01/24 06:00 MHDA- 2013/08/03 06:00 PMCR- 2013/01/16 CRDT- 2013/01/24 06:00 PHST- 2012/07/09 00:00 [received] PHST- 2012/12/07 00:00 [accepted] PHST- 2013/01/24 06:00 [entrez] PHST- 2013/01/24 06:00 [pubmed] PHST- 2013/08/03 06:00 [medline] PHST- 2013/01/16 00:00 [pmc-release] AID - PONE-D-12-19957 [pii] AID - 10.1371/journal.pone.0054154 [doi] PST - ppublish SO - PLoS One. 2013;8(1):e54154. doi: 10.1371/journal.pone.0054154. Epub 2013 Jan 16. ##### PUB RECORD ##### ## 10.1186/1471-2229-13-21 23388059 Zhang, Zhao et al., 2013 "Zhang Y, Zhao L, Li H, Gao Y, Li Y, Wu X, Teng W, Han Y, Zhao X, Li W. GmGBP1, a homolog of human ski interacting protein in soybean, regulates flowering and stress tolerance in Arabidopsis. BMC Plant Biol. 2013 Feb 6;13:21. doi: 10.1186/1471-2229-13-21. PMID: 23388059; PMCID: PMC3571917." ## PMID- 23388059 OWN - NLM STAT- MEDLINE DCOM- 20130621 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 13 DP - 2013 Feb 6 TI - GmGBP1, a homolog of human ski interacting protein in soybean, regulates flowering and stress tolerance in Arabidopsis. PG - 21 LID - 10.1186/1471-2229-13-21 [doi] AB - BACKGROUND: SKIP is a transcription cofactor in many eukaryotes. It can regulate plant stress tolerance in rice and Arabidopsis. But the homolog of SKIP protein in soybean has been not reported up to now. RESULTS: In this study, the expression patterns of soybean GAMYB binding protein gene (GmGBP1) encoding a homolog of SKIP protein were analyzed in soybean under abiotic stresses and different day lengths. The expression of GmGBP1 was induced by polyethyleneglycol 6000, NaCl, gibberellin, abscisic acid and heat stress. GmGBP1 had transcriptional activity in C-terminal. GmGBP1 could interact with R2R3 domain of GmGAMYB1 in SKIP domain to take part in gibberellin flowering pathway. In long-day (16 h-light) condition, transgenic Arabidopsis with the ectopic overexpression of GmGBP1 exhibited earlier flowering and less number of rosette leaves; Suppression of AtSKIP in Arabidopsis resulted in growth arrest, flowering delay and down-regulation of many flowering-related genes (CONSTANS, FLOWERING LOCUS T, LEAFY); Arabidopsis myb33 mutant plants with ectopic overexpression of GmGBP1 showed the same flowering phenotype with wild type. In short-day (8 h-light) condition, transgenic Arabidopsis plants with GmGBP1 flowered later and showed a higher level of FLOWERING LOCUS C compared with wild type. When treated with abiotic stresses, transgenic Arabidopsis with the ectopic overexpression of GmGBP1 enhanced the tolerances to heat and drought stresses but reduced the tolerance to high salinity, and affected the expressions of several stress-related genes. CONCLUSIONS: In Arabidopsis, GmGBP1 might positively regulate the flowering time by affecting CONSTANS, FLOWERING LOCUS T, LEAFY and GAMYB directly or indirectly in photoperiodic and gibberellin pathways in LDs, but GmGBP1 might represse flowering by affecting FLOWERING LOCUS C and SHORT VEGETATIVE PHASE in autonomous pathway in SDs. GmGBP1 might regulate the activity of ROS-eliminating to improve the resistance to heat and drought but reduce the high-salinity tolerance. FAU - Zhang, Yanwei AU - Zhang Y AD - Key Laboratory of Soybean Biology in Chinese Education Ministry, College of Agronomy, Northeast Agricultural University, Harbin, 150030, China. FAU - Zhao, Lin AU - Zhao L FAU - Li, Haiyan AU - Li H FAU - Gao, Yang AU - Gao Y FAU - Li, Yongguang AU - Li Y FAU - Wu, Xiaoxia AU - Wu X FAU - Teng, Weili AU - Teng W FAU - Han, Yingpeng AU - Han Y FAU - Zhao, Xue AU - Zhao X FAU - Li, Wenbin AU - Li W LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20130206 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 RN - 0 (Soybean Proteins) SB - IM MH - Arabidopsis/genetics/*metabolism/*physiology MH - Droughts MH - Flowers/genetics/*metabolism/*physiology MH - Gene Expression Regulation, Plant MH - Hot Temperature MH - Humans MH - Plants, Genetically Modified/genetics/metabolism/physiology MH - Soybean Proteins/genetics/*metabolism MH - Glycine max/genetics/*metabolism PMC - PMC3571917 EDAT- 2013/02/08 06:00 MHDA- 2013/06/25 06:00 PMCR- 2013/02/06 CRDT- 2013/02/08 06:00 PHST- 2012/11/06 00:00 [received] PHST- 2013/01/28 00:00 [accepted] PHST- 2013/02/08 06:00 [entrez] PHST- 2013/02/08 06:00 [pubmed] PHST- 2013/06/25 06:00 [medline] PHST- 2013/02/06 00:00 [pmc-release] AID - 1471-2229-13-21 [pii] AID - 10.1186/1471-2229-13-21 [doi] PST - epublish SO - BMC Plant Biol. 2013 Feb 6;13:21. doi: 10.1186/1471-2229-13-21. ##### PUB RECORD ##### ## 10.1016/j.molp.2016.12.004 27979775 Yue, Liu et al., 2017 "Yue Y, Liu N, Jiang B, Li M, Wang H, Jiang Z, Pan H, Xia Q, Ma Q, Han T, Nian H. A Single Nucleotide Deletion in J Encoding GmELF3 Confers Long Juvenility and Is Associated with Adaption of Tropic Soybean. Mol Plant. 2017 Apr 3;10(4):656-658. doi: 10.1016/j.molp.2016.12.004. Epub 2016 Dec 12. PMID: 27979775." ## PMID- 27979775 OWN - NLM STAT- MEDLINE DCOM- 20181113 LR - 20231213 IS - 1752-9867 (Electronic) IS - 1674-2052 (Linking) VI - 10 IP - 4 DP - 2017 Apr 3 TI - A Single Nucleotide Deletion in J Encoding GmELF3 Confers Long Juvenility and Is Associated with Adaption of Tropic Soybean. PG - 656-658 LID - S1674-2052(16)30303-3 [pii] LID - 10.1016/j.molp.2016.12.004 [doi] FAU - Yue, Yanlei AU - Yue Y AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, Beijing 100081, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China. FAU - Liu, Nianxi AU - Liu N AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China. FAU - Jiang, Bingjun AU - Jiang B AD - MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Li, Mu AU - Li M AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China. FAU - Wang, Haijie AU - Wang H AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Institute of Crop Sciences, Hainan Academy of Agricultural Sciences, Haikou 571100, China. FAU - Jiang, Ze AU - Jiang Z AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China. FAU - Pan, Huanting AU - Pan H AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China. FAU - Xia, Qiuju AU - Xia Q AD - BGI-Shenzhen, Shenzhen 518083, China. FAU - Ma, Qibin AU - Ma Q AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China. FAU - Han, Tianfu AU - Han T AD - MOA Key Lab of Soybean Biology (Beijing), Institute of Crop Science, The Chinese Academy of Agricultural Sciences, Beijing 100081, China. Electronic address: hantianfu@caas.cn. FAU - Nian, Hai AU - Nian H AD - State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China Agricultural University, Guangzhou 510642, China; Guangdong Provincial Key Laboratory of Plant Molecular Breeding, South China Agricultural University, Guangzhou 510642, China. Electronic address: hnian@scau.edu.cn. LA - eng PT - Letter PT - Research Support, Non-U.S. Gov't DEP - 20161212 PL - England TA - Mol Plant JT - Molecular plant JID - 101465514 RN - 0 (Nucleotides) RN - 0 (Plant Proteins) SB - IM MH - Adaptation, Physiological/*genetics MH - Alleles MH - Nucleotides/*genetics MH - Plant Proteins/*genetics MH - Polymorphism, Single Nucleotide/*genetics MH - *Quantitative Trait, Heritable MH - Sequence Deletion/*genetics MH - Glycine max/*genetics/*physiology EDAT- 2016/12/17 06:00 MHDA- 2018/11/14 06:00 CRDT- 2016/12/17 06:00 PHST- 2016/09/02 00:00 [received] PHST- 2016/11/10 00:00 [revised] PHST- 2016/12/06 00:00 [accepted] PHST- 2016/12/17 06:00 [pubmed] PHST- 2018/11/14 06:00 [medline] PHST- 2016/12/17 06:00 [entrez] AID - S1674-2052(16)30303-3 [pii] AID - 10.1016/j.molp.2016.12.004 [doi] PST - ppublish SO - Mol Plant. 2017 Apr 3;10(4):656-658. doi: 10.1016/j.molp.2016.12.004. Epub 2016 Dec 12. ##### PUB RECORD ##### ## 10.3389/fpls.2022.820348 35498680 Song, Montes-Luz et al., 2022 "Song JH, Montes-Luz B, Tadra-Sfeir MZ, Cui Y, Su L, Xu D, Stacey G. High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation. Front Plant Sci. 2022 Apr 14;13:820348. doi: 10.3389/fpls.2022.820348. PMID: 35498680; PMCID: PMC9048599." ## PMID- 35498680 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20220716 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 13 DP - 2022 TI - High-Resolution Translatome Analysis Reveals Cortical Cell Programs During Early Soybean Nodulation. PG - 820348 LID - 10.3389/fpls.2022.820348 [doi] LID - 820348 AB - Nodule organogenesis in legumes is regulated temporally and spatially through gene networks. Genome-wide transcriptome, proteomic, and metabolomic analyses have been used previously to define the functional role of various plant genes in the nodulation process. However, while significant progress has been made, most of these studies have suffered from tissue dilution since only a few cells/root regions respond to rhizobial infection, with much of the root non-responsive. To partially overcome this issue, we adopted translating ribosome affinity purification (TRAP) to specifically monitor the response of the root cortex to rhizobial inoculation using a cortex-specific promoter. While previous studies have largely focused on the plant response within the root epidermis (e.g., root hairs) or within developing nodules, much less is known about the early responses within the root cortex, such as in relation to the development of the nodule primordium or growth of the infection thread. We focused on identifying genes specifically regulated during early nodule organogenesis using roots inoculated with Bradyrhizobium japonicum. A number of novel nodulation gene candidates were discovered, as well as soybean orthologs of nodulation genes previously reported in other legumes. The differential cortex expression of several genes was confirmed using a promoter-GUS analysis, and RNAi was used to investigate gene function. Notably, a number of differentially regulated genes involved in phytohormone signaling, including auxin, cytokinin, and gibberellic acid (GA), were also discovered, providing deep insight into phytohormone signaling during early nodule development. CI - Copyright (c) 2022 Song, Montes-Luz, Tadra-Sfeir, Cui, Su, Xu and Stacey. FAU - Song, Jae Hyo AU - Song JH AD - Divisions of Plant Sciences and Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, United States. FAU - Montes-Luz, Bruna AU - Montes-Luz B AD - Divisions of Plant Sciences and Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, United States. FAU - Tadra-Sfeir, Michelle Zibetti AU - Tadra-Sfeir MZ AD - Divisions of Plant Sciences and Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, United States. FAU - Cui, Yaya AU - Cui Y AD - Divisions of Plant Sciences and Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, United States. FAU - Su, Lingtao AU - Su L AD - Department of Electrical Engineering and Computer Science, C.S. Bond Life Science Center, University of Missouri, Columbia, MO, United States. FAU - Xu, Dong AU - Xu D AD - Department of Electrical Engineering and Computer Science, C.S. Bond Life Science Center, University of Missouri, Columbia, MO, United States. FAU - Stacey, Gary AU - Stacey G AD - Divisions of Plant Sciences and Biochemistry, Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO, United States. LA - eng PT - Journal Article DEP - 20220414 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC9048599 OTO - NOTNLM OT - TRAP-seq OT - cortical cell OT - nodulation OT - phytohormone OT - soybean COIS- The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. EDAT- 2022/05/03 06:00 MHDA- 2022/05/03 06:01 PMCR- 2022/01/01 CRDT- 2022/05/02 07:14 PHST- 2021/11/22 00:00 [received] PHST- 2022/03/22 00:00 [accepted] PHST- 2022/05/02 07:14 [entrez] PHST- 2022/05/03 06:00 [pubmed] PHST- 2022/05/03 06:01 [medline] PHST- 2022/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2022.820348 [doi] PST - epublish SO - Front Plant Sci. 2022 Apr 14;13:820348. doi: 10.3389/fpls.2022.820348. eCollection 2022. ##### PUB RECORD ##### ## 10.1016/j.jplph.2011.08.007 21963279 Chi, Huang et al., 2011 "Chi Y, Huang F, Liu H, Yang S, Yu D. An APETALA1-like gene of soybean regulates flowering time and specifies floral organs. J Plant Physiol. 2011 Dec 15;168(18):2251-9. doi: 10.1016/j.jplph.2011.08.007. Epub 2011 Oct 1. PMID: 21963279." ## PMID- 21963279 OWN - NLM STAT- MEDLINE DCOM- 20120409 LR - 20231213 IS - 1618-1328 (Electronic) IS - 0176-1617 (Linking) VI - 168 IP - 18 DP - 2011 Dec 15 TI - An APETALA1-like gene of soybean regulates flowering time and specifies floral organs. PG - 2251-9 LID - 10.1016/j.jplph.2011.08.007 [doi] AB - MADS-box proteins are key transcription factors involved in plant reproductive development. APETALA1 (AP1) in Arabidopsis is a MIKC-type MADS-box gene and plays important roles in flower development. In this research, we isolated and characterized GmAP1, which encoded an AP1-like protein in soybean. GmAP1 contained eight exons and seven introns and was specifically expressed in the flower, especially in the sepal and petal. GmAP1 was a nucleus-localized transcription factor and displayed transactivation activity. It caused early flowering and alteration of floral organs when ectopically expressed in tobacco. To our knowledge, this is the first report characterizing an AP1-like gene from soybean. CI - Copyright A(c) 2011 Elsevier GmbH. All rights reserved. FAU - Chi, Yingjun AU - Chi Y AD - National Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Nanjing Agricultural University, Weigang No. 1, Nanjing 210095, China. FAU - Huang, Fang AU - Huang F FAU - Liu, Haicui AU - Liu H FAU - Yang, Shouping AU - Yang S FAU - Yu, Deyue AU - Yu D LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20111001 PL - Germany TA - J Plant Physiol JT - Journal of plant physiology JID - 9882059 RN - 0 (AP1 protein, Arabidopsis) RN - 0 (Arabidopsis Proteins) RN - 0 (MADS Domain Proteins) RN - 0 (Plant Proteins) SB - IM MH - Arabidopsis Proteins/genetics/*metabolism MH - Flowers/genetics/*metabolism/*physiology MH - Gene Expression Regulation, Plant/genetics/physiology MH - MADS Domain Proteins/genetics/*metabolism MH - Plant Proteins/genetics/*metabolism MH - Plants, Genetically Modified/genetics/metabolism/physiology MH - Glycine max/genetics/*metabolism/*physiology MH - Nicotiana/genetics/metabolism/physiology EDAT- 2011/10/04 06:00 MHDA- 2012/04/10 06:00 CRDT- 2011/10/04 06:00 PHST- 2011/04/13 00:00 [received] PHST- 2011/08/04 00:00 [revised] PHST- 2011/08/05 00:00 [accepted] PHST- 2011/10/04 06:00 [entrez] PHST- 2011/10/04 06:00 [pubmed] PHST- 2012/04/10 06:00 [medline] AID - S0176-1617(11)00361-0 [pii] AID - 10.1016/j.jplph.2011.08.007 [doi] PST - ppublish SO - J Plant Physiol. 