A community resource for exploring and utilizing genetic diversity in the USDA pea single plant plus collection

Horticulture Research
William L HoldsworthMichael Mazourek

Abstract

Globally, pea (Pisum sativum L.) is an important temperate legume crop for food, feed and fodder, and many breeding programs develop cultivars adapted to these end-uses. In order to assist pea development efforts, we assembled the USDA Pea Single Plant Plus Collection (PSPPC), which contains 431 P. sativum accessions with morphological, geographic and taxonomic diversity. The collection was characterized genetically in order to maximize its value for trait mapping and genomics-assisted breeding. To that end, we used genotyping-by-sequencing-a cost-effective method for de novo single-nucleotide polymorphism (SNP) marker discovery-to generate 66 591 high-quality SNPs. These data facilitated the identification of accessions divergent from mainstream breeding germplasm that could serve as sources of novel, favorable alleles. In particular, a group of accessions from Central Asia appear nearly as diverse as a sister species, P. fulvum, and subspecies, P. sativum subsp. elatius. PSPPC genotypes can be paired with new and existing phenotype data for trait mapping; as proof-of-concept, we localized Mendel's A gene controlling flower color to its known position. We also used SNP data to define a smaller core collection of 108 accessions...Continue Reading

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Citations

Dec 14, 2017·Scientific Reports·Petr SmýkalStergios Pirintsos
Nov 9, 2018·Genes·Oldřich TrněnýPetr Smýkal
Dec 6, 2019·Frontiers in Plant Science·Sarah E Powers, Dil Thavarajah
Dec 19, 2019·Frontiers in Plant Science·Krishna Kishore GaliThomas D Warkentin
Jan 13, 2021·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Arun K PandeyPei Xu
Aug 28, 2021·International Journal of Molecular Sciences·Bianyun YuDengjin Bing

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Datasets Mentioned

BETA
PRJNA379298

Methods Mentioned

BETA
Illumina Sequencing
PCA

Software Mentioned

rworldmap
BLAST
short
PSPPC
UTagCountToTagPairPlugin
R
blastn
Stacks
Perl scripts
GBSX

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