Lineage-specific plastid degradation in subtribe Gentianinae (Gentianaceae)

	Lineage-specific plastid degradation in subtribe Gentianinae (Gentianaceae)
	Fu, Peng-Cheng; Sun, Shan-Shan; Twyford, Alex D.; Li, Bei-Bei; Zhou, Rui-Qi; Chen, Shi-Long; Gao, Qing-Bo; Favre, Adrien
刊名	ECOLOGY AND EVOLUTION
	2021
卷号	11 期号:7
关键词	divergence dating molecular evolution ndh complex plastome substitution rate subtribe Gentianinae
英文摘要	The structure and sequence of plastid genomes is highly conserved across most land plants, except for a minority of lineages that show gene loss and genome degradation. Understanding the early stages of plastome degradation may provide crucial insights into the repeatability and predictability of genomic evolutionary trends. We investigated these trends in subtribe Gentianinae of the Gentianaceae, which encompasses ca. 450 species distributed around the world, particularly in alpine and subalpine environments. We sequenced, assembled, and annotated the plastomes of 41 species, representing all six genera in subtribe Gentianinae and all main sections of the species-rich genus Gentiana L. We reconstructed the phylogeny, estimated divergence times, investigated the phylogenetic distribution of putative gene losses, and related these to substitution rate shifts and species' habitats. We obtained a strongly supported topology consistent with earlier studies, with all six genera in Gentianinae recovered as monophyletic and all main sections of Gentiana having full support. While closely related species have very similar plastomes in terms of size and structure, independent gene losses, particularly of the ndh complex, have occurred in multiple clades across the phylogeny. Gene loss was usually associated with a shift in the boundaries of the small single-copy and inverted repeat regions. Substitution rates were variable between clades, with evidence for both elevated and decelerated rate shifts. Independent lineage-specific loss of ndh genes occurred at a wide range of times, from Eocene to Pliocene. Our study illustrates that diverse degradation patterns shape the evolution of the plastid in this species-rich plant group.
内容类型	期刊论文
源URL	[http://210.75.249.4/handle/363003/60849]
专题	西北高原生物研究所_中国科学院西北高原生物研究所
推荐引用方式 GB/T 7714	Fu, Peng-Cheng,Sun, Shan-Shan,Twyford, Alex D.,et al. Lineage-specific plastid degradation in subtribe Gentianinae (Gentianaceae)[J]. ECOLOGY AND EVOLUTION,2021,11(7).
APA	Fu, Peng-Cheng.,Sun, Shan-Shan.,Twyford, Alex D..,Li, Bei-Bei.,Zhou, Rui-Qi.,...&Favre, Adrien.(2021).Lineage-specific plastid degradation in subtribe Gentianinae (Gentianaceae).ECOLOGY AND EVOLUTION,11(7).
MLA	Fu, Peng-Cheng,et al."Lineage-specific plastid degradation in subtribe Gentianinae (Gentianaceae)".ECOLOGY AND EVOLUTION 11.7(2021).