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Linked selection, differential introgression and recombination rate variation promote heterogeneous divergence in a pair of yellow croakers

文献类型： 外文期刊

作者： Wang, Le 1 ; Liu, Shufang 4 ; Yang, Yang 1 ; Meng, Zining 1 ; Zhuang, Zhimeng 4 ;

作者机构： 1.Sun Yat Sen Univ, Sch Life Sci, Inst Aquat Econ Anim, State Key Lab Biocontrol, Guangzhou 510275, Peoples R China

2.Sun Yat Sen Univ, Sch Life Sci, Guangdong Prov Key Lab Aquat Econ Anim, Guangzhou 510275, Peoples R China

3.Natl Univ Singapore, Temasek Life Sci Lab, Res Link 1, Mol Populat Genet Grp, Singapore, Singapore

4.Chinese Acad Fishery Sci, Yellow Sea Fisheries Res Inst, Qingdao, Peoples R China

5.Qingdao Natl Lab Marine Sci & Technol, Funct Lab Marine Biol & Biotechnol, Qingdao, Peoples R China

6.Southern Lab Ocean Sci & Engn, Zhuhai, Peoples R China

关键词： differential introgression; genomic islands; Larimichthys; linked selection; low recombination; secondary contact

期刊名称：MOLECULAR ECOLOGY （ 影响因子：6.622； 五年影响因子：6.895 ）

ISSN： 0962-1083

年卷期： 2022 年 31 卷 22 期

页码：

收录情况： SCI

摘要： Understanding the mechanisms underlying heterogeneous genomic divergence is of particular interest in evolutionary biology. Highly differentiated genomic regions, known as genomic islands, often evolve between diverging lineages. These genomic islands may be related to selection promoting adaptation or reproductive isolation. Based on whole genome assembly and genome-wide RAD sequencing in a pair of yellow croakers (genus: Larimichthys), we investigated the evolutionary processes shaping genomic landscapes of divergence. Demographic modelling indicated that the two species diverged following a secondary contact scenario, where differential introgression and linked selection were suggested to be involved in heterogeneous genomic divergence. We identified reduced recombination rate in genomic islands and a relatively good conservation of both genetic diversity and recombination landscapes between species, which highlight the roles of linked selection and recombination rate variation in promoting heterogeneous divergence in the common ancestral lineage of the two species. In addition, we found a positive correlation between differentiation (F-ST) and absolute sequence divergence (D-xy), and elevated D-xy in genomic islands, indicating that the genomic landscape of divergence was not shaped by linked selection alone. Restricted gene flow in highly differentiated regions has probably remodelled the landscape of heterogeneous genomic divergence. This study highlights that highly differentiated genomic regions can also arise from a combination of linked selection and differential gene flow in interaction with varying recombination rates.

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