IHB OpenIR  > 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, Ying1,2; Yang, Liandong1,2; Zhou, Kun3; Zhang, Yanping4; Song, Zhaobin5; He, Shunping1
2015-11-01
Source PublicationGENOME BIOLOGY AND EVOLUTION
ISSN1759-6653
Volume7Issue:11Pages:2970-2982
AbstractTriplophysa 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.
SubtypeArticle
KeywordTibetan Plateau Adaptation Transcriptome Accelerated Evolution Triplophysa Fishes
DOI10.1093/gbe/evv192
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
Funding Organization(XDB13020100) ; (XDB13020100) ; (XDB13020100) ; (XDB13020100)
Indexed BySCI
Language英语
WOS Research AreaEvolutionary Biology ; Genetics & Heredity
WOS SubjectEvolutionary Biology ; Genetics & Heredity
WOS IDWOS:000364951500002
WOS KeywordHIGH-ALTITUDE ADAPTATION ; DEER MOUSE HEMOGLOBIN ; PHYLOGENETIC ANALYSES ; MAXIMUM-LIKELIHOOD ; POSITIVE SELECTION ; GENOME SEQUENCE ; HYPOXIA ; EVOLUTION ; PROTEIN ; FISH
Funding Organization(XDB13020100) ; (XDB13020100) ; (XDB13020100) ; (XDB13020100)
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Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/27362
Collection水生生物多样性与资源保护研究中心_期刊论文
Affiliation1.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
Recommended Citation
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.
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