The population structure and genetic divergence of Labeo gonius (Hamilton, 1822) analyzed through mitochondrial DNA cytochrome b gene for conservation in Indian waters

References

• Asahida T, Kobayashi T, Saitoh K, Nakayarma I. 1996. Tissue preservation and total DNA extraction from fish stored at ambient temperature using buffers containing of urea. Fisheries Sci. 62:727–730.
   Web of Science ®Google Scholar
• Baisvar VS, Kumar R, Singh M, Singh AK, Chauhan UK, Nagpure NS, Kushwaha B. 2015. ATPase 8/6 Gene based Genetic diversity assessment of Snakehead murrel, Channa striata (Perciformes, Channidae). ГЕНЕТИКА. 51:13–11.
   Google Scholar
• Bandelt HJ, Forster P, Rohl A. 1999. Median-joining networks for inferring intraspecific phylogenies. Mol Biol Evol. 16:37–48.
   PubMed Web of Science ®Google Scholar
• Bazin E, Glemin S, Galtier N. 2006. Population size does not influence mitochondrial genetic diversity in animals. Science. 312:570–572.
   PubMed Web of Science ®Google Scholar
• Behera BK, Kunal SP, Paria P, Das P, Meena DK, Pakrashi S, Sahoo AK, Panda D, Jena J, Sharma AP. 2015. Genetic differentiation in Indian Major Carp, Cirrhinus mrigala (Hamilton, 1822) from Indian rivers, as revealed by direct sequencing analysis of mitochondrial Cytochrome b region. Mitochondrial DNA. 26:334–336.
   PubMed Web of Science ®Google Scholar
• Behera BK, Baisvar VS, Kunal SP, Meena DK, Panda D, Pakrashi S, Paria P, Das P, Bhakta D, Debnath D, et al. 2016. Population structure and genetic diversity of Indian Major Carp, Labeo rohita (Hamilton, 1822) from three phylo-geographically isolated riverine ecosystems of India as revealed by mtDNA cytochrome b region sequences. Mitochondrial DNA Part A. [Epub ahead of print]. doi: 10.1080/24701394.2016.1267156
   Web of Science ®Google Scholar
• Behera BK, Kunal SP, Baisvar VS, Meena DK, Panda D, Pakrashi S, Paria P, Das P, Debnath D, Parida PK, et al. 2017. Genetic variation in wild and hatchery population of Catla catla (Hamilton, 1822) analyzed through mtDNA cytochrome b region. Mitochondrial DNA Part A. [Epub ahead of print]. doi: 10.1080/24701394.2016.1253072
   PubMed Web of Science ®Google Scholar
• Chauhan T, Lal KK, Mohindra V, Singh RK, Punia P, et al. 2007. Evaluating genetic differentiation in wild populations of the Indian major carp Cirrhinus mrigala (Hamilton-Buchanan, 1882): evidence from allozyme and microsatellite markers. Aquaculture. 269:135–149.
   Web of Science ®Google Scholar
• Daniels RJR. 2001. Endemic fishes of the Western Ghats and the Satpura hypothesis. Curr Sci. 81:240–244.
   Web of Science ®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
• Felsenstein J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution. 39:783–791.
   PubMed Web of Science ®Google Scholar
• Fu YX. 1967. Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics. 147:915–925.
   Google Scholar
• Galewski T, Tilak M, Sanchez S, Chevret P, Paradis E, Douzery EJP. 2006. The evolutionary radiation of arvicolinae rodents (voles and lemmings): relative contribution of nuclear and mitochondrial DNA phylogenies. BMC Evol Biol. 6:80.
   PubMed Web of Science ®Google Scholar
• Galtier N, Enard D, Radondy Y, Bazin E, Belkhir K. 2006. Mutation hot spots in mammalian mitochondrial DNA. Genome Res. 16:215–222.
   PubMed Web of Science ®Google Scholar
• Grant WS, Bowen BW. 1998. Shallow population histories in deep evolutionary lineages of marine fishes: Insights from sardines and anchovies and lessons for conservation. J Heredity. 89:415–426.
   Web of Science ®Google Scholar
• Hall TA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp. 41:95–98.
   Google Scholar
• Harpending HC. 1994. Signature of ancient population growth in a low-resolution mitochondrial DNA mismatch distribution. Hum Biol. 66:591–600.
   PubMed Web of Science ®Google Scholar
• Johns GC, Avise JC. 1998. A comparative summary of genetic distances in the vertebrates from the mitochondrial cytochrome b gene. Mol Bio Evol. 15:1481–1490.
