Evidence for Adaptation to the Tibetan Plateau Inferred from Tibetan Loach Transcriptomes

CORC > 水生生物研究所 > 中科院水生所知识产出（2009年前） > 水生生物多样性与资源保护研究中心 > 期刊论文

	Evidence for Adaptation to the Tibetan Plateau Inferred from Tibetan Loach Transcriptomes
	Wang, Ying 1,2; Yang, Liandong 1,2; Zhou, Kun 3; Zhang, Yanping 4; Song, Zhaobin 5; He, Shunping 1
刊名	GENOME BIOLOGY AND EVOLUTION
	2015-11-01
卷号	7 期号:11 页码:2970-2982
关键词	Tibetan Plateau adaptation transcriptome accelerated evolution Triplophysa fishes
ISSN号	1759-6653
英文摘要	Triplophysa fishes are the primary component of the fish fauna on the Tibetan Plateau and are well adapted to the high-altitude environment. Despite the importance of Triplophysa fishes on the plateau, the genetic mechanisms of the adaptations of these fishes to this high-altitude environment remain poorly understood. In this study, we generated the transcriptome sequences for three Triplophysa fishes, that is, Triplophysa siluroides, Triplophysa scleroptera, and Triplophysa dalaica, and used these and the previously available transcriptome and genome sequences from fishes living at low altitudes to identify potential genetic mechanisms for the high-altitude adaptations in Triplophysa fishes. An analysis of 2,269 orthologous genes among cave fish (Astyanax mexicanus), zebrafish (Danio rerio), large-scale loach (Paramisgurnus dabryanus), and Triplophysa fishes revealed that each of the terminal branches of the Triplophysa fishes had a significantly higher ratio of nonsynonymous to synonymous substitutions than that of the branches of the fishes from low altitudes, which provided consistent evidence for genome-wide rapid evolution in the Triplophysa genus. Many of the GO (Gene Ontology) categories associated with energy metabolism and hypoxia response exhibited accelerated evolution in the Triplophysa fishes compared with the large-scale loach. The genes that exhibited signs of positive selection and rapid evolution in the Triplophysa fishes were also significantly enriched in energy metabolism and hypoxia response categories. Our analysis identified widespread Triplophysa-specific nonsynonymous mutations in the fast evolving genes and positively selected genes. Moreover, we detected significant evidence of positive selection in the HIF (hypoxia-inducible factor)-1A and HIF-2B genes in Triplophysa fishes and found that the Triplophysa-specific nonsynonymous mutations in the HIF-1A and HIF-2B genes were associated with functional changes. Overall, our study provides new insights into the adaptations and evolution of fishes in the high-altitude environment of the Tibetan Plateau and complements previous findings on the adaptations of mammals and birds to high altitudes.
WOS标题词	Science & Technology ; Life Sciences & Biomedicine
类目[WOS]	Evolutionary Biology ; Genetics & Heredity
研究领域[WOS]	Evolutionary Biology ; Genetics & Heredity
关键词[WOS]	HIGH-ALTITUDE ADAPTATION ; DEER MOUSE HEMOGLOBIN ; PHYLOGENETIC ANALYSES ; MAXIMUM-LIKELIHOOD ; POSITIVE SELECTION ; GENOME SEQUENCE ; HYPOXIA ; EVOLUTION ; PROTEIN ; FISH
收录类别	SCI
语种	英语
WOS记录号	WOS:000364951500002
内容类型	期刊论文
源URL	[http://ir.ihb.ac.cn/handle/342005/27362]
专题	水生生物研究所_水生生物多样性与资源保护研究中心_期刊论文
作者单位	1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China 3.Cent China Normal Univ, Hubei Key Lab Genet Regulat & Integrat Biol, Coll Life Sci, Wuhan, Peoples R China 4.Gansu Fishers Res Inst, Gansu Key Lab Cold Water Fishes Germplasm Resourc, Lanzhou, Peoples R China 5.Sichuan Univ, Coll Life Sci, Sichuan Key Lab Conservat Biol Endangered Wildlif, Chengdu 610064, Peoples R China
推荐引用方式 GB/T 7714	Wang, Ying,Yang, Liandong,Zhou, Kun,et al. Evidence for Adaptation to the Tibetan Plateau Inferred from Tibetan Loach Transcriptomes[J]. GENOME BIOLOGY AND EVOLUTION,2015,7(11):2970-2982.
APA	Wang, Ying,Yang, Liandong,Zhou, Kun,Zhang, Yanping,Song, Zhaobin,&He, Shunping.(2015).Evidence for Adaptation to the Tibetan Plateau Inferred from Tibetan Loach Transcriptomes.GENOME BIOLOGY AND EVOLUTION,7(11),2970-2982.
MLA	Wang, Ying,et al."Evidence for Adaptation to the Tibetan Plateau Inferred from Tibetan Loach Transcriptomes".GENOME BIOLOGY AND EVOLUTION 7.11(2015):2970-2982.