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Volumn 7, Issue 10, 2012, Pages

Contrasting Evolutionary Dynamics and Information Content of the Avian Mitochondrial Control Region and ND2 Gene

Author keywords

[No Author keywords available]

Indexed keywords

MITOCHONDRIAL DNA;

EID: 84867186753     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0046403     Document Type: Article
Times cited : (26)

References (117)
  • 2
    • 0000621581 scopus 로고
    • Genetic evidence for a Pleistocene population explosion
    • Rogers AR, (1995) Genetic evidence for a Pleistocene population explosion. Evolution 49: 608-615.
    • (1995) Evolution , vol.49 , pp. 608-615
    • Rogers, A.R.1
  • 4
    • 0002447606 scopus 로고    scopus 로고
    • Mitochondrial control region sequences as tools for understanding evolution
    • In: Mindell DP, editor,San Diego, CA: Academic Press
    • Baker AJ, Marshall HD (1997) Mitochondrial control region sequences as tools for understanding evolution. In: Mindell DP, editor. Avian Molecular Evolution and Systematics. San Diego, CA: Academic Press. pp. 51-82.
    • (1997) Avian Molecular Evolution and Systematics , pp. 51-82
    • Baker, A.J.1    Marshall, H.D.2
  • 7
    • 1642566711 scopus 로고    scopus 로고
    • Mitochondrial DNA variation, effective female population size and population history of the endangered Chinese sturgeon, Acipenser sinensis
    • Zhang SM, Wang DQ, Zhang YP, (2003) Mitochondrial DNA variation, effective female population size and population history of the endangered Chinese sturgeon, Acipenser sinensis. Conservation Genetics 4: 673-683.
    • (2003) Conservation Genetics , vol.4 , pp. 673-683
    • Zhang, S.M.1    Wang, D.Q.2    Zhang, Y.P.3
  • 8
    • 0034532275 scopus 로고    scopus 로고
    • Heteroplasmy in the mtDNA control region of sturgeon (Acipenser, Huso and Scaphirhynchus)
    • Ludwig A, May B, Debus L, Jenneckens I, (2000) Heteroplasmy in the mtDNA control region of sturgeon (Acipenser, Huso and Scaphirhynchus). Genetics 156: 1933-1947.
    • (2000) Genetics , vol.156 , pp. 1933-1947
    • Ludwig, A.1    May, B.2    Debus, L.3    Jenneckens, I.4
  • 9
    • 67349134670 scopus 로고    scopus 로고
    • Investigation of Heteroplasmy in the Human Mitochondrial DNA Control Region: A Synthesis of Observations from More Than 5000 Global Population Samples
    • Irwin JA, Saunier JL, Niederstatter H, Strouss KM, Sturk KA, et al. (2009) Investigation of Heteroplasmy in the Human Mitochondrial DNA Control Region: A Synthesis of Observations from More Than 5000 Global Population Samples. Journal of Molecular Evolution 68: 516-527.
    • (2009) Journal of Molecular Evolution , vol.68 , pp. 516-527
    • Irwin, J.A.1    Saunier, J.L.2    Niederstatter, H.3    Strouss, K.M.4    Sturk, K.A.5
  • 10
  • 11
    • 0029909927 scopus 로고    scopus 로고
    • Gene rearrangements in snake mitochondrial genomes: highly concerted evolution of control-region-like sequences duplicated and inserted into a tRNA-gene cluster
    • Kumazawa Y, Ota H, Nishida M, Ozawa T, (1996) Gene rearrangements in snake mitochondrial genomes: highly concerted evolution of control-region-like sequences duplicated and inserted into a tRNA-gene cluster. Molecular Biology and Evolution 13: 1242-1254.
    • (1996) Molecular Biology and Evolution , vol.13 , pp. 1242-1254
    • Kumazawa, Y.1    Ota, H.2    Nishida, M.3    Ozawa, T.4
  • 12
    • 33845873317 scopus 로고    scopus 로고
    • Mitochondrial genomes and avian phylogeny: Complex characters and resolvability without explosive radiations
    • Gibb GC, Kardailsky O, Kimball RT, Braun EL, Penny D, (2007) Mitochondrial genomes and avian phylogeny: Complex characters and resolvability without explosive radiations. Molecular Biology and Evolution 24: 269-280.
    • (2007) Molecular Biology and Evolution , vol.24 , pp. 269-280
    • Gibb, G.C.1    Kardailsky, O.2    Kimball, R.T.3    Braun, E.L.4    Penny, D.5
  • 13
    • 14544298002 scopus 로고    scopus 로고
    • Evolution of duplicate control regions in the mitochondrial genomes of metazoa: A case study with Australasian Ixodes ticks
    • Shao RF, Barker SC, Mitani H, Aoki Y, Fukunaga M, (2005) Evolution of duplicate control regions in the mitochondrial genomes of metazoa: A case study with Australasian Ixodes ticks. Molecular Biology and Evolution 22: 620-629.
