--- identifier: Wm82.gnm1.mrk.SoySNP50K genotyping_platform: SoySNP50K synopsis: "SoySNP50K is an Illumina Infinium II BeadChip that contains over 50,000 SNPs from soybean useful for genotyping a wide variety of cultivated and wild soybean accessions." related_to: Wm82.gnm1.FCtY scientific_name: Glycine max taxid: 3847 scientific_name_abbrev: glyma genotype: - Williams 82 description: "SoySNP50K is an Illumina Infinium II BeadChip that contains over 50,000 SNPs from soybean. Of 60,800 SNPs, 50,701 were targeted to euchromatic regions and 10,000 to heterochromatic regions of the 20 soybean chromosomes. In addition, 99 SNPs were targeted to unanchored sequence scaffolds. Of the 60,800 SNPs, a total of 52,041 passed Illumina’s manufacturing phase to produce the SoySNP50K iSelect BeadChip. Validation of the SoySNP50K chip with 96 landrace genotypes, 96 elite cultivars and 96 wild soybean accessions showed that 47,337 SNPs were polymorphic and generated successful SNP allele calls. In addition, 40,841 of the 47,337 SNPs (86%) had minor allele frequencies ≥10% among the landraces, elite cultivars and the wild soybean accessions." publication_doi: 10.1371/journal.pone.0054985 publication_title: "Development and evaluation of SoySNP50K, a high-density genotyping array for soybean" contributors: "Qijian Song, David L Hyten, Gaofeng Jia, Charles V Quigley, Edward W Fickus, Randall L Nelson, Perry B Cregan" citation: "Song Q, Hyten DL, Jia G, Quigley CV, Fickus EW, Nelson RL, Cregan PB. Development and evaluation of SoySNP50K, a high-density genotyping array for soybean. PLoS One. 2013;8(1):e54985. doi: 10.1371/journal.pone.0054985. Epub 2013 Jan 25. PMID: 23372807; PMCID: PMC3555945." data_curators: Steven Cannon public_access_level: public license: Open keywords: soybean, genetic markers, genotyping