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Complete sequence of the mitochondrial genome of Odontamblyopus rubicundus (Perciformes: Gobiidae): genome characterization and phylogenetic analysis

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Abstract

Odontamblyopus rubicundus is a species of gobiid fishes, inhabits muddy-bottomed coastal waters. In this paper, the first complete mitochondrial genome sequence of O. rubicundus is reported. The complete mitochondrial genome sequence is 17119 bp in length and contains 13 protein-coding genes, two rRNA genes, 22 tRNA genes, a control region and an L-strand origin as in other teleosts. Most mitochondrial genes are encoded on H-strand except for ND6 and seven tRNA genes. Some overlaps occur in protein-coding genes and tRNAs ranging from 1 to 7 bp. The possibly nonfunctional L-strand origin folded into a typical stem-loop secondary structure and a conserved motif (5′-GCCGG-3′) was found at the base of the stem within the tRNA Cys gene. The TAS, CSB-2 and CSB-3 could be detected in the control region. However, in contrast to most of other fishes, the central conserved sequence block domain and the CSB-1 could not be recognized in O. rubicundus, which is consistent with Acanthogobius hasta (Gobiidae). In addition, phylogenetic analyses based on different sequences of species of Gobiidae and different methods showed that the classification of O. rubicundus into Odontamblyopus due to morphology is debatable.

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Acknowledgements

This study was supported by National Natural Science Foundation of China (31272661) and Zhejiang Provincial Natural Science Foundation (LY13C040001). We thank Prof. Shenglong Zhao for the help of fish sampled and identified by morphology.

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Authors and Affiliations

  1. Laboratory for Marine Living Resources and Molecular Engineering, College of Marine Science, Zhejiang Ocean University, Zhoushan, 316000, People’s Republic of China

    TIANXING LIU, XIAOXIAO JIN, RIXIN WANG & TIANJUN XU

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  1. TIANXING LIU
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  2. XIAOXIAO JIN
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  3. RIXIN WANG
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  4. TIANJUN XU
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Correspondence to RIXIN WANG or TIANJUN XU.

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[Liu T., Jin X., Wang R. and Xu T. 2013 Complete sequence of the mitochondrial genome of Odontamblyopus rubicundus (Perciformes: Gobiidae): genome characterization and phylogenetic analysis. J. Genet. 92, xx–xx]

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LIU, T., JIN, X., WANG, R. et al. Complete sequence of the mitochondrial genome of Odontamblyopus rubicundus (Perciformes: Gobiidae): genome characterization and phylogenetic analysis. J Genet 92, 423–432 (2013). https://doi.org/10.1007/s12041-013-0283-6

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  • DOI: https://doi.org/10.1007/s12041-013-0283-6

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