메뉴 건너뛰기




Volumn 54, Issue 1, 2005, Pages 35-55

Is homoplasy or lineage sorting the source of incongruent mtDNA and nuclear gene trees in the stiff-tailed ducks (Nomonyx-Oxyura)?

Author keywords

Ancestral polymorphism; Homoplasy; Lineage sorting; Nomonyx; Oxyura; Oxyurinae; Stiff tailed ducks; Waterfowl

Indexed keywords

MITOCHONDRIAL DNA; PRIMER DNA;

EID: 15944416738     PISSN: 10635157     EISSN: None     Source Type: Journal    
DOI: 10.1080/10635150590910249     Document Type: Article
Times cited : (121)

References (54)
  • 1
    • 84991127369 scopus 로고
    • Cheek plumage in the Colombian ruddy duck Oxyura jamaicensis
    • Adams, J., and E. R. Slavid. 1984. Cheek plumage in the Colombian ruddy duck Oxyura jamaicensis. Ibis 126:405-407.
    • (1984) Ibis , vol.126 , pp. 405-407
    • Adams, J.1    Slavid, E.R.2
  • 2
    • 0000501656 scopus 로고
    • Information theory and an extension of the maximum likelihood principle
    • (B. N. Petrov and F. Csaki, eds.). Akademia Kiado, Budapest
    • Akaike, H. 1973. Information theory and an extension of the maximum likelihood principle. Pages 267-281 in Proceedings of Second International Symposium on Information Theory (B. N. Petrov and F. Csaki, eds.). Akademia Kiado, Budapest.
    • (1973) Proceedings of Second International Symposium on Information Theory , pp. 267-281
    • Akaike, H.1
  • 5
    • 0000006014 scopus 로고
    • Mitochondrial gene trees and the evolutionary relationship between mallard and black ducks
    • Avise, J. C., C. D. Ankney, and W. S. Nelson. 1990. Mitochondrial gene trees and the evolutionary relationship between mallard and black ducks. Evolution 44:109-1119.
    • (1990) Evolution , vol.44 , pp. 109-1119
    • Avise, J.C.1    Ankney, C.D.2    Nelson, W.S.3
  • 6
    • 0000367652 scopus 로고
    • The limits of amino-acid sequence data in angiosperm phylogenetic reconstruction
    • Bremer, K. 1988. The limits of amino-acid sequence data in angiosperm phylogenetic reconstruction. Evolution 42:795-803.
    • (1988) Evolution , vol.42 , pp. 795-803
    • Bremer, K.1
  • 7
    • 0033771358 scopus 로고    scopus 로고
    • TCS: A computer program to estimate gene genealogies
    • Clement M., D. Posada, K. A, Crandall. 2000. TCS: A computer program to estimate gene genealogies. Mol. Ecol. 9:1657-1660.
    • (2000) Mol. Ecol. , vol.9 , pp. 1657-1660
    • Clement, M.1    Posada, D.2    Crandall, K.A.3
  • 8
    • 0033635474 scopus 로고    scopus 로고
    • Slow rate of evolution in the mitochondrial control region of gulls (Aves: Laridae)
    • Crochet, P. A., and E. Desmerais. 2000. Slow rate of evolution in the mitochondrial control region of gulls (Aves: Laridae). Mol. Biol. Evol. 17:1797-1806.
    • (2000) Mol. Biol. Evol. , vol.17 , pp. 1797-1806
    • Crochet, P.A.1    Desmerais, E.2
  • 9
    • 0002872237 scopus 로고
    • The family Anatidae
    • Delacour, J., and E. Mayr. 1945. The family Anatidae. Wilson Bull. 56:3-55.
    • (1945) Wilson Bull. , vol.56 , pp. 3-55
    • Delacour, J.1    Mayr, E.2
  • 10
    • 0004476719 scopus 로고
    • Speciation and phylogenetic resolution
    • DeSalle, R., R. Absher, and G. Amato. 1994. Speciation and phylogenetic resolution. TREE 9:297-298.
    • (1994) TREE , vol.9 , pp. 297-298
    • DeSalle, R.1    Absher, R.2    Amato, G.3
  • 11
    • 0025343497 scopus 로고
    • Sequence and gene organization of the chicken mitochondrial genome: A novel gene order in higher vertebrates
    • Desjardins, P., and R. Morais. 1990. Sequence and gene organization of the chicken mitochondrial genome: A novel gene order in higher vertebrates. J. Mol. Biol. 212:599-634.
    • (1990) J. Mol. Biol. , vol.212 , pp. 599-634
    • Desjardins, P.1    Morais, R.2
  • 12
    • 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