    • (2005) Molecular Biology and Evolution , vol.22 , pp. 620-629
    • Shao, R.F.1    Barker, S.C.2    Mitani, H.3    Aoki, Y.4    Fukunaga, M.5
  • 15
    • 39749186003 scopus 로고    scopus 로고
    • Bird mitochondrial gene order: Insight from 3 warbler mitochondrial genomes
    • Singh TR, Shneor O, Huchon D, (2008) Bird mitochondrial gene order: Insight from 3 warbler mitochondrial genomes. Molecular Biology and Evolution 25: 475-477.
    • (2008) Molecular Biology and Evolution , vol.25 , pp. 475-477
    • Singh, T.R.1    Shneor, O.2    Huchon, D.3
  • 16
    • 0034939490 scopus 로고    scopus 로고
    • Duplication and concerted evolution of the mitochondrial control region in the parrot genus Amazona
    • Eberhard JR, Wright TF, Bermingham E, (2001) Duplication and concerted evolution of the mitochondrial control region in the parrot genus Amazona. Molecular Biology and Evolution 18: 1330-1342.
    • (2001) Molecular Biology and Evolution , vol.18 , pp. 1330-1342
    • Eberhard, J.R.1    Wright, T.F.2    Bermingham, E.3
  • 17
    • 33644874509 scopus 로고    scopus 로고
    • An unusual source of apparent mitochondrial heteroplasmy: duplicate mitochondrial control regions in Thalassarche albatrosses
    • Abbott CL, Double MC, Trueman JWH, Robinson A, Cockburn A, (2005) An unusual source of apparent mitochondrial heteroplasmy: duplicate mitochondrial control regions in Thalassarche albatrosses. Molecular Ecology 14: 3605-3613.
    • (2005) Molecular Ecology , vol.14 , pp. 3605-3613
    • Abbott, C.L.1    Double, M.C.2    Trueman, J.W.H.3    Robinson, A.4    Cockburn, A.5
  • 19
    • 0041695640 scopus 로고    scopus 로고
    • Speciation in North American black basses, Micropterus (Actinopterygii: Centrarchidae)
    • Near TJ, Kassler TW, Koppelman JB, Dillman CB, Philipp DP, (2003) Speciation in North American black basses, Micropterus (Actinopterygii: Centrarchidae). Evolution 57: 1610-1621.
    • (2003) Evolution , vol.57 , pp. 1610-1621
    • Near, T.J.1    Kassler, T.W.2    Koppelman, J.B.3    Dillman, C.B.4    Philipp, D.P.5
  • 20
    • 36549076445 scopus 로고    scopus 로고
    • Amphibian DNA shows marked genetic structure and tracks Pleistocene climate change in northeastern Brazil
    • Carnaval AC, Bates JM, (2007) Amphibian DNA shows marked genetic structure and tracks Pleistocene climate change in northeastern Brazil. Evolution 61: 2942-2957.
    • (2007) Evolution , vol.61 , pp. 2942-2957
    • Carnaval, A.C.1    Bates, J.M.2
  • 21
    • 34548525154 scopus 로고    scopus 로고
    • Ancient differentiation in the single-island avian radiation of endemic Hispaniolan chat-tanagers (Aves: Calyptophilus)
    • Townsend AK, Rimmer CC, Latta SC, Lovette IJ, (2007) Ancient differentiation in the single-island avian radiation of endemic Hispaniolan chat-tanagers (Aves: Calyptophilus). Molecular Ecology 16: 3634-3642.
    • (2007) Molecular Ecology , vol.16 , pp. 3634-3642
    • Townsend, A.K.1    Rimmer, C.C.2    Latta, S.C.3    Lovette, I.J.4
  • 22
    • 58249116647 scopus 로고    scopus 로고
    • Phylogeography of the greater horseshoe bat, Rhinolophus ferrumequinum: contrasting results from mitochondrial and microsatellite data
    • Flanders J, Jones G, Benda P, Dietz C, Zhang SY, et al. (2009) Phylogeography of the greater horseshoe bat, Rhinolophus ferrumequinum: contrasting results from mitochondrial and microsatellite data. Molecular Ecology 18: 306-318.
    • (2009) Molecular Ecology , vol.18 , pp. 306-318
    • Flanders, J.1    Jones, G.2    Benda, P.3    Dietz, C.4    Zhang, S.Y.5
  • 23
    • 23744507900 scopus 로고    scopus 로고
    • Evolutionary history, population genetis, and gene flow in the common rosefinch (Carpodacus erythrinus)
    • Pavlova A, Zink RM, Rohwer S, (2005) Evolutionary history, population genetis, and gene flow in the common rosefinch (Carpodacus erythrinus). Molecular Phylogenetics and Evolution 36: 669-681.
    • (2005) Molecular Phylogenetics and Evolution , vol.36 , pp. 669-681
    • Pavlova, A.1    Zink, R.M.2    Rohwer, S.3
  • 24
    • 59849116001 scopus 로고    scopus 로고
    • Comparing Evolutionary Patterns and Variability in the Mitochondrial Control Region and Cytochrome b in Three Species of Baleen Whales
    • Alter SE, Palumbi SR, (2009) Comparing Evolutionary Patterns and Variability in the Mitochondrial Control Region and Cytochrome b in Three Species of Baleen Whales. Journal of Molecular Evolution 68: 97-111.
