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Mitochondrial DNA Part A
DNA Mapping, Sequencing, and Analysis
Volume 28, 2017 - Issue 6
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Research Article

Spatial genetic structure of the cyprinid fish Onychostoma lepturum on Hainan Island

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Pages 901-908 | Received 19 Dec 2015, Accepted 30 Jun 2016, Published online: 08 Sep 2016

References

  • Avise JC. 2000. Phylogeography: the history and formation of species. Cambridge (MA): Harvard University Press.
  • Bowen BW, Grant WS. 1997. Phylogeography of the sardines (Sardinops spp.): assessing biogeographic models and population histories in temperate upwelling zones. Evolution. 51:1601–1610.
  • Buhay JE, Crandall KA. 2005. Subterranean phylogeography of freshwater crayfishes shows extensive gene flow and surprisingly large population sizes. Mol Ecol. 14:4259–4273.
  • Chen XL, Chiang TY, Lin HD, Zheng HS, Shao KT, Zhang Q, Hsu KC. 2007. Mitochondrial DNA phylogeography of Glyptothorax fokiensis and Glyptothorax hainanensis in Asia. J Fish Biol. 70:75–93.
  • Chen YY, editor. 2000. Fauna Sinica, Osteichthyes, Cypriniformes II. Beijing: Science Press (in Chinese).
  • Cheng HL, Wu CY, Tsai KC, Liu AY, Chiu YW, Tseng DY. 2014. The complete mitochondrial genome sequences of Onychostoma alticorpus (Cypriniformes, Cyprinidae). Mitochondrial DNA. 25:188–189.
  • Chiang TY, Lee TW, Hsu KC, Kuo CH, Lin DY, Lin HD. 2011. Population structure in the endangered cyprinid fish Pararasbora moltrechti in Taiwan, based on mitochondrial and microsatellite DNAs. Zool Sci. 28:642–651.
  • 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.
  • Chiang TY, Lin HD, Zhao J, Kuo PH, Lee TW, Hsu KC. 2013. Diverse processes shape deep phylogeographical divergence in Cobitis sinensis (Teleostei: Cobitidae) in East Asia. J Zool Syst Evol. 51:316–623.
  • Darriba D, Taboada GL, Doallo R, Posada D. 2012. jModelTest 2: more models, new heuristics and parallel computing. Nat Methods. 9:772.
  • Drummond AJ, Suchard MA, Xie D, Rambau A. 2012. Bayesian phylogenetics with BEAUti and the BEAST 1.7 [Internet]. Available from: http://beast.bio.ed.ac.uk
  • Dupanloup I, Schneidera S, Excoffier NL. 2002. A simulated annealing approach to define the genetic structure of populations. Mol Ecol. 11:2571–2581.
  • Evanno G, Regnaut S, Goudet J. 2005. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol. 14:2611–2620.
  • 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.
  • Frankham R. 1996. Relationship of genetic variation to population size in wildlife. Conserv Biol. 10:1500–1508.
  • Froese R, Pauly D. 2012. FishBase. World Wide Web electronic publication [Internet]. [cited Jan 2016]. Available from: http://www.fishbase.org
  • 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.
  • 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.
  • Huang Y, Guo X, Ho SYW, Shi H, Li J, Li J, Cai B, Wang Y. 2013. Diversification and demography of the oriental garden lizard (Calotes versicolor) on Hainan Island and the adjacent mainland. PLoS One. 8:e64754.
  • Huelsenbeck JP, Ronquist F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics. 17:754–755.
  • Jaen CT, Wu CY, Tsai KC, Wang WK, Hsu YY, Chang YM, Lin HD. 2014. Population genetic structure in the endemic cyprinid fish Microphysogobio alticorpus in Taiwan: evidence for a new phylogeographical area. Bioch Syst Ecol. 57:108–116.
  • Jukes TH, Cantor CR. 1969. Evolution of protein molecules. In: Monro HN, editor. Mammalian protein metabolism. New York (NY): Academic Press. p. 21–132.
  • Kang B, Deng J, Huang X, Chen L, Feng Y. 2013. Explaining freshwater fish biogeography: history versus environment versus species personality. Rev Fish Biol Fish. 23:523–536.
  • Kang B, Deng J, Wu Y, Chen L, Zhang J, Qiu H, Lu Y, He D. 2014. Mapping China’s freshwater fishes: diversity and biogeography. Fish Fish. 15:209–230.
  • Kottelat M. 2001. Fishes of Laos. Colombo: WHT Publications Ltd. 198 p.
  • Li SZ. 1981. Studies on zoogeographical divisions for fresh water fishes of China. Beijing: Science Press (in Chinese).
