title: Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean.
abstract: Understanding soybean (Glycine max) domestication and improvement at a genetic level is important to inform future efforts to further improve a crop that provides the world's main source of oilseed. We detect 230 selective sweeps and 162 selected copy number variants by analysis of 302 resequenced wild, landrace and improved soybean accessions at >11× depth. A genome-wide association study using these new sequences reveals associations between 10 selected regions and 9 domestication or improvement traits, and identifies 13 previously uncharacterized loci for agronomic traits including oil content, plant height and pubescence form. Combined with previous quantitative trait loci (QTL) information, we find that, of the 230 selected regions, 96 correlate with reported oil QTLs and 21 contain fatty acid biosynthesis genes. Moreover, we observe that some traits and loci are associated with geographical regions, which shows that soybean populations are structured geographically. This study provides resources for genomics-enabled improvements in soybean breeding.
authors: State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
authors: Zhengkui
authors: Z
authors: Zhou
authors: 1] State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China. [2] College of Animal Science and Technology, Northwest A&F University, Yangling, China.
authors: Yu
authors: 0000000348213585
authors: Y
authors: Jiang
authors: State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
authors: Zheng
authors: Z
authors: Wang
authors: 1] State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China. [2] University of Chinese Academy of Sciences, Beijing, China.
authors: Zhiheng
authors: Z
authors: Gou
authors: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors: Jun
authors: J
authors: Lyu
authors: State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
authors: Weiyu
authors: W
authors: Li
authors: Institute of Microbiology, Chinese Academy of Sciences, Beijing, China.
authors: Yanjun
authors: Y
authors: Yu
authors: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors: Liping
authors: L
authors: Shu
authors: 1] State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China. [2] University of Chinese Academy of Sciences, Beijing, China.
authors: Yingjun
authors: Y
authors: Zhao
authors: State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
authors: Yanming
authors: Y
authors: Ma
authors: 1] State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. [2] University of Chinese Academy of Sciences, Beijing, China.
authors: Chao
authors: C
authors: Fang
authors: 1] State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. [2] University of Chinese Academy of Sciences, Beijing, China.
authors: Yanting
authors: Y
authors: Shen
authors: 1] State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. [2] University of Chinese Academy of Sciences, Beijing, China.
authors: Tengfei
authors: T
authors: Liu
authors: 1] State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. [2] University of Chinese Academy of Sciences, Beijing, China.
authors: Congcong
authors: C
authors: Li
authors: 1] State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. [2] University of Chinese Academy of Sciences, Beijing, China.
authors: Qing
authors: Q
authors: Li
authors: State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
authors: Mian
authors: M
authors: Wu
authors: 1] State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China. [2] University of Chinese Academy of Sciences, Beijing, China.
authors: Min
authors: M
authors: Wang
authors: State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
authors: Yunshuai
authors: Y
authors: Wu
authors: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors: Yang
authors: Y
authors: Dong
authors: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors: Wenting
authors: W
authors: Wan
authors: 1] State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China. [2] University of Chinese Academy of Sciences, Beijing, China.
authors: Xiao
authors: X
authors: Wang
authors: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors: Zhaoli
authors: Z
authors: Ding
authors: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors: Yuedong
authors: Y
authors: Gao
authors: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors: Hui
authors: H
authors: Xiang
authors: State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
authors: Baoge
authors: B
authors: Zhu
authors: Department of Plant Science and Research Institute for Agriculture and Life Sciences, Seoul National University, Seoul, Korea.
authors: Suk-Ha
authors: SH
authors: Lee
authors: State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.
authors: Wen
authors: W
authors: Wang
authors: State Key Laboratory of Plant Cell and Chromosome Engineering, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China.
authors: Zhixi
authors: Z
authors: Tian
mesh_terms: D002874:Chromosome Mapping / Q000379:methods*; D056915:DNA Copy Number Variations / Q000235:genetics*; D024861:Genetic Enhancement / Q000379:methods*; D018745:Genome, Plant / Q000235:genetics*; D040641:Quantitative Trait Loci; D017422:Sequence Analysis, DNA / Q000379:methods*; D013025:Glycine max / Q000235:genetics*
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