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ARS Home » Pacific West Area » Pullman, Washington » Plant Germplasm Introduction and Testing Research » Research » Publications at this Location » Publication #313221

Research Project: Management of Plant Genetic Resources and Associated Information

Location: Plant Germplasm Introduction and Testing Research

Title: Genotyping by sequencing reveals the genetic diversity of the USDA pisum diversity collection

Author
item Holdsworth, William - Cornell University - New York
item Ma, Yu - Washington State University
item Cheng, Peng - Washington State University
item Mcgee, Rebecca
item Coyne, Clarice - Clare
item Gore, Michael - Cornell University - New York
item Mazourek, Michael - Cornell University - New York

Submitted to: Plant and Animal Genome Conference
Publication Type: Abstract Only
Publication Acceptance Date: 11/30/2014
Publication Date: 1/10/2015
Citation: Holdsworth, W., Ma, Y., Cheng, P., Mcgee, R.J., Coyne, C.J., Gore, M., Mazourek, M. 2015. Genotyping by sequencing reveals the genetic diversity of the USDA pisum diversity collection [Abstract]. Plant and Animal Genome Conference. https://pag.confex.com/pag/xxiii/webprogram/Paper14071.html.

Interpretive Summary:

Technical Abstract: The USDA expanded Pisum Single Plant (PSP) core collection is a unique resource that represents the breadth of the genetic diversity of the genus in an inbred format that facilitates genetic study. The collection includes inbred accessions from the refined pea core collection, parent lines of USDA recombinant inbred (RIL) populations, accessions from U.S. pea breeding programs, and Pisum sativum subspecies from diverse geographies worldwide. Genetic characterization of this collection is useful in order to evaluate its potential as a community resource for trait mapping and breeding. In this study, genotyping-by-sequencing was used to sequence 452 Pisum spp. accessions from the expanded PSP collection as well as 25 accessions belonging to the wild species Pisum fulvum. Over 10,000 SNPs were called, and a linkage map derived from a biparental RIL population of ‘Aragorn’ x ‘Kiflica’ was used to anchor a subset of these SNPs for downstream applications such as genome-wide association mapping and the elucidation of alleles contributing to structural variation within the collection. The largest amount of genetic variation was contained in accessions belonging to subgroups that consisted of wild species and subspecies, highlighting the value of these accessions as a source of diversity to enrich the otherwise narrow genetic base of cultivated pea.