  • 13
    • 15944403400 scopus 로고
    • Color variation in the ruddy duck (Oxyura jamaicensis andina)
    • Fieldså, J. 1986. Color variation in the ruddy duck (Oxyura jamaicensis andina). Wilson Bull. 98:592-594.
    • (1986) Wilson Bull. , vol.98 , pp. 592-594
    • Fieldså, J.1
  • 14
    • 0031282235 scopus 로고    scopus 로고
    • Intron variation in marbled murrelets detected using analyses of single-stranded conformational polymorphisms
    • Friesen, V. L, B. C. Congdon, H. E. Walsh, and T. P. Birt. 1997. Intron variation in marbled murrelets detected using analyses of single-stranded conformational polymorphisms. Mol. Ecol. 6:1047-1058.
    • (1997) Mol. Ecol. , vol.6 , pp. 1047-1058
    • Friesen, V.L.1    Congdon, B.C.2    Walsh, H.E.3    Birt, T.P.4
  • 16
    • 0003264154 scopus 로고    scopus 로고
    • Action plan for the white-headed duck Oxyura leucocephala
    • (B. Heredia, L. Rose, and M Painter, eds.). Council of Europe Publishing, Strasbourg, France
    • Green, A. J., and B. Hughes. 1996. Action plan for the white-headed duck Oxyura leucocephala. Pages 119-146 in Globally threatened birds in Europe (B. Heredia, L. Rose, and M Painter, eds.). Council of Europe Publishing, Strasbourg, France.
    • (1996) Globally Threatened Birds in Europe , pp. 119-146
    • Green, A.J.1    Hughes, B.2
  • 18
    • 0022376704 scopus 로고
    • Dating of the human-ape splitting by a molecular clock of mitochondrial DNA
    • Hasegawa, M. H. Kishino, and T. Yano. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J. Mol. Evol. 22:160-174.
    • (1985) J. Mol. Evol. , vol.22 , pp. 160-174
    • Hasegawa1    Kishino, M.H.2    Yano, T.3
  • 19
    • 0028002841 scopus 로고
    • Patterns of speciation and limits to phylogenetic resolution
    • Hoelzer, G. A., and D. J. Melnick. 1994. Patterns of speciation and limits to phylogenetic resolution. TREE 9:104-107.
    • (1994) TREE , vol.9 , pp. 104-107
    • Hoelzer, G.A.1    Melnick, D.J.2
  • 20
    • 0034849408 scopus 로고    scopus 로고
    • MrBayes: Bayesian inference of phylogenetic trees
    • Huelsenbeck, J. P., and F. Ronquist. 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
  • 25
    • 0001636561 scopus 로고
    • A phylogenetic analysis of recent anseriform genera using morphological characters
    • Livezey, B. C. 1986. A phylogenetic analysis of recent anseriform genera using morphological characters. Auk 103:737-754.
    • (1986) Auk , vol.103 , pp. 737-754
    • Livezey, B.C.1
  • 26
    • 0001579914 scopus 로고
    • Phylogeny and comparative ecology of stifftailed ducks (Anatidae: Oxyurini)
    • Livezey, B. C. 1995. Phylogeny and comparative ecology of stifftailed ducks (Anatidae: Oxyurini). Wilson Bull. 107:214-234.
    • (1995) Wilson Bull. , vol.107 , pp. 214-234
    • Livezey, B.C.1
  • 27
    • 0001252335 scopus 로고    scopus 로고
    • A phylogenetic classification of waterfowl (Aves: Anseriformes), including selected fossil species
    • Livezey, B. C. 1997. A phylogenetic classification of waterfowl (Aves: Anseriformes), including selected fossil species. Ann. Carnegie Mus. 66:457-496.
    • (1997) Ann. Carnegie Mus. , vol.66 , pp. 457-496
    • Livezey, B.C.1
  • 28
    • 0024940670 scopus 로고
    • Reconstructing character evolution on polytomous cladograms
    • Maddison, W. 1989. Reconstructing character evolution on polytomous cladograms. Cladistics 5:365-377.
    • (1989) Cladistics , vol.5 , pp. 365-377
    • Maddison, W.1
  • 29
    • 0031039450 scopus 로고    scopus 로고
    • Structural conservation and variation in the mitochondrial control region of fringilline finches (Fringilla spp.) and in the greenfinch (Carduelis chloris)
