---
identifier: Wm82.gnm2.mrk.Han_Zhao_2015

synopsis: "SNP markers generated Specific Locus Amplified Fragment Sequencing (SLAF-seq) approach, and showing association with resistance against two soybean cyst nematode types."

scientific_name: Glycine max

taxid: 3847

scientific_name_abbrev: glyma

genotyping_platform: Han_Zhao_2015

genotype: 
  - Wm82

description: "The Genomic DNA of the 440 accessions were partially sequenced using specific-locus amplified fragment sequen- cing (SLAF-seq) approach by Illumina Genome Analyzer II. The 347 million paired-end reads with 45 bp read length were mapped to the reference soybean genome (Wm82.a2.v1) and a mean of 57,418 high quality tags were identified from paired-end reads for each accession. A data set of 36,976 SNPs at Minor Allele Fre- quency (MAF)≥4 % was generated from 57,418 high quality tags. The rate of missing data was controlled at less than 10 % for each accession. The set of SNPs covered 20 chromosomes of soybean. The resulting SNP density of one SNP per 27 Kbp was available in the present study."

publication_doi: "10.1186/s12864-015-1800-1"

publication_title: "Genetic characteristics of soybean resistance to HG type 0 and HG type 1.2.3.5.7 of the cyst nematode analyzed by genome-wide association mapping."

contributors: Han Y., Zhao X., Cao G., Wang Y., Li Y., Liu D., Teng W., Zhang Z., Qiu H., Li W.

citation: "Han Y, Zhao X, Cao G, Wang Y, Li Y, Liu D, Teng W, Zhang Z, Li D, Qiu L, Zheng H, Li W. Genetic characteristics of soybean resistance to HG type 0 and HG type 1.2.3.5.7 of the cyst nematode analyzed by genome-wide association mapping. BMC Genomics. 2015 Aug 13;16(1):598. doi: 10.1186/s12864-015-1800-1. PMID: 26268218; PMCID: PMC4542112."

data_curators: Samuel Clouse

public_access_level: public

license: Open