| 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 Publication | HYDROBIOLOGIA
 |
| ISSN | 0018-8158 |
| Volume | 624Issue:1Pages:139-149 |
| Abstract | 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.; 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. |
| Subtype | Article |
| Keyword | Rhodopsin 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 Area | Marine & Freshwater Biology |
| DOI | 10.1007/s10750-008-9688-2 |
| WOS Headings | Science & Technology ; Life Sciences & Biomedicine |
| Funding Organization | 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] ; National Natural Science Foundation of China (NSFC) [2007CB411600, 30530120] |
| Indexed By | SCI |
| Language | 英语 |
| WOS Research Area | Marine & Freshwater Biology |
| WOS Subject | Marine & Freshwater Biology |
| WOS ID | WOS:000263378100012 |
| WOS Keyword | CODON-SUBSTITUTION MODELS ; MOLECULAR EVOLUTION ; MAXIMUM-LIKELIHOOD ; BLIND CAVEFISH ; OPSIN GENES ; PHYLOGENETIC ANALYSIS ; ADAPTIVE EVOLUTION ; POSITIVE SELECTION ; EYE DEGENERATION ; SITES |
| Funding Organization | 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] ; National Natural Science Foundation of China (NSFC) [2007CB411600, 30530120] |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://ir.ihb.ac.cn/handle/152342/7870 |
| Collection | 期刊论文 |
| Corresponding Author | He, SP, Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan 430072, Peoples R China |
| Affiliation | 1.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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