    • (2009) Journal of Molecular Evolution , vol.68 , pp. 97-111
    • Alter, S.E.1    Palumbi, S.R.2
  • 25
    • 77954547173 scopus 로고    scopus 로고
    • Analysis of Canis mitochondrial DNA demonstrates high concordance between the control region and ATPase genes
    • Rutledge LY, Patterson BR, White BN, (2010) Analysis of Canis mitochondrial DNA demonstrates high concordance between the control region and ATPase genes. BMC Evolutionary Biology 10.
    • (2010) BMC Evolutionary Biology , vol.10
    • Rutledge, L.Y.1    Patterson, B.R.2    White, B.N.3
  • 27
    • 17044410142 scopus 로고    scopus 로고
    • Natural selection on mitochondrial DNA in Parus and its relevance for phylogeographic studies
    • Zink RM, (2005) Natural selection on mitochondrial DNA in Parus and its relevance for phylogeographic studies. Proceedings of the Royal Society of London, Series B 272: 71-78.
    • (2005) Proceedings of the Royal Society of London, Series B , vol.272 , pp. 71-78
    • Zink, R.M.1
  • 28
    • 1642286464 scopus 로고    scopus 로고
    • The effect of selection on genealogies
    • Barton NH, Etheridge AM, (2004) The effect of selection on genealogies. Genetics 166: 1115-1131.
    • (2004) Genetics , vol.166 , pp. 1115-1131
    • Barton, N.H.1    Etheridge, A.M.2
  • 29
    • 33746774640 scopus 로고    scopus 로고
    • Selective neutrality of mitochondrial ND2 sequences, phylogeography and species limits in Sitta europaea
    • Zink RM, Drovetski SV, Rohwer S, (2006) Selective neutrality of mitochondrial ND2 sequences, phylogeography and species limits in Sitta europaea. Molecular Phylogenetics and Evolution 40: 679-686.
    • (2006) Molecular Phylogenetics and Evolution , vol.40 , pp. 679-686
    • Zink, R.M.1    Drovetski, S.V.2    Rohwer, S.3
  • 30
    • 34047166418 scopus 로고    scopus 로고
    • Phylogeography of the white-breasted nuthatch (Sitta carolinensis): diversification in North American pine and oak woodlands
    • Spellman GM, Klicka J, (2007) Phylogeography of the white-breasted nuthatch (Sitta carolinensis): diversification in North American pine and oak woodlands. Molecular Ecology 16: 1729-1740.
    • (2007) Molecular Ecology , vol.16 , pp. 1729-1740
    • Spellman, G.M.1    Klicka, J.2
  • 31
    • 33947653226 scopus 로고    scopus 로고
    • Lack of phylogeographic structure in three widespread Australian birds reinforces emerging challenges in Australian historical biogeography
    • Joseph L, Wilke T, (2007) Lack of phylogeographic structure in three widespread Australian birds reinforces emerging challenges in Australian historical biogeography. Journal of Biogeography 34: 612-624.
    • (2007) Journal of Biogeography , vol.34 , pp. 612-624
    • Joseph, L.1    Wilke, T.2
  • 32
    • 0020670470 scopus 로고
    • Human mitochondrial DNA variation and evolution: analysis of nucleotide sequences from seven individuals
    • Aquadro CF, Greenberg BD, (1983) Human mitochondrial DNA variation and evolution: analysis of nucleotide sequences from seven individuals. Genetics 103: 287-312.
    • (1983) Genetics , vol.103 , pp. 287-312
    • Aquadro, C.F.1    Greenberg, B.D.2
  • 33
    • 0027157960 scopus 로고
    • Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
    • Tamura K, Nei M, (1993) Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Molecular Biology and Evolution 10: 512-526.
    • (1993) Molecular Biology and Evolution , vol.10 , pp. 512-526
    • Tamura, K.1    Nei, M.2
  • 34
    • 0027496790 scopus 로고
    • Substitution rate variation among sites in hypervariable region 1 of human mitochondrial DNA
    • Wakely J, (1993) Substitution rate variation among sites in hypervariable region 1 of human mitochondrial DNA. Journal of Molecular Evolution 37: 613-623.
    • (1993) Journal of Molecular Evolution , vol.37 , pp. 613-623
    • Wakely, J.1
  • 36
    • 0024313579 scopus 로고
    • Statistical method for testing the neutral mutation hypothesis by DNA polymorphism
    • Tajima F, (1989) Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123: 585-595.
    • (1989) Genetics , vol.123 , pp. 585-595
    • Tajima, F.1
  • 37
    • 0030821992 scopus 로고    scopus 로고
    • Statistical tests of neutrality against population growth, hitchhiking and background selection
    • Fu Y-X, (1997) Statistical tests of neutrality against population growth, hitchhiking and background selection. Genetics 147: 915-925.
    • (1997) Genetics , vol.147 , pp. 915-925
    • Fu, Y.-X.1
  • 38
    • 0030056912 scopus 로고    scopus 로고
    • The impact of population expansion and mutation rate heterogeneity on DNA sequence polymorphism
    • Aris-Brosou S, Excoffier L, (1996) The impact of population expansion and mutation rate heterogeneity on DNA sequence polymorphism. Molecular Biology and Evolution 13: 494-504.
