The complete mitochondrial genome of Sinocyclocheilus tingi (Cypriniformes: Cyprinidae): characterization and phylogenetic position

  • Chunqing Li
  • Yanyan Chen
  • Tiao Ning
  • Sichun Zhang
  • Shanyuan Chen
  • Heng Xiao
Technical Note


Sinocyclocheilus tingi is a cyprinid fish species endemic to China and has been listed as endangered species in the IUCN Red List of Threatened Species, due to over-fishing, introduced species competition, and loss of spawning grounds. In this study, we first sequenced and characterized the complete mitochondrial genome (mitogenome) of S. tingi by next-generation sequencing. The complete mitogenome is 16,584 bp in length, containing 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, and control region. Its gene arrangement pattern was identical to that of Sinocyclocheilus fishes available in GenBank database. The overall base composition is 30.42% A, 25.34% T, 26.98% C and 17.26% G, showing AT-rich feature (55.76%). Phylogenetic analyses showed that S. tingi from Fuxian Lake was closely related to Sinocyclocheilus grahami from Dianchi Lake. This work would provide molecular information fundamental to conservation and resource restoration studies on this endangered fish species.


Sinocyclocheilus tingi Mitochondrial genome Next-generation sequencing 



This study was partially supported by the National Natural Science Foundation of China (31560111) and the Hundred Oversea Talents Recruitment Program of Yunnan Province.


  1. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD, Pyshkin AV, Sirotkin AV, Vyahhi N, Tesler G, Alekseyev MA, Pevzner PA (2012) SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 19:455–477CrossRefPubMedPubMedCentralGoogle Scholar
  2. Coil D, Jospin G, Darling AE (2015) A5-miseq: an updated pipeline to assemble microbial genomes from Illumina MiSeq data. Bioinformatics 31(4):587–589CrossRefPubMedGoogle Scholar
  3. Fang PW (1936) Sinocyclocheilus tingi, a new genus and species of Chinese barbid fishes from Yunnan. Sinensia 7(5):588–593Google Scholar
  4. Li CQ, Xiang XH, Ning T, Chen SY, Xiao H (2017) The complete mitochondrial genome sequence of Sinocyclocheilus jii (Cypriniformes: Cyprinidae) and phylogenetic implications. Mitochondr DNA Part B 2(2):638–639CrossRefGoogle Scholar
  5. Lowe TM, Eddy SR (1997) tRNA-scan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res 25:955–964CrossRefPubMedPubMedCentralGoogle Scholar
  6. Pan XF, Liu SW, Li ZY, Yang JX (2009) Artificial propagation and larvae cultivation of Sinocyclocheilus tingi. Zoolog Res 30(4):463–467Google Scholar
  7. Ronquist F, Huelsenbeck JP (2003) MyBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572–1574CrossRefPubMedGoogle Scholar
  8. Stamatakis A (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688–2690CrossRefPubMedGoogle Scholar
  9. Wu XY, Wang L, Chen SY, Zan RG, Xiao H, Zhang YP (2010) The complete mitochondrial genome of two species from Sinocyclocheilus (Cypriniformes: Cyprinidae) and a phylogenetic analysis within Cyprininae. Mol Bio Rep 37:2163–2171CrossRefGoogle Scholar
  10. Wyman SK, Jansen RK, Boore JL (2004) Automatic annotation of organellar genomes with DOGMA. Bioinformatics 20:3252–3255CrossRefPubMedGoogle Scholar
  11. Xiao H, Chen SY, Liu ZM, Zhang RD, Li WX, Zan RG, Zhang YP (2005) Molecular phylogeny of Sinocyclocheilus (Cypriniformes: Cyprinidae) inferred from mitochondrial DNA sequences. Mol Phylogenet Evol 36:66–77CrossRefGoogle Scholar
  12. Zhao YP, Pan XF, Yang JX, Chen XY, Li ZY, Wang XA (2013) Analysis of the nutritional components in muscle of Sinocyclocheilus grahami and S. tingi. Zoolog Res 34(6):636–639Google Scholar

Copyright information

© Springer Science+Business Media B.V., part of Springer Nature 2018

Authors and Affiliations

  1. 1.School of Life SciencesYunnan UniversityKunmingChina
  2. 2.College of Agricultural SciencesKunming UniversityKunmingChina
  3. 3.Fishery Technology Promotion Station of Jiangchuan CountyJiangchuanChina
  4. 4.Key Laboratory for Animal Genetic Diversity and Evolution of High Education in Yunnan ProvinceYunnan UniversityKunmingChina

Personalised recommendations