Widespread incomplete lineage sorting and introgression shaped adaptive radiation in the Gossypium genus

文献类型： 外文期刊

第一作者： Xu, Yanchao

作者： Xu, Yanchao;Zhou, Zhongli;Cai, Xiaoyan;Umer, Muhammad Jawad;Hou, Yuqing;Wang, Yuhong;Wang, Kunbo;Yu, Shuxun;Liu, Fang;Xu, Yanchao;Wei, Yangyang;Liu, Yuling;Peng, Renhai;Xu, Yanchao;Cai, Xiaoyan;Boden, Scott A.;Safdar, Luqman B.;Jin, Dingsha;Wall, Sarah Brooke;Zhang, Baohong;Liu, Fang

作者机构：

关键词： cotton speciation; Gossypium genus; incomplete lineage sorting; ILS; phylogenetic analysis; gene tree resolution

期刊名称：PLANT COMMUNICATIONS （ 影响因子：10.5； 五年影响因子：10.5 ）

ISSN： 2590-3462

年卷期： 2024 年 5 卷 2 期

页码：

收录情况： SCI

摘要： Cotton (Gossypium) stands as a crucial economic crop, serving as the primary source of natural fiber for the textile sector. However, the evolutionary mechanisms driving speciation within the Gossypium genus remain unresolved. In this investigation, we leveraged 25 Gossypium genomes and introduced four novel assemblies-G. harknessii, G. gossypioides, G. trilobum, and G. klotzschianum (Gklo)-to delve into the speciation history of this genus. Notably, we encountered intricate phylogenies potentially stemming from introgression. These complexities are further compounded by incomplete lineage sorting (ILS), a factor likely to have been instrumental in shaping the swift diversification of cotton. Our focus subsequently shifted to the rapid radiation episode during a concise period in Gossypium evolution. For a recently diverged lineage comprising G. davidsonii, Gklo, and G. raimondii, we constructed a finely detailed ILS map. Intriguingly, this analysis revealed the non-random distribution of ILS regions across the reference Gklo genome. Moreover, we identified signs of robust natural selection influencing specific ILS regions. Noteworthy variations pertaining to speciation emerged between the closely related sister species Gklo and G. davidsonii. Approximately 15.74% of speciation structural variation genes and 12.04% of speciation-associated genes were estimated to intersect with ILS signatures. These findings enrich our understanding of the role of ILS in adaptive radiation, shedding fresh light on the intricate speciation history of the Gossypium genus.

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