    • (1996) Molecular Biology and Evolution , vol.13 , pp. 494-504
    • Aris-Brosou, S.1    Excoffier, L.2
  • 39
    • 0029097280 scopus 로고
    • The number of segregating sites in expanding human populations, with implications for estimates of demographic parameters
    • Bertorelle G, Slatkin M, (1995) The number of segregating sites in expanding human populations, with implications for estimates of demographic parameters. Molecular Biology and Evolution 12: 887-892.
    • (1995) Molecular Biology and Evolution , vol.12 , pp. 887-892
    • Bertorelle, G.1    Slatkin, M.2
  • 40
    • 0026020273 scopus 로고
    • Time of the deepest root for polymorphism in human mitochondrial DNA
    • Hasegawa M, Horai S, (1991) Time of the deepest root for polymorphism in human mitochondrial DNA. Journal of Molecular Evolution 32: 37-42.
    • (1991) Journal of Molecular Evolution , vol.32 , pp. 37-42
    • Hasegawa, M.1    Horai, S.2
  • 41
    • 0038040657 scopus 로고    scopus 로고
    • Demographic expansion of parasitic nematodes of livestock based on mitochondrial DNA regions that conflict with the infinite-sites model
    • Mes THM, (2003) Demographic expansion of parasitic nematodes of livestock based on mitochondrial DNA regions that conflict with the infinite-sites model. Molecular Ecology 12: 1555-1566.
    • (2003) Molecular Ecology , vol.12 , pp. 1555-1566
    • Mes, T.H.M.1
  • 42
    • 0030735280 scopus 로고    scopus 로고
    • Estimation of the amount of DNA polymorphism when the neutral mutation rate varies among sites
    • Misawa K, Tajima F, (1997) Estimation of the amount of DNA polymorphism when the neutral mutation rate varies among sites. Genetics 147: 1959-1964.
    • (1997) Genetics , vol.147 , pp. 1959-1964
    • Misawa, K.1    Tajima, F.2
  • 43
    • 0032814604 scopus 로고    scopus 로고
    • Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rates very among sites: Application to human mitochondrial DNA
    • Schneider S, Excoffier L, (1999) Estimation of past demographic parameters from the distribution of pairwise differences when the mutation rates very among sites: Application to human mitochondrial DNA. Genetics 152: 1079-1089.
    • (1999) Genetics , vol.152 , pp. 1079-1089
    • Schneider, S.1    Excoffier, L.2
  • 44
    • 74549151043 scopus 로고    scopus 로고
    • How Robust Are "Isolation with Migration" Analyses to Violations of the IM Model? A Simulation Study
    • Strasburg JL, Rieseberg LH, (2010) How Robust Are "Isolation with Migration" Analyses to Violations of the IM Model? A Simulation Study. Molecular Biology and Evolution 27: 297-310.
    • (2010) Molecular Biology and Evolution , vol.27 , pp. 297-310
    • Strasburg, J.L.1    Rieseberg, L.H.2
  • 45
    • 0029027992 scopus 로고
    • Estimating effective population size and mutation rate from sequence data using Metropolis-Hastings sampling
    • Kuhner MK, Yamato J, Felsenstein J, (1995) Estimating effective population size and mutation rate from sequence data using Metropolis-Hastings sampling. Genetics 140: 1421-1430.
    • (1995) Genetics , vol.140 , pp. 1421-1430
    • Kuhner, M.K.1    Yamato, J.2    Felsenstein, J.3
  • 46
    • 0031835126 scopus 로고    scopus 로고
    • Maximum likelihood estimation of population growth rates based on the coalescent
    • Kuhner MK, Yamato J, Felsenstein J, (1998) Maximum likelihood estimation of population growth rates based on the coalescent. Genetics 149: 429-434.
    • (1998) Genetics , vol.149 , pp. 429-434
    • Kuhner, M.K.1    Yamato, J.2    Felsenstein, J.3
  • 47
    • 0030014298 scopus 로고    scopus 로고
    • The amount of DNA polymorphism maintained in a finite population when the neutral mutation rate varies among sites
    • Tajima F, (1996) The amount of DNA polymorphism maintained in a finite population when the neutral mutation rate varies among sites. Genetics 143: 1457-1465.
    • (1996) Genetics , vol.143 , pp. 1457-1465
    • Tajima, F.1
  • 48
    • 0033762150 scopus 로고    scopus 로고
    • The effects of rate variation on ancestral inference in the coalescent
    • Markovtsova L, Marjoram P, Tavare S, (2000) The effects of rate variation on ancestral inference in the coalescent. Genetics 156: 1427-1436.
    • (2000) Genetics , vol.156 , pp. 1427-1436
    • Markovtsova, L.1    Marjoram, P.2    Tavare, S.3
  • 50
    • 0000714131 scopus 로고
    • Allozyme variation among breeding populations of red-winged blackbirds: the California conundrum
    • Gavin TA, Howard RA, May B, (1991) Allozyme variation among breeding populations of red-winged blackbirds: the California conundrum. The Auk 108: 602-611.
