634
Views
1
CrossRef citations to date
0
Altmetric
Rapid Communications

Comparative mitochondrial genome analysis of the Mongolian redfin, Chanodichthys mongolicus (Xenocyprididae) from China reveals heteroplasmy

ORCID Icon, , &
Pages 2601-2604 | Received 14 May 2021, Accepted 26 Jul 2021, Published online: 10 Aug 2021

References

  • Capella-Gutierrez S, Silla-Martinez JM, Gabaldon T. 2009. trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics. 25(15):1972–1973.
  • Chen YY. 1998. Fauna Sinica: Osteichthyes Cypriniformes II. Beijing: Science Press.
  • Dierckxsens N, Mardulyn P, Smits G. 2020. Unraveling heteroplasmy patterns with NOVOPlasty. NAR Genom Bioinform. 2(1):lqz011.
  • Gajic B, Stevanovic J, Radulovic Z, Kulisic Z, Vejnovic B, Glavinic U, Stanimirovic Z. 2016. Haplotype identification and detection of mitochondrial DNA heteroplasmy in Varroa destructor mites using ARMS and PCR-RFLP methods. Exp Appl Acarol. 70:287–297.
  • Gorkhali NA, Jiang L, Shrestha BS, He XH, Junzhao Q, Han JL, Ma YH. 2016. High occurrence of mitochondrial heteroplasmy in Nepalese indigenous sheep (Ovis aries) compared to Chinese sheep. Mitochondrial DNA Part A. 27(4):2645–2647.
  • Grant JR, Arantes AS, Stothard P. 2012. Comparing thousands of circular genomes using the CGView Comparison Tool. BMC Genomics. 13:202.
  • Green MR, Sambrook J. 2012. Molecular cloning: a laboratory manual, 4th ed. New York: Cold Spring Harbor Laboratory Press.
  • Hoang DT, Chernomor O, von Haeseler A, Minh BQ, Vinh LS. 2018. UFBoot2: improving the ultrafast bootstrap approximation. Mol Biol Evol. 35(2):518–522.
  • Huang Y, Lu W, Ji J, Zhang X, Zhang P, Chen W. 2019. Heteroplasmy in the complete chicken mitochondrial genome. PLOS One. 14(11):e0224677.
  • Iwasaki W, Fukunaga T, Isagozawa R, Yamada K, Maeda Y, Satoh TP, Sado T, Mabuchi K, Takeshima H, Miya M, et al. 2013. MitoFish and MitoAnnotator: a mitochondrial genome database of fish with an accurate and automatic annotation pipeline. Mol Biol Evol. 30(11):2531–2540.
  • Jin JJ, Yu WB, Yang JB, Song Y, dePamphilis CW, Yi TS, Li DZ. 2020. GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes. Genome Biol. 21(1):241.
  • Krzywinski M, Schein J, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA. 2009. Circos: an information aesthetic for comparative genomics. Genome Res. 19(9):1639–1645.
  • Minh BQ, Schmidt HA, Chernomor O, Schrempf D, Woodhams MD, von Haeseler A, Lanfear R. 2020. IQ-TREE 2: new models and efficient methods for phylogenetic inference in the genomic era. Mol Biol Evol. 37(5):1530–1534.
  • Moreira DA, Buckup PA, Furtado C, Val AL, Schama R, Parente TE. 2017. Reducing the information gap on Loricarioidei (Siluriformes) mitochondrial genomics. BMC Genomics. 18(1):345.
  • Okonechnikov K, Golosova O, Fursov M, UGENE team 2012. Unipro UGENE: a unified bioinformatics toolkit. Bioinformatics. 28(8):1166–1167.
  • Quail MA, Kozarewa I, Smith F, Scally A, Stephens PJ, Durbin R, Swerdlow H, Turner DJ. 2008. A large genome center's improvements to the Illumina sequencing system. Nat Methods. 5(12):1005–1010.
  • Saitoh K, Sado T, Mayden RL, Hanzawa N, Nakamura K, Nishida M, Miya M. 2006. Mitogenomic evolution and interrelationships of the Cypriniformes (Actinopterygii: Ostariophysi): the first evidence toward resolution of higher-level relationships of the world's largest freshwater fish clade based on 59 whole mitogenome sequences. J Mol Evol. 63(6):826–841.
  • Sriboonlert A, Wonnapinij P. 2019. Comparative mitochondrial genome analysis of the firefly, Inflata indica (Coleoptera: Lampyridae) and the first evidence of heteroplasmy in fireflies. Int J Biol Macromol. 121:671–676.
  • Stewart JB, Chinnery PF. 2015. The dynamics of mitochondrial DNA heteroplasmy: implications for human health and disease. Nat Rev Genet. 16(9):530–542.
  • Tong GX, Kuang YY, Geng LW, Xu W, Yin JS. 2014. Mitochondrial DNA sequence of Mongolian redfin (Chanodichthys mongolicus). Mitochondrial DNA. 25(5):407–409.
  • Wang GJ, Zheng ZL, Yu EM, Xie J, Wei N, Wu JR, Li JS. 2016. The complete mitochondrial genome of Ancherythroculter kurematsui (Cypriniformes: Cyprinidae). Mitochondrial DNA Part B. 1(1):630–631.
  • Wei M, Yang Y, Yu P, Pan D, Wan Q. 2016. The complete mitochondrial genome of Mongolian redfin, Chanodichthys mongolicus (Cypriniformes: Cyprinidae): genome description and related phylogenetic analyses. Mitochondrial DNA Part A. 27(1):20–21.
  • Wetjen M, Cortey M, Vera M, Schmidt T, Schulz R, García-Marín J-L. 2017. Occurrence of length polymorphism and heteroplasmy in brown trout. Gene Rep. 6:1–7.
  • Xie JY, Yan Y, Yang YH, Lin SQ. 2019. Analysis on genetic structure of Chanodichthys mongolicus populations by mitochondrial COI gene sequences. Freshw Fish. 49(03):3–7.
  • Yan T, Wang X, Zhang S, He L, He Z. 2017. The complete mitochondrial DNA of Ancherythroculter wangi. Mitochondrial DNA Part B. 3(1):19–20.
  • Zou Y, Zhang J, Xie M, Zhang T, Deng Q, Wen Z. 2018. The complete mitochondrial genome of Ancherythroculter wangi and its phylogeny. Mitochondrial DNA Part B. 3(1):276–277.