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Phylogenetic relationships of Cyprinidae (Teleostei : Cypriniformes) inferred from the partial S6K1 gene sequences and implication of indel sites in intron 1
XiangHui, Kong; XuZhen, Wang; XiaoNi, Gan; JunBing, Li; ShunPing, He; ShunPing, H, Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Peoples R China
2007-12-01
Source PublicationSCIENCE IN CHINA SERIES C-LIFE SCIENCES
ISSN1006-9305
Volume50Issue:6Pages:780-788
AbstractThe family Cyprinidae is widely distributed in East Asia, and has the important phylogenetic significance in the fish evolution. In this study, the 5' end partial sequences (containing exon 1, exon 2 and indel 1) of S6K1 gene were obtained from 30 representative species in Cyprinidae and outgroup using PCR amplification and sequencing. The phylogenetic relationships of Cyprinidae were reconstructed with neighbor joining (NJ), maximum parsimony (MP), maximum likelihood (ML), and Bayesian methods. Myxocyprinus asiaticus (Catostomidae) was assigned to the outgroup taxon. Similar phylogenetic relationships within the family Cyprinidae were achieved with the four analyses. Leuciscini and Barbini were monophyletic lineages respectively with the high nodal supports. Leuciscini comprises Hypophthalmichthyinae, Xenocyprinae, Cultrinae, Gobioninae, Acheilognathinae and East Asian species of Leuciscinae and Danioninae. Monophyly of East Asian clade was supported with high nodal support. Barbini comprises Schizothoracinae, Barbinae, Cyprininae and Labeoninae. The monophyletic lineage consisting of Danio rerio, D. myersi, and Rasbora trilineata was basal in the tree. In addition, the large fragment indels in intron 1 were analyzed to improve the understanding of Cyprinidae relationships. The results showed that the large fragment indels were correlated with the relations among species. Some conserved regions in intron 1 were thought to be involved in the functional regulation. However, no correlation was found between sequence variations and species characteristic size.; The family Cyprinidae is widely distributed in East Asia, and has the important phylogenetic significance in the fish evolution. In this study, the 5' end partial sequences (containing exon 1, exon 2 and indel 1) of S6K1 gene were obtained from 30 representative species in Cyprinidae and outgroup using PCR amplification and sequencing. The phylogenetic relationships of Cyprinidae were reconstructed with neighbor joining (NJ), maximum parsimony (MP), maximum likelihood (ML), and Bayesian methods. Myxocyprinus asiaticus (Catostomidae) was assigned to the outgroup taxon. Similar phylogenetic relationships within the family Cyprinidae were achieved with the four analyses. Leuciscini and Barbini were monophyletic lineages respectively with the high nodal supports. Leuciscini comprises Hypophthalmichthyinae, Xenocyprinae, Cultrinae, Gobioninae, Acheilognathinae and East Asian species of Leuciscinae and Danioninae. Monophyly of East Asian clade was supported with high nodal support. Barbini comprises Schizothoracinae, Barbinae, Cyprininae and Labeoninae. The monophyletic lineage consisting of Danio rerio, D. myersi, and Rasbora trilineata was basal in the tree. In addition, the large fragment indels in intron 1 were analyzed to improve the understanding of Cyprinidae relationships. The results showed that the large fragment indels were correlated with the relations among species. Some conserved regions in intron 1 were thought to be involved in the functional regulation. However, no correlation was found between sequence variations and species characteristic size.
SubtypeArticle
KeywordCyprinidae S6k1 Gene Phylogenetic Relationships Intron
DepartmentChinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Peoples R China; Henan Normal Univ, Coll Life Sci, Xinxiang 453007, Peoples R China
Subject AreaBiology
DOI10.1007/s11427-007-0076-3
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
Indexed BySCI
Language英语
WOS Research AreaLife Sciences & Biomedicine - Other Topics
WOS SubjectBiology
WOS IDWOS:000251020100010
WOS KeywordCYTOCHROME-B GENE ; CELL-SIZE ; KINASE ; PHOSPHORYLATION ; INFERENCE ; ALIGNMENT ; SOFTWARE ; MRBAYES ; FISHES
Citation statistics
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/152342/8362
Collection期刊论文
Corresponding AuthorShunPing, H, Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Peoples R China
Affiliation1.Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Peoples R China
2.Henan Normal Univ, Coll Life Sci, Xinxiang 453007, Peoples R China
Recommended Citation
GB/T 7714
XiangHui, Kong,XuZhen, Wang,XiaoNi, Gan,et al. Phylogenetic relationships of Cyprinidae (Teleostei : Cypriniformes) inferred from the partial S6K1 gene sequences and implication of indel sites in intron 1[J]. SCIENCE IN CHINA SERIES C-LIFE SCIENCES,2007,50(6):780-788.
APA XiangHui, Kong,XuZhen, Wang,XiaoNi, Gan,JunBing, Li,ShunPing, He,&ShunPing, H, Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Peoples R China.(2007).Phylogenetic relationships of Cyprinidae (Teleostei : Cypriniformes) inferred from the partial S6K1 gene sequences and implication of indel sites in intron 1.SCIENCE IN CHINA SERIES C-LIFE SCIENCES,50(6),780-788.
MLA XiangHui, Kong,et al."Phylogenetic relationships of Cyprinidae (Teleostei : Cypriniformes) inferred from the partial S6K1 gene sequences and implication of indel sites in intron 1".SCIENCE IN CHINA SERIES C-LIFE SCIENCES 50.6(2007):780-788.
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