  • Liao TY, Wang TY, Lin HD, Shen SC, Tzeng CS. 2008. Phylogeography of the endangered species, Sinogastromyzon puliensis (Cypriniformes: Balitoridae), in southwestern Taiwan based on mtDNA. Zool Stud. 47:383–392.
  • Librado P, Rozas J. 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics. 25:1451–1452.
  • 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. 72:2011–2025.
  • Lin LH, Ji X, Diong CH, Du Y, Lin CX. 2010. Phylogeography and population structure of the Reevese’s Butterfly Lizard (Leiolepis reevesii) inferred from mitochondrial DNA sequences. Mol Phylogenet Evol. 56:601–607.
  • Luo JZ, Lin HD, Yang F, Yi ZS, Chan BP, Zhao J. 2015. Population genetic structure in wild and hatchery populations of white cloud mountain minnow (Tanichthys albonubes): recommendations for conservation. Biochem Syst Ecol. 62:142–150.
  • Moritz C. 1994. Defining “evolutionarily significant units” for conservation. Trends Ecol Evol (Amst). 9:373–375.
  • Morton B, Blackmore G. 2001. South China Sea. Mar Pollut Bull. 42:1236–1263.
  • Nei M, Tajima F. 1983. Maximum likelihood estimation of the number of nucleotide substitutions from restriction sites data. Genetics. 105:207–217.
  • Pearse DE, Crandall K. 2004. Beyond FST: analysis of population genetic data for conservation. Conserv Genet. 5:585–602.
  • Pons O, Petit RJ. 1996. Measuring and testing genetic differentiation with ordered versus unordered alleles. Genetics. 144:1237–1245.
  • Pritchard J, Wen W. 2004. Documentation for structure software: version 2. Chicago (IL): Department of Human Genetics, University of Chicago.
  • Pritchard JK, Stephens M, Donnelly P. 2000. Inference of population structure using multilocus genotype data. Genetics. 155:945–959.
  • Ronquist F. 1997. Dispersal-vicariance analysis: a new approach to the quantification of historical biogeography. Syst Biol. 57:195–203.
  • Shi YF. 2002. A suggestion to improve the chronology of quaternary glaciations in China. J Glaciol Geocryol. 24:687–692.
  • Shi YF, Cui ZJ, Su Z. 2006. The quaternary glaciations and environmental variations in China. Shijiazhuang: Hebei Science and Technology Press.
  • 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.
  • Templeton AR. 1993. The ‘Eve’ hypothesis: a genetic critique and reanalysis. Am Anthropol. 95:51–72.
  • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The Clustal × windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 24:4876–4882.
  • Tinghui M. 2009. Nature and environment of the Hainan Province of China. Ann Rep Res Environ Ed Kyoto Univ Ed. 17:141–149.
  • Voris HK. 2000. Maps of Pleistocene sea levels in Southeast Asia: shorelines, river systems and time durations. J Biogeogr. 27:1153–1167.
  • 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.
  • Wang JP, Hsu KC, Chiang TY. 2000. Mitochondrial DNA phylogeography of Acrossocheilus paradoxus (Cyprinidae) in Taiwan. Mol Ecol. 9:1483–1494.
  • 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.
  • Xia X. 2013. DAMBE5: a comprehensive software package for data analysis in molecular biology and evolution. Mol Biol Evol. 30:1720–1728.
  • 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.
  • Yang JQ, Tang WQ, Liao TY, Sun Y, Zhou ZC, Han CC, Liu D, Lin HD. 2012. Phylogeographical analysis on Squalidus argentatus recapitulates historical landscapes and drainage evolution on the island of Taiwan and mainland China. Int J Mol Sci. 13:1405–1425.
  • Yang L, Mayden RL, He S. 2009. Population genetic structure and geographical differentiation of the Chinese catfish Hemibagrus macropterus (Siluriformes, Bagridge): evidence for altered drainage patterns. Mol Phylogenet Evol. 51:405–411.
  • Yang SJ, Dong HL, Lei FM. 2009. Phylogeography of regional fauna on the Tibetan Plateau: a review. Prog Nat Sci. 19:789–799.
  • Yap SY. 2002. On the distributional patterns of Southeast-East Asian freshwater fish and their history. J Biogeogr. 29:1187–1199.
  • 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.
  • Zeng ZX, Zeng XZ. 1989. Physical geography of Hainan. Beijiang: Science Press.
  • Zhao HT, Wang LR, Yuan JY. 2007. Origin and time of Qiongzhou Strait. Marine Geol Quat Geol. 27:33–40.

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