Phylogeography of freshwater fish Puntius sophore in India

References

• Aleixo A. 2006. Historical diversification of floodplain forest specialist species in the Amazon: a case study with two species of the avian genus Xiphorhynchus (Aves: Dendrocolaptidae). Biol J Linn Soc. 89:383–395.
   Web of Science ®Google Scholar
• Avise JC, Arnold JA, Ball RM, Bermingham E, Lamb T, Neigel JE, Reeb CA, Saunders NC. 1987. Intra-specific phylogeography: the mitochondrial DNA bridge between population genetics and systematics. Annu Rev Ecol Syst. 18:489–522.
   Google Scholar
• Avise JC. 2000. Phylogeography: the history and formation of species. Cambridge, MA: Harvard University Press; p. 447. [Also translated and published in Japanese in 2008]
   Google Scholar
• Bandelt H-J, Forster P, Röhl A. 1999. Median-joining networks for inferring intraspecific phylogenies. Mol Biol Evol. 16:37–48.
   PubMed Web of Science ®Google Scholar
• Bogan MT, Lytle DA. 2007. Seasonal flow variation allows "time-sharing" by disparate aquatic insect communities in montane desert streams. Freshw Biol. 52:290–304.
   Web of Science ®Google Scholar
• Bookhagen B, Burbank DW. 2010. Towards a complete Himalaya hydrological budget: spatiotemporal distribution of snowmelt and rainfall and their impact on the river discharge. J Geophys Res. 115:F03019.
   Web of Science ®Google Scholar
• Cadena CD, Klicka J, Ricklefs RE. 2007. Evolutionary differentiation in the Neotropical montane region: molecular phylogenetics and phylogeography of Buarremon brush-finches (Aves, Emberizidae). Mol Phys Evol. 44:993–1016.
   PubMed Web of Science ®Google Scholar
• Cadena CD, Koza KH, Gomez JP, Parra JL, McCain CM, Bowie RCK. 2012. Latitude, elevational climatic zonation and speciation in New World vertebrates. Proc Biol Sci. 279:194–201.
   PubMed Web of Science ®Google Scholar
• Chen W, Du K, He S. 2015. Genetic structure and historical demography of Schizothorax nukiangensis (Cyprinidae) in continuous habitat. Ecol Evol. 5:984–995.
   PubMed Web of Science ®Google Scholar
• Clement M, Posada D, Crandall KA. 2000. TCS: a computer program to estimate gene genealogies. Mol Ecol. 9:1657–1659.
   PubMed Web of Science ®Google Scholar
• Collins RA, Armstrong KF, Meier R, Yi Y, Brown SDJ, Cruickshank RH, Keeling S, Johnston C. 2012. Barcoding and border biosecurity: identifying cyprinid fishes in the aquarium trade. PLoS One. 7:28381.
   PubMed Web of Science ®Google Scholar
• DiBattista JD, Rocha LA, Craig MT, Feldheim KA, Bowen BW. 2012. Phylogeography of two closely related Indo-Pacific butterflyfishes reveals divergent evolutionary histories and discordant results from mtdna and microsatellites. J Hered. 103:617–629.
   PubMed Web of Science ®Google Scholar
• Excoffier L, Laval G, Schneider S. 2005. ARLEQUIN (version 3.0): an integrated software package for population genetics data analysis. Evol Bioinform Online. 1:47–50.
   PubMed Web of Science ®Google Scholar
• Fleischer R, Perry E, Muralidharan K, Stevens E, Wemmer C. 2001. Phylogeography of the Asian elephant (Elephas maximus) based on mitochondrial DNA. Evolution. 55:1882–1892.
   PubMed Web of Science ®Google Scholar
• Folmer O, Black M, Hoeh W, Lutz R, Vrijenhoek R. 1994. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Mol Marine Biol Biotechnol. 3:294–229.
   PubMedGoogle Scholar
• Forster P, Torroni A, Renfrew C, Rohl A. 2001. Phylogenetic star contraction applied to Asian and Papuan mtDNA evolution. Mol Biol Evol. 18:1864–1881.
   PubMed Web of Science ®Google Scholar
• Fu Y-X. 1997. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics. 147:915–925.
   PubMed Web of Science ®Google Scholar
• Hajibabaei M, Gregory AC, Singer GAC, Hebert PDN, Hickey DA. 2007. DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics. Trends Genet. 23:167–172.
   PubMed Web of Science ®Google Scholar
• Hall TA. 1999. Bioedit: a user friendly biological sequence alignment editor and analysis program for windows 95/98/NT. Nucleic Acid Symp Ser. 41:95–98.
   Google Scholar
• Hora SL. 1949. Satpura hypothesis of the distribution of the Malayan fauna and flora to peninsular India. Proc Natl Inst Sci India. 15:309–314.
   Google Scholar
• Hudson RR, Kreitman M, Aguade M. 1989. A test of neutral molecular evolution based on nucleotide data. Genetics. 116:153–159.
   Web of Science ®Google Scholar
• John L, Peter R, Gopalakrishnan A. 2013. Population structure of Denison’s barb, Puntius denisonii (Pisces: Cyprinidae): a species complex endemic to the Western Ghats of India. J Phylogen Evol Biol. 1:106.
