Population differentiation and genetic diversity of endangered Brachymystax tsinlingensis Li between Yangtze River and Yellow River in China based on mtDNA

References

• Avise JC. 1995. Mitochondrial DNA polymorphism and a connection between genetics and demography of relevance to conservation. Conserv Biol. 9:686–690.
   Google Scholar
• Avise JC. 2000. Phylogeography: the history and formation of species. Harvard: Harvard University Press; p. 200.
   Google Scholar
• Avise JC, Arnold J, Ball RM, Bermingham E, Lamb T, Neigel JE, Reeb CA, Saunders NC. 1987. Intraspecific phylogeography: the mitochondrial DNA bridge between population genetics and systematics. Annu Rev Ecol Syst. 18:489–522.
   Google Scholar
• Avise JC, Walker D. 1998. Pleistocene phylogeographic effects on avian populations and the speciation process. Proc R Soc B–Biol Sci. 265:457–463.
   PubMed Web of Science ®Google Scholar
• Bandelt HJ, Forster P, Röhl A. 1999. Median-joining networks for inferring intraspecific phylogenies. Mol Biol Evol. 16:37–48.
   PubMed Web of Science ®Google Scholar
• Bermingham E, Avise JC. 1986. Molecular zoogeography of freshwater fishes in the southeastern United States. Genetics. 113:939–965.
   PubMed Web of Science ®Google Scholar
• Brunner PC, Douglas MR, Osinov A, Wilson CC, Bernatchez L. 2001. Holarctic phylogeography of Arctic charr (Salvelinus alpinus L.) inferred from mitochondrial DNA sequences. Evolution. 55:573–586.
   PubMed Web of Science ®Google Scholar
• Darriba D, Taboada GL, Doallo R, Posada D. 2012. jModelTest 2: more models, new heuristics and parallel computing. Nat Methods. 9:772.
   PubMed Web of Science ®Google Scholar
• Du HB, Wu JX, Wang LZ. 2006. The introduction of Brachymystax lenok tsinlingensis in XvShui river valleys. Chin Fish. 12:79–80.
   Google Scholar
• Du Y, Wang T, Yang S, Shi X. 2016. Discussion on species validity of Brachymystax lenok tsinlingensis in Qinling Mountains. Gansu Anim Vet Med. 46:122–126 (in Chinese).
   Google Scholar
• Excoffier L, Lischer HEL. 2010. Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour. 10:564–567.
   PubMed Web of Science ®Google Scholar
• Fu YX. 1997. Statistical test of neutrality of mutations against population growth, hitchhiking and background selection. Genetics. 147:915–925.
   PubMed Web of Science ®Google Scholar
• Gao TX, Yang TY, Yanagimoto T, Xiao YS. 2018. Levels and patterns of genetic variation in Japanese whiting (Sillago japonica) based on mitochondrial DNA control region. Mitochondrial DNA A. 1–12.
   Web of Science ®Google Scholar
• Gao XZ. 1980. Studies on the distribution and characteristics of Hucho (Salmonidae) and Brachymystax (Salmonidae) in China. J Shaanxi Fish. 1:23–30 (in Chinese).
   Google Scholar
• Grewe PM, Billington N, Hebert PDN. 1990. Phylogenetic relationships among members of Salvelinus inferred from mitochondrial DNA divergence. Can J Fish Aquat Sci. 47:984–991.
   Web of Science ®Google Scholar
• Gum BR, Gross R, Kuehn R. 2005. Mitochondrial and nuclear DNA phylogeography of European grayling (Thymallus thymallus): evidence for secondary contact zones in central Europe. Mol Ecol. 14:1707–1725.
   PubMed Web of Science ®Google Scholar
• Han CC, Yen TB, Chen NC, Tseng MC. 2015. Comparative studies of 5S rDNA profiles and cyt b sequences in two Onychostoma species (Cyprinidae). Int J Mol Sci. 16:29663–29672.
   PubMed Web of Science ®Google Scholar
• Kartavtsev YP, Park TJ, Vinnikov KA, Ivankov VN, Sharina SN, Lee JS. 2007. Cytochrome b (Cyt-b) gene sequence analysis in six flatfish species (Teleostei, Pleuronectidae), with phylogenetic and taxonomic insights. Mar Biol. 152:757–773.
   Web of Science ®Google Scholar
• Librado P, Rozas J. 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics. 25:1451–1452.
   PubMed Web of Science ®Google Scholar
• Li SZ. 1966. On a new subspecies of freshwater trout, Branchymystax lenok tsinlingensis, from Taipaishan, Shensi, China. Acta Zootaxon Sin. 3:92–94.
   Google Scholar
• Lin NF, Tang J, Bian JM, Yang JQ. 1999. The Quaternary environmental evolution and the problem of desertification in northeast plain. Quatern Sci. 5:448–455.
   Google Scholar
• Meng Y, Wang G, Xiong D, Liu H, Liu X, Wang L, Zhang J. 2018. Geometric morphometric analysis of the morphological variation among three lenoks of Genus Brachymystax in China. Pak J Zool. 50:885–895.
   Web of Science ®Google Scholar
• Moritz C. 1994. Applications of mitochondrial DNA analysis in conservation: a critical review. Mol Ecol. 3:401–411.