2011 Dec 15;168(18):2251-9. doi: 10.1016/j.jplph.2011.08.007. Epub 2011 Oct 1. ##### PUB RECORD ##### ## 10.1093/aob/mct269 24284817 Tsubokura, Watanabe et al., 2013 "Tsubokura Y, Watanabe S, Xia Z, Kanamori H, Yamagata H, Kaga A, Katayose Y, Abe J, Ishimoto M, Harada K. Natural variation in the genes responsible for maturity loci E1, E2, E3 and E4 in soybean. Ann Bot. 2014 Feb;113(3):429-41. doi: 10.1093/aob/mct269. Epub 2013 Nov 26. PMID: 24284817; PMCID: PMC3906962." ## PMID- 24284817 OWN - NLM STAT- MEDLINE DCOM- 20140929 LR - 20231213 IS - 1095-8290 (Electronic) IS - 0305-7364 (Print) IS - 0305-7364 (Linking) VI - 113 IP - 3 DP - 2014 Feb TI - Natural variation in the genes responsible for maturity loci E1, E2, E3 and E4 in soybean. PG - 429-41 LID - 10.1093/aob/mct269 [doi] AB - BACKGROUND AND AIMS: The timing of flowering has a direct impact on successful seed production in plants. Flowering of soybean (Glycine max) is controlled by several E loci, and previous studies identified the genes responsible for the flowering loci E1, E2, E3 and E4. However, natural variation in these genes has not been fully elucidated. The aims of this study were the identification of new alleles, establishment of allele diagnoses, examination of allelic combinations for adaptability, and analysis of the integrated effect of these loci on flowering. METHODS: The sequences of these genes and their flanking regions were determined for 39 accessions by primer walking. Systematic discrimination among alleles was performed using DNA markers. Genotypes at the E1-E4 loci were determined for 63 accessions covering several ecological types using DNA markers and sequencing, and flowering times of these accessions at three sowing times were recorded. KEY RESULTS: A new allele with an insertion of a long interspersed nuclear element (LINE) at the promoter of the E1 locus (e1-re) was identified. Insertion and deletion of 36 bases in the eighth intron (E2-in and E2-dl) were observed at the E2 locus. Systematic discrimination among the alleles at the E1-E3 loci was achieved using PCR-based markers. Allelic combinations at the E1-E4 loci were found to be associated with ecological types, and about 62-66 % of variation of flowering time could be attributed to these loci. CONCLUSIONS: The study advances understanding of the combined roles of the E1-E4 loci in flowering and geographic adaptation, and suggests the existence of unidentified genes for flowering in soybean. FAU - Tsubokura, Yasutaka AU - Tsubokura Y AD - National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 306-8602, Japan. FAU - Watanabe, Satoshi AU - Watanabe S FAU - Xia, Zhengjun AU - Xia Z FAU - Kanamori, Hiroyuki AU - Kanamori H FAU - Yamagata, Harumi AU - Yamagata H FAU - Kaga, Akito AU - Kaga A FAU - Katayose, Yuichi AU - Katayose Y FAU - Abe, Jun AU - Abe J FAU - Ishimoto, Masao AU - Ishimoto M FAU - Harada, Kyuya AU - Harada K LA - eng SI - GENBANK/AB795360 SI - GENBANK/AB795361 SI - GENBANK/AB795362 SI - GENBANK/AB795363 SI - GENBANK/AB795364 SI - GENBANK/AB795365 SI - GENBANK/AB795366 SI - GENBANK/AB795367 SI - GENBANK/AB795368 SI - GENBANK/AB795369 SI - GENBANK/AB795370 SI - GENBANK/AB795371 SI - GENBANK/AB795372 SI - GENBANK/AB795373 SI - GENBANK/AB795374 SI - GENBANK/AB795375 SI - GENBANK/AB795376 SI - GENBANK/AB795377 SI - GENBANK/AB795378 SI - GENBANK/AB795379 SI - GENBANK/AB795380 SI - GENBANK/AB795381 SI - GENBANK/AB795382 SI - GENBANK/AB795383 SI - GENBANK/AB795384 SI - GENBANK/AB795385 SI - GENBANK/AB795386 SI - GENBANK/AB795387 SI - GENBANK/AB795388 SI - GENBANK/AB795389 SI - GENBANK/AB795390 SI - GENBANK/AB795391 SI - GENBANK/AB795392 SI - GENBANK/AB797147 SI - GENBANK/AB797148 SI - GENBANK/AB797149 SI - GENBANK/AB797150 SI - GENBANK/AB797151 SI - GENBANK/AB797152 SI - GENBANK/AB797153 SI - GENBANK/AB797154 SI - GENBANK/AB797155 SI - GENBANK/AB797156 SI - GENBANK/AB797157 SI - GENBANK/AB797158 SI - GENBANK/AB797159 SI - GENBANK/AB797160 SI - GENBANK/AB797161 SI - GENBANK/AB797162 SI - GENBANK/AB797163 SI - GENBANK/AB797164 SI - GENBANK/AB797165 SI - GENBANK/AB797166 SI - GENBANK/AB797167 SI - GENBANK/AB797168 SI - GENBANK/AB797169 SI - GENBANK/AB797170 SI - GENBANK/AB797171 SI - GENBANK/AB797172 SI - GENBANK/AB797173 SI - GENBANK/AB797174 SI - GENBANK/AB797175 SI - GENBANK/AB797176 SI - GENBANK/AB797177 SI - GENBANK/AB797178 SI - GENBANK/AB797179 SI - GENBANK/AB797180 SI - GENBANK/AB797181 SI - GENBANK/AB797182 SI - GENBANK/AB797183 SI - GENBANK/AB797184 SI - GENBANK/AB797185 SI - GENBANK/AB797186 SI - GENBANK/AB797187 SI - GENBANK/AB797188 SI - GENBANK/AB797189 SI - GENBANK/AB797190 SI - GENBANK/AB797191 SI - GENBANK/AB797192 SI - GENBANK/AB797193 SI - GENBANK/AB797194 SI - GENBANK/AB797195 SI - GENBANK/AB797196 SI - GENBANK/AB797197 SI - GENBANK/AB797198 SI - GENBANK/AB797199 SI - GENBANK/AB797200 SI - GENBANK/AB797201 SI - GENBANK/AB797202 SI - GENBANK/AB797203 SI - GENBANK/AB797204 SI - GENBANK/AB797205 SI - GENBANK/AB797206 SI - GENBANK/AB797207 SI - GENBANK/AB797208 SI - GENBANK/AB797209 SI - GENBANK/AB797210 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20131126 PL - England TA - Ann Bot JT - Annals of botany JID - 0372347 RN - 0 (Genetic Markers) RN - 0 (Plant Proteins) SB - IM MH - Adaptation, Physiological MH - Alleles MH - Base Sequence MH - Chromosome Mapping MH - Flowers/genetics/physiology MH - *Gene Expression Regulation, Plant MH - Genetic Loci/genetics MH - Genetic Markers/genetics MH - *Genetic Variation MH - Genotype MH - Haplotypes MH - Molecular Sequence Data MH - Photoperiod MH - Plant Proteins/*genetics/metabolism MH - Polymorphism, Single Nucleotide MH - Quantitative Trait Loci/*genetics MH - Seeds/genetics/physiology MH - Sequence Alignment MH - Sequence Analysis, DNA MH - Glycine max/*genetics/physiology MH - Time Factors PMC - PMC3906962 OTO - NOTNLM OT - E locus OT - Glycine max OT - SNP OT - ecological type OT - flowering time OT - haplotype OT - marker-assisted selection OT - single nucleotide polymorphism OT - soybean EDAT- 2013/11/29 06:00 MHDA- 2014/09/30 06:00 PMCR- 2015/02/01 CRDT- 2013/11/29 06:00 PHST- 2013/11/29 06:00 [entrez] PHST- 2013/11/29 06:00 [pubmed] PHST- 2014/09/30 06:00 [medline] PHST- 2015/02/01 00:00 [pmc-release] AID - mct269 [pii] AID - 10.1093/aob/mct269 [doi] PST - ppublish SO - Ann Bot. 2014 Feb;113(3):429-41. doi: 10.1093/aob/mct269. Epub 2013 Nov 26. ##### PUB RECORD ##### ## 10.1038/s41477-017-0084-7 29292374 Zhang, Sun et al., 2018 "Zhang D, Sun L, Li S, Wang W, Ding Y, Swarm SA, Li L, Wang X, Tang X, Zhang Z, Tian Z, Brown PJ, Cai C, Nelson RL, Ma J. Elevation of soybean seed oil content through selection for seed coat shininess. Nat Plants. 2018 Jan;4(1):30-35. doi: 10.1038/s41477-017-0084-7. Epub 2018 Jan 1. PMID: 29292374." ## PMID- 29292374 OWN - NLM STAT- MEDLINE DCOM- 20190520 LR - 20231213 IS - 2055-0278 (Electronic) IS - 2055-0278 (Linking) VI - 4 IP - 1 DP - 2018 Jan TI - Elevation of soybean seed oil content through selection for seed coat shininess. PG - 30-35 LID - 10.1038/s41477-017-0084-7 [doi] AB - Many leguminous species have adapted their seed coat with a layer of powdery bloom that contains hazardous allergens and makes the seeds less visible, offering duel protection against potential predators (1) . Nevertheless, a shiny seed surface without bloom is desirable for human consumption and health, and is targeted for selection under domestication. Here we show that seed coat bloom in wild soybeans is mainly controlled by Bloom1 (B1), which encodes a transmembrane transporter-like protein for biosynthesis of the bloom in pod endocarp. The transition from the 'bloom' to 'no-bloom' phenotypes is associated with artificial selection of a nucleotide mutation that naturally occurred in the coding region of B1 during soybean domestication. Interestingly, this mutation not only 'shined' the seed surface, but also elevated seed oil content in domesticated soybeans. Such an elevation of oil content in seeds appears to be achieved through b1-modulated upregulation of oil biosynthesis in pods. This study shows pleiotropy as a mechanism underlying the domestication syndrome (2) , and may pave new strategies for development of soybean varieties with increased seed oil content and reduced seed dust. FAU - Zhang, Dajian AU - Zhang D AD - Department of Agronomy, Purdue University, West Lafayette, IN, USA. FAU - Sun, Lianjun AU - Sun L AD - Department of Agronomy, Purdue University, West Lafayette, IN, USA. AD - Department of Plant Genetics and Breeding, China Agricultural University, Beijing, China. FAU - Li, Shuai AU - Li S AD - College of Life Sciences, Qingdao Agricultural University, Qingdao, China. FAU - Wang, Weidong AU - Wang W AD - Department of Agronomy, Purdue University, West Lafayette, IN, USA. FAU - Ding, Yanhua AU - Ding Y AD - College of Life Sciences, Qingdao Agricultural University, Qingdao, China. FAU - Swarm, Stephen A AU - Swarm SA AD - Department of Crop Sciences, University of Illinois, Urbana, IL, USA. FAU - Li, Linghong AU - Li L AD - Department of Agronomy, Purdue University, West Lafayette, IN, USA. AD - Department of Plant Genetics and Breeding, China Agricultural University, Beijing, China. FAU - Wang, Xutong AU - Wang X AD - Department of Agronomy, Purdue University, West Lafayette, IN, USA. FAU - Tang, Xuemin AU - Tang X AD - College of Life Sciences, Qingdao Agricultural University, Qingdao, China. FAU - Zhang, Zhifang AU - Zhang Z AD - Institute of Genetics and Developmental Biology, Beijing, China. FAU - Tian, Zhixi AU - Tian Z AUID- ORCID: 0000-0001-6051-9670 AD - Institute of Genetics and Developmental Biology, Beijing, China. FAU - Brown, Patrick J AU - Brown PJ AD - Department of Crop Sciences, University of Illinois, Urbana, IL, USA. FAU - Cai, Chunmei AU - Cai C AD - College of Life Sciences, Qingdao Agricultural University, Qingdao, China. FAU - Nelson, Randall L AU - Nelson RL AD - Department of Crop Sciences, University of Illinois, Urbana, IL, USA. FAU - Ma, Jianxin AU - Ma J AUID- ORCID: 0000-0002-1474-812X AD - Department of Agronomy, Purdue University, West Lafayette, IN, USA. maj@purdue.edu. AD - Center for Plant Biology, Purdue University, West Lafayette, IN, USA. maj@purdue.edu. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20180101 PL - England TA - Nat Plants JT - Nature plants JID - 101651677 RN - 8001-22-7 (Soybean Oil) SB - IM MH - Domestication MH - Genetic Pleiotropy/*genetics MH - Phenotype MH - Seeds/anatomy & histology/genetics MH - Soybean Oil/*metabolism MH - Glycine max/anatomy & histology/*genetics EDAT- 2018/01/03 06:00 MHDA- 2019/05/21 06:00 CRDT- 2018/01/03 06:00 PHST- 2017/08/16 00:00 [received] PHST- 2017/11/28 00:00 [accepted] PHST- 2018/01/03 06:00 [pubmed] PHST- 2019/05/21 06:00 [medline] PHST- 2018/01/03 06:00 [entrez] AID - 10.1038/s41477-017-0084-7 [pii] AID - 10.1038/s41477-017-0084-7 [doi] PST - ppublish SO - Nat Plants. 2018 Jan;4(1):30-35. doi: 10.1038/s41477-017-0084-7. Epub 2018 Jan 1. ##### PUB RECORD ##### ## 10.3389/fpls.2017.01604 28979275 Manan, Ahmad et al., 2017 "Manan S, Ahmad MZ, Zhang G, Chen B, Haq BU, Yang J, Zhao J. Soybean LEC2 Regulates Subsets of Genes Involved in Controlling the Biosynthesis and Catabolism of Seed Storage Substances and Seed Development. Front Plant Sci. 2017 Sep 20;8:1604. doi: 10.3389/fpls.2017.01604. PMID: 28979275; PMCID: PMC5611487." ## PMID- 28979275 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20240327 IS - 1664-462X (Print) IS - 1664-462X (Electronic) IS - 1664-462X (Linking) VI - 8 DP - 2017 TI - Soybean LEC2 Regulates Subsets of Genes Involved in Controlling the Biosynthesis and Catabolism of Seed Storage Substances and Seed Development. PG - 1604 LID - 10.3389/fpls.2017.01604 [doi] LID - 1604 AB - Soybean is an important oilseed crop and major dietary protein resource, yet the molecular processes and regulatory mechanisms involved in biosynthesis of seed storage substances are not fully understood. The B3 domain transcription factor (TF) LEC2 essentially regulates embryo development and seed maturation in other plants, but is not functionally characterized in soybean. Here, we characterize the function of a soybean LEC2 homolog, GmLEC2a, in regulating carbohydrate catabolism, triacylglycerol (TAG) biosynthesis, and seed development. The experimental analysis showed that GmLEC2a complemented Arabidopsis atlec2 mutant defects in seedling development and TAG accumulation. Over-expression of GmLEC2a in Arabidopsis seeds increased the TAG contents by 34% and the composition of long chain fatty acids by 4% relative to the control seeds. Transcriptome analysis showed that ectopic expression of GmLEC2a in soybean hairy roots up-regulated several sets of downstream TF genes GmLEC1, GmFUS3, GmABI3, GmDof11 and GmWRI1 that regulate the seed development and production of seed storage substances. GmLEC2a regulated the lipid transporter genes and oil body protein gene OLEOSIN (OLE1). The genes involved in carbohydrate biosynthesis and storage, such as sucrose synthesis, and catabolism of TAG, such as lipases in GmLEC2a hairy roots were down-regulated. GmLEC2a targeted metabolic genes for seed protein in soybean. FAU - Manan, Sehrish AU - Manan S AD - National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural UniversityWuhan, China. FAU - Ahmad, Muhammad Z AU - Ahmad MZ AD - National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural UniversityWuhan, China. AD - State Key Lab of Tea Plant Biology and Utilization, College of Tea and Food Science and Technology, Anhui Agricultural UniversityHefei, China. FAU - Zhang, Gaoyang AU - Zhang G AD - National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural UniversityWuhan, China. AD - State Key Lab of Tea Plant Biology and Utilization, College of Tea and Food Science and Technology, Anhui Agricultural UniversityHefei, China. FAU - Chen, Beibei AU - Chen B AD - National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural UniversityWuhan, China. FAU - Haq, Basir U AU - Haq BU AD - National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural UniversityWuhan, China. FAU - Yang, Jihong AU - Yang J AD - State Key Lab of Tea Plant Biology and Utilization, College of Tea and Food Science and Technology, Anhui Agricultural UniversityHefei, China. FAU - Zhao, Jian AU - Zhao J AD - National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural UniversityWuhan, China. AD - State Key Lab of Tea Plant Biology and Utilization, College of Tea and Food Science and Technology, Anhui Agricultural UniversityHefei, China. LA - eng PT - Journal Article DEP - 20170920 PL - Switzerland TA - Front Plant Sci JT - Frontiers in plant science JID - 101568200 PMC - PMC5611487 OTO - NOTNLM OT - LEAFY COTYLEDON2 OT - carbohydrate catabolism OT - protein biosynthesis OT - seed storage substances OT - transcription factor OT - triacylglycerol EDAT- 2017/10/06 06:00 MHDA- 2017/10/06 06:01 PMCR- 2017/01/01 CRDT- 2017/10/06 06:00 PHST- 2017/06/20 00:00 [received] PHST- 2017/08/31 00:00 [accepted] PHST- 2017/10/06 06:00 [entrez] PHST- 2017/10/06 06:00 [pubmed] PHST- 2017/10/06 06:01 [medline] PHST- 2017/01/01 00:00 [pmc-release] AID - 10.3389/fpls.2017.01604 [doi] PST - epublish SO - Front Plant Sci. 2017 Sep 20;8:1604. doi: 10.3389/fpls.2017.01604. eCollection 2017. ##### PUB RECORD ##### ## 10.1111/j.1467-7652.2012.00729.x 22863334 Hayashi, Reid et al., 2012 "Hayashi S, Reid DE, Lorenc MT, Stiller J, Edwards D, Gresshoff PM, Ferguson BJ. Transient Nod factor-dependent gene expression in the nodulation-competent zone of soybean (Glycine max [L.] Merr.) roots. Plant Biotechnol J. 2012 Oct;10(8):995-1010. doi: 10.1111/j.1467-7652.2012.00729.x. Epub 2012 Aug 2. PMID: 22863334." ## PMID- 22863334 OWN - NLM STAT- MEDLINE DCOM- 20130307 LR - 20231213 IS - 1467-7652 (Electronic) IS - 1467-7644 (Linking) VI - 10 IP - 8 DP - 2012 Oct TI - Transient Nod factor-dependent gene expression in the nodulation-competent zone of soybean (Glycine max [L.] Merr.) roots. PG - 995-1010 LID - 10.1111/j.1467-7652.2012.00729.x [doi] AB - All lateral organ development in plants, such as nodulation in legumes, requires the temporal and spatial regulation of genes and gene networks. A total mRNA profiling approach using RNA-seq to target the specific soybean (Glycine max) root tissues responding to compatible rhizobia [i.e. the Zone Of Nodulation (ZON)] revealed a large number of novel, often transient, mRNA changes occurring during the early stages of nodulation. Focusing on the ZON enabled us to discard the majority of root tissues and their developmentally diverse gene transcripts, thereby highlighting the lowly and transiently expressed nodulation-specific genes. It also enabled us to concentrate on a precise moment in early nodule development at each sampling time. We focused on discovering genes regulated specifically by the Bradyrhizobium-produced Nod factor signal, by inoculating roots with either a competent wild-type or incompetent mutant (nodC(-) ) strain of Bradyrhizobium japonicum. Collectively, 2915 genes were identified as being differentially expressed, including many known soybean nodulation genes. A number of unknown nodulation gene candidates and soybean orthologues of nodulation genes previously reported in other legume species were also identified. The differential expression of several candidates was confirmed and further characterized via inoculation time-course studies and qRT-PCR. The expression of many genes, including an endo-1,4-beta-glucanase, a cytochrome P450 and a TIR-LRR-NBS receptor kinase, was transient, peaking quickly during the initiation of nodule ontogeny. Additional genes were found to be down-regulated. Significantly, a set of differentially regulated genes acting in the gibberellic acid (GA) biosynthesis pathway was discovered, suggesting a novel role of GAs in nodulation. CI - (c) 2012 The Authors. Plant Biotechnology Journal (c) 2012 Society for Experimental Biology, Association of Applied Biologists and Blackwell Publishing Ltd. FAU - Hayashi, Satomi AU - Hayashi S AD - Australian Research Council Centre of Excellence for Integrative Legume Research, The University of Queensland, St. Lucia, Brisbane, Qld, Australia. FAU - Reid, Dugald E AU - Reid DE FAU - Lorenc, Michal T AU - Lorenc MT FAU - Stiller, Jiri AU - Stiller J FAU - Edwards, David AU - Edwards D FAU - Gresshoff, Peter M AU - Gresshoff PM FAU - Ferguson, Brett J AU - Ferguson BJ LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20120802 PL - England TA - Plant Biotechnol J JT - Plant biotechnology journal JID - 101201889 RN - 0 (Gibberellins) RN - 0 (Lipopolysaccharides) RN - 0 (RNA, Messenger) RN - BU0A7MWB6L (gibberellic acid) SB - IM MH - Bradyrhizobium/*genetics MH - Down-Regulation MH - Gene Expression Regulation, Bacterial MH - Gene Expression Regulation, Plant MH - Genes, Plant MH - Gibberellins/biosynthesis MH - Lipopolysaccharides/*metabolism MH - Plant Root Nodulation/*genetics MH - RNA, Messenger/genetics MH - Root Nodules, Plant/*genetics/growth & development/*microbiology MH - Glycine max/microbiology/*physiology MH - Symbiosis/*genetics EDAT- 2012/08/07 06:00 MHDA- 2013/03/08 06:00 CRDT- 2012/08/07 06:00 PHST- 2012/08/07 06:00 [entrez] PHST- 2012/08/07 06:00 [pubmed] PHST- 2013/03/08 06:00 [medline] AID - 10.1111/j.1467-7652.2012.00729.x [doi] PST - ppublish SO - Plant Biotechnol J. 2012 Oct;10(8):995-1010. doi: 10.1111/j.1467-7652.2012.00729.x. Epub 2012 Aug 2. ##### PUB RECORD ##### ## 10.3390/genes10120957 31766569 Yu, Chang et al., 2019 "Yu Z, Chang F, Lv W, Sharmin RA, Wang Z, Kong J, Bhat JA, Zhao T. Identification of QTN and Candidate Gene for Seed-flooding Tolerance in Soybean [Glycine max (L.) Merr.] using Genome-Wide Association Study (GWAS). Genes (Basel). 