--- identifier: A17.gnm5.div.Epstein_Burghardt_2022 provenance: Medicago HapMap Project, data originally hosted at http://medicagohapmap.org before being formally transferred to LIS as its primary repository source: "https://medicago.legumeinfo.org" synopsis: "Variant calling against Mt5.0 reference from Illumina-based whole genome resequencing across accessions from Medicago HapMap Collection." related_to: A17.gnm5.MVZ2 scientific_name: Medicago truncatula taxid: 3880 scientific_name_abbrev: medtr genotype: - 262 Medicago truncatula accessions, plus representatives of various Medicago sister taxa description: "262 Medicago truncatula accessions were sequenced using Illumina. 55 accessions representing sister taxa and deeply derived lines were also sequenced. Reads were aligned to the M. truncatula v4.0 reference genome, representing the A17 genotype (HM101, Young et al, 2011). Twenty-six M. truncatula accessions (HM001-HM016, HM019-HM021, HM023-HM028, and HM101) were sequenced to 15X average aligned depth. The remaining accessions were sequenced to an average coverage depth of ~6X (Branca et al, 2011; Stanton­Geddes et al, 2013). The 262 Medicago truncatula accessions are the ones used for GWAS studies. The SNP calls for Sister Taxa lines are also available. See Mt5_SNP_calling_pipeline.pdf for more details." bioproject: PRJNA256006 sraproject: SRP044779 original_file_creation_date: "2022-02-25" local_file_creation_date: "2022-02-25" dataset_release_date: "2022-02-25" contributors: "Epstein, Brendan; Young, Nevin" data_curators: Andrew Farmer public_access_level: public license: Open keywords: Medicago, SNP, GWAS