   Web of Science ®Google Scholar
• Munian K, Bhassu S. 2015. Genetic structure of locally threatened cyprinid, Osteochilus melanopleurus, in Peninsular Malaysia River systems inferred from mitochondrial DNA control region. Biochem Syst Ecol. 61:336–343.
   Web of Science ®Google Scholar
• Qiao D, He X, Wei C, Yang L, Hu L, Li S. 2011. Genetic variation of mt DNA-Cyt b gene in three populations of Plagiognathops microlepis. J Lake Sci. 23:813–820 (in Chinese).
   Google Scholar
• Qin SZ, Wang SA. 1989. Studies on the subspecies of Brachymystax lenok (Pallas), China. Salmon Fish. 2:52–61.
   Google Scholar
• Ren J, Liang G. 2004. Resource survey report of Brachymystax lenok tsinlingensis in Qianhe river valleys of Qinling Mountains. J Shaanxi Norm Univ (Nat Sci Ed). 32:65–68 (in Chinese).
   Google Scholar
• Ronquist F, Teslenko M, van der Mark P, Ayres DL, Darling A, Höhna S, Larget B, Liu L, Suchard MA, Huelsenbeck JP. 2012. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst Biol. 61:539–542.
   PubMed Web of Science ®Google Scholar
• Salah M, Iciar M. 1997. Universal and rapid salt-extraction of high genomic DNA for PCR-based techniques. Nucleic Acids Res. 25:4692–4693.
   PubMed Web of Science ®Google Scholar
• Seyoum S, McBride RS, Tringali MD, Villanova VL, Puchutulegui C, Gray S, Van Bibber N. 2018. Genetic population structure of the spotted seatrout (Cynoscion nebulosus): simultaneous examination of the mtDNA control region and microsatellite marker results. B Mar Sci. 94:47–71.
   Web of Science ®Google Scholar
• Slynko YV, Slynko EE, Karpova EP, Boltachev AR. 2017. Genetic variation of the mtDNA cyt b locus in topmouth gudgeon introduced into water bodies in the northern part of the Black Sea region. Genetika. 53:79–87.
   PubMedGoogle Scholar
• Smith GR. 1992. Introgression in fishes: significance for paleontology, cladistics, and evolutionary rates. Syst Biol. 41:41–57.
   Web of Science ®Google Scholar
• Song SL. 1987. Salmonidae. In: Fishes in Qinling Mountain Area. Beijing: Science Press; p. 14–15.
   Google Scholar
• Tajima F. 1989. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics. 123:585–595.
   PubMed Web of Science ®Google Scholar
• Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol. 28:2731–2739.
   PubMed Web of Science ®Google Scholar
• Takezaki N, Rzhetsky A, Nei M. 1995. Phylogenetic test of the molecular clock and linearized trees. Mol Biol Evol. 12:823–833.
   PubMed Web of Science ®Google Scholar
• Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25:4876–4882.
   PubMed Web of Science ®Google Scholar
• Weiss S, Persat H, Eppe R, Schlötterer C, Uiblein F. 2002. Complex patterns of colonization and refugia revealed for European grayling Thymallus thymallus, based on complete sequencing of the mitochondrial DNA control region. Mol Ecol. 11:1393–1407.
   PubMed Web of Science ®Google Scholar
• Wright S. 1978. Evolution and genetics of populations. Vol. 4, Variability within and among natural populations. Chicago: University of Chicago Press; p. 580.
   Google Scholar
• Xia YZ, Chen YY, Sheng Y. 2006. Phylogeographic structure of lenok (Brachymystax lenok Pallas) (Salmoninae, Salmonidae) populations in water systems of eastern China, inferred from mitochondrial DNA sequences. Zool Stu. 45:190–200 (in Chinese).
   Web of Science ®Google Scholar
• Xie YH. 1981. Fauna composition of fishes in Liaohe. In: Chinese Ichthyological society, ed. collection in ichthyology. Beijing: Science Press; p. 111–119 (in Chinese).
   Google Scholar
• Xing YC, Lv BB, Ye EQ, Fan EY, Li SY, Wang LX, Zhang CG, Zhao YH. 2015. Revalidation and redescription of Brachymystax tsinlingensis Li, 1966 (Salmoniformes: Salmonidae) from China. Zootaxa. 3962:191–205.
   PubMed Web of Science ®Google Scholar
• Yang DG, Wei QW, Li XX, Zhang XQ, Cheng BL. 1999. The distributing actuality and protecting countermeasure of rare aquatic animals in Xvshui River of Qinling Mountains. J Fish Sci Chin. 6:123–125 (in Chinese).
   Google Scholar
• Yue PQ, Chen YY. 1998. China red data book of endangered animals, Pisces. Beijing, Hongkong, New York: Science Press; p. 35–37.
   Google Scholar
• Zhang LS, Fang XQ. 2012. Palaeogeography of China. Beijing, China: Science Press; p. 237–242 (in Chinese).
   Google Scholar
• Zhao YH, Zhang CG. 2009. Threatened fishes of the world: Brachymystax lenok tsinlingensis Li, 1966 (Salmonidae). Environ Biol Fish. 86:11–12.
   Web of Science ®Google Scholar
• Zheng LP, Yang JX. 2018. Genetic diversity and population demography of the endemic species Acrossocheilus Iongipinnis (Teleostei, Cyprinidae) based on mtDNA COI and cyt b gene sequences. Mitochondrial DNA A. 29:403–408.
   PubMed Web of Science ®Google Scholar