2019 Nov 21;10(12):957. doi: 10.3390/genes10120957. PMID: 31766569; PMCID: PMC6947551." ## PMID- 31766569 OWN - NLM STAT- MEDLINE DCOM- 20200512 LR - 20231213 IS - 2073-4425 (Electronic) IS - 2073-4425 (Linking) VI - 10 IP - 12 DP - 2019 Nov 21 TI - Identification of QTN and Candidate Gene for Seed-flooding Tolerance in Soybean [Glycine max (L.) Merr.] using Genome-Wide Association Study (GWAS). LID - 10.3390/genes10120957 [doi] LID - 957 AB - Seed-flooding stress is one of the major abiotic constraints severely affecting soybean yield and quality. Understanding the molecular mechanism and genetic basis underlying seed-flooding tolerance will be of greatly importance in soybean breeding. However, very limited information is available about the genetic basis of seed-flooding tolerance in soybean. The present study performed Genome-Wide Association Study (GWAS) to identify the quantitative trait nucleotides (QTNs) associated with three seed-flooding tolerance related traits, viz., germination rate (GR), normal seedling rate (NSR) and electric conductivity (EC), using a panel of 347 soybean lines and the genotypic data of 60,109 SNPs with MAF > 0.05. A total of 25 and 21 QTNs associated with all three traits were identified via mixed linear model (MLM) and multi-locus random-SNP-effect mixed linear model (mrMLM) in three different environments (JP14, HY15, and Combined). Among these QTNs, three major QTNs, viz., QTN13, qNSR-10 and qEC-7-2, were identified through both methods MLM and mrMLM. Interestingly, QTN13 located on Chr.13 has been consistently identified to be associated with all three studied traits in both methods and multiple environments. Within the 1.0 Mb physical interval surrounding the QTN13, nine candidate genes were screened for their involvement in seed-flooding tolerance based on gene annotation information and available literature. Based on the qRT-PCR and sequence analysis, only one gene designated as GmSFT (Glyma.13g248000) displayed significantly higher expression level in all tolerant genotypes compared to sensitive ones under flooding treatment, as well as revealed nonsynonymous mutation in tolerant genotypes, leading to amino acid change in the protein. Additionally, subcellular localization showed that GmSFT was localized in the nucleus and cell membrane. Hence, GmSFT was considered as the most likely candidate gene for seed-flooding tolerance in soybean. In conclusion, the findings of the present study not only increase our knowledge of the genetic control of seed-flooding tolerance in soybean, but will also be of great utility in marker-assisted selection and gene cloning to elucidate the mechanisms of seed-flooding tolerance. FAU - Yu, Zheping AU - Yu Z AD - National Center for Soybean Improvement, Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Chang, Fangguo AU - Chang F AD - National Center for Soybean Improvement, Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Lv, Wenhuan AU - Lv W AD - National Center for Soybean Improvement, Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Sharmin, Ripa Akter AU - Sharmin RA AD - National Center for Soybean Improvement, Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Wang, Zili AU - Wang Z AD - National Center for Soybean Improvement, Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. AD - Key Laboratory of Molecular Genetics, Guizhou Academy of Tobacco Science, Guiyang 550081, China. FAU - Kong, Jiejie AU - Kong J AD - National Center for Soybean Improvement, Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Bhat, Javaid Akhter AU - Bhat JA AD - National Center for Soybean Improvement, Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. FAU - Zhao, Tuanjie AU - Zhao T AD - National Center for Soybean Improvement, Key Laboratory of Biology and Genetics and Breeding for Soybean, Ministry of Agriculture, State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20191121 PL - Switzerland TA - Genes (Basel) JT - Genes JID - 101551097 RN - 0 (Nucleotides) SB - IM MH - Adaptation, Physiological/*genetics MH - *Floods MH - Genes, Plant MH - Genome-Wide Association Study MH - Genotype MH - *Nucleotides MH - Quantitative Trait Loci MH - *Seeds MH - Glycine max/*genetics PMC - PMC6947551 OTO - NOTNLM OT - candidate gene OT - genome-wide association study OT - qRT-PCR OT - seed-flooding tolerance OT - soybean COIS- The authors declare no conflict of interest. EDAT- 2019/11/27 06:00 MHDA- 2020/05/19 06:00 PMCR- 2019/12/01 CRDT- 2019/11/27 06:00 PHST- 2019/09/30 00:00 [received] PHST- 2019/11/14 00:00 [revised] PHST- 2019/11/19 00:00 [accepted] PHST- 2019/11/27 06:00 [entrez] PHST- 2019/11/27 06:00 [pubmed] PHST- 2020/05/19 06:00 [medline] PHST- 2019/12/01 00:00 [pmc-release] AID - genes10120957 [pii] AID - genes-10-00957 [pii] AID - 10.3390/genes10120957 [doi] PST - epublish SO - Genes (Basel). 2019 Nov 21;10(12):957. doi: 10.3390/genes10120957. ##### PUB RECORD ##### ## 10.1007/s00122-007-0621-2 17701395 Yuan, Zhao et al., 2007 "Yuan FJ, Zhao HJ, Ren XL, Zhu SL, Fu XJ, Shu QY. Generation and characterization of two novel low phytate mutations in soybean (Glycine max L. Merr.). Theor Appl Genet. 2007 Nov;115(7):945-57. doi: 10.1007/s00122-007-0621-2. Epub 2007 Aug 16. PMID: 17701395." ## PMID- 17701395 OWN - NLM STAT- MEDLINE DCOM- 20080116 LR - 20231213 IS - 0040-5752 (Print) IS - 0040-5752 (Linking) VI - 115 IP - 7 DP - 2007 Nov TI - Generation and characterization of two novel low phytate mutations in soybean (Glycine max L. Merr.). PG - 945-57 AB - Phytic acid (PA, myo-inositol 1, 2, 3, 4, 5, 6 hexakisphosphate) is important to the nutritional quality of soybean meal. Organic phosphorus (P) in PA is indigestible in humans and non-ruminant animals, which affects nutrition and causes P pollution of ground water from animal wastes. Two novel soybean [(Glycine max L. (Merr.)] low phytic acid (lpa) mutations were isolated and characterized. Gm-lpa-TW-1 had a phytic acid P (PA-P) reduction of 66.6% and a sixfold increase in inorganic P (Pi), and Gm-lpa-ZC-2 had a PA-P reduction of 46.3% and a 1.4-fold increase in Pi, compared with their respective non-mutant progenitor lines. The reduction of PA-P and increase of Pi in Gm-lpa-TW-1 were molar equivalent; the decrease of PA-P in Gm-lpa-ZC-2, however, was accompanied by the increase of both Pi and lower inositol phosphates. In both mutant lines, the total P content remained similar to their wild type parents. The two lpa mutations were both inherited in a single recessive gene model but were non-allelic. Sequence data and progeny analysis indicate that Gm-lpa-TW-1 lpa mutation resulted from a 2 bp deletion in the soybean D: -myo-inositol 3-phosphate synthase (MIPS1 EC 5.5.1.4) gene 1 (MIPS1). The lpa mutation in Gm-lpa-ZC-2 was mapped on LG B2, closely linked with microsatellite loci Satt416 and Satt168, at genetic distances of approximately 4.63 and approximately 9.25 cM, respectively. Thus this mutation probably represents a novel soybean lpa locus. The seed emergence rate of Gm-lpa-ZC-2 was similar to its progenitor line and was not affected by seed source and its lpa mutation. However, Gm-lpa-TW-1 had a significantly reduced field emergence when seeds were produced in a subtropic environment. Field tests of the mutants and their progenies further demonstrated that the lpa mutation in Gm-lpa-ZC-2 does not negatively affect plant yield traits. These results will advance understanding of the genetic, biochemical and molecular control of PA synthesis in soybean. The novel lpa mutation in Gm-lpa-ZC-2, together with linked simple sequence repeat (SSR) markers, will be of value for breeding productive lpa soybeans, with meal high in digestible Pi eventually to improve animal nutrition and lessen environmental pollution. FAU - Yuan, Feng-Jie AU - Yuan FJ AD - IAEA-Zhejiang University Collaborating Center, Institute of Nuclear Agricultural Sciences, Zhejiang University, Hangzhou, 310029, China. FAU - Zhao, Hai-Jun AU - Zhao HJ FAU - Ren, Xue-Liang AU - Ren XL FAU - Zhu, Shen-Long AU - Zhu SL FAU - Fu, Xu-Jun AU - Fu XJ FAU - Shu, Qing-Yao AU - Shu QY LA - eng PT - Journal Article DEP - 20070816 PL - Germany TA - Theor Appl Genet JT - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik JID - 0145600 RN - 7IGF0S7R8I (Phytic Acid) SB - IM MH - *Mutation MH - Phytic Acid/chemistry/*metabolism MH - Seeds/chemistry/genetics/metabolism MH - Glycine max/chemistry/*genetics/metabolism EDAT- 2007/08/19 09:00 MHDA- 2008/01/17 09:00 CRDT- 2007/08/19 09:00 PHST- 2006/12/06 00:00 [received] PHST- 2007/07/20 00:00 [accepted] PHST- 2007/08/19 09:00 [pubmed] PHST- 2008/01/17 09:00 [medline] PHST- 2007/08/19 09:00 [entrez] AID - 10.1007/s00122-007-0621-2 [doi] PST - ppublish SO - Theor Appl Genet. 2007 Nov;115(7):945-57. doi: 10.1007/s00122-007-0621-2. Epub 2007 Aug 16. ##### PUB RECORD ##### ## 10.1371/journal.pone.0222469 31518373 Sugawara, Umehara et al., 2019 "Sugawara M, Umehara Y, Kaga A, Hayashi M, Ishimoto M, Sato S, Mitsui H, Minamisawa K. Symbiotic incompatibility between soybean and Bradyrhizobium arises from one amino acid determinant in soybean Rj2 protein. PLoS One. 2019 Sep 13;14(9):e0222469. doi: 10.1371/journal.pone.0222469. PMID: 31518373; PMCID: PMC6743760." ## PMID- 31518373 OWN - NLM STAT- MEDLINE DCOM- 20200310 LR - 20231213 IS - 1932-6203 (Electronic) IS - 1932-6203 (Linking) VI - 14 IP - 9 DP - 2019 TI - Symbiotic incompatibility between soybean and Bradyrhizobium arises from one amino acid determinant in soybean Rj2 protein. PG - e0222469 LID - 10.1371/journal.pone.0222469 [doi] LID - e0222469 AB - Cultivated soybean (Glycine max) carrying the Rj2 allele restricts nodulation with specific Bradyrhizobium strains via host immunity, mediated by rhizobial type III secretory protein NopP and the host resistance protein Rj2. Here we found that the single isoleucine residue I490 in Rj2 is required for induction of symbiotic incompatibility. Furthermore, we investigated the geographical distribution of the Rj2-genotype soybean in a large set of germplasm by single nucleotide polymorphism (SNP) genotyping using a SNP marker for I490. By allelic comparison of 79 accessions in the Japanese soybean mini-core collection, we suggest substitution of a single amino acid residue (R490 to I490) in Rj2 induces symbiotic incompatibility with Bradyrhizobium diazoefficiens USDA 122. The importance of I490 was verified by complementation of rj2-soybean by the dominant allele encoding the Rj2 protein containing I490 residue. The Rj2 allele was also found in Glycine soja, the wild progenitor of G. max, and their single amino acid polymorphisms were associated with the Rj2-nodulation phenotype. By SNP genotyping against 1583 soybean accessions, we detected the Rj2-genotype in 5.4% of G. max and 7.7% of G. soja accessions. Distribution of the Rj2-genotype soybean plants was relatively concentrated in the temperate Asian region. These results provide important information about the mechanism of host genotype-specific symbiotic incompatibility mediated by host immunity and suggest that the Rj2 gene has been maintained by environmental conditions during the process of soybean domestication. FAU - Sugawara, Masayuki AU - Sugawara M AUID- ORCID: 0000-0002-3058-4348 AD - Graduate School of Life Sciences, Tohoku University, Sendai, Miyagi, Japan. FAU - Umehara, Yosuke AU - Umehara Y AD - Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, Tsukuba, Ibaraki, Japan. FAU - Kaga, Akito AU - Kaga A AD - National Institute of Crop Science, National Agriculture and Food Research Organization, Tsukuba, Ibaraki, Japan. FAU - Hayashi, Masaki AU - Hayashi M AD - Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, Tsukuba, Ibaraki, Japan. FAU - Ishimoto, Masao AU - Ishimoto M AD - National Institute of Crop Science, National Agriculture and Food Research Organization, Tsukuba, Ibaraki, Japan. FAU - Sato, Shusei AU - Sato S AD - Graduate School of Life Sciences, Tohoku University, Sendai, Miyagi, Japan. FAU - Mitsui, Hisayuki AU - Mitsui H AD - Graduate School of Life Sciences, Tohoku University, Sendai, Miyagi, Japan. FAU - Minamisawa, Kiwamu AU - Minamisawa K AD - Graduate School of Life Sciences, Tohoku University, Sendai, Miyagi, Japan. