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题名: Comprehensive Transcriptome Analysis Reveals Accelerated Genic Evolution in a Tibet Fish, Gymnodiptychus pachycheilus
作者: Yang, Liandong1, 2; Wang, Ying1, 2; Zhang, Zhaolei3, 4; He, Shunping1
通讯作者: He, SP (reprint author), Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Hubei, Peoples R China.
关键词: Tibetan Plateau ; adaptation ; positive selection ; schizothoracine fish ; transcriptome
刊名: GENOME BIOLOGY AND EVOLUTION
发表日期: 2015
DOI: 10.1093/gbe/evu279
卷: 7, 期:1, 页:251-261
收录类别: SCI
文章类型: Article
部门归属: [Yang, Liandong ; Wang, Ying ; He, Shunping] Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Hubei, Peoples R China ; [Yang, Liandong ; Wang, Ying] Univ Chinese Acad Sci, Beijing, Peoples R China ; [Zhang, Zhaolei] Univ Toronto, Dept Mol Genet, Toronto, ON M5S 1A1, Canada ; [Zhang, Zhaolei] Univ Toronto, Donnelly Ctr Cellular & Biomol Res, Toronto, ON M5S 1A1, Canada
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
英文摘要: Elucidating the genetic mechanisms of organismal adaptation to the Tibetan Plateau at a genomic scale can provide insights into the process of adaptive evolution. Many highland species have been investigated and various candidate genes that may be responsible for highland adaptation have been identified. However, we know little about the genomic basis of adaptation to Tibet in fishes. Here, we performed transcriptome sequencing of a schizothoracine fish (Gymnodiptychus pachycheilus) and used it to identify potential genetic mechanisms of highland adaptation. We obtained totally 66,105 assembled unigenes, of which 7,232 were assigned as putative one-to-one orthologs in zebrafish. Comparative gene annotations from several species indicated that at least 350 genes lost and 41 gained since the divergence between G. pachycheilus and zebrafish. An analysis of 6,324 orthologs among zebrafish, fugu, medaka, and spotted gar identified consistent evidence for genome-wide accelerated evolution in G. pachycheilus and only the terminal branch of G. pachycheilus had an elevated Ka/Ks ratio than the ancestral branch. Many functional categories related to hypoxia and energy metabolism exhibited rapid evolution in G. pachycheilus relative to zebrafish. Genes showing signature of rapid evolution and positive selection in the G. pachycheilus lineage were also enriched in functions associated with energy metabolism and hypoxia. The first genomic resources for fish in the Tibetan Plateau and evolutionary analyses provided some novel insights into highland adaptation in fishes and served as a foundation for future studies aiming to identify candidate genes underlying the genetic bases of adaptation to Tibet in fishes.
关键词[WOS]: HIGH-ALTITUDE ADAPTATION ; PHYLOGENETIC ANALYSIS ; MOLECULAR PHYLOGENY ; POSITIVE SELECTION ; ADAPTIVE EVOLUTION ; GENOMIC LANDSCAPE ; UP-REGULATION ; KINASE YES ; HYPOXIA ; EXPRESSION
语种: 英语
WOS记录号: WOS:000350036100018
ISSN号: 1759-6653
Citation statistics:
内容类型: 期刊论文
URI标识: http://ir.ihb.ac.cn/handle/342005/23837
Appears in Collections:水生生物多样性与资源保护研究中心_期刊论文

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作者单位: 1.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan, Hubei, Peoples R China
2.Univ Chinese Acad Sci, Beijing, Peoples R China
3.Univ Toronto, Dept Mol Genet, Toronto, ON M5S 1A1, Canada
4.Univ Toronto, Donnelly Ctr Cellular & Biomol Res, Toronto, ON M5S 1A1, Canada
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