Pervasive incomplete lineage sorting illuminates speciation and selection in primates

	Pervasive incomplete lineage sorting illuminates speciation and selection in primates
	Rivas-González, I; Rousselle, M; Li, F; Zhou, L; Dutheil, JY; Munch, K; Shao, Y; Wu, DD; Schierup, MH; Zhang, GJ
	2023
发表期刊	SCIENCE
ISSN	0036-8075
卷号	380 期号:6648 页码:925+
摘要	Incomplete lineage sorting (ILS) causes the phylogeny of some parts of the genome to differ from the species tree. In this work, we investigate the frequencies and determinants of ILS in 29 major ancestral nodes across the entire primate phylogeny. We find up to 64% of the genome affected by ILS at individual nodes. We exploit ILS to reconstruct speciation times and ancestral population sizes. Estimated speciation times are much more recent than genomic divergence times and are in good agreement with the fossil record. We show extensive variation of ILS along the genome, mainly driven by recombination but also by the distance to genes, highlighting a major impact of selection on variation along the genome. In many nodes, ILS is reduced more on the X chromosome compared with autosomes than expected under neutrality, which suggests higher impacts of natural selection on the X chromosome. Finally, we show an excess of ILS in genes with immune functions and a deficit of ILS in housekeeping genes. The extensive ILS in primates discovered in this study provides insights into the speciation times, ancestral population sizes, and patterns of natural selection that shape primate evolution.
收录类别	SCI
语种	英语
文献类型	期刊论文
条目标识符	http://ir.kiz.ac.cn/handle/152453/14021
专题	科研部门_遗传多样性基因组学研究组（张国捷）
推荐引用方式 GB/T 7714	Rivas-González, I,Rousselle, M,Li, F,et al. Pervasive incomplete lineage sorting illuminates speciation and selection in primates[J]. SCIENCE,2023,380(6648):925+.
APA	Rivas-González, I.,Rousselle, M.,Li, F.,Zhou, L.,Dutheil, JY.,...&Zhang, GJ.(2023).Pervasive incomplete lineage sorting illuminates speciation and selection in primates.SCIENCE,380(6648),925+.
MLA	Rivas-González, I,et al."Pervasive incomplete lineage sorting illuminates speciation and selection in primates".SCIENCE 380.6648(2023):925+.

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