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20190913 PL - United States TA - PLoS One JT - PloS one JID - 101285081 RN - 0 (Amino Acids) RN - 0 (Soybean Proteins) RN - 0 (Type III Secretion Systems) SB - IM MH - Alleles MH - Amino Acids/*genetics MH - Bradyrhizobium/*genetics MH - Genotype MH - Phenotype MH - Plant Root Nodulation/genetics MH - Plant Roots/genetics/microbiology MH - Polymorphism, Single Nucleotide/genetics MH - Rhizobium/genetics MH - Soybean Proteins/*genetics MH - Glycine max/*genetics/*microbiology MH - Symbiosis/*genetics MH - Type III Secretion Systems/*genetics PMC - PMC6743760 COIS- The authors have declared that no competing interests exist. EDAT- 2019/09/14 06:00 MHDA- 2020/03/11 06:00 PMCR- 2019/09/13 CRDT- 2019/09/14 06:00 PHST- 2019/06/27 00:00 [received] PHST- 2019/08/29 00:00 [accepted] PHST- 2019/09/14 06:00 [entrez] PHST- 2019/09/14 06:00 [pubmed] PHST- 2020/03/11 06:00 [medline] PHST- 2019/09/13 00:00 [pmc-release] AID - PONE-D-19-18174 [pii] AID - 10.1371/journal.pone.0222469 [doi] PST - epublish SO - PLoS One. 2019 Sep 13;14(9):e0222469. doi: 10.1371/journal.pone.0222469. eCollection 2019. ##### PUB RECORD ##### ## 10.1111/jipb.13631 38390811 Xie, Song et. al., 2024 "Xie H, Song M, Cao X, Niu Q, Zhu J, Li S, Wang X, Niu X, Zhu JK. Breeding exceptionally fragrant soybeans for soy milk with strong aroma. J Integr Plant Biol. 2024 Apr;66(4):642-644. doi: 10.1111/jipb.13631. Epub 2024 Feb 23. PMID: 38390811." ## PMID- 38390811 OWN - NLM STAT- MEDLINE DCOM- 20240411 LR - 20240411 IS - 1744-7909 (Electronic) IS - 1672-9072 (Linking) VI - 66 IP - 4 DP - 2024 Apr TI - Breeding exceptionally fragrant soybeans for soy milk with strong aroma. PG - 642-644 LID - 10.1111/jipb.13631 [doi] AB - Knockout of the soybean (Glycine max) betaine aldehyde dehydrogenase genes GmBADH1 and GmBADH2 using CRISPR/Cas12i3 enhances the aroma of soybeans. Soy milk made from the gmbadh1/2 double mutant seeds exhibits a much stronger aroma, which consumers prefer; this mutant has potential for enhancing quality in soy-based products. CI - (c) 2024 Institute of Botany, Chinese Academy of Sciences. FAU - Xie, Hongtao AU - Xie H AUID- ORCID: 0009-0006-0963-6242 AD - Bellagen Biotechnology Co. Ltd., Jinan, 250000, China. FAU - Song, Minglei AU - Song M AUID- ORCID: 0009-0004-3116-6393 AD - Institute of Advanced Biotechnology and School of Life Sciences, Southern University of Science and Technology, Shenzhen, 518055, China. FAU - Cao, Xuesong AU - Cao X AUID- ORCID: 0009-0009-2559-112X AD - Institute of Advanced Biotechnology and School of Life Sciences, Southern University of Science and Technology, Shenzhen, 518055, China. FAU - Niu, Qingfeng AU - Niu Q AUID- ORCID: 0000-0001-6498-5265 AD - School of Life Sciences, Anhui Agricultural University, Hefei, 230036, China. FAU - Zhu, Jianhua AU - Zhu J AUID- ORCID: 0009-0003-3391-7114 AD - School of Life Sciences, Anhui Agricultural University, Hefei, 230036, China. FAU - Li, Shasha AU - Li S AUID- ORCID: 0009-0004-5900-9322 AD - Shandong Normal University, Jinan, 250000, China. FAU - Wang, Xin AU - Wang X AUID- ORCID: 0009-0004-1848-8080 AD - Shandong Normal University, Jinan, 250000, China. FAU - Niu, Xiaomu AU - Niu X AUID- ORCID: 0009-0008-5012-3187 AD - Bellagen Biotechnology Co. Ltd., Jinan, 250000, China. FAU - Zhu, Jian-Kang AU - Zhu JK AUID- ORCID: 0000-0001-5134-731X AD - Institute of Advanced Biotechnology and School of Life Sciences, Southern University of Science and Technology, Shenzhen, 518055, China. LA - eng GR - 32188102/National Natural Science Foundation of China/ GR - 2021LZGC012/Key R&D Program of Shandong Province/ PT - Journal Article DEP - 20240223 PL - China (Republic : 1949- ) TA - J Integr Plant Biol JT - Journal of integrative plant biology JID - 101250502 SB - IM MH - *Glycine max/genetics MH - *Soy Milk MH - Odorants/analysis MH - Plant Breeding EDAT- 2024/02/23 06:43 MHDA- 2024/04/11 06:43 CRDT- 2024/02/23 05:53 PHST- 2024/02/04 00:00 [revised] PHST- 2024/01/05 00:00 [received] PHST- 2024/02/06 00:00 [accepted] PHST- 2024/04/11 06:43 [medline] PHST- 2024/02/23 06:43 [pubmed] PHST- 2024/02/23 05:53 [entrez] AID - 10.1111/jipb.13631 [doi] PST - ppublish SO - J Integr Plant Biol. 2024 Apr;66(4):642-644. doi: 10.1111/jipb.13631. Epub 2024 Feb 23. ##### PUB RECORD ##### ## 10.1007/s00425-005-0201-0 16395584 Nunes, Vianna et al., 2006 "Nunes AC, Vianna GR, Cuneo F, Amaya-Farfán J, de Capdeville G, Rech EL, Aragão FJ. RNAi-mediated silencing of the myo-inositol-1-phosphate synthase gene (GmMIPS1) in transgenic soybean inhibited seed development and reduced phytate content. Planta. 2006 Jun;224(1):125-32. doi: 10.1007/s00425-005-0201-0. Epub 2006 Jan 4. PMID: 16395584." ## PMID- 16395584 OWN - NLM STAT- MEDLINE DCOM- 20060824 LR - 20231213 IS - 0032-0935 (Print) IS - 0032-0935 (Linking) VI - 224 IP - 1 DP - 2006 Jun TI - RNAi-mediated silencing of the myo-inositol-1-phosphate synthase gene (GmMIPS1) in transgenic soybean inhibited seed development and reduced phytate content. PG - 125-32 AB - Inositol plays a role in membrane trafficking and signaling in addition to regulating cellular metabolism and controlling growth. In plants, the myo-inositol-1-phosphate is synthesized from glucose 6-phosphate in a reaction catalyzed by the enzyme myo-inositol-1-phosphate synthase (EC 5.5.1.4). Inositol can be converted into phytic acid (phytate), the most abundant form of phosphate in seeds. The path to phytate has been suggested to proceed via the sequential phosphorylation of inositol phosphates, and/or in part via phosphatidylinositol phosphate. Soybean [Glycine max (L.) Merrill] lines were produced using interfering RNA (RNAi) construct in order to silence the myo-inositol-1-phosphate (GmMIPS1) gene. We have observed an absence of seed development in lines in which the presence of GmMIPS1 transcripts was not detected. In addition, a drastic reduction of phytate (InsP6) content was achieved in transgenic lines (up to 94.5%). Our results demonstrated an important correlation between GmMIPS1 gene expression and seed development. FAU - Nunes, Aline C S AU - Nunes AC AD - Embrapa Recursos Geneticos e Biotecnologia, PqEB W5 Norte, 70770-900 Brasilia, DF, Brazil. FAU - Vianna, Giovanni R AU - Vianna GR FAU - Cuneo, Florencia AU - Cuneo F FAU - Amaya-Farfan, Jaime AU - Amaya-Farfan J FAU - de Capdeville, Guy AU - de Capdeville G FAU - Rech, Elibio L AU - Rech EL FAU - Aragao, Francisco J L AU - Aragao FJ LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20060104 PL - Germany TA - Planta JT - Planta JID - 1250576 RN - 0 (Plant Proteins) RN - 7IGF0S7R8I (Phytic Acid) RN - EC 5.5.1.4 (Myo-Inositol-1-Phosphate Synthase) SB - IM MH - Cotyledon/cytology/enzymology/genetics MH - Microscopy, Electron, Transmission MH - Myo-Inositol-1-Phosphate Synthase/antagonists & inhibitors/*genetics/metabolism MH - Phytic Acid/*metabolism MH - Plant Proteins/antagonists & inhibitors/*genetics/metabolism MH - Plants, Genetically Modified/cytology/enzymology/*growth & development MH - *RNA Interference MH - Seeds/genetics/*growth & development MH - Glycine max/embryology/enzymology/*genetics EDAT- 2006/01/06 09:00 MHDA- 2006/08/25 09:00 CRDT- 2006/01/06 09:00 PHST- 2005/10/21 00:00 [received] PHST- 2005/11/15 00:00 [accepted] PHST- 2006/01/06 09:00 [pubmed] PHST- 2006/08/25 09:00 [medline] PHST- 2006/01/06 09:00 [entrez] AID - 10.1007/s00425-005-0201-0 [doi] PST - ppublish SO - Planta. 2006 Jun;224(1):125-32. doi: 10.1007/s00425-005-0201-0. Epub 2006 Jan 4. ##### PUB RECORD ##### ## 10.1038/72671 10657130 Jung, Yu, et al. 2013 "Jung W, Yu O, Lau SM, O'Keefe DP, Odell J, Fader G, McGonigle B. Identification and expression of isoflavone synthase, the key enzyme for biosynthesis of isoflavones in legumes. Nat Biotechnol. 2000 Feb;18(2):208-12. doi: 10.1038/72671. Erratum in: Nat Biotechnol 2000 May;18(5):559. PMID: 10657130." ## PMID- 10657130 OWN - NLM STAT- MEDLINE DCOM- 20000301 LR - 20231213 IS - 1087-0156 (Print) IS - 1087-0156 (Linking) VI - 18 IP - 2 DP - 2000 Feb TI - Identification and expression of isoflavone synthase, the key enzyme for biosynthesis of isoflavones in legumes. PG - 208-12 AB - Isoflavones have drawn much attention because of their benefits to human health. These compounds, which are produced almost exclusively in legumes, have natural roles in plant defense and root nodulation. Isoflavone synthase catalyzes the first committed step of isoflavone biosynthesis, a branch of the phenylpropanoid pathway. To identify the gene encoding this enzyme, we used a yeast expression assay to screen soybean ESTs encoding cytochrome P450 proteins. We identified two soybean genes encoding isoflavone synthase, and used them to isolate homologous genes from other leguminous species including red clover, white clover, hairy vetch, mung bean, alfalfa, lentil, snow pea, and lupine, as well as from the nonleguminous sugarbeet. We expressed soybean isoflavone synthase in Arabidopsis thaliana, which led to production of the isoflavone genistein in this nonlegume plant. Identification of the isoflavone synthase gene should allow manipulation of the phenylpropanoid pathway for agronomic and nutritional purposes. FAU - Jung, W AU - Jung W AD - Agricultural Biotechnology, The Dupont Company, Experimental Station; Wilmington, DE 19880-0402, USA. FAU - Yu, O AU - Yu O FAU - Lau, S M AU - Lau SM FAU - O'Keefe, D P AU - O'Keefe DP FAU - Odell, J AU - Odell J FAU - Fader, G AU - Fader G FAU - McGonigle, B AU - McGonigle B LA - eng PT - Journal Article PL - United States TA - Nat Biotechnol JT - Nature biotechnology JID - 9604648 RN - 0 (Anthocyanins) RN - 0 (Flavanones) RN - 0 (Flavonoids) RN - 0 (Isoflavones) RN - 6287WC5J2L (daidzein) RN - 9005-53-2 (Lignin) RN - 9035-51-2 (Cytochrome P-450 Enzyme System) RN - DH2M523P0H (Genistein) RN - EC 1.13.- (Oxygenases) RN - EC 1.14.13.- (isoflavone synthase) RN - HN5425SBF2 (naringenin) SB - IM EIN - Nat Biotechnol 2000 May;18(5):559 MH - Anthocyanins/biosynthesis MH - Arabidopsis/enzymology/genetics MH - Chenopodiaceae/enzymology/genetics MH - Cytochrome P-450 Enzyme System/genetics/metabolism MH - Fabaceae/enzymology/*genetics MH - *Flavanones MH - Flavonoids/metabolism MH - *Genes, Plant MH - Genetic Vectors MH - Genistein/metabolism MH - Genomic Library MH - Isoflavones/*metabolism MH - Lignin/biosynthesis MH - Oxygenases/biosynthesis/*genetics MH - Plants, Genetically Modified MH - *Plants, Medicinal MH - Sequence Analysis, DNA MH - Glycine max/enzymology/genetics EDAT- 2000/02/05 09:00 MHDA- 2000/03/04 09:00 CRDT- 2000/02/05 09:00 PHST- 2000/02/05 09:00 [pubmed] PHST- 2000/03/04 09:00 [medline] PHST- 2000/02/05 09:00 [entrez] AID - 10.1038/72671 [doi] PST - ppublish SO - Nat Biotechnol. 2000 Feb;18(2):208-12. doi: 10.1038/72671. ##### PUB RECORD ##### ## 10.1111/tpj.15414 34245624 Wang, Li et al., 2021 "Wang X, Li MW, Wong FL, Luk CY, Chung CY, Yung WS, Wang Z, Xie M, Song S, Chung G, Chan TF, Lam HM. Increased copy number of gibberellin 2-oxidase 8 genes reduced trailing growth and shoot length during soybean domestication. Plant J. 2021 Sep;107(6):1739-1755. doi: 10.1111/tpj.15414. Epub 2021 Jul 29. PMID: 34245624." ## PMID- 34245624 OWN - NLM STAT- MEDLINE DCOM- 20220126 LR - 20231213 IS - 1365-313X (Electronic) IS - 0960-7412 (Linking) VI - 107 IP - 6 DP - 2021 Sep TI - Increased copy number of gibberellin 2-oxidase 8 genes reduced trailing growth and shoot length during soybean domestication. PG - 1739-1755 LID - 10.1111/tpj.15414 [doi] AB - Copy number variations (CNVs) play important roles in crop domestication. However, there is only very limited information on the involvement of CNVs in soybean domestication. Trailing growth and long shoots are soybean adaptations for natural habitats but cause lodging that hampers yield in cultivation. Previous studies have focused on Dt1/2 affecting the indeterminate/determinate growth habit, whereas the possible role of the gibberellin pathway remained unclear. In the present study, quantitative trait locus (QTL) mapping of a recombinant inbred population of 460 lines revealed a trailing-growth-and-shoot-length QTL. A CNV region within this QTL was identified, featuring the apical bud-expressed gibberellin 2-oxidase 8A/B, the copy numbers of which were positively correlated with expression levels and negatively with trailing growth and shoot length, and their effects were demonstrated by transgenic soybean and Arabidopsis thaliana. Based on the fixation index, this CNV region underwent intense selection during the initial domestication process. CI - (c) 2021 Society for Experimental Biology and John Wiley & Sons Ltd. FAU - Wang, Xin AU - Wang X AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. FAU - Li, Man-Wah AU - Li MW AUID- ORCID: 0000-0003-4859-5683 AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. FAU - Wong, Fuk-Ling AU - Wong FL AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. FAU - Luk, Ching-Yee AU - Luk CY AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. FAU - Chung, Claire Yik-Lok AU - Chung CY AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. FAU - Yung, Wai-Shing AU - Yung WS AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. FAU - Wang, Zhili AU - Wang Z AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. FAU - Xie, Min AU - Xie M AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. FAU - Song, Shikui AU - Song S AD - FAFU-UCR Joint Center for Horticultural Biology and Metabolomics, Haixia Institute of Science and Technology, Fujian Agriculture and Forestry University, Fuzhou, China. FAU - Chung, Gyuhwa AU - Chung G AD - Department of Biotechnology, Chonnam National University, Yeosu, South Korea. FAU - Chan, Ting-Fung AU - Chan TF AUID- ORCID: 0000-0002-0489-3884 AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. AD - Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, 518000, China. FAU - Lam, Hon-Ming AU - Lam HM AUID- ORCID: 0000-0002-6673-8740 AD - School of Life Sciences and the Centre for Soybean Research of the State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China. AD - Shenzhen Research Institute, The Chinese University of Hong Kong, Shenzhen, 518000, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20210729 PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 RN - 0 (Gibberellins) RN - 0 (Soybean Proteins) RN - EC 1.- (Mixed Function Oxygenases) RN - EC 1.14.11.13 (gibberellin 2-dioxygenase) SB - IM MH - Arabidopsis/genetics MH - Chromosome Mapping MH - DNA Copy Number Variations MH - *Domestication MH - Gene Expression Regulation, Plant MH - Gene Knockdown Techniques MH - Gene Knockout Techniques MH - Gibberellins/metabolism MH - Mixed Function Oxygenases/*genetics MH - Plant Shoots/genetics/*growth & development MH - Plants, Genetically Modified MH - Quantitative Trait Loci MH - Soybean Proteins/*genetics MH - Glycine max/*genetics/growth & development OTO - NOTNLM OT - domestication OT - gene copy number OT - gibberellin 2-oxdase OT - growth habit OT - shoot length OT - soybean EDAT- 2021/07/11 06:00 MHDA- 2022/01/27 06:00 CRDT- 2021/07/10 17:08 PHST- 2021/06/28 00:00 [revised] PHST- 2021/03/04 00:00 [received] PHST- 2021/07/06 00:00 [accepted] PHST- 2021/07/11 06:00 [pubmed] PHST- 2022/01/27 06:00 [medline] PHST- 2021/07/10 17:08 [entrez] AID - 10.1111/tpj.15414 [doi] PST - ppublish SO - Plant J. 2021 Sep;107(6):1739-1755. doi: 10.1111/tpj.15414. Epub 2021 Jul 29. ##### PUB RECORD ##### ## 10.1038/s41467-018-05663-x 30087346 Sugawara, Takahashi et. al., 2018 "Sugawara M, Takahashi S, Umehara Y, Iwano H, Tsurumaru H, Odake H, Suzuki Y, Kondo H, Konno Y, Yamakawa T, Sato S, Mitsui H, Minamisawa K. Variation in bradyrhizobial NopP effector determines symbiotic incompatibility with Rj2-soybeans via effector-triggered immunity. Nat Commun. 