    • (1991) The Auk , vol.108 , pp. 602-611
    • Gavin, T.A.1    Howard, R.A.2    May, B.3
  • 51
    • 0032188812 scopus 로고    scopus 로고
    • Geographic analysis of nucleotide diversity and song sparrow (Aves: Emberizidae) population history
    • Fry AJ, Zink RM, (1998) Geographic analysis of nucleotide diversity and song sparrow (Aves: Emberizidae) population history. Molecular Ecology 7: 1303-1313.
    • (1998) Molecular Ecology , vol.7 , pp. 1303-1313
    • Fry, A.J.1    Zink, R.M.2
  • 52
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA sequences: a maximum likelihood approach
    • Felsenstein J, (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. Journal of Molecular Evolution 17: 368-376.
    • (1981) Journal of Molecular Evolution , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 53
    • 0027453388 scopus 로고
    • Simple methods for testing the molecular evolutionary clock hypothesis
    • Tajima F, (1993) Simple methods for testing the molecular evolutionary clock hypothesis. Genetics 135: 599-607.
    • (1993) Genetics , vol.135 , pp. 599-607
    • Tajima, F.1
  • 54
    • 0029348907 scopus 로고
    • Primers for amplification and determination of mitochondrial control-region sequences in oscine passerines
    • Tarr CL, (1995) Primers for amplification and determination of mitochondrial control-region sequences in oscine passerines. Molecular Ecology 4: 527-529.
    • (1995) Molecular Ecology , vol.4 , pp. 527-529
    • Tarr, C.L.1
  • 55
    • 0030125185 scopus 로고    scopus 로고
    • Molecular phylogenetics and biogeography of tanagers in the genus Ramphocelus (Aves)
    • Hackett SJ, (1996) Molecular phylogenetics and biogeography of tanagers in the genus Ramphocelus (Aves). Molecular Phylogenetics and Evolution 5: 368-382.
    • (1996) Molecular Phylogenetics and Evolution , vol.5 , pp. 368-382
    • Hackett, S.J.1
  • 57
    • 60749129130 scopus 로고    scopus 로고
    • Assessment of species limits among yellow-breasted meadowlarks (Sturnella spp.) using mitochondrial and sex-linked markers
    • Barker FK, Vandergon AJ, Lanyon SM, (2008) Assessment of species limits among yellow-breasted meadowlarks (Sturnella spp.) using mitochondrial and sex-linked markers. Auk 125: 869-879.
    • (2008) Auk , vol.125 , pp. 869-879
    • Barker, F.K.1    Vandergon, A.J.2    Lanyon, S.M.3
  • 60
    • 0027968068 scopus 로고
    • CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice
    • Thompson JD, Higgins DG, Gibson TJ, (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Research 22: 4673-4680.
    • (1994) Nucleic Acids Research , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 61
    • 4143101642 scopus 로고    scopus 로고
    • Molecular architecture and rates of DNA substitutions of the mitochondrial control region of cracid birds
    • Pereira SL, Grau ET, Wajntal A, (2004) Molecular architecture and rates of DNA substitutions of the mitochondrial control region of cracid birds. Genome 47: 535-545.
    • (2004) Genome , vol.47 , pp. 535-545
    • Pereira, S.L.1    Grau, E.T.2    Wajntal, A.3
  • 62
    • 0036019705 scopus 로고    scopus 로고
    • Structure and evolution of the avian mitochondrial control region
    • Ruokonen M, Kvist L, (2002) Structure and evolution of the avian mitochondrial control region. Molecular Phylogenetics and Evolution 23: 422-432.
    • (2002) Molecular Phylogenetics and Evolution , vol.23 , pp. 422-432
    • Ruokonen, M.1    Kvist, L.2
  • 64
    • 13444251528 scopus 로고    scopus 로고
    • RDP2: recombination detection and analysis from sequence alignments
    • Martin DP, Williamson C, Posada D, (2005) RDP2: recombination detection and analysis from sequence alignments. Bioinformatics 21: 260-262.
    • (2005) Bioinformatics , vol.21 , pp. 260-262
    • Martin, D.P.1    Williamson, C.2    Posada, D.3
  • 65
    • 0031773680 scopus 로고    scopus 로고
    • Modeltest: testing the model of DNA substitution
    • Posada D, Crandall KA, (1998) Modeltest: testing the model of DNA substitution. Bioinformatics 14: 817-818.
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 67
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: an approach using the bootstrap
    • Felsenstein J, (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 68
    • 0034849408 scopus 로고    scopus 로고
    • MrBayes: Bayesian inference of phylogenetic trees
    • Huelsenbeck JP, Ronquist F, (2001) MrBayes: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755.
    • (2001) Bioinformatics , vol.17 , pp. 754-755
    • Huelsenbeck, J.P.1    Ronquist, F.2
  • 69
    • 1342309210 scopus 로고    scopus 로고
    • Parallel Metropolis coupled Markov chain Monte Carlo for Bayesian phylogenetic inference
    • Altekar G, Dwarkadas S, Huelsenbeck JP, Ronquist F, (2004) Parallel Metropolis coupled Markov chain Monte Carlo for Bayesian phylogenetic inference. Bioinformatics 20: 407-415.
