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The complete mitochondrial genomes of two species from Sinocyclocheilus (Cypriniformes: Cyprinidae) and a phylogenetic analysis within Cyprininae

Molecular Biology Reports volume 37, pages 2163–2171 (2010)Cite this article

Abstract

We determined the complete mitochondrial DNA sequences for two species of surface- and cave-dwelling-cyprinid fishes, Sinocyclocheilus grahami and S. altishoulderus. Sequence comparison of 13 protein-coding genes shows that the mutation pattern of each single gene is quite similar to those of other vertebrate animal species. Analysis of the ratios of Ka/Ks at these loci between Sinocyclocheilus and two other cyprinid species (Cyprinus carpio and Procypris rabaudi) show that Ka/Ks ratios are differed, consistent with purifying selection and variation in functional constraint among genes. Bayesian analysis and maximum likelihood analysis of the concatenated mitochondrial protein sequences for 14 cyprinid taxa support the monophyly of the family Cyprininae, and further confirm the monophyly of the genus Sinocyclocheilus. The two Sinocyclocheilus species fall within the Cyprinion-Onychostoma lineage, including Cyprinus, Carassius, and Procypris, rather than among the Barbinae, as previously suggested on morphological grounds.

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Abbreviations

ATP6 and 8:

ATP synthase 6 and 8

bp:

Base pairs

COI–III:

Cytochrome c oxidase subunit I–III

Cyt b :

Cytochrome b

D-loop:

Displacement loop

Ka/Ks:

The ratio of the rate of nonsynonymous substitutions to the rate of synonymous substitutions

mtDNA:

Mitochondrial DNA

Mitogenome:

Mitochondrial genome

ND1–6 and 4L:

NADH dehydrogenase subunit 1–6 and 4L

rRNA:

Ribosomal RNA

tRNA:

Transfer RNA

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Acknowledgments

We thank three anonymous referees for their constructive and helpful comments and suggestions. This work was supported by grants from the National Basic Research Program of China (973 Program, 2007CB411600), National Natural Science Foundation of China (30621092) and Bureau of Science and Technology of Yunnan Province to YPZ.

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  1. Shanyuan Chen

    Present address: CIBIO, Universidade do Porto, Campus Agrario de Vairao, 4485-661, Vairao, Portugal

Affiliations

  1. Laboratory for Conservation and Utilization of Bio-Resource, Yunnan University, Kunming, 650091, China

    Xiaoyun Wu, Lin Wang, Shanyuan Chen, Ruiguang Zan, Heng Xiao & Ya-ping Zhang

  2. State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, China

    Ya-ping Zhang

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  1. Xiaoyun Wu
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  2. Lin Wang
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Corresponding authors

Correspondence to Heng Xiao or Ya-ping Zhang.

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Xiaoyun Wu and Lin Wang contributed equally to this work.

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Wu, X., Wang, L., Chen, S. et al. The complete mitochondrial genomes of two species from Sinocyclocheilus (Cypriniformes: Cyprinidae) and a phylogenetic analysis within Cyprininae. Mol Biol Rep 37, 2163–2171 (2010). https://doi.org/10.1007/s11033-009-9689-x

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  • DOI: https://doi.org/10.1007/s11033-009-9689-x

Keywords

  • Sinocyclocheilus grahami
  • Sinocyclocheilus altishoulderus
  • Mitochondrial DNA
  • Phylogenetic relationship
  • Cyprininae