2018 Aug 7;9(1):3139. doi: 10.1038/s41467-018-05663-x. PMID: 30087346; PMCID: PMC6081438." ## PMID- 30087346 OWN - NLM STAT- MEDLINE DCOM- 20181228 LR - 20231213 IS - 2041-1723 (Electronic) IS - 2041-1723 (Linking) VI - 9 IP - 1 DP - 2018 Aug 7 TI - Variation in bradyrhizobial NopP effector determines symbiotic incompatibility with Rj2-soybeans via effector-triggered immunity. PG - 3139 LID - 10.1038/s41467-018-05663-x [doi] LID - 3139 AB - Genotype-specific incompatibility in legume-rhizobium symbiosis has been suggested to be controlled by effector-triggered immunity underlying pathogenic host-bacteria interactions. However, the rhizobial determinant interacting with the host resistance protein (e.g., Rj2) and the molecular mechanism of symbiotic incompatibility remain unclear. Using natural mutants of Bradyrhizobium diazoefficiens USDA 122, we identified a type III-secretory protein NopP as the determinant of symbiotic incompatibility with Rj2-soybean. The analysis of nopP mutations and variants in a culture collection reveal that three amino acid residues (R60, R67, and H173) in NopP are required for Rj2-mediated incompatibility. Complementation of rj2-soybean by the Rj2 allele confers the incompatibility induced by USDA 122-type NopP. In response to incompatible strains, Rj2-soybean plants activate defense marker gene PR-2 and suppress infection thread number at 2 days after inoculation. These results suggest that Rj2-soybeans monitor the specific variants of NopP and reject bradyrhizobial infection via effector-triggered immunity mediated by Rj2 protein. FAU - Sugawara, Masayuki AU - Sugawara M AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. msugawara@ige.tohoku.ac.jp. FAU - Takahashi, Satoko AU - Takahashi S AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. FAU - Umehara, Yosuke AU - Umehara Y AD - Institute of Agrobiological Sciences, National Agriculture and Food Research Organization, 2-1-2 Kannondai, Tsukuba, Ibaraki, 305-8602, Japan. FAU - Iwano, Hiroya AU - Iwano H AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. FAU - Tsurumaru, Hirohito AU - Tsurumaru H AD - Faculty of Agriculture, Kagoshima University, 1-21-24 Korimoto, Kagoshima, 890-0065, Japan. FAU - Odake, Haruka AU - Odake H AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. FAU - Suzuki, Yuta AU - Suzuki Y AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. FAU - Kondo, Hitoshi AU - Kondo H AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. FAU - Konno, Yuki AU - Konno Y AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. FAU - Yamakawa, Takeo AU - Yamakawa T AD - Faculty of Agriculture, Graduate School of Bioresource and Bioenvironmental Sciences, Kyushu University, 6-10-1 Hakozaki, Higashi-ku, Fukuoka, 812-8581, Japan. FAU - Sato, Shusei AU - Sato S AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. FAU - Mitsui, Hisayuki AU - Mitsui H AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. FAU - Minamisawa, Kiwamu AU - Minamisawa K AD - Graduate School of Life Sciences, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai, Miyagi, 980-8577, Japan. LA - eng GR - 15K20868/Japan Society for the Promotion of Science (JSPS)/International GR - 26252065/Japan Society for the Promotion of Science (JSPS)/International PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20180807 PL - England TA - Nat Commun JT - Nature communications JID - 101528555 RN - 0 (Bacterial Proteins) RN - 0 (Plant Proteins) RN - 0 (Type III Secretion Systems) SB - IM MH - Alleles MH - Bacterial Proteins/genetics/physiology MH - Bradyrhizobium/genetics/*physiology MH - Gene Expression Profiling MH - Gene Expression Regulation, Plant MH - Genetic Complementation Test MH - Genotype MH - Mutation MH - Phenotype MH - Phosphorylation MH - Phylogeny MH - *Plant Immunity MH - Plant Proteins/genetics MH - Plant Root Nodulation MH - Plant Roots/microbiology MH - Glycine max/*microbiology MH - Symbiosis/*genetics MH - Type III Secretion Systems/genetics/*physiology PMC - PMC6081438 COIS- The authors declare no competing interests. EDAT- 2018/08/09 06:00 MHDA- 2018/12/29 06:00 PMCR- 2018/08/07 CRDT- 2018/08/09 06:00 PHST- 2017/12/01 00:00 [received] PHST- 2018/07/12 00:00 [accepted] PHST- 2018/08/09 06:00 [entrez] PHST- 2018/08/09 06:00 [pubmed] PHST- 2018/12/29 06:00 [medline] PHST- 2018/08/07 00:00 [pmc-release] AID - 10.1038/s41467-018-05663-x [pii] AID - 5663 [pii] AID - 10.1038/s41467-018-05663-x [doi] PST - epublish SO - Nat Commun. 2018 Aug 7;9(1):3139. doi: 10.1038/s41467-018-05663-x. ##### PUB RECORD ##### ## 10.1111/tpj.13181 27062090 Lu, Li et al., 2016 "Lu X, Li QT, Xiong Q, Li W, Bi YD, Lai YC, Liu XL, Man WQ, Zhang WK, Ma B, Chen SY, Zhang JS. The transcriptomic signature of developing soybean seeds reveals the genetic basis of seed trait adaptation during domestication. Plant J. 2016 Jun;86(6):530-44. doi: 10.1111/tpj.13181. Epub 2016 Jun 20. PMID: 27062090." ## PMID- 27062090 OWN - NLM STAT- MEDLINE DCOM- 20171107 LR - 20231213 IS - 1365-313X (Electronic) IS - 0960-7412 (Linking) VI - 86 IP - 6 DP - 2016 Jun TI - The transcriptomic signature of developing soybean seeds reveals the genetic basis of seed trait adaptation during domestication. PG - 530-44 LID - 10.1111/tpj.13181 [doi] AB - Cultivated soybean has undergone many transformations during domestication. In this paper we report a comprehensive assessment of the evolution of gene co-expression networks based on the analysis of 40 transcriptomes from developing soybean seeds in cultivated and wild soybean accessions. We identified 2680 genes that are differentially expressed during seed maturation and established two cultivar-specific gene co-expression networks. Through analysis of the two networks and integration with quantitative trait locus data we identified two potential key drivers for seed trait formation, GA20OX and NFYA. GA20OX encodes an enzyme in a rate-limiting step of gibberellin biosynthesis, and NFYA encodes a transcription factor. Overexpression of GA20OX and NFYA enhanced seed size/weight and oil content, respectively, in seeds of transgenic plants. The two genes showed significantly higher expression in cultivated than in wild soybean, and the increases in expression were associated with genetic variations in the promoter region of each gene. Moreover, the expression of GA20OX and NFYA in seeds of soybean accessions correlated with seed weight and oil content, respectively. Our study reveals transcriptional adaptation during soybean domestication and may identify a mechanism of selection by expression for seed trait formation, providing strategies for future breeding practice. CI - (c) 2016 The Authors The Plant Journal (c) 2016 John Wiley & Sons Ltd. FAU - Lu, Xiang AU - Lu X AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China. AD - University of Chinese Academy of Sciences, Beijing, 100049, China. FAU - Li, Qing-Tian AU - Li QT AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China. AD - University of Chinese Academy of Sciences, Beijing, 100049, China. FAU - Xiong, Qing AU - Xiong Q AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China. AD - University of Chinese Academy of Sciences, Beijing, 100049, China. FAU - Li, Wei AU - Li W AD - Institute of Farming and Cultivation, Heilongjiang Provincial Academy of Agricultural Sciences, Harbin, 150086, China. FAU - Bi, Ying-Dong AU - Bi YD AD - Institute of Farming and Cultivation, Heilongjiang Provincial Academy of Agricultural Sciences, Harbin, 150086, China. FAU - Lai, Yong-Cai AU - Lai YC AD - Institute of Farming and Cultivation, Heilongjiang Provincial Academy of Agricultural Sciences, Harbin, 150086, China. FAU - Liu, Xin-Lei AU - Liu XL AD - Institute of Soybean Research, Heilongjiang Provincial Academy of Agricultural Sciences, Harbin, 150086, China. FAU - Man, Wei-Qun AU - Man WQ AD - Institute of Soybean Research, Heilongjiang Provincial Academy of Agricultural Sciences, Harbin, 150086, China. FAU - Zhang, Wan-Ke AU - Zhang WK AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China. FAU - Ma, Biao AU - Ma B AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China. FAU - Chen, Shou-Yi AU - Chen SY AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China. FAU - Zhang, Jin-Song AU - Zhang JS AD - State Key Lab of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20160620 PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 SB - IM MH - Domestication MH - Genotype MH - Plants, Genetically Modified/genetics MH - Quantitative Trait Loci/*genetics MH - Seeds/*genetics MH - Glycine max/*genetics MH - Transcriptome/*genetics OTO - NOTNLM OT - Glycine max OT - Glycine soja OT - promoter variation OT - seed trait formation OT - soybean domestication OT - transcriptomic signature EDAT- 2016/04/12 06:00 MHDA- 2017/11/08 06:00 CRDT- 2016/04/11 06:00 PHST- 2016/03/03 00:00 [received] PHST- 2016/03/21 00:00 [revised] PHST- 2016/03/30 00:00 [accepted] PHST- 2016/04/11 06:00 [entrez] PHST- 2016/04/12 06:00 [pubmed] PHST- 2017/11/08 06:00 [medline] AID - 10.1111/tpj.13181 [doi] PST - ppublish SO - Plant J. 2016 Jun;86(6):530-44. doi: 10.1111/tpj.13181. Epub 2016 Jun 20. ##### PUB RECORD ##### ## 10.1016/j.pbi.2005.05.010 15939664 Weirmer, Feys et al., 2005 "Wiermer M, Feys BJ, Parker JE. Plant immunity: the EDS1 regulatory node. Curr Opin Plant Biol. 2005 Aug;8(4):383-9. doi: 10.1016/j.pbi.2005.05.010. PMID: 15939664." ## PMID- 15939664 OWN - NLM STAT- MEDLINE DCOM- 20050817 LR - 20220317 IS - 1369-5266 (Print) IS - 1369-5266 (Linking) VI - 8 IP - 4 DP - 2005 Aug TI - Plant immunity: the EDS1 regulatory node. PG - 383-9 AB - ENHANCED DISEASE SUSCEPTIBILITY 1 (EDS1) and its interacting partner, PHYTOALEXIN DEFICIENT 4 (PAD4), constitute a regulatory hub that is essential for basal resistance to invasive biotrophic and hemi-biotrophic pathogens. EDS1 and PAD4 are also recruited by Toll-Interleukin-1 receptor (TIR)-type nucleotide binding-leucine rich repeat (NB-LRR) proteins to signal isolate-specific pathogen recognition. Recent work points to a fundamental role of EDS1 and PAD4 in transducing redox signals in response to certain biotic and abiotic stresses. These intracellular proteins are important activators of salicylic acid (SA) signaling and also mediate antagonism between the jasmonic acid (JA) and ethylene (ET) defense response pathways. EDS1 forms several molecularly and spatially distinct complexes with PAD4 and a newly discovered in vivo signaling partner, SENESCENCE ASSOCIATED GENE 101 (SAG101). Together, EDS1, PAD4 and SAG101 provide a major barrier to infection by both host-adapted and non-host pathogens. FAU - Wiermer, Marcel AU - Wiermer M AD - Max Planck Institute for Plant Breeding Research, Department of Plant-Microbe Interactions, Carl-von-Linne-Weg 10, D-50829 Cologne, Germany. FAU - Feys, Bart J AU - Feys BJ FAU - Parker, Jane E AU - Parker JE LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PT - Review PL - England TA - Curr Opin Plant Biol JT - Current opinion in plant biology JID - 100883395 RN - 0 (Arabidopsis Proteins) RN - 0 (DNA-Binding Proteins) RN - 0 (EDS1 protein, Arabidopsis) RN - EC 3.1.1.- (Carboxylic Ester Hydrolases) RN - EC 3.1.1.- (PAD4 protein, Arabidopsis) SB - IM MH - Arabidopsis/*immunology/metabolism MH - Arabidopsis Proteins/metabolism/*physiology MH - Carboxylic Ester Hydrolases/metabolism/*physiology MH - DNA-Binding Proteins/metabolism/*physiology MH - Gene Expression Regulation, Plant MH - Oxidative Stress MH - *Plant Diseases MH - Signal Transduction RF - 45 EDAT- 2005/06/09 09:00 MHDA- 2005/08/18 09:00 CRDT- 2005/06/09 09:00 PHST- 2005/04/18 00:00 [received] PHST- 2005/05/19 00:00 [accepted] PHST- 2005/06/09 09:00 [pubmed] PHST- 2005/08/18 09:00 [medline] PHST- 2005/06/09 09:00 [entrez] AID - S1369-5266(05)00071-3 [pii] AID - 10.1016/j.pbi.2005.05.010 [doi] PST - ppublish SO - Curr Opin Plant Biol. 2005 Aug;8(4):383-9. doi: 10.1016/j.pbi.2005.05.010. ##### PUB RECORD ##### ## 10.1126/science.abh2890 34591638 Wang, Guo et al., 2021 "Wang T, Guo J, Peng Y, Lyu X, Liu B, Sun S, Wang X. Light-induced mobile factors from shoots regulate rhizobium-triggered soybean root nodulation. Science. 2021 Oct;374(6563):65-71. doi: 10.1126/science.abh2890. Epub 2021 Sep 30. Erratum in: Science. 2023 Jul 28;381(6656):eadj7468. doi: 10.1126/science.adj7468. PMID: 34591638." ## PMID- 34591638 OWN - NLM STAT- MEDLINE DCOM- 20211018 LR - 20231213 IS - 1095-9203 (Electronic) IS - 0036-8075 (Linking) VI - 374 IP - 6563 DP - 2021 Oct TI - Light-induced mobile factors from shoots regulate rhizobium-triggered soybean root nodulation. PG - 65-71 LID - 10.1126/science.abh2890 [doi] AB - Symbiotic nitrogen fixation is an energy-expensive process, and the light available to plants has been proposed to be a primary influencer. We demonstrate that the light-induced soybean TGACG-motif binding factor 3/4 (GmSTF3/4) and FLOWERING LOCUS T (GmFTs), which move from shoots to roots, interdependently induce nodule organogenesis. Rhizobium-activated calcium- and calmodulin-dependent protein kinase (CCaMK) phosphorylates GmSTF3, triggering GmSTF3-GmFT2a complex formation, which directly activates expression of nodule inception (NIN) and nuclear factor Y (NF-YA1 and NF-YB1). Accordingly, the CCaMK-STF-FT module integrates aboveground light signals with underground symbiotic signaling, ensuring that the host plant informs its roots that the aboveground environment is prepared to sustainably supply the carbohydrate necessary for symbiosis. These results suggest approaches that could enhance the balance of carbon and nitrogen in the biosphere. FAU - Wang, Tao AU - Wang T AUID- ORCID: 0000-0002-1193-2095 AD - State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng 475004, China. AD - College of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua 321004, China. AD - College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, China. FAU - Guo, Jing AU - Guo J AUID- ORCID: 0000-0002-1456-6350 AD - State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng 475004, China. AD - College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, China. FAU - Peng, Yaqi AU - Peng Y AD - State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng 475004, China. FAU - Lyu, Xiangguang AU - Lyu X AUID- ORCID: 0000-0001-9588-1717 AD - Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Liu, Bin AU - Liu B AUID- ORCID: 0000-0002-5836-2333 AD - Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China. FAU - Sun, Shiyong AU - Sun S AUID- ORCID: 0000-0001-9481-2306 AD - State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng 475004, China. FAU - Wang, Xuelu AU - Wang X AUID- ORCID: 0000-0003-2003-1077 AD - State Key Laboratory of Crop Stress Adaptation and Improvement, School of Life Sciences, Henan University, Kaifeng 475004, China. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20210930 PL - United States TA - Science JT - Science (New York, N.Y.) JID - 0404511 RN - 0 (Plant Proteins) SB - IM CIN - Trends Plant Sci. 2022 Oct;27(10):955-957. doi: 10.1016/j.tplants.2022.07.002. PMID: 35840482 ECI - Science. 2023 Jun 30;380(6652):1330. doi: 10.1126/science.adj3306. PMID: 37384692 EIN - Science. 2023 Jul 28;381(6656):eadj7468. doi: 10.1126/science.adj7468. PMID: 37499039 MH - Light MH - *Nitrogen Fixation MH - Organogenesis, Plant/*physiology MH - Plant Proteins/*metabolism MH - *Plant Root Nodulation MH - Plant Roots/physiology MH - Plant Shoots/microbiology/*physiology/radiation effects MH - Rhizobium/*physiology MH - Glycine max/microbiology/*physiology/radiation effects MH - Symbiosis EDAT- 2021/10/01 06:00 MHDA- 2021/10/21 06:00 CRDT- 2021/09/30 17:16 PHST- 2021/09/30 17:16 [entrez] PHST- 2021/10/01 06:00 [pubmed] PHST- 2021/10/21 06:00 [medline] AID - 10.1126/science.abh2890 [doi] PST - ppublish SO - Science. 