   Google Scholar
• Kadam MS, Pampatwar DV, Mali RP. 2007. Seasonal variations in different physicochemical characteristics in Mosoli reservoir of Parbhani district, Maharashtra. J Aquatic Biol 22:110–112.
   Google Scholar
• Khan AH, Miah S. 1983. The Brahmaputra River Basin development. In Munir Z, et al. editors, Dubin: River Basin Development.
   Google Scholar
• Khedkar GD, Jamdade R, Kalyankar A, Tiknaik A, Ron TB, Haymer D. 2014a. Genetic fragmentation in India's third longest river system, the Narmada. Springerplus. 3:385.
   PubMed Web of Science ®Google Scholar
• Khedkar GD, Lutzky S, Rathod S, Kalyankar A, David L. 2014b. A dual role of dams in fragmentation and support of fish diversity across the Godavari River basin in India. Ecohydrology. 7:1560–1573.
   Web of Science ®Google Scholar
• Kocher TD, Thomas WK, Meyer A, Edwards SV, Paabo S, Villablanca FX, Wilson AC. 1989. Dynamics of mitochondrial DNA evolution in animals: amplification and sequencing with conserved primers. Proc Natl Acad Sci USA. 86:6196–6200.
   PubMed 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
• Lourie S. 2003. Fin-clipping procedure for seahorses. In: Project Seahorse Technical Bulletin 3 Fisheries Centre. Vancouver: University of British Columbia; p. 1–4.
   Google Scholar
• Marosi B, Sos T, Ghira IV, Popescu O. 2013. COI based phylogeography and intraspecific genetic variation of Rana dalmatina populations in the vicinity of the Carpathians. German J Zool Res. 1:7–16.
   Google Scholar
• Mila B, Girman DJ, Kimura M, Smith TB. 2000. Genetic evidence for the effect of a postglacial population expansion on the phylogeography of a North American songbird. Proc Biol Sci. 267:1033–1040.
   PubMed Web of Science ®Google Scholar
• Petr T. 1999. Coldwater fish and fisheries in Bhutan. In: Petr T, editor. Fish and fisheries at higher altitudes. Asia: FAO Fisheries Technical Paper 385; p. 6–12.
   Google Scholar
• Saitou N, Nei M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 4:406–425.
   PubMed Web of Science ®Google Scholar
• Sambrook J, Fritsch EF, Maniatis T. 1989. Molecular cloning, a laboratory manual. 2nd ed. Vol. 3. Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press; p. 18–55.
   Google Scholar
• Singh NS, Behera BK, Sharma AP. 2013. Population structure of Puntius sophore inferred from variation in mitochondrial DNA sequences. Int J Res Fish Aquac. 3:112–115.
   Google Scholar
• Singh P, Jain SK. 2002. Snow and glacier melt in the Satluj River at Bhakra dam in the western Himalayan region. Hydrol Sci. 47:93–106.
   Web of Science ®Google Scholar
• Slatkin M. 1993. Isolation by distance in equilibrium and non-equilibrium populations. Evolution. 47:264–279.
   PubMed Web of Science ®Google Scholar
• Taillebois L, Castelin M, Ovenden JR, Bonillo C, Keith P. 2013. Contrasting genetic structure among populations of two amphidromous fish species (Sicydiinae) in the Central West Pacific. PLoS One. 8:e75465.
   PubMed Web of Science ®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
• Tan MP, Jamsari AFJ, Siti Azizah MN. 2012. Phylogeography pattern of the striped snakehead, Channa striata in Sundaland: ancient river connectivity, geographical and anthropological signatures. PLoS One. 7:e52089.
   PubMed Web of Science ®Google Scholar
• Tatarenkov A, Ring BC, Elder JF, Bechler DL, Avise JC. 2010. Genetic composition of laboratory stocks of the self-fertilizing fish Kryptolebias marmoratus: a valuable resource for experimental research. PLoS One. 5:e12863.
   PubMed Web of Science ®Google Scholar
• Turner TF, McPhee MV, Campbell P, Winemiller KO. 2004. Phylogeography and interspecific genetic variation of prochilodontid fishes endemic to rivers of northern South America. J Fish Biol. 64:186–201.
   Web of Science ®Google Scholar
• Weigt LA, Baldwin CC, Driskell A, Smith DG, Ormos A, Reyie EA. 2012. Using dna barcoding to assess Caribbean reef fish biodiversity: expanding taxonomic and geographic coverage. PLoS One. 7:e41059.
   PubMed Web of Science ®Google Scholar
• Westemeier RL, Brawn JD, Simpson SA, Esker TL, Jansen RW, Walk JW, Kershner EL, Bouzat JL, Paige KN. 1998. Tracking the long-term decline and recovery of an isolated population. Science. 282:1695–1698.
   PubMed Web of Science ®Google Scholar
• Xue DX, Wang HY, Zhang T, Liu JX. 2014. Population genetic structure and demographic history of Atrina pectinata based on mitochondrial DNA and microsatellite markers. PLoS One. 9:e95436.
   PubMed Web of Science ®Google Scholar