    • (2004) Bioinformatics , vol.20 , pp. 407-415
    • Altekar, G.1    Dwarkadas, S.2    Huelsenbeck, J.P.3    Ronquist, F.4
  • 70
    • 0029120814 scopus 로고
    • Mixed model analysis of DNA sequence evolution
    • Yang Z, Wang T, (1995) Mixed model analysis of DNA sequence evolution. Biometrics 51: 552-561.
    • (1995) Biometrics , vol.51 , pp. 552-561
    • Yang, Z.1    Wang, T.2
  • 71
    • 0030683599 scopus 로고    scopus 로고
    • PAML: a program package for phylogenetic analysis by maximum likelihood
    • Yang Z, (1997) PAML: a program package for phylogenetic analysis by maximum likelihood. Computer Applications in the Biosciences 13: 555-556.
    • (1997) Computer Applications in the Biosciences , vol.13 , pp. 555-556
    • Yang, Z.1
  • 72
  • 73
    • 0019346542 scopus 로고
    • DNA polymorphism detectable by restriction endonucleases
    • Nei M, Tajima F, (1981) DNA polymorphism detectable by restriction endonucleases. Genetics 97: 145-163.
    • (1981) Genetics , vol.97 , pp. 145-163
    • Nei, M.1    Tajima, F.2
  • 74
    • 0014296201 scopus 로고
    • Genetic variability maintained in a finite population due to mutational production of neutral and nearly neutral isoalleles
    • Kimura M, (1968) Genetic variability maintained in a finite population due to mutational production of neutral and nearly neutral isoalleles. Genetical Research 11: 247-269.
    • (1968) Genetical Research , vol.11 , pp. 247-269
    • Kimura, M.1
  • 75
    • 0016491430 scopus 로고
    • On the number of segregating sites in genetical models without recombination
    • Watterson GA, (1975) On the number of segregating sites in genetical models without recombination. Theoretical Population Biology 7: 256-276.
    • (1975) Theoretical Population Biology , vol.7 , pp. 256-276
    • Watterson, G.A.1
  • 76
    • 85007110786 scopus 로고    scopus 로고
    • Arlequin, ver 3.0: An integrated software package for population genetics data analysis
    • Excoffier L, Laval G, Schneider S, (2005) Arlequin, ver 3.0: An integrated software package for population genetics data analysis. Evolutionary Bioinformatics Online 1: 47-50.
    • (2005) Evolutionary Bioinformatics Online , vol.1 , pp. 47-50
    • Excoffier, L.1    Laval, G.2    Schneider, S.3
  • 77
    • 0032912338 scopus 로고    scopus 로고
    • Population dynamics of HIV-1 inferred from gene sequences
    • Grassly NC, Harvey PH, Holmes EC, (1999) Population dynamics of HIV-1 inferred from gene sequences. Genetics 151: 427-438.
    • (1999) Genetics , vol.151 , pp. 427-438
    • Grassly, N.C.1    Harvey, P.H.2    Holmes, E.C.3
  • 78
    • 33645108873 scopus 로고    scopus 로고
    • LAMARC 2.0: Maximum likelihood and Bayesian estimation of population parameters
    • Kuhner MK, (2006) LAMARC 2.0: Maximum likelihood and Bayesian estimation of population parameters. Bioinformatics 22: 768-770.
    • (2006) Bioinformatics , vol.22 , pp. 768-770
    • Kuhner, M.K.1
  • 79
    • 38649110663 scopus 로고    scopus 로고
    • BEAST: Bayesian evolutionary analysis by sampling trees
    • Drummond AJ, Rambaut A, (2007) BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evolutionary Biology 7.
    • (2007) BMC Evolutionary Biology , vol.7
    • Drummond, A.J.1    Rambaut, A.2
  • 80
    • 0022376704 scopus 로고
    • Dating the human-ape splitting by a molecular clock of mitochondrial DNA
    • Hasegawa M, Kishino H, Yano T-a, (1985) Dating the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution 22: 160-174.
    • (1985) Journal of Molecular Evolution , vol.22 , pp. 160-174
    • Hasegawa, M.1    Kishino, H.2    Yano, T.-a.3
  • 82
    • 0032873056 scopus 로고    scopus 로고
    • Molecular systematics of the grackles and allies, and the effect of additional sequence (cyt b and ND2)
    • Johnson KP, Lanyon SM, (1999) Molecular systematics of the grackles and allies, and the effect of additional sequence (cyt b and ND2). Auk 116: 759-768.
    • (1999) Auk , vol.116 , pp. 759-768
    • Johnson, K.P.1    Lanyon, S.M.2
  • 84
    • 0021581577 scopus 로고
    • Distance methods for inferring phylognies: a justification
    • Felsenstein J, (1984) Distance methods for inferring phylognies: a justification. Evolution 38: 16-24.
    • (1984) Evolution , vol.38 , pp. 16-24
    • Felsenstein, J.1
  • 85
    • 0028064845 scopus 로고
    • Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods
    • Yang ZH, (1994) Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods. Journal of Molecular Evolution 39: 306-314.
    • (1994) Journal of Molecular Evolution , vol.39 , pp. 306-314
    • Yang, Z.H.1
  • 86
    • 70450136457 scopus 로고    scopus 로고
    • Tracer. 1.3 ed: Published by the authors
    • Rambaut A, Drummond A, (2004) Tracer. 1.3 ed: Published by the authors.