   PubMed Web of Science ®Google Scholar
• Kimura M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol. 16:111–120.
   PubMed Web of Science ®Google Scholar
• Kocher TD, Conroy JA, McKaye KR, Stauffer JR. 1993. Similar morphologies of cichlid fish in Lakes Tanganyika and Malawi are due to convergence. Mol Phylogenet Evol. 2:158–165.
   PubMed Web of Science ®Google Scholar
• Kunal SP, Kumar G, Menezes MR, Meena RM. 2013. Mitochondrial DNA analysis reveals three stocks of Yellowfin tuna Thunnus albacares (Bonnaterre, 1788) in Indian waters. Conserv Genet. 14:205–213.
   Web of Science ®Google Scholar
• Liao PC, Kuo DC, Lin CC, Ho KC, Lin TP, Hwang SY. 2010. Historical spatial range expansion and a very recent bottleneck of Cinnamomum kanehirae Hay. (Lauraceae) in Taiwan inferred from nuclear genes. BMC Evol Biol. 10:124.
   PubMed Web of Science ®Google Scholar
• Luhariya RK, Lal KK, Singh RK, Mohindra V, Gupta A, Masih P, Dwivedi AK, Das R, Chauhan UK, Jena JK. 2014. Genealogy and phylogeography of Cyprinid fish Labeo rohita (Hamilton, 1822) inferred from ATPase 6 and 8 mitochondrial DNA gene analysis. Curr Zool. 60:460–471.
   Web of Science ®Google Scholar
• Mandal A, Mohindra V, Singh RK, Punia P, Singh AK, Lal KK. 2011. Mitochondrial DNA variation in natural populations of endangered Indian feather-back fish Chitala chitala. Mol Biol Rep. 39:1765–1775.
   PubMed Web of Science ®Google Scholar
• Mantel N. 1967. The detection of disease clustering and a generalized regression approach. Cancer Res. 27:209–220.
   PubMed Web of Science ®Google Scholar
• Mohanta KN, Subramanian S, Komarpant N, Saurabh S. 2008. Alternate carp species for diversification in fresh water aquaculture in India. Aquaculture Asia. 13:11–15.
   Google Scholar
• Oleksiak MF. 2010. Genomic approaches with natural fish populations. J Fish Biol. 76:1067–1093.
   PubMed Web of Science ®Google Scholar
• Purcell JFH, Cowen RK, Hughes CR, Williams DA. 2012. Weak genetic structure indicates strong dispersal limits: a tale of two coral reef fish. Proc R Soc B. 273:1483–1490.
   Google Scholar
• R Core Team. 2013. R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. Available from: http://www.R-project.org/
   Google Scholar
• Reed DH. 2009. When it comes to inbreeding: slower is better. Mol Ecol. 18:4521–4522.
   PubMed Web of Science ®Google Scholar
• Rogers AR, Harpending H. 1992. Population growth makes waves in the distribution of pairwise genetic differences. Mol Biol Evol. 9:552–569.
   PubMed Web of Science ®Google Scholar
• Rozas J, Sa´nchez-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
• Scribner KT, Talbot SL, Pearce JM, Pierson BJ, Bollinger KS, Derksen DV. 2003. Phylogeography of canada geese (Branta canadensis) in western north America. J Auk. 120:889–907.
   Web of Science ®Google Scholar
• Silas EG. 1952. Further studies regarding Hora’s Satpura Hypothesis. 2: Taxonomic assessment and levels of evolutionary divergences of fishes with the so-called Malayan affinities in Peninsular India. Proc Natl Inst Sci India. 18:423–448.
   Google Scholar
• Slatkin M, Hudson R. 1991. Pairwise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics. 129:555–562.
   PubMed Web of Science ®Google Scholar
• Slatkin M. 1993. Isolation by distance in equilibrium and nonequilibrium population. Evolution. 47:264–279.
   PubMed Web of Science ®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
• Talwar PK, Jhingran AG. 1991. Inland fishes of India and adjacent countries. Vol 1A. Rotterdam: Balkema.
   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
• The IUCN Red List of Threatened Species. 2010. [cited 2016 Apr 30]. Available from: http://dx.doi.org/10.2305/IUCN.UK.2010-4.RLTS.T166436A6208877.en
   Google Scholar
• Valdiya KS. 2002. Emergence and evolution of Himalaya: reconstructing history in the light of recent studies. Prog Phys Geography. 26:360–399.
   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