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Relaxed purifying selection of rhodopsin gene within a Chinese endemic cavefish genus Sinocyclocheilus (Pisces: Cypriniformes)
Li, Zhiqiang1,2; He, Shunping1; He, SP, Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China
2009-05-01
Source PublicationHYDROBIOLOGIA
ISSN0018-8158
Volume624Issue:1Pages:139-149
AbstractThe cyprinid fish genus Sinocyclocheilus, as the most cavefish rich genus, includes many species showing striking adaptation to caves and convergent reduction or even loss of eyes and pigmentation. RH1 is responsible for dim vision. In order to explore the evolution of RH1 gene in this genus, we sequenced the complete gene from 28 individuals of 16 representative species of Sinocyclocheilus, with cave and surface species included. Phylogenetic analyses supported the monophyly of Sinocyclocheilus and polyphyly of the cave species. Codon models implemented in PAML were used to infer the evolution of RH1. We found that Sinocyclocheilus had a significantly higher evolutionary rate for amino acids than other cyprinid fishes compared, which might be the result of relaxation of purifying selection and could be ascribed to cave habit of this genus. In contrast to previous hypotheses, both cave and surface lineages exhibited a similar rate of molecular evolution, so the RH1 of cave species may still be functional, although these species were highly adapted to cave environment. Two amino acid substitutions (D83G and E122V) that were not reported before were found, which may be useful for site-directed mutagenesis in the future.; The cyprinid fish genus Sinocyclocheilus, as the most cavefish rich genus, includes many species showing striking adaptation to caves and convergent reduction or even loss of eyes and pigmentation. RH1 is responsible for dim vision. In order to explore the evolution of RH1 gene in this genus, we sequenced the complete gene from 28 individuals of 16 representative species of Sinocyclocheilus, with cave and surface species included. Phylogenetic analyses supported the monophyly of Sinocyclocheilus and polyphyly of the cave species. Codon models implemented in PAML were used to infer the evolution of RH1. We found that Sinocyclocheilus had a significantly higher evolutionary rate for amino acids than other cyprinid fishes compared, which might be the result of relaxation of purifying selection and could be ascribed to cave habit of this genus. In contrast to previous hypotheses, both cave and surface lineages exhibited a similar rate of molecular evolution, so the RH1 of cave species may still be functional, although these species were highly adapted to cave environment. Two amino acid substitutions (D83G and E122V) that were not reported before were found, which may be useful for site-directed mutagenesis in the future.
SubtypeArticle
KeywordRhodopsin Relaxed Purifying Selection Cavefish Sinocyclocheilus
Department[Li, Zhiqiang; He, Shunping] Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China; [Li, Zhiqiang] Chinese Acad Sci, Grad Sch, Beijing 100039, Peoples R China
Subject AreaMarine & Freshwater Biology
DOI10.1007/s10750-008-9688-2
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
Funding OrganizationNational Natural Science Foundation of China (NSFC) [2007CB411600, 30530120] ; National Natural Science Foundation of China (NSFC) [2007CB411600, 30530120] ; National Natural Science Foundation of China (NSFC) [2007CB411600, 30530120] ; National Natural Science Foundation of China (NSFC) [2007CB411600, 30530120]
Indexed BySCI
Language英语
WOS Research AreaMarine & Freshwater Biology
WOS SubjectMarine & Freshwater Biology
WOS IDWOS:000263378100012
WOS KeywordCODON-SUBSTITUTION MODELS ; MOLECULAR EVOLUTION ; MAXIMUM-LIKELIHOOD ; BLIND CAVEFISH ; OPSIN GENES ; PHYLOGENETIC ANALYSIS ; ADAPTIVE EVOLUTION ; POSITIVE SELECTION ; EYE DEGENERATION ; SITES
Funding OrganizationNational Natural Science Foundation of China (NSFC) [2007CB411600, 30530120] ; National Natural Science Foundation of China (NSFC) [2007CB411600, 30530120] ; National Natural Science Foundation of China (NSFC) [2007CB411600, 30530120] ; National Natural Science Foundation of China (NSFC) [2007CB411600, 30530120]
Citation statistics
Cited Times:7[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/152342/7870
Collection期刊论文
Corresponding AuthorHe, SP, Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China
Affiliation1.Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China
2.Chinese Acad Sci, Grad Sch, Beijing 100039, Peoples R China
Recommended Citation
GB/T 7714
Li, Zhiqiang,He, Shunping,He, SP, Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China. Relaxed purifying selection of rhodopsin gene within a Chinese endemic cavefish genus Sinocyclocheilus (Pisces: Cypriniformes)[J]. HYDROBIOLOGIA,2009,624(1):139-149.
APA Li, Zhiqiang,He, Shunping,&He, SP, Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China.(2009).Relaxed purifying selection of rhodopsin gene within a Chinese endemic cavefish genus Sinocyclocheilus (Pisces: Cypriniformes).HYDROBIOLOGIA,624(1),139-149.
MLA Li, Zhiqiang,et al."Relaxed purifying selection of rhodopsin gene within a Chinese endemic cavefish genus Sinocyclocheilus (Pisces: Cypriniformes)".HYDROBIOLOGIA 624.1(2009):139-149.
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