Mitochondrial diversity and phylogeography of Acrossocheilus paradoxus (Teleostei: Cyprinidae)

References

• Beaumont MA. 2010. Approximate Bayesian computation in evolution and ecology. Annu Rev Ecol Evol Syst. 41:379–406.
   Web of Science ®Google Scholar
• Boggs S, Wang WC, Lewis FS, Chen JC. 1979. Sediment properties and water characteristics of the Taiwan shelf and slope. Acta Oceanogr Taiwan. 10:10–49.
   Google Scholar
• Chang HY, Wang WK, Chen KN, Su JK, Hsin CY, Li J, Wang YK, Lin HD. 2016. Phylogeography and genetic structure of the endemic cyprinid fish Microphysogobio brevirostris in Northern Taiwan. Biochem Syst Ecol. 65:176–184.
   Web of Science ®Google Scholar
• Chen X, Pan JH, Liu Z, Liang D. 1991. Barbinae. In: Pan JH, Zhong L, Zheng CY, Wu HL, Liu JH, editors. The freshwater fishes of Guangdong Province. Guangzhou: Guangdong Science and Technology Press; p. 589.
   Google Scholar
• Chiang TY, Chen YY, Lee TW, Hsu KC, Lin FJ, Wang WK, Lin HD. 2017. Comparative phylogeography of two codistributed endemic cyprinids in southeastern Taiwan. Biochem Syst Ecol. 70:283–290.
   Web of Science ®Google Scholar
• Chiang TY, Lin HD, Shao KT, Hsu KC. 2010. Multiple factors have shaped the phylogeography of Chinese spiny loach Cobitis sinensis in Taiwan as inferred from mitochondrial DNA variation. J Fish Biol. 76:1173–1189.
   PubMed Web of Science ®Google Scholar
• Chiu YW, Bor H, Kuo PH, Hsu KC, Tan MS, Wang WK, Lin HD. 2017. Origins of Semisulcospira libertina (gastropoda: semisulcospiridae) in Taiwan. Mitochondrial DNA A DNA Mapp Seq Anal. 28:518–525.
   PubMedGoogle Scholar
• Cornuet JM, Pudlo P, Veyssier J, Dehne-Garcia A, Gautier M, Leblois R, Marin JM, Estoup A. 2014. DIYABC v2.0: a software to make approximate Bayesian computation inferences about population history using single nucleotide polymorphism, DNA sequence and microsatellite data. Bioinformatics. 30:1187–1189.
   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
• Dowling TE, Tibbets CA, Minckley WL, Smith GR. 2002. Evolutionary relationships of the plagopterins (Teleostei: Cyprinidae) from cytochrome b sequences. Copeia. 2002:665–678.
   Web of Science ®Google Scholar
• Drummond AJ, Rambaut A, Suchard M. 2013. BEAST 1.8.0. 2013. http://beast.bio.ed.ac.uk.
   Google Scholar
• Excoffier L, Lischer HEL. 2010. Arlequin suite version 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
• Fairbanks RG. 1989. A 17,000-year glacio-eustatic sea level record: influence of glacial melting rates on the Younger Dryas event and deep-ocean circulation. Nature. 342:637–642.
   Web of Science ®Google Scholar
• Froese R, Pauly D. 2017. FishBase. World Wide Web electronic publication; [accessed 2016 Jan 2). http://www.fishbase.org.
   Google Scholar
• Gascoyne M, Benjamin GJ, Schwarcz HP, Ford DC. 1979. Sea-level lowering during the illinoian glaciation: evidence from a Bahama ‘Blue Bole’. Nature. 205:806–808.
   Google Scholar
• Hall TA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp. 41:95–98.
   Google Scholar
• Hsu KC, Bor H, Lin HD, Kuo PH, Tan MS, Chiu YW. 2014. Mitochondrial DNA phylogeography of Semisulcospira libertina (Gastropoda: Cerithioidea: Pleuroceridae): implications the history of landform changes in Taiwan. Mol Biol Rep. 41:3733–3743.
   PubMed Web of Science ®Google Scholar
• Huang CY, Yuan PB, Song SR, Lin CW, Wang CS, Chen MT, Shyu CT, Karp B. 1995. Tectonics of short-lived intra-arc basins in the arc-continent collision terrane of the Coastal Range, Eastern Taiwan. Tectonics. 14:19–38.
   Web of Science ®Google Scholar
• Huelsenbeck JP, Ronquist F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics. 17:754–755.
   PubMed Web of Science ®Google Scholar
• Jenning WB, Edwards SV. 2005. Speciational history of Australian grass finches (Poephila) inferred from thirty gene trees. Evolution. 59:2033–2047.
   PubMed Web of Science ®Google Scholar
• Ju YM, Wu JH, Kuo PH, Hsu KC, Wang WK, Lin FJ, Lin HD. 2016. Mitochondrial genetic diversity of Rhinogobius giurinus (Teleostei: Gobiidae) in East Asia. Biochem Syst Ecol. 69:60–66.
   Web of Science ®Google Scholar
• Jukes TH, Cantor CR. 1969. Evolution of protein molecules. In: Monro HN, editor. Mammalian protein metabolism. New York (NY): Academic Press; p. 21–132.