2021 Oct;374(6563):65-71. doi: 10.1126/science.abh2890. Epub 2021 Sep 30. ##### PUB RECORD ##### ## 10.1016/j.csbj.2022.06.014 35782726 Zuo, Ikram et al., 2022 "Zuo JF, Ikram M, Liu JY, Han CY, Niu Y, Dunwell JM, Zhang YM. Domestication and improvement genes reveal the differences of seed size- and oil-related traits in soybean domestication and improvement. Comput Struct Biotechnol J. 2022 Jun 13;20:2951-2964. doi: 10.1016/j.csbj.2022.06.014. PMID: 35782726; PMCID: PMC9213226." ## PMID- 35782726 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20220716 IS - 2001-0370 (Print) IS - 2001-0370 (Electronic) IS - 2001-0370 (Linking) VI - 20 DP - 2022 TI - Domestication and improvement genes reveal the differences of seed size- and oil-related traits in soybean domestication and improvement. PG - 2951-2964 LID - 10.1016/j.csbj.2022.06.014 [doi] AB - To address domestication and improvement studies of soybean seed size- and oil-related traits, a series of domesticated and improved regions, loci, and candidate genes were identified in 286 soybean accessions using domestication and improvement analyses, genome-wide association studies, quantitative trait locus (QTL) mapping and bulked segregant analyses in this study. As a result, 534 candidate domestication regions (CDRs) and 458 candidate improvement regions (CIRs) were identified in this study and integrated with those in five and three previous studies, respectively, to obtain 952 CDRs and 538 CIRs; 1469 loci for soybean seed size- and oil-related traits were identified in this study and integrated with those in Soybase to obtain 433 QTL clusters. The two results were intersected to obtain 245 domestication and 221 improvement loci for the above traits. Around these trait-related domestication and improvement loci, 7 domestication and 7 improvement genes were found to be truly associated with these traits, and 372 candidate domestication and 87 candidate improvement genes were identified using gene expression, SNP variants in genome, miRNA binding, KEGG pathway, DNA methylation, and haplotype analysis. These genes were used to explain the trait changes in domestication and improvement. As a result, the trait changes can be explained by their frequencies of elite haplotypes, base mutations in coding region, and three factors affecting their expression levels. In addition, 56 domestication and 15 improvement genes may be valuable for future soybean breeding. This study can provide useful gene resources for future soybean breeding and molecular biology research. CI - (c) 2022 The Author(s). FAU - Zuo, Jian-Fang AU - Zuo JF AD - Crop Information Center, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Ikram, Muhammad AU - Ikram M AD - Crop Information Center, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Liu, Jin-Yang AU - Liu JY AD - Jiangsu Key Laboratory for Horticultural Crop Genetic Improvement, Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences, Nanjing, China. FAU - Han, Chun-Yu AU - Han CY AD - Crop Information Center, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China. FAU - Niu, Yuan AU - Niu Y AD - School of Life Sciences and Food Engineering, Huaiyin Institute of Technology, Huaian, China. FAU - Dunwell, Jim M AU - Dunwell JM AD - School of Agriculture, Policy and Development, University of Reading, Reading, United Kingdom. FAU - Zhang, Yuan-Ming AU - Zhang YM AD - Crop Information Center, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan, China. LA - eng PT - Journal Article DEP - 20220613 PL - Netherlands TA - Comput Struct Biotechnol J JT - Computational and structural biotechnology journal JID - 101585369 PMC - PMC9213226 OTO - NOTNLM OT - 100SW, 100-seed weight OT - CDGs, candidate domestication genes OT - CDRs, candidate domestication regions OT - CIGs, candidate improvement genes OT - CIRs, candidate improvement regions OT - DAF, days after flowering OT - Domestication OT - Genome-wide association study OT - Improvement OT - LA, linoleic acid OT - LNA, linolenic acid OT - LOD, logarithm of odds OT - OA, oleic acid OT - OIL, oil content OT - PA, palmitic acid OT - PCD, potential candidate domestication OT - PCI, potential candidate improvement OT - QTL, quantitative trait locus OT - QTNs, quantitative trait nucleotides OT - SA, stearic acid OT - SL, seed length OT - SLT, seed length to thickness ratio OT - SLW, seed length to width ratio OT - ST, seed thickness OT - SW, seed width OT - SWT, seed width to thickness ratio OT - Seed oil content OT - Seed size OT - Soybean EDAT- 2022/07/06 06:00 MHDA- 2022/07/06 06:01 PMCR- 2022/06/13 CRDT- 2022/07/05 09:57 PHST- 2022/03/04 00:00 [received] PHST- 2022/06/07 00:00 [revised] PHST- 2022/06/07 00:00 [accepted] PHST- 2022/07/05 09:57 [entrez] PHST- 2022/07/06 06:00 [pubmed] PHST- 2022/07/06 06:01 [medline] PHST- 2022/06/13 00:00 [pmc-release] AID - S2001-0370(22)00228-8 [pii] AID - 10.1016/j.csbj.2022.06.014 [doi] PST - epublish SO - Comput Struct Biotechnol J. 2022 Jun 13;20:2951-2964. doi: 10.1016/j.csbj.2022.06.014. eCollection 2022. ##### PUB RECORD ##### ## 10.1007/s11103-013-0133-1 24072327 RojasRodas, Rodriguez et al., 2013 "Rojas Rodas F, Rodriguez TO, Murai Y, Iwashina T, Sugawara S, Suzuki M, Nakabayashi R, Yonekura-Sakakibara K, Saito K, Kitajima J, Toda K, Takahashi R. Linkage mapping, molecular cloning and functional analysis of soybean gene Fg2 encoding flavonol 3-O-glucoside (1 → 6) rhamnosyltransferase. Plant Mol Biol. 2014 Feb;84(3):287-300. doi: 10.1007/s11103-013-0133-1. Epub 2013 Sep 27. PMID: 24072327." ## PMID- 24072327 OWN - NLM STAT- MEDLINE DCOM- 20140227 LR - 20231213 IS - 1573-5028 (Electronic) IS - 0167-4412 (Linking) VI - 84 IP - 3 DP - 2014 Feb TI - Linkage mapping, molecular cloning and functional analysis of soybean gene Fg2 encoding flavonol 3-O-glucoside (1 --> 6) rhamnosyltransferase. PG - 287-300 LID - 10.1007/s11103-013-0133-1 [doi] AB - There are substantial genotypic differences in the levels of flavonol glycosides (FGs) in soybean leaves. The first objective of this study was to identify and locate genes responsible for FG biosynthesis in the soybean genome. The second objective was to clone and verify the function of these candidate genes. Recombinant inbred lines (RILs) were developed by crossing the Kitakomachi and Koganejiro cultivars. The FGs were separated by high performance liquid chromatography (HPLC) and identified. The FGs of Koganejiro had rhamnose at the 6''-position of the glucose or galactose bound to the 3-position of kaempferol, whereas FGs of Kitakomachi were devoid of rhamnose. Among the 94 RILs, 53 RILs had HPLC peaks classified as Koganejiro type, and 41 RILs had peaks classified as Kitakomachi type. The segregation fitted a 1:1 ratio, suggesting that a single gene controls FG composition. SSR analysis, linkage mapping and genome database survey revealed a candidate gene in the molecular linkage group O (chromosome 10). The coding region of the gene from Koganejiro, designated as GmF3G6''Rt-a, is 1,392 bp long and encodes 464 amino acids, whereas the gene of Kitakomachi, GmF3G6''Rt-b, has a two-base deletion resulting in a truncated polypeptide consisting of 314 amino acids. The recombinant GmF3G6''Rt-a protein converted kaempferol 3-O-glucoside to kaempferol 3-O-rutinoside and utilized 3-O-glucosylated/galactosylated flavonols and UDP-rhamnose as substrates. GmF3G6''Rt-b protein had no activity. These results indicate that GmF3G6''Rt encodes a flavonol 3-O-glucoside (1 --> 6) rhamnosyltransferase and it probably corresponds to the Fg2 gene. GmF3G6''Rt was designated as UGT79A6 by the UGT Nomenclature Committee. FAU - Rojas Rodas, Felipe AU - Rojas Rodas F AD - Graduate School of Life and Environmental Sciences, University of Tsukuba, Tsukuba, Ibaraki, 305-8518, Japan. FAU - Rodriguez, Tito O AU - Rodriguez TO FAU - Murai, Yoshinori AU - Murai Y FAU - Iwashina, Tsukasa AU - Iwashina T FAU - Sugawara, Satoko AU - Sugawara S FAU - Suzuki, Makoto AU - Suzuki M FAU - Nakabayashi, Ryo AU - Nakabayashi R FAU - Yonekura-Sakakibara, Keiko AU - Yonekura-Sakakibara K FAU - Saito, Kazuki AU - Saito K FAU - Kitajima, Junichi AU - Kitajima J FAU - Toda, Kyoko AU - Toda K FAU - Takahashi, Ryoji AU - Takahashi R LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20130927 PL - Netherlands TA - Plant Mol Biol JT - Plant molecular biology JID - 9106343 RN - 0 (DNA Primers) RN - 0 (DNA, Complementary) RN - 0 (Recombinant Proteins) RN - 0 (Soybean Proteins) RN - EC 2.4.1.- (Hexosyltransferases) RN - EC 2.4.1.- (flavonol 3-O-glucoside (1-6) rhamnosyltransferase, soybean) SB - IM MH - Amino Acid Sequence MH - Base Sequence MH - Chromatography, High Pressure Liquid MH - *Chromosome Mapping MH - Cloning, Molecular MH - DNA Primers MH - DNA, Complementary/genetics MH - Gene Expression Regulation, Plant MH - *Genes, Plant MH - Hexosyltransferases/chemistry/*genetics/isolation & purification MH - Molecular Sequence Data MH - Recombinant Proteins/chemistry/genetics/isolation & purification MH - Sequence Homology, Amino Acid MH - Soybean Proteins/chemistry/*genetics/isolation & purification MH - Glycine max/*genetics EDAT- 2013/09/28 06:00 MHDA- 2014/02/28 06:00 CRDT- 2013/09/28 06:00 PHST- 2013/07/10 00:00 [received] PHST- 2013/09/17 00:00 [accepted] PHST- 2013/09/28 06:00 [entrez] PHST- 2013/09/28 06:00 [pubmed] PHST- 2014/02/28 06:00 [medline] AID - 10.1007/s11103-013-0133-1 [doi] PST - ppublish SO - Plant Mol Biol. 2014 Feb;84(3):287-300. doi: 10.1007/s11103-013-0133-1. Epub 2013 Sep 27. ##### PUB RECORD ##### ## 10.1007/s00122-010-1467-6 21046066 Juwattanasomran, Somta, et. al, 2011 "Juwattanasomran R, Somta P, Chankaew S, Shimizu T, Wongpornchai S, Kaga A, Srinives P. A SNP in GmBADH2 gene associates with fragrance in vegetable soybean variety "Kaori" and SNAP marker development for the fragrance. Theor Appl Genet. 2011 Feb;122(3):533-41. doi: 10.1007/s00122-010-1467-6. Epub 2010 Nov 3. PMID: 21046066." ## PMID- 21046066 OWN - NLM STAT- MEDLINE DCOM- 20110428 LR - 20231213 IS - 1432-2242 (Electronic) IS - 0040-5752 (Linking) VI - 122 IP - 3 DP - 2011 Feb TI - A SNP in GmBADH2 gene associates with fragrance in vegetable soybean variety "Kaori" and SNAP marker development for the fragrance. PG - 533-41 LID - 10.1007/s00122-010-1467-6 [doi] AB - Fragrance in soybean is due to the presence of 2-acetyl-1-pyrroline (2AP). BADH2 gene coding for betaine aldehyde dehydrogenase has been identified as the candidate gene responsible for fragrance in rice (Oryza sativa L.). In this study, using the RIL population derived from fragrant soybean cultivar "Kaori" and non-fragrant soybean cultivar "Chiang Mai 60" (CM60), STS markers designed from BADH2 homolog were found associating with 2AP production. Genetic mapping demonstrated that QTL position of fragrance and 2AP production coincides with the position of GmBADH2 (Glycine max betaine aldehyde dehydrogenase 2). Sequence comparison of GmBADH2 between Kaori and non-fragrant soybeans revealed non-synonymous single-nucleotide polymorphism (SNP) in exon 10. Nucleotide substitution of G to A in the exon results in an amino acid change of glycine (GGC; G) to aspartic acid (GAC; D) in Kaori. The amino acid substitution changes the conserved EGCRLGPIVS motif of GmBADH2, which is essential for functional activity of GmBADH2 protein, to EGCRLDPIVS motif, suggesting that the SNP in GmBADH2 is responsible for the fragrance in Kaori. Five single nucleotide-amplified polymorphism (SNAP) markers which are PCR-based allele specific SNP markers were developed for fragrance based on the SNP in GmBADH2. Two markers specific to A allele produced a band in only Kaori, while three markers specific to G alleles produced a band in only CM60. The simple PCR-based allele specific SNAP markers developed in the present study are useful in marker-assisted breeding of fragrant soybean. FAU - Juwattanasomran, Ruangchai AU - Juwattanasomran R AD - Department of Agronomy, Faculty of Agriculture at Kamphaeng Saen, Kasetsart University, Nakhon Pathom, Thailand. FAU - Somta, Prakit AU - Somta P FAU - Chankaew, Sompong AU - Chankaew S FAU - Shimizu, Takehiko AU - Shimizu T FAU - Wongpornchai, Sugunya AU - Wongpornchai S FAU - Kaga, Akito AU - Kaga A FAU - Srinives, Peerasak AU - Srinives P LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20101103 PL - Germany TA - Theor Appl Genet JT - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik JID - 0145600 RN - 0 (DNA, Plant) RN - 0 (Genetic Markers) RN - 0 (Plant Proteins) RN - 0 (Pyrroles) RN - EC 1.2.1.8 (Betaine-Aldehyde Dehydrogenase) RN - IGC0W6LY94 (2-acetyl-1-pyrroline) SB - IM MH - Amino Acid Sequence MH - Base Sequence MH - Betaine-Aldehyde Dehydrogenase/chemistry/*genetics/metabolism MH - Chromatography, Gas MH - DNA, Plant/genetics MH - Genes, Plant/*genetics MH - *Genetic Association Studies MH - Genetic Linkage MH - Genetic Markers MH - Inbreeding MH - Molecular Sequence Data MH - Odorants/*analysis MH - Plant Proteins/chemistry/genetics/metabolism MH - Polymorphism, Single Nucleotide/*genetics MH - Pyrroles/metabolism MH - Quantitative Trait Loci/genetics MH - Sequence Alignment MH - Sequence Analysis, DNA MH - Glycine max/*enzymology/*genetics EDAT- 2010/11/04 06:00 MHDA- 2011/04/29 06:00 CRDT- 2010/11/04 06:00 PHST- 2010/03/25 00:00 [received] PHST- 2010/10/11 00:00 [accepted] PHST- 2010/11/04 06:00 [entrez] PHST- 2010/11/04 06:00 [pubmed] PHST- 2011/04/29 06:00 [medline] AID - 10.1007/s00122-010-1467-6 [doi] PST - ppublish SO - Theor Appl Genet. 2011 Feb;122(3):533-41. doi: 10.1007/s00122-010-1467-6. Epub 2010 Nov 3. ##### PUB RECORD ##### ## 10.1534/genetics.108.098772 19474204 Watanabe, Hideshima et al., 2009 "Watanabe S, Hideshima R, Xia Z, Tsubokura Y, Sato S, Nakamoto Y, Yamanaka N, Takahashi R, Ishimoto M, Anai T, Tabata S, Harada K. Map-based cloning of the gene associated with the soybean maturity locus E3. Genetics. 2009 Aug;182(4):1251-62. doi: 10.1534/genetics.108.098772. Epub 2009 May 27. PMID: 19474204; PMCID: PMC2728863." ## PMID- 19474204 OWN - NLM STAT- MEDLINE DCOM- 20100201 LR - 20231213 IS - 1943-2631 (Electronic) IS - 0016-6731 (Print) IS - 0016-6731 (Linking) VI - 182 IP - 4 DP - 2009 Aug TI - Map-based cloning of the gene associated with the soybean maturity locus E3. PG - 1251-62 LID - 10.1534/genetics.108.098772 [doi] AB - Photosensitivity plays an essential role in the response of plants to their changing environments throughout their life cycle. In soybean [Glycine max (L.) Merrill], several associations between photosensitivity and maturity loci are known, but only limited information at the molecular level is available. The FT3 locus is one of the quantitative trait loci (QTL) for flowering time that corresponds to the maturity locus E3. To identify the gene responsible for this QTL, a map-based cloning strategy was undertaken. One phytochrome A gene (GmPhyA3) was considered a strong candidate for the FT3 locus. Allelism tests and gene sequence comparisons showed that alleles of Misuzudaizu (FT3/FT3; JP28856) and Harosoy (E3/E3; PI548573) were identical. The GmPhyA3 alleles of Moshidou Gong 503 (ft3/ft3; JP27603) and L62-667 (e3/e3; PI547716) showed weak or complete loss of function, respectively. High red/far-red (R/FR) long-day conditions enhanced the effects of the E3/FT3 alleles in various genetic backgrounds. Moreover, a mutant line harboring the nonfunctional GmPhyA3 flowered earlier than the original Bay (E3/E3; PI553043) under similar conditions. These results suggest that the variation in phytochrome A may contribute to the complex systems of soybean flowering response and geographic adaptation. FAU - Watanabe, Satoshi AU - Watanabe S AD - National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan. FAU - Hideshima, Rumiko AU - Hideshima R FAU - Xia, Zhengjun AU - Xia Z FAU - Tsubokura, Yasutaka AU - Tsubokura Y FAU - Sato, Shusei AU - Sato S FAU - Nakamoto, Yumi AU - Nakamoto Y FAU - Yamanaka, Naoki AU - Yamanaka N FAU - Takahashi, Ryoji AU - Takahashi R FAU - Ishimoto, Masao AU - Ishimoto M FAU - Anai, Toyoaki AU - Anai T FAU - Tabata, Satoshi AU - Tabata S FAU - Harada, Kyuya AU - Harada K LA - eng SI - GENBANK/AB462634 SI - GENBANK/AB462635 SI - GENBANK/AB462636 SI - GENBANK/AB462637 SI - GENBANK/AB462638 SI - GENBANK/AB462639 SI - GENBANK/AB462640 SI - GENBANK/AB462641 SI - GENBANK/AB465249 SI - GENBANK/AB465250 SI - GENBANK/AB465251 SI - GENBANK/AB465252 SI - GENBANK/AB465253 SI - GENBANK/AB465254 SI - GENBANK/AB465255 SI - GENBANK/AB465256 SI - GENBANK/AB465257 SI - GENBANK/AB465258 SI - GENBANK/AB468152 SI - GENBANK/AB468153 SI - GENBANK/AB468154 SI - GENBANK/AB468155 SI - GENBANK/AP010916 SI - GENBANK/AP010917 PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20090527 PL - United States TA - Genetics JT - Genetics JID - 0374636 RN - 0 (Phytochrome A) SB - IM MH - Alleles MH - Base Sequence MH - Cloning, Molecular/*methods MH - Flowers/genetics MH - Genes, Plant/*genetics MH - Molecular Sequence Data MH - Phytochrome A/*genetics MH - *Quantitative Trait Loci MH - Glycine max/*genetics PMC - PMC2728863 EDAT- 2009/05/29 09:00 MHDA- 2010/02/02 06:00 PMCR- 2009/11/01 CRDT- 2009/05/29 09:00 PHST- 2009/05/29 09:00 [entrez] PHST- 2009/05/29 09:00 [pubmed] PHST- 2010/02/02 06:00 [medline] PHST- 2009/11/01 00:00 [pmc-release] AID - genetics.108.098772 [pii] AID - gen18241251 [pii] AID - 10.1534/genetics.108.098772 [doi] PST - ppublish SO - Genetics. 