IHB OpenIR  > 水生生物多样性与资源保护研究中心  > 期刊论文
Genetic Adaptation of Schizothoracine Fish to the Phased Uplifting of the Qinghai-Tibetan Plateau
Zhang, Dongsheng1; Yu, Mengchao1; Hu, Peng1; Peng, Sihua1; Liu, Yimeng1; Li, Weiwen2; Wang, Congcong2; He, Shunping3; Zhai, Wanying1; Xu, Qianghua2; Chen, Liangbiao1,4
2017-04-01
Source PublicationG3-GENES GENOMES GENETICS
ISSN2160-1836
Volume7Issue:4Pages:1267-1276
Abstract

Many species of Schizothoracine, a subfamily of Cyprinidae, are highly endemic to the Qinghai-Tibetan Plateau (QTP). To characterize the adaptive changes associated with the Schizothoracine expansion at high altitudes, we sequenced tissue transcriptomes of two highland and two subhighland Schizothoracines and analyzed gene evolution patterns by comparing with lowland cyprinids. Phylogenetic tree reconstruction and divergence time estimation indicated that the common ancestor of Schizothoracine fish lived approximate to 32.7 million years ago (MYA), coinciding with the timing of the first phase of QTP uplifting. Both high- and subhigh-Schizothoracines demonstrated elevated dN/dS ratios in the protein-coding genes compared to lowland cyprinids, from which some biological processes implicated in altitude adaptation were commonly identified. On the other hand, the highland and subhighland lineages presented drastically divergent landscapes of positively selected genes (PSGs), enriched with very different gene ontology (GO) profiles, including those in sensory organ morphogenesis, regulation of protein ubiquitination, blood circulation, and blood vessel development. These results indicated different selection pressures imposed on the highland and subhighland lineages of the Schizothoracine subfamily, with a higher number of genes in the high-altitude species involved in adaptations such as sensory perception, blood circulation, and protein metabolism. Our study indicated divergent genetic adaptations in the aquatic species facing the phased uplifting of QTP.

KeywordQinghai-Tibetan Plateau adaptive evolution hypoxia Schizothoracine fish GenPred Shared Data Resources Genomic Selection
DOI10.1534/g3.116.038406
Funding OrganizationNational Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; 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National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; 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National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; 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Shanghai Municipal Project for First-Class Discipline of Fishery
Indexed BySCI
Language英语
Funding ProjectNational Natural Science Foundation of China[31130049] ; National Natural Science Foundation of China[31572598] ; Research Project of the Chinese Ministry of Education[213013A] ; Shuguang Program - Shanghai Education Development Foundation ; Shanghai Municipal Education Commission[13SG51] ; Shanghai Municipal Project for First-Class Discipline of Fishery
WOS Research AreaGenetics & Heredity
WOS SubjectGenetics & Heredity
WOS IDWOS:000398840700020
WOS KeywordHIGH-ALTITUDE ADAPTATION ; COMPREHENSIVE TRANSCRIPTOME ANALYSIS ; REVEALS ADAPTATION ; ADAPTIVE EVOLUTION ; PHYLOGENETIC ANALYSIS ; MOLECULAR PHYLOGENY ; GENOME SEQUENCE ; DRAFT GENOME ; DNA-REPAIR ; CYPRINIDAE
PublisherGENETICS SOCIETY AMERICA
Funding OrganizationNational Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; 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Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; 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National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; National Natural Science Foundation of China ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Research Project of the Chinese Ministry of Education ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; 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Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shuguang Program - Shanghai Education Development Foundation ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Education Commission ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery ; Shanghai Municipal Project for First-Class Discipline of Fishery
Citation statistics
Cited Times:1[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/32614
Collection水生生物多样性与资源保护研究中心_期刊论文
Corresponding AuthorXu, Qianghua; Chen, Liangbiao
Affiliation1.Shanghai Ocean Univ, Coll Fisheries & Life Sci, Key Lab Aquaculture Resources & Utilizat, Minist Educ, 999 Huchenghuan Rd, Shanghai 201306, Peoples R China
2.Shanghai Ocean Univ, Coll Marine Sci, Key Lab Sustainable Exploitat Ocean Fisheries Res, Minist Educ, 999 Huchenghuan Rd, Shanghai 201306, Peoples R China
3.Chinese Acad Sci, Inst Hydrobiol, Key Lab Aquat Biodivers & Conservat, Wuhan 430072, Peoples R China
4.Qingdao Natl Lab Marine Sci & Technol, Marine Biol & Biotechnol Lab, Qingdao 266071, Peoples R China
Recommended Citation
GB/T 7714
Zhang, Dongsheng,Yu, Mengchao,Hu, Peng,et al. Genetic Adaptation of Schizothoracine Fish to the Phased Uplifting of the Qinghai-Tibetan Plateau[J]. G3-GENES GENOMES GENETICS,2017,7(4):1267-1276.
APA Zhang, Dongsheng.,Yu, Mengchao.,Hu, Peng.,Peng, Sihua.,Liu, Yimeng.,...&Chen, Liangbiao.(2017).Genetic Adaptation of Schizothoracine Fish to the Phased Uplifting of the Qinghai-Tibetan Plateau.G3-GENES GENOMES GENETICS,7(4),1267-1276.
MLA Zhang, Dongsheng,et al."Genetic Adaptation of Schizothoracine Fish to the Phased Uplifting of the Qinghai-Tibetan Plateau".G3-GENES GENOMES GENETICS 7.4(2017):1267-1276.
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