   Google Scholar
• Lin CC. 1957. Topography in Taiwan. Taiwan Documents. 1:67–79.
   Google Scholar
• Lin CC. 1966. An outline of Taiwan’s Quaternary geohistory with a special discussion of the relation between natural history and cultural history in Taiwan. Bull Dep Archaeo Anthro. 23:7–44.
   Google Scholar
• Lin HD, Hsu KC, Shao KT, Chang YC, Wang JP, Lin CJ, Chiang TY. 2008. Population structure and Phylogeography of Aphyocypris kikuchii (Oshima) based on mitochondrial DNA variation. J Fish Biol. 72:2011–2015.
   Web of Science ®Google Scholar
• Lin HD, Kuo PH, Wang WK, Chiu YW, Ju YM, Lin FJ, Hsu KC. 2016. Speciation and differentiation of the genus Opsariichthys (Teleostei: Cyprinidae) in East Asia. Biochem Syst Ecol. 68:92–100.
   Web of Science ®Google Scholar
• Nei M, Tajima F. 1983. Maximum likelihood estimation of the number of nucleotide substitutions from restriction sites data. Genetics. 105:207–217.
   PubMed Web of Science ®Google Scholar
• Oshima M. 1923. Studies on the distribution of the fresh-water fishes of Taiwan and discuss the geographical relationship of the Taiwan Island and the adjacent area. Zool Mag. 35:1–49. (Japanese).
   Google Scholar
• Ota H. 1991. Systematics and biogeography of terrestrial reptiles of Taiwan. In: Lin YS, Chang KH., editors. Proceedings of the First International Symposium on Wildlife Conservation, ROC. Taipei: Council of Agriculture. p. 47–112.
   Google Scholar
• Ota H. 1997. Historical biogeographical implications in the variation and diversity of amphibians and reptiles in Taiwan. In: Kue KY, Chen TH, editors. Proceedings of the Symposium on the Phylogeny, Biogeography and Conservation of Fauna and Flora of East Asian Region. Taipei: National Science Council, ROC. p. 75–86.
   Google Scholar
• Pons O, Petit RJ. 1996. Measuring and testing genetic differentiation with ordered versus unordered alleles. Genetics. 144:1237–1245.
   PubMed Web of Science ®Google Scholar
• Rambaut A, Drummond AJ, Suchard M. 2013. Tracer v1.6. MCMC Trace Analysis Package; [accessed 2014 Feb 24]. http://tree.bio.ed.ac.uk/software/tracer/.
   Google Scholar
• Rozas J, Sanchez-DelBarrio JC, Messeguer X, Rozas R. 2003. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics. 19:2496–2497.
   PubMed Web of Science ®Google Scholar
• Shan X, Lin R, Yue P, Chu X. 2000. Cyprinidae: Barbinae. In: Yue et al., editors. Fauna Sinica. Osteichthyes. Cypriniformes III. Beijing: Science Press; p. 1–661.
   Google Scholar
• Shen SC. 1993. Fishes of Taiwan. Taipei: Department of Zoology, National Taiwan University. p. 960. Chinese.
   Google Scholar
• Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. 2013. MEGA6: Molecular evolutionary genetics analysis version 6.0. Mol Biol Evol. 30:2725–2729.
   PubMed Web of Science ®Google Scholar
• Templeton AR. 1993. The ‘Eve’ hypothesis: a genetic critique and reanalysis. Am Anthropol. 95:51–72.
   Web of Science ®Google Scholar
• Teng LS. 1990. Geotectonic evolution of late Cenozoic arc continent collision in Taiwan. Tectonophysics. 183:57–76.
   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. 24:4876–4882.
   Web of Science ®Google Scholar
• Tzeng CS. 1986. Distribution of freshwater fishes of Taiwan. J Taiwan Mus. 39:127–146.
   Google Scholar
• Wang CF, Hsieh CH, Lee SC, Wang HY. 2011. Systematics and phylogeography of the Taiwanese endemic minnow Candidia barbatus (Pisces: Cyprinidae) based on DNA sequence, allozymic, and morphological analyses. Zool J Linn Soc. 161:613–632.
   Web of Science ®Google Scholar
• Wang JP, Hsu KC, Chiang TY. 2000. Mitochondrial DNA phylogeography of Acrossocheilus paradoxus (Cyprinidae) in Taiwan. Mol Ecol. 9:1483–1494.
   PubMed Web of Science ®Google Scholar
• Wang JP, Lin HD, Huang S, Pan CH, Chen XL, Chiang TY. 2004. Phylogeography of Varicorhinus barbatulus (Cyprinidae) in Taiwan based on nucleotide variation of mtDNA and allozymes. Mol Phylogenet Evol. 32:1143–1156.
   Web of Science ®Google Scholar
• Xiao W, Zhang Y, Liu H. 2001. Molecular systematics of Xenocyprinae (Teleostei: Cyprinidae): taxonomy, biogeography, and coevolution of a special group restricted in East Asia. Mol Phylogenet Evol. 18:163–173.
   PubMed Web of Science ®Google Scholar
• Yu Y, Harris AJ, He X. 2010. S-DIVA (statistical dispersal-vicariance analysis): a tool for inferring biogeographic histories. Mol Phylogenet Evol. 56:848–850.
   PubMed Web of Science ®Google Scholar