    • (2004)
    • Rambaut, A.1    Drummond, A.2
  • 87
    • 0033840788 scopus 로고    scopus 로고
    • Dynamics and phylogenetic implications of mtDNA control region sequences in New World jays (Aves: Corvidae)
    • Saunders MA, Edwards SV, (2000) Dynamics and phylogenetic implications of mtDNA control region sequences in New World jays (Aves: Corvidae). Journal of Molecular Evolution 51: 97-109.
    • (2000) Journal of Molecular Evolution , vol.51 , pp. 97-109
    • Saunders, M.A.1    Edwards, S.V.2
  • 88
    • 0031039450 scopus 로고    scopus 로고
    • Structural conservation and variation in the mitochondrial control region of fringilline finches (Fringilla spp.) and the greenfinch (Carduelis chloris)
    • Marshall HD, Baker AJ, (1997) Structural conservation and variation in the mitochondrial control region of fringilline finches (Fringilla spp.) and the greenfinch (Carduelis chloris). Molecular Biology and Evolution 14: 173-184.
    • (1997) Molecular Biology and Evolution , vol.14 , pp. 173-184
    • Marshall, H.D.1    Baker, A.J.2
  • 89
    • 0032779612 scopus 로고    scopus 로고
    • Pattern of nucleotide substitution and rate heterogeneity in the hypervariable regions I and II of human mtDNA
    • Meyer S, Weiss G, von Haeseler A, (1999) Pattern of nucleotide substitution and rate heterogeneity in the hypervariable regions I and II of human mtDNA. Genetics 152: 1103-1110.
    • (1999) Genetics , vol.152 , pp. 1103-1110
    • Meyer, S.1    Weiss, G.2    von Haeseler, A.3
  • 90
    • 0033635474 scopus 로고    scopus 로고
    • Slow rate of evolution in the mitochondrial control region of gulls (Aves: Laridae)
    • Crochet P-A, Desmarais E, (2000) Slow rate of evolution in the mitochondrial control region of gulls (Aves: Laridae). Molecular Biology and Evolution 17: 1797-1806.
    • (2000) Molecular Biology and Evolution , vol.17 , pp. 1797-1806
    • Crochet, P.-A.1    Desmarais, E.2
  • 91
    • 0034782682 scopus 로고    scopus 로고
    • Evolution of the mitochondrial DNA control region and cytochrome b genes and the inference of phylogenetic relationships in the avian genus Lophura (Galliformes)
    • Randi E, Lucchini V, Hennache A, Kimball RT, Braun EL, et al. (2001) Evolution of the mitochondrial DNA control region and cytochrome b genes and the inference of phylogenetic relationships in the avian genus Lophura (Galliformes). Molecular Phylogenetics and Evolution 19: 187-201.
    • (2001) Molecular Phylogenetics and Evolution , vol.19 , pp. 187-201
    • Randi, E.1    Lucchini, V.2    Hennache, A.3    Kimball, R.T.4    Braun, E.L.5
  • 92
    • 0032873641 scopus 로고    scopus 로고
    • Substitution rate variation among sites in mitochondrial hypervariable region I of humans and chimpanzees
    • Excoffier L, Yang ZH, (1999) Substitution rate variation among sites in mitochondrial hypervariable region I of humans and chimpanzees. Molecular Biology and Evolution 16: 1357-1368.
    • (1999) Molecular Biology and Evolution , vol.16 , pp. 1357-1368
    • Excoffier, L.1    Yang, Z.H.2
  • 94
    • 0033804530 scopus 로고    scopus 로고
    • Hypervariable sites in the mtDNA control region are mutational hotspots
    • Stoneking M, (2000) Hypervariable sites in the mtDNA control region are mutational hotspots. American Journal of Human Genetics 67: 1029-1032.
    • (2000) American Journal of Human Genetics , vol.67 , pp. 1029-1032
    • Stoneking, M.1
  • 95
    • 0034496840 scopus 로고    scopus 로고
    • Gene divergence, population divergence, and the variance in coalescence time in phylogeographic studies
    • Edwards SV, Beerli P, (2000) Gene divergence, population divergence, and the variance in coalescence time in phylogeographic studies. Evolution 54: 1839-1854.
    • (2000) Evolution , vol.54 , pp. 1839-1854
    • Edwards, S.V.1    Beerli, P.2
  • 96
    • 0032875445 scopus 로고    scopus 로고
    • The effect of taxon sampling on estimating rate heterogeneity parameters of maximum-likelihood models
    • Sullivan J, Swofford DL, Naylor GJP, (1999) The effect of taxon sampling on estimating rate heterogeneity parameters of maximum-likelihood models. Molecular Biology and Evolution 16: 1347-1356.
    • (1999) Molecular Biology and Evolution , vol.16 , pp. 1347-1356
    • Sullivan, J.1    Swofford, D.L.2    Naylor, G.J.P.3
  • 98
    • 1242310492 scopus 로고    scopus 로고
    • Mitochondrial dating and mixed support for the "2% rule" in birds
    • Lovette IJ, (2004) Mitochondrial dating and mixed support for the "2% rule" in birds. Auk 121: 1-6.
