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 >11times 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.
%0 Journal Article
%1 zhou2015resequencing
%A Zhou, Zhengkui
%A Jiang, Yu
%A Wang, Zheng
%A Gou, Zhiheng
%A Lyu, Jun
%A Li, Weiyu
%A Yu, Yanjun
%A Shu, Liping
%A Zhao, Yingjun
%A Ma, Yanming
%A Fang, Chao
%A Shen, Yanting
%A Liu, Tengfei
%A Li, Congcong
%A Li, Qing
%A Wu, Mian
%A Wang, Min
%A Wu, Yunshuai
%A Dong, Yang
%A Wan, Wenting
%A Wang, Xiao
%A Ding, Zhaoli
%A Gao, Yuedong
%A Xiang, Hui
%A Zhu, Baoge
%A Lee, Suk-Ha
%A Wang, Wen
%A Tian, Zhixi
%D 2015
%I Nature Publishing Group
%J Nat Biotech
%K domestication parallel_adaptation population_genomics scans_for_selection soybean spatial_structure
%N 4
%P 408--414
%T Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean
%U http://dx.doi.org/10.1038/nbt.3096
%V 33
%X 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 >11times 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.
@article{zhou2015resequencing,
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[times] 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.},
added-at = {2015-12-04T01:42:32.000+0100},
author = {Zhou, Zhengkui and Jiang, Yu and Wang, Zheng and Gou, Zhiheng and Lyu, Jun and Li, Weiyu and Yu, Yanjun and Shu, Liping and Zhao, Yingjun and Ma, Yanming and Fang, Chao and Shen, Yanting and Liu, Tengfei and Li, Congcong and Li, Qing and Wu, Mian and Wang, Min and Wu, Yunshuai and Dong, Yang and Wan, Wenting and Wang, Xiao and Ding, Zhaoli and Gao, Yuedong and Xiang, Hui and Zhu, Baoge and Lee, Suk-Ha and Wang, Wen and Tian, Zhixi},
biburl = {https://www.bibsonomy.org/bibtex/2b12c9e05a7c7dac7403213e719838686/peter.ralph},
interhash = {b31b75f20fde7a76aa5d9f530d28f5fb},
intrahash = {b12c9e05a7c7dac7403213e719838686},
issn = {10870156},
journal = {Nat Biotech},
keywords = {domestication parallel_adaptation population_genomics scans_for_selection soybean spatial_structure},
month = apr,
number = 4,
pages = {408--414},
publisher = {Nature Publishing Group},
timestamp = {2015-12-04T01:42:32.000+0100},
title = {Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean},
url = {http://dx.doi.org/10.1038/nbt.3096},
volume = 33,
year = 2015
}