State Key Laboratory of Agrobiotechnology and School of Life Sciences, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong.
Nat Genet. 2010 Dec;42(12):1053-9. doi: 10.1038/ng.715. Epub 2010 Nov 14.
We report a large-scale analysis of the patterns of genome-wide genetic variation in soybeans. We re-sequenced a total of 17 wild and 14 cultivated soybean genomes to an average of approximately ×5 depth and >90% coverage using the Illumina Genome Analyzer II platform. We compared the patterns of genetic variation between wild and cultivated soybeans and identified higher allelic diversity in wild soybeans. We identified a high level of linkage disequilibrium in the soybean genome, suggesting that marker-assisted breeding of soybean will be less challenging than map-based cloning. We report linkage disequilibrium block location and distribution, and we identified a set of 205,614 tag SNPs that may be useful for QTL mapping and association studies. The data here provide a valuable resource for the analysis of wild soybeans and to facilitate future breeding and quantitative trait analysis.
我们报告了大豆全基因组遗传变异模式的大规模分析。我们使用 Illumina Genome Analyzer II 平台对总共 17 个野生和 14 个栽培大豆基因组进行了重新测序，平均深度约为×5，覆盖率超过 90%。我们比较了野生和栽培大豆之间遗传变异的模式，并在野生大豆中发现了更高的等位基因多样性。我们在大豆基因组中发现了高水平的连锁不平衡，这表明大豆的标记辅助育种将比基于图谱的克隆更具挑战性。我们报告了连锁不平衡块的位置和分布，并鉴定了一组 205614 个可能对 QTL 作图和关联研究有用的标记单核苷酸多态性。这里的数据为野生大豆的分析提供了有价值的资源，并有助于未来的育种和数量性状分析。