2009 Aug;182(4):1251-62. doi: 10.1534/genetics.108.098772. Epub 2009 May 27. ##### PUB RECORD ##### ## 10.1111/j.1365-313X.2010.04398.x 21175888 Indrasumunar, Searle et al., 2011 "Indrasumunar A, Searle I, Lin MH, Kereszt A, Men A, Carroll BJ, Gresshoff PM. Nodulation factor receptor kinase 1α controls nodule organ number in soybean (Glycine max L. Merr). Plant J. 2011 Jan;65(1):39-50. doi: 10.1111/j.1365-313X.2010.04398.x. Epub 2010 Nov 10. PMID: 21175888." ## PMID- 21175888 OWN - NLM STAT- MEDLINE DCOM- 20110414 LR - 20231213 IS - 1365-313X (Electronic) IS - 0960-7412 (Linking) VI - 65 IP - 1 DP - 2011 Jan TI - Nodulation factor receptor kinase 1alpha controls nodule organ number in soybean (Glycine max L. Merr). PG - 39-50 LID - 10.1111/j.1365-313X.2010.04398.x [doi] AB - Two allelic non-nodulating mutants, nod49 and rj1, were characterized using map-based cloning and candidate gene approaches, and genetic complementation. From our results we propose two highly related lipo-oligochitin LysM-type receptor kinase genes (GmNFR1alpha and GmNFR1beta) as putative Nod factor receptor components in soybean. Both mutants contained frameshift mutations in GmNFR1alpha that would yield protein truncations. Both mutants contained a seemingly functional GmNFR1beta homeologue, characterized by a 374-bp deletion in intron 6 and 20-100 times lower transcript levels than GmNFR1alpha, yet both mutants were unable to form nodules. Mutations in GmNFR1beta within other genotypes had no defects in nodulation, showing that GmNFR1beta was redundant. Transgenic overexpression of GmNFR1alpha, but not of GmNFR1beta, increased nodule number per plant, plant nitrogen content and the ability to form nodules with restrictive, ultra-low Bradyrhizobium japonicum titres in transgenic roots of both nod49 and rj1. GmNFR1alpha overexpressing roots also formed nodules in nodulation-restrictive acid soil (pH 4.7). Our results show that: (i) NFR1alpha expression controls nodule number in soybean, and (ii) acid soil tolerance for nodulation and suppression of nodulation deficiency at low titre can be achieved by overexpression of GmNFR1alpha. CI - (c) 2010 The Authors. The Plant Journal (c) 2010 Blackwell Publishing Ltd. FAU - Indrasumunar, Arief AU - Indrasumunar A AD - ARC Centre of Excellence for Integrative Legume Research, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaIndonesian Centre for Agricultural Biotechnology and Genetic Resources Research and Development, Bogor 16111, IndonesiaSchool of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaSchool of Biochemistry and Molecular Biology, ANU, Canberra ACT 2601, AustraliaInstitute for Plant Genomics, Human Biotechnology and Bioenergy, Szeged, HungaryAustralian Genome Research Facility, Brisbane, Australia. FAU - Searle, Iain AU - Searle I AD - ARC Centre of Excellence for Integrative Legume Research, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaIndonesian Centre for Agricultural Biotechnology and Genetic Resources Research and Development, Bogor 16111, IndonesiaSchool of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaSchool of Biochemistry and Molecular Biology, ANU, Canberra ACT 2601, AustraliaInstitute for Plant Genomics, Human Biotechnology and Bioenergy, Szeged, HungaryAustralian Genome Research Facility, Brisbane, Australia. FAU - Lin, Meng-Han AU - Lin MH AD - ARC Centre of Excellence for Integrative Legume Research, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaIndonesian Centre for Agricultural Biotechnology and Genetic Resources Research and Development, Bogor 16111, IndonesiaSchool of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaSchool of Biochemistry and Molecular Biology, ANU, Canberra ACT 2601, AustraliaInstitute for Plant Genomics, Human Biotechnology and Bioenergy, Szeged, HungaryAustralian Genome Research Facility, Brisbane, Australia. FAU - Kereszt, Attila AU - Kereszt A AD - ARC Centre of Excellence for Integrative Legume Research, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaIndonesian Centre for Agricultural Biotechnology and Genetic Resources Research and Development, Bogor 16111, IndonesiaSchool of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaSchool of Biochemistry and Molecular Biology, ANU, Canberra ACT 2601, AustraliaInstitute for Plant Genomics, Human Biotechnology and Bioenergy, Szeged, HungaryAustralian Genome Research Facility, Brisbane, Australia. FAU - Men, Artem AU - Men A AD - ARC Centre of Excellence for Integrative Legume Research, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaIndonesian Centre for Agricultural Biotechnology and Genetic Resources Research and Development, Bogor 16111, IndonesiaSchool of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaSchool of Biochemistry and Molecular Biology, ANU, Canberra ACT 2601, AustraliaInstitute for Plant Genomics, Human Biotechnology and Bioenergy, Szeged, HungaryAustralian Genome Research Facility, Brisbane, Australia. FAU - Carroll, Bernard J AU - Carroll BJ AD - ARC Centre of Excellence for Integrative Legume Research, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaIndonesian Centre for Agricultural Biotechnology and Genetic Resources Research and Development, Bogor 16111, IndonesiaSchool of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaSchool of Biochemistry and Molecular Biology, ANU, Canberra ACT 2601, AustraliaInstitute for Plant Genomics, Human Biotechnology and Bioenergy, Szeged, HungaryAustralian Genome Research Facility, Brisbane, Australia. FAU - Gresshoff, Peter M AU - Gresshoff PM AD - ARC Centre of Excellence for Integrative Legume Research, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaIndonesian Centre for Agricultural Biotechnology and Genetic Resources Research and Development, Bogor 16111, IndonesiaSchool of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane St Lucia, QLD 4072, AustraliaSchool of Biochemistry and Molecular Biology, ANU, Canberra ACT 2601, AustraliaInstitute for Plant Genomics, Human Biotechnology and Bioenergy, Szeged, HungaryAustralian Genome Research Facility, Brisbane, Australia. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20101110 PL - England TA - Plant J JT - The Plant journal : for cell and molecular biology JID - 9207397 RN - 0 (Plant Proteins) SB - IM MH - Gene Duplication/genetics MH - Plant Proteins/genetics/*metabolism MH - Plants, Genetically Modified/*enzymology/genetics MH - Root Nodules, Plant/genetics/metabolism MH - Glycine max/*enzymology/genetics EDAT- 2010/12/24 06:00 MHDA- 2011/04/16 06:00 CRDT- 2010/12/24 06:00 PHST- 2010/12/24 06:00 [entrez] PHST- 2010/12/24 06:00 [pubmed] PHST- 2011/04/16 06:00 [medline] AID - 10.1111/j.1365-313X.2010.04398.x [doi] PST - ppublish SO - Plant J. 2011 Jan;65(1):39-50. doi: 10.1111/j.1365-313X.2010.04398.x. Epub 2010 Nov 10. ##### PUB RECORD ##### ## 10.1007/s11248-019-00180-z 31673914 Zhang, Luo, et al., 2020 "Zhang L, Luo Y, Liu B, Zhang L, Zhang W, Chen R, Wang L. Overexpression of the maize γ-tocopherol methyltransferase gene (ZmTMT) increases α-tocopherol content in transgenic Arabidopsis and maize seeds. Transgenic Res. 2020 Feb;29(1):95-104. doi: 10.1007/s11248-019-00180-z. Epub 2019 Oct 31. PMID: 31673914." ## PMID- 31673914 OWN - NLM STAT- MEDLINE DCOM- 20210607 LR - 20210607 IS - 1573-9368 (Electronic) IS - 0962-8819 (Linking) VI - 29 IP - 1 DP - 2020 Feb TI - Overexpression of the maize gamma-tocopherol methyltransferase gene (ZmTMT) increases alpha-tocopherol content in transgenic Arabidopsis and maize seeds. PG - 95-104 LID - 10.1007/s11248-019-00180-z [doi] AB - The vitamin E family includes tocopherols and tocotrienols, which are essential lipid-soluble antioxidants necessary for human and livestock health. The seeds of many plant species, including maize, have high gamma (gamma)-tocopherol but low alpha (alpha)-tocopherol contents; however, alpha-tocopherol is the most effective antioxidant. Therefore, it is necessary to optimize the tocopherol composition in plants. alpha-Tocopherol is synthesized from gamma-tocopherol by gamma-tocopherol methyltransferase (gamma-TMT, VTE4) in the final step of the tocopherol biosynthetic pathway. In the present study, the full-length coding sequence (CDS) of gamma-TMT was isolated from Zea mays, named ZmTMT. The ZmTMT CDS was 1059 bp in size, encoding 352 amino acids. Recombinant ZmTMT was expressed in Escherichia coli and the purified protein effectively converted gamma-tocopherol into alpha-tocopherol in vitro. A comparison of enzyme activities showed that the activity of ZmTMT was higher than that of GmTMT2a (Glycine max) and AtTMT (Arabidopsis thaliana). Overexpression of ZmTMT increased the alpha-tocopherol content 4-5-fold in transgenic Arabidopsis and around 6.5-fold in transgenic maize kernels, and increased the alpha-/gamma-tocopherol ratio to approximately 15 and 17, respectively. These results show that it is feasible to overexpress ZmTMT to optimize the tocopherol composition in maize; such a corn product might be useful in the feed industry in the near future. FAU - Zhang, Lan AU - Zhang L AUID- ORCID: 0000-0001-9372-2042 AD - National Key Facility of Crop Gene Resources and Genetic Improvement, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. FAU - Luo, Yanzhong AU - Luo Y AD - National Key Facility of Crop Gene Resources and Genetic Improvement, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. FAU - Liu, Bin AU - Liu B AD - National Key Facility of Crop Gene Resources and Genetic Improvement, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. FAU - Zhang, Liang AU - Zhang L AD - National Key Facility of Crop Gene Resources and Genetic Improvement, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. FAU - Zhang, Wei AU - Zhang W AD - National Key Facility of Crop Gene Resources and Genetic Improvement, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. FAU - Chen, Rumei AU - Chen R AD - National Key Facility of Crop Gene Resources and Genetic Improvement, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. FAU - Wang, Lei AU - Wang L AD - National Key Facility of Crop Gene Resources and Genetic Improvement, Biotechnology Research Institute, Chinese Academy of Agricultural Sciences, Beijing, 100081, China. wanglei01@caas.cn. LA - eng GR - 2016ZX08003-002/Earmarked Fund for China Agriculture Research System/International PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20191031 PL - Netherlands TA - Transgenic Res JT - Transgenic research JID - 9209120 RN - EC 2.1.1.- (Methyltransferases) RN - EC 2.1.1.95 (gamma-tocopherol methyltransferase) RN - H4N855PNZ1 (alpha-Tocopherol) SB - IM MH - Arabidopsis/genetics/*metabolism MH - Methyltransferases/genetics/*metabolism MH - Plants, Genetically Modified/genetics/*metabolism MH - Seeds/genetics/*metabolism MH - Zea mays/*enzymology MH - alpha-Tocopherol/*metabolism OTO - NOTNLM OT - Zea mays OT - alpha-/gamma-Tocopherol ratio OT - alpha-Tocopherol OT - gamma-Tocopherol methyltransferase (gamma-TMT) EDAT- 2019/11/02 06:00 MHDA- 2021/06/08 06:00 CRDT- 2019/11/02 06:00 PHST- 2019/08/12 00:00 [received] PHST- 2019/10/22 00:00 [accepted] PHST- 2019/11/02 06:00 [pubmed] PHST- 2021/06/08 06:00 [medline] PHST- 2019/11/02 06:00 [entrez] AID - 10.1007/s11248-019-00180-z [pii] AID - 10.1007/s11248-019-00180-z [doi] PST - ppublish SO - Transgenic Res. 2020 Feb;29(1):95-104. doi: 10.1007/s11248-019-00180-z. Epub 2019 Oct 31. ##### PUB RECORD ##### ## 10.1038/s41598-019-42332-5 30979945 Chen, Fang et al., 2019 "Chen LM, Fang YS, Zhang CJ, Hao QN, Cao D, Yuan SL, Chen HF, Yang ZL, Chen SL, Shan ZH, Liu BH, Jing-Wang, Zhan Y, Zhang XJ, Qiu DZ, Li WB, Zhou XA. GmSYP24, a putative syntaxin gene, confers osmotic/drought, salt stress tolerances and ABA signal pathway. Sci Rep. 2019 Apr 12;9(1):5990. doi: 10.1038/s41598-019-42332-5. PMID: 30979945; PMCID: PMC6461667." ## PMID- 30979945 OWN - NLM STAT- MEDLINE DCOM- 20201007 LR - 20231213 IS - 2045-2322 (Electronic) IS - 2045-2322 (Linking) VI - 9 IP - 1 DP - 2019 Apr 12 TI - GmSYP24, a putative syntaxin gene, confers osmotic/drought, salt stress tolerances and ABA signal pathway. PG - 5990 LID - 10.1038/s41598-019-42332-5 [doi] LID - 5990 AB - As major environment factors, drought or high salinity affect crop growth, development and yield. Transgenic approach is an effective way to improve abiotic stress tolerance of crops. In this study, we comparatively analyzed gene structures, genome location, and the evolution of syntaxin proteins containing late embryogenesis abundant (LEA2) domain. GmSYP24 was identified as a dehydration-responsive gene. Our study showed that the GmSYP24 protein was located on the cell membrane. The overexpression of GmSYP24 (GmSYP24ox) in soybean and heteroexpression of GmSYP24 (GmSYP24hx) in Arabidopsis exhibited insensitivity to osmotic/drought and high salinity. However, wild type soybean, Arabidopsis, and the mutant of GmSYP24 homologous gene of Arabidopsis were sensitive to the stresses. Under the abiotic stresses, transgenic soybean plants had greater water content and higher activities of POD, SOD compared with non-transgenic controls. And the leaf stomatal density and opening were reduced in transgenic Arabidopsis. The sensitivity to ABA was decreased during seed germination of GmSYP24ox and GmSYP24hx. GmSYP24hx induced up-regulation of ABA-responsive genes. GmSYP24ox alters the expression of some aquaporins under osmotic/drought, salt, or ABA treatment. These results demonstrated that GmSYP24 played an important role in osmotic/drought or salt tolerance in ABA signal pathway. FAU - Chen, Li-Miao AU - Chen LM AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Fang, Yi-Sheng AU - Fang YS AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Zhang, Chan-Juan AU - Zhang CJ AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Hao, Qing-Nan AU - Hao QN AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Cao, Dong AU - Cao D AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Yuan, Song-Li AU - Yuan SL AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Chen, Hai-Feng AU - Chen HF AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Yang, Zhong-Lu AU - Yang ZL AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Chen, Shui-Lian AU - Chen SL AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Shan, Zhi-Hui AU - Shan ZH AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Liu, Bao-Hong AU - Liu BH AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Jing-Wang AU - Jing-Wang AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Zhan, Yong AU - Zhan Y AD - Crop Research Institute, Xinjiang Academy of Agricultural and Reclamation Science, Key Lab of Cereal Quality Research and Genetic Improvement, Xinjiang Production and Construction Crops, 832000, Shihezi, China. FAU - Zhang, Xiao-Juan AU - Zhang XJ AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Qiu, De-Zhen AU - Qiu DZ AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. FAU - Li, Wen-Bin AU - Li WB AD - Key Laboratory of Soybean Biology in the Chinese Ministry of Education, Northeast Agricultural University, Harbin, 150030, China. wenbinli@yahoo.com. AD - Division of Soybean Breeding and Seed, Soybean Research & Development Center, CARS (Key Laboratory of Biology and Genetics & Breeding for Soybean in Northeast China, Ministry of Agriculture), Harbin, 150030, China. wenbinli@yahoo.com. FAU - Zhou, Xin-An AU - Zhou XA AD - Key Laboratory of Oil Crop Biology, Ministry of Agriculture, Wuhan, 430062, China. zhouocri@sina.com. AD - Oil Crops Research Institute of Chinese Academy of Agriculture Sciences, Wuhan, 430062, China. zhouocri@sina.com. