Genomic insights into divergence and dual domestication of cultivated allotetraploid cottons.
Genomic insights into divergence and dual domestication of cultivated allotetraploid cottons.
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栽培异源四倍体棉花的分化和双重驯化的基因组见解
DOI：
10.1186/s13059-017-1167-5
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发表时间：
2017-02-20
期刊：
影响因子：
12.3
通讯作者：
Huang X
中科院分区：
文献类型：
--
作者：
Fang L;Gong H;Hu Y;Liu C;Zhou B;Huang T;Wang Y;Chen S;Fang DD;Du X;Chen H;Chen J;Wang S;Wang Q;Wan Q;Liu B;Pan M;Chang L;Wu H;Mei G;Xiang D;Li X;Cai C;Zhu X;Chen ZJ;Han B;Chen X;Guo W;Zhang T;Huang X
背景棉花的种植和用于制造织物的历史至少有 7000 年。陆地棉和海岛棉这两个具有重大商业价值的异源四倍体物种在多倍体化后被驯化并在世界范围内种植。尽管对这两个栽培品种之间的总体遗传多样性进行了有限的研究，但它们的群体结构和遗传变异仍然很大程度上未知。结果我们对147个棉花品种的基因组进行了重新测序，包括不同的野生近缘种、地方品种和现代栽培品种，并构建了全面的变异图谱，为这两个重要的栽培四倍体棉花品种的分化和双重驯化提供基因组见解。系统发育分析显示G有两个不同的群体。陆地草和G.巴巴多斯，表明四倍体棉花存在双重驯化过程。尽管存在很大的遗传差异，但在这些物种之间发现了少量种间相互渗入事件，并且渗入模式显着偏向于来自G的基因流。陆地草G.巴巴多斯。我们确定了选择性扫描，其中一些与相对高表达的纤维发育和种子萌发基因相关。结论我们报告了基于G.之间的全基因组变异对异源四倍体棉花的进化和驯化历史的全面分析。陆地草和G.巴巴多斯和介于野生品种和现代品种之间。这些结果为提高棉花产量和进一步分析多倍体作物的进化分析提供了基因组基础。
BackgroundCotton has been cultivated and used to make fabrics for at least 7000 years. Two allotetraploid species of great commercial importance,Gossypium hirsutumandGossypium barbadense, were domesticated after polyploidization and are cultivated worldwide. Although the overall genetic diversity between these two cultivated species has been studied with limited accessions, their population structure and genetic variations remain largely unknown.ResultsWe resequence the genomes of 147 cotton accessions, including diverse wild relatives, landraces, and modern cultivars, and construct a comprehensive variation map to provide genomic insights into the divergence and dual domestication of these two important cultivated tetraploid cotton species. Phylogenetic analysis shows two divergent groups forG. hirsutumandG. barbadense, suggesting a dual domestication processes in tetraploid cottons. In spite of the strong genetic divergence, a small number of interspecific reciprocal introgression events are found between these species and the introgression pattern is significantly biased towards the gene flow fromG. hirsutumintoG. barbadense. We identify selective sweeps, some of which are associated with relatively highly expressed genes for fiber development and seed germination.ConclusionsWe report a comprehensive analysis of the evolution and domestication history of allotetraploid cottons based on the whole genomic variation betweenG. hirsutumandG. barbadenseand between wild accessions and modern cultivars. These results provide genomic bases for improving cotton production and for further evolution analysis of polyploid crops.