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Title 

Population structure and domestication revealed by high-depth resequencing of korean cultivated and wild soybean genomes

Authors 

Won Hyung ChungNamhee JeongJiwoong KimWoo Kyu LeeYun Gyeong LeeSang Heon LeeWoongchang YoonJ H KimI Y ChoiH K ChoiJ K MoonNamshin KimSoon Chun Jeong

Publisher 

Oxford University Press (OUP)

Issue Date 

2014

Citation 

DNA Research, vol. 21, no. 2, pp. 153-167

Keywords 

DomesticationResequencingSoybeanVariation

Abstract 

Despite the importance of soybean as a major crop, genome-wide variation and evolution of cultivated soybeans are largely unknown. Here, we catalogued genome variation in an annual soybean population by high-depth resequencing of 10 cultivated and 6 wild accessions and obtained 3.87 million high-quality single-nucleotide polymorphisms (SNPs) after excluding the sites with missing data in any accession. Nuclear genome phylogeny supported a single origin for the cultivated soybeans. We identified 10-fold longer linkage disequilibrium (LD) in the wild soybean relative to wild maize and rice. Despite the small population size, the long LD and large SNP data allowed us to identify 206 candidate domestication regions with significantly lower diversity in the cultivated, but not in the wild, soybeans. Some of the genes in these candidate regions were associated with soybean homologues of canonical domestication genes. However, several examples, which are likely specific to soybean or eudicot crop plants, were also observed. Consequently, the variation data identified in this study should be valuable for breeding and for identifying agronomically important genes in soybeans. However, the long LD of wild soybeans may hinder pinpointing causal gene(s) in the candidate regions.

ISSN 

1340-2838

Link 

http://dx.doi.org/10.1093/dnares/dst047

Appears in Collections

1. Journal Articles > Journal Articles

Registered Date

2019-05-02


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