---
identifier: Wm82.gnm6.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.gnm6.JFPQ

scientific_name: Glycine max

taxid: 3847

scientific_name_abbrev: glyma

genotype:
  - Wm82

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