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20190412 PL - England TA - Sci Rep JT - Scientific reports JID - 101563288 RN - 0 (Qa-SNARE Proteins) RN - 72S9A8J5GW (Abscisic Acid) SB - IM MH - Abscisic Acid/*metabolism MH - Arabidopsis/cytology/genetics/metabolism/physiology MH - *Droughts MH - *Osmosis MH - Phylogeny MH - Plants, Genetically Modified MH - Qa-SNARE Proteins/*genetics MH - Salt Tolerance/*genetics MH - Seeds/genetics MH - Signal Transduction/*genetics MH - Glycine max/genetics MH - Up-Regulation PMC - PMC6461667 COIS- The authors declare no competing interests. EDAT- 2019/04/14 06:00 MHDA- 2020/10/08 06:00 PMCR- 2019/04/12 CRDT- 2019/04/14 06:00 PHST- 2018/08/09 00:00 [received] PHST- 2019/03/24 00:00 [accepted] PHST- 2019/04/14 06:00 [entrez] PHST- 2019/04/14 06:00 [pubmed] PHST- 2020/10/08 06:00 [medline] PHST- 2019/04/12 00:00 [pmc-release] AID - 10.1038/s41598-019-42332-5 [pii] AID - 42332 [pii] AID - 10.1038/s41598-019-42332-5 [doi] PST - epublish SO - Sci Rep. 2019 Apr 12;9(1):5990. doi: 10.1038/s41598-019-42332-5. ##### PUB RECORD ##### ## 10.1104/pp.15.00763 26134161 Xu, Yamagishi et al., 2015 "Xu M, Yamagishi N, Zhao C, Takeshima R, Kasai M, Watanabe S, Kanazawa A, Yoshikawa N, Liu B, Yamada T, Abe J. The Soybean-Specific Maturity Gene E1 Family of Floral Repressors Controls Night-Break Responses through Down-Regulation of FLOWERING LOCUS T Orthologs. Plant Physiol. 2015 Aug;168(4):1735-46. doi: 10.1104/pp.15.00763. Epub 2015 Jul 1. PMID: 26134161; PMCID: PMC4528769." ## PMID- 26134161 OWN - NLM STAT- MEDLINE DCOM- 20160511 LR - 20231213 IS - 1532-2548 (Electronic) IS - 0032-0889 (Print) IS - 0032-0889 (Linking) VI - 168 IP - 4 DP - 2015 Aug TI - The Soybean-Specific Maturity Gene E1 Family of Floral Repressors Controls Night-Break Responses through Down-Regulation of FLOWERING LOCUS T Orthologs. PG - 1735-46 LID - 10.1104/pp.15.00763 [doi] AB - Photoperiodism is a rhythmic change of sensitivity to light, which helps plants to adjust flowering time according to seasonal changes in daylength and to adapt to growing conditions at various latitudes. To reveal the molecular basis of photoperiodism in soybean (Glycine max), a facultative short-day plant, we analyzed the transcriptional profiles of the maturity gene E1 family and two FLOWERING LOCUS T (FT) orthologs (FT2a and FT5a). E1, a repressor for FT2a and FT5a, and its two homologs, E1-like-a (E1La) and E1Lb, exhibited two peaks of expression in long days. Using two different approaches (experiments with transition between light and dark phases and night-break experiments), we revealed that the E1 family genes were expressed only during light periods and that their induction after dawn in long days required a period of light before dusk the previous day. In the cultivar Toyomusume, which lacks the E1 gene, virus-induced silencing of E1La and E1Lb up-regulated the expression of FT2a and FT5a and led to early flowering. Therefore, E1, E1La, and E1Lb function similarly in flowering. Regulation of E1 and E1L expression by light was under the control of E3 and E4, which encode phytochrome A proteins. Our data suggest that phytochrome A-mediated transcriptional induction of E1 and its homologs by light plays a critical role in photoperiodic induction of flowering in soybean. CI - (c) 2015 American Society of Plant Biologists. All Rights Reserved. FAU - Xu, Meilan AU - Xu M AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.). FAU - Yamagishi, Noriko AU - Yamagishi N AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.). FAU - Zhao, Chen AU - Zhao C AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.). FAU - Takeshima, Ryoma AU - Takeshima R AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.). FAU - Kasai, Megumi AU - Kasai M AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.). FAU - Watanabe, Satoshi AU - Watanabe S AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.). FAU - Kanazawa, Akira AU - Kanazawa A AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.). FAU - Yoshikawa, Nobuyuki AU - Yoshikawa N AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.). FAU - Liu, Baohui AU - Liu B AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.) liubh@neigaehrb.ac.cn jabe@res.agr.hokudai.ac.jp. FAU - Yamada, Tetsuya AU - Yamada T AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.). FAU - Abe, Jun AU - Abe J AD - Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin 150081, China (M.X., B.L.);Faculty of Agriculture, Iwate University, Morioka, Iwate 020-8550, Japan (N.Ya., N.Yo.);Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido 060-8589, Japan (C.Z., R.T., M.K., A.K., T.Y., J.A.); andandFaculty of Agriculture, Saga University, Saga 840-0027, Japan (S.W.) liubh@neigaehrb.ac.cn jabe@res.agr.hokudai.ac.jp. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20150701 PL - United States TA - Plant Physiol JT - Plant physiology JID - 0401224 RN - 0 (Plant Proteins) SB - IM MH - Amino Acid Sequence MH - *Down-Regulation MH - Flowers/*genetics MH - Gene Expression Regulation, Plant/radiation effects MH - Light MH - Molecular Sequence Data MH - Photoperiod MH - Plant Proteins/*genetics MH - RNA Interference MH - Reverse Transcriptase Polymerase Chain Reaction MH - Sequence Homology, Amino Acid MH - Glycine max/*genetics PMC - PMC4528769 EDAT- 2015/07/03 06:00 MHDA- 2016/05/12 06:00 PMCR- 2015/07/01 CRDT- 2015/07/03 06:00 PHST- 2015/05/21 00:00 [received] PHST- 2015/06/29 00:00 [accepted] PHST- 2015/07/03 06:00 [entrez] PHST- 2015/07/03 06:00 [pubmed] PHST- 2016/05/12 06:00 [medline] PHST- 2015/07/01 00:00 [pmc-release] AID - pp.15.00763 [pii] AID - PP201500763 [pii] AID - 10.1104/pp.15.00763 [doi] PST - ppublish SO - Plant Physiol. 2015 Aug;168(4):1735-46. doi: 10.1104/pp.15.00763. Epub 2015 Jul 1. ##### PUB RECORD ##### ## 10.1186/s12870-019-2145-8 31852439 Cheng, Dong et al., 2019 "Cheng Q, Dong L, Su T, Li T, Gan Z, Nan H, Lu S, Fang C, Kong L, Li H, Hou Z, Kou K, Tang Y, Lin X, Zhao X, Chen L, Liu B, Kong F. CRISPR/Cas9-mediated targeted mutagenesis of GmLHY genes alters plant height and internode length in soybean. BMC Plant Biol. 2019 Dec 18;19(1):562. doi: 10.1186/s12870-019-2145-8. PMID: 31852439; PMCID: PMC6921449." ## PMID- 31852439 OWN - NLM STAT- MEDLINE DCOM- 20200403 LR - 20231213 IS - 1471-2229 (Electronic) IS - 1471-2229 (Linking) VI - 19 IP - 1 DP - 2019 Dec 18 TI - CRISPR/Cas9-mediated targeted mutagenesis of GmLHY genes alters plant height and internode length in soybean. PG - 562 LID - 10.1186/s12870-019-2145-8 [doi] LID - 562 AB - BACKGROUND: Soybean (Glycine max) is an economically important oil and protein crop. Plant height is a key trait that significantly impacts the yield of soybean; however, research on the molecular mechanisms associated with soybean plant height is lacking. The CRISPR (clustered regularly interspaced short palindromic repeat)/Cas9 (CRISPR-associated system 9) system is a recently developed technology for gene editing that has been utilized to edit the genomes of crop plants. RESULTS: Here, we designed four gRNAs to mutate four LATE ELONGATED HYPOCOTYL (LHY) genes in soybean. In order to test whether the gRNAs could perform properly in transgenic soybean plants, we first tested the CRISPR construct in transgenic soybean hairy roots using Agrobacterium rhizogenes strain K599. Once confirmed, we performed stable soybean transformation and obtained 19 independent transgenic soybean plants. Subsequently, we obtained one T(1) transgene-free homozygous quadruple mutant of GmLHY by self-crossing. The phenotypes of the T(2)-generation transgene-free quadruple mutant plants were observed, and the results showed that the quadruple mutant of GmLHY displayed reduced plant height and shortened internodes. The levels of endogenous gibberellic acid (GA3) in Gmlhy1a1b2a2b was lower than in the wild type (WT), and the shortened internode phenotype could be rescued by treatment with exogenous GA3. In addition, the relative expression levels of GA metabolic pathway genes in the quadruple mutant of GmLHY were significantly decreased in comparison to the WT. These results suggest that GmLHY encodes an MYB transcription factor that affects plant height through mediating the GA pathway in soybean. We also developed genetic markers for identifying mutants for application in breeding studies. CONCLUSIONS: Our results indicate that CRISPR/Cas9-mediated targeted mutagenesis of four GmLHY genes reduces soybean plant height and shortens internodes from 20 to 35 days after emergence (DAE). These findings provide insight into the mechanisms underlying plant height regulatory networks in soybean. FAU - Cheng, Qun AU - Cheng Q AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Dong, Lidong AU - Dong L AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Su, Tong AU - Su T AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Li, Tingyu AU - Li T AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Gan, Zhuoran AU - Gan Z AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Nan, Haiyang AU - Nan H AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Lu, Sijia AU - Lu S AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Fang, Chao AU - Fang C AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Kong, Lingping AU - Kong L AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Li, Haiyang AU - Li H AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Hou, Zhihong AU - Hou Z AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Kou, Kun AU - Kou K AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. AD - University of Chinese Academy of Sciences, Beijing, China. FAU - Tang, Yang AU - Tang Y AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Lin, Xiaoya AU - Lin X AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Zhao, Xiaohui AU - Zhao X AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Chen, Liyu AU - Chen L AD - School of Life Sciences, Guangzhou University, Guangzhou, China. FAU - Liu, Baohui AU - Liu B AD - School of Life Sciences, Guangzhou University, Guangzhou, China. liubh@iga.ac.cn. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. liubh@iga.ac.cn. FAU - Kong, Fanjiang AU - Kong F AUID- ORCID: 0000-0001-7138-1478 AD - School of Life Sciences, Guangzhou University, Guangzhou, China. kongfj@gzhu.edu.cn. AD - The Innovative Academy of Seed Design, Key Laboratory of Soybean Molecular Design Breeding, Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. kongfj@gzhu.edu.cn. LA - eng GR - 31901568/National Natural Science Foundation of China/ GR - 31771815/National Natural Science Foundation of China/ GR - 31701445/National Natural Science Foundation of China/ GR - 31801384/National Natural Science Foundation of China/ GR - 31725021/National Outstanding Youth Foundation of China/ GR - 2017YFE0111000/Natural Key R&D Program of China/ GR - 2016YFD0100400/Natural Key R&D Program of China/ PT - Journal Article DEP - 20191218 PL - England TA - BMC Plant Biol JT - BMC plant biology JID - 100967807 SB - IM MH - *CRISPR-Cas Systems MH - *Gene Editing MH - *Genes, Plant MH - *Mutagenesis MH - Plants, Genetically Modified MH - Glycine max/genetics/*growth & development PMC - PMC6921449 OTO - NOTNLM OT - CRISPR/Cas9 OT - LHY OT - Plant height OT - Soybean OT - Transgene-free COIS- The authors have no competing interests to declare. EDAT- 2019/12/20 06:00 MHDA- 2020/04/04 06:00 PMCR- 2019/12/18 CRDT- 2019/12/20 06:00 PHST- 2019/08/20 00:00 [received] PHST- 2019/11/18 00:00 [accepted] PHST- 2019/12/20 06:00 [entrez] PHST- 2019/12/20 06:00 [pubmed] PHST- 2020/04/04 06:00 [medline] PHST- 2019/12/18 00:00 [pmc-release] AID - 10.1186/s12870-019-2145-8 [pii] AID - 2145 [pii] AID - 10.1186/s12870-019-2145-8 [doi] PST - epublish SO - BMC Plant Biol. 2019 Dec 18;19(1):562. doi: 10.1186/s12870-019-2145-8. ##### PUB RECORD ##### ## 10.1093/jxb/erz199 31035293 Takeshima, Nan, et al., 2019 "Takeshima R, Nan H, Harigai K, Dong L, Zhu J, Lu S, Xu M, Yamagishi N, Yoshikawa N, Liu B, Yamada T, Kong F, Abe J. Functional divergence between soybean FLOWERING LOCUS T orthologues FT2a and FT5a in post-flowering stem growth. J Exp Bot. 2019 Aug 7;70(15):3941-3953. doi: 10.1093/jxb/erz199. PMID: 31035293; PMCID: PMC6685666." ## PMID- 31035293 OWN - NLM STAT- MEDLINE DCOM- 20200720 LR - 20231213 IS - 1460-2431 (Electronic) IS - 0022-0957 (Print) IS - 0022-0957 (Linking) VI - 70 IP - 15 DP - 2019 Aug 7 TI - Functional divergence between soybean FLOWERING LOCUS T orthologues FT2a and FT5a in post-flowering stem growth. PG - 3941-3953 LID - 10.1093/jxb/erz199 [doi] AB - Genes in the FLOWERING LOCUS T (FT) family integrate external and internal signals to control various aspects of plant development. In soybean (Glycine max), FT2a and FT5a play a major role in floral induction, but their roles in post-flowering reproductive development remain undetermined. Ectopic overexpression analyses revealed that FT2a and FT5a similarly induced flowering, but FT5a was markedly more effective than FT2a for the post-flowering termination of stem growth. The down-regulation of Dt1, a soybean orthologue of Arabidopsis TERMINAL FLOWER1, in shoot apices in early growing stages of FT5a-overexpressing plants was concomitant with highly up-regulated expression of APETALA1 orthologues. The Dt2 gene, a repressor of Dt1, was up-regulated similarly by the overexpression of FT2a and FT5a, suggesting that it was not involved in the control of stem termination by FT5a. In addition to the previously reported interaction with FDL19, a homologue of the Arabidopsis bZIP protein FD, both FT2a and FT5a interacted with FDL12, but only FT5a interacted with FDL06. Our results suggest that FT2a and FT5a have different functions in the control of post-flowering stem growth. A specific interaction of FT5a with FDL06 may play a key role in determining post-flowering stem growth in soybean. CI - (c) The Author(s) 2019. Published by Oxford University Press on behalf of the Society for Experimental Biology. FAU - Takeshima, Ryoma AU - Takeshima R AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, Japan. AD - Institute of Crop Science, National Agriculture and Food Research Organization, Tsukuba, Ibaraki, Japan. FAU - Nan, Haiyang AU - Nan H AD - School of Life Science, Guangzhou University, Guangzhou, China. FAU - Harigai, Kohei AU - Harigai K AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, Japan. FAU - Dong, Lidong AU - Dong L AD - School of Life Science, Guangzhou University, Guangzhou, China. FAU - Zhu, Jianghui AU - Zhu J AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, Japan. FAU - Lu, Sijia AU - Lu S AD - School of Life Science, Guangzhou University, Guangzhou, China. FAU - Xu, Meilan AU - Xu M AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, Japan. AD - Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. FAU - Yamagishi, Noriko AU - Yamagishi N AD - Faculty of Agriculture, Iwate University, Morioka, Iwate, Japan. FAU - Yoshikawa, Nobuyuki AU - Yoshikawa N AD - Faculty of Agriculture, Iwate University, Morioka, Iwate, Japan. FAU - Liu, Baohui AU - Liu B AD - School of Life Science, Guangzhou University, Guangzhou, China. AD - Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. FAU - Yamada, Tetsuya AU - Yamada T AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, Japan. FAU - Kong, Fanjiang AU - Kong F AD - School of Life Science, Guangzhou University, Guangzhou, China. AD - Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Harbin, China. FAU - Abe, Jun AU - Abe J AD - Research Faculty of Agriculture, Hokkaido University, Sapporo, Hokkaido, Japan. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PL - England TA - J Exp Bot JT - Journal of experimental botany JID - 9882906 RN - 0 (Plant Proteins) SB - IM MH - Flowers/genetics/*growth & development/*metabolism MH - Gene Expression Regulation, Plant/genetics/physiology MH - Plant Proteins/genetics/*metabolism MH - Plant Stems/genetics/*growth & development/*metabolism MH - Glycine max/genetics/*growth & development/*metabolism PMC - PMC6685666 OTO - NOTNLM OT - FD OT - FLOWERING LOCUS T OT - FT2a OT - FT5a OT - bZIP transcription factor OT - post-flowering stem growth OT - soybean EDAT- 2019/04/30 06:00 MHDA- 2020/07/21 06:00 PMCR- 2019/04/30 CRDT- 2019/04/30 06:00 PHST- 2018/11/09 00:00 [received] PHST- 2019/04/17 00:00 [accepted] PHST- 2019/04/30 06:00 [pubmed] PHST- 2020/07/21 06:00 [medline] PHST- 2019/04/30 06:00 [entrez] PHST- 2019/04/30 00:00 [pmc-release] AID - 5481682 [pii] AID - erz199 [pii] AID - 10.1093/jxb/erz199 [doi] PST - ppublish SO - J Exp Bot. 2019 Aug 7;70(15):3941-3953. doi: 10.1093/jxb/erz199.