    • (2004) Auk , vol.121 , pp. 1-6
    • Lovette, I.J.1
  • 99
    • 43049101093 scopus 로고    scopus 로고
    • Calibrating the avian molecular clock
    • Weir JT, Schluter D, (2008) Calibrating the avian molecular clock. Molecular Ecology 17: 2321-2328.
    • (2008) Molecular Ecology , vol.17 , pp. 2321-2328
    • Weir, J.T.1    Schluter, D.2
  • 100
    • 0001991181 scopus 로고
    • Red-winged blackbird
    • In: Newton I, editor, San Diego, CA: Academic Press
    • Orians GH, Beletsky LD (1989) Red-winged blackbird. In: Newton I, editor. Lifetime Reproduction in Birds. San Diego, CA: Academic Press. pp. 183-200.
    • (1989) Lifetime Reproduction in Birds , pp. 183-200
    • Orians, G.H.1    Beletsky, L.D.2
  • 101
    • 0023727379 scopus 로고
    • Current versus historical population size in vertebrate species with high gene flow: a comparison based on mitochondrial DNA lineages and inbreeding theory for neutral mutations
    • Avise JC, Ball RM Jr, Arnold J, (1988) Current versus historical population size in vertebrate species with high gene flow: a comparison based on mitochondrial DNA lineages and inbreeding theory for neutral mutations. Molecular Biology and Evolution 5: 331-344.
    • (1988) Molecular Biology and Evolution , vol.5 , pp. 331-344
    • Avise, J.C.1    Ball Jr., R.M.2    Arnold, J.3
  • 102
    • 0027329717 scopus 로고
    • The influence of mating system and overlapping generations on effective population size
    • Nunney L, (1993) The influence of mating system and overlapping generations on effective population size. Evolution 47: 1329-1341.
    • (1993) Evolution , vol.47 , pp. 1329-1341
    • Nunney, L.1
  • 105
    • 18644368206 scopus 로고    scopus 로고
    • Tricolored blackbird (Agelaius tricolor)
    • Beedy EC, (1999) Tricolored blackbird (Agelaius tricolor). The Birds of North America 423: 1-24.
    • (1999) The Birds of North America , vol.423 , pp. 1-24
    • Beedy, E.C.1
  • 111
    • 0029099781 scopus 로고
    • Properties of statistical tests of neutrality for DNA polymorphism data
    • Simonsen KL, Churchill GA, Aquadro CF, (1995) Properties of statistical tests of neutrality for DNA polymorphism data. Genetics 141: 413-429.
    • (1995) Genetics , vol.141 , pp. 413-429
    • Simonsen, K.L.1    Churchill, G.A.2    Aquadro, C.F.3
  • 112
    • 0029860602 scopus 로고    scopus 로고
    • Some genetic consequences of ice ages, and their role in divergence and speciation
    • Hewitt GM, (1996) Some genetic consequences of ice ages, and their role in divergence and speciation. Biological Journal of the Linnaean Society 58: 247-276.
    • (1996) Biological Journal of the Linnaean Society , vol.58 , pp. 247-276
    • Hewitt, G.M.1
  • 114
    • 0347356538 scopus 로고    scopus 로고
    • Effects of purifying and adaptive selection on regional variation in human mtDNA
    • Ruiz-Pesini E, Mishmar D, Brandon M, Procaccio V, Wallace DC, (2004) Effects of purifying and adaptive selection on regional variation in human mtDNA. Science 303: 223-226.
    • (2004) Science , vol.303 , pp. 223-226
    • Ruiz-Pesini, E.1    Mishmar, D.2    Brandon, M.3    Procaccio, V.4    Wallace, D.C.5
  • 115
    • 33244457956 scopus 로고    scopus 로고
    • The role of selection in the evolution of human mitochondrial genomes
    • Kivisild T, Shen PD, Wall DP, Do B, Sung R, et al. (2006) The role of selection in the evolution of human mitochondrial genomes. Genetics 172: 373-387.
    • (2006) Genetics , vol.172 , pp. 373-387
    • Kivisild, T.1    Shen, P.D.2    Wall, D.P.3    Do, B.4    Sung, R.5
  • 116
    • 0023339852 scopus 로고
    • A test of neutral molecular evolution based on nucleotide data
    • Hudson RR, Kreitman M, Aguadé M, (1987) A test of neutral molecular evolution based on nucleotide data. Genetics 116: 153-159.
    • (1987) Genetics , vol.116 , pp. 153-159
    • Hudson, R.R.1    Kreitman, M.2    Aguadé, M.3
  • 117
    • 66249092428 scopus 로고    scopus 로고
    • Migration-selection balance and local adaptation of mitochondrial haplotypes in rufous-collared sparrows (Zonotrichia capensis) along an elevational gradient
    • Cheviron ZA, Brumfield RT, (2009) Migration-selection balance and local adaptation of mitochondrial haplotypes in rufous-collared sparrows (Zonotrichia capensis) along an elevational gradient. Evolution 63: 1593-1605.
    • (2009) Evolution , vol.63 , pp. 1593-1605
    • Cheviron, Z.A.1    Brumfield, R.T.2


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