    • Marshall, H. D., and A. J. Baker. 1997. Structural conservation and variation in the mitochondrial control region of fringilline finches (Fringilla spp.) and in the greenfinch (Carduelis chloris). Mol. Biol. Evol. 14:173-184.
    • (1997) Mol. Biol. Evol. , vol.14 , pp. 173-184
    • Marshall, H.D.1    Baker, A.J.2
  • 30
    • 0033278652 scopus 로고    scopus 로고
    • Date set incongruence and correlated character evolution: An example of functional convergence in the hind-limbs of stifftail diving ducks
    • McCracken, K. G., J. Harshman, D. A. McClellan, and A. D. Afton. 1999. Date set incongruence and correlated character evolution: An example of functional convergence in the hind-limbs of stifftail diving ducks. Syst. Biol. 48:683-714.
    • (1999) Syst. Biol. , vol.48 , pp. 683-714
    • McCracken, K.G.1    Harshman, J.2    McClellan, D.A.3    Afton, A.D.4
  • 31
    • 0000058501 scopus 로고
    • Inferring phylogenies from mtDNA variation: Mitochondrial gene trees versus nuclear-gene trees
    • Moore, W. S. 1995. Inferring phylogenies from mtDNA variation: Mitochondrial gene trees versus nuclear-gene trees. Evolution 49:718-726.
    • (1995) Evolution , vol.49 , pp. 718-726
    • Moore, W.S.1
  • 32
    • 0002267691 scopus 로고
    • Phylogenetic relationships of mitochondrial DNA under various demographic models of speciation
    • (E. Nevo and S. Karlin, eds.). Academic Press, New York
    • Neigel, J. E., and J. C. Avise. 1986. Phylogenetic relationships of mitochondrial DNA under various demographic models of speciation. Pages 515-534 in Evolutionary processes and theory (E. Nevo and S. Karlin, eds.). Academic Press, New York.
    • (1986) Evolutionary Processes and Theory , pp. 515-534
    • Neigel, J.E.1    Avise, J.C.2
  • 33
    • 0036728850 scopus 로고    scopus 로고
    • Contribution of homoplasy and of ancestral polymorphism to the evolution of genes in Anthropoid primates
    • O'hUigin, C., Y. Satta, N. Takahata, and J. Klein. 2002. Contribution of homoplasy and of ancestral polymorphism to the evolution of genes in Anthropoid primates. Mol. Biol. Evol. 19:1501-1513.
    • (2002) Mol. Biol. Evol. , vol.19 , pp. 1501-1513
    • O'Huigin, C.1    Satta, Y.2    Takahata, N.3    Klein, J.4
  • 34
    • 0036278875 scopus 로고    scopus 로고
    • The utility of nuclear introns for investigating hybridization and genetic introgression: A case study involving Brachyramphus murrelets
    • Pacheco, N. M., B. C. Congdon, and V. L. Friesen. 2002. The utility of nuclear introns for investigating hybridization and genetic introgression: A case study involving Brachyramphus murrelets. Conserv. Genet. 3:175-182.
    • (2002) Conserv. Genet. , vol.3 , pp. 175-182
    • Pacheco, N.M.1    Congdon, B.C.2    Friesen, V.L.3
  • 35
    • 0031773680 scopus 로고    scopus 로고
    • Modeltest: Testing the model of DNA substitution
    • Posada, D., and K. A. Crandall. 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
  • 36
    • 0036006238 scopus 로고    scopus 로고
    • Single-nucleotide polymorphism characterization in species with limited available sequence information: High nucleotide diversity revealed in the avian genome
    • Primmer, C. R., T. Borge, J. Lindell, and G. P. Sætre. 2002. Single-nucleotide polymorphism characterization in species with limited available sequence information: High nucleotide diversity revealed in the avian genome. Mol. Ecol. 11:603-612.
    • (2002) Mol. Ecol. , vol.11 , pp. 603-612
    • Primmer, C.R.1    Borge, T.2    Lindell, J.3    Sætre, G.P.4
  • 37
    • 0027361711 scopus 로고
    • Sequence evolution in and around the mitochondrial control region in birds
    • Quinn, T. W., and A. C. Wilson. 1993. Sequence evolution in and around the mitochondrial control region in birds. J. Mol. Evol. 37:417-425.
    • (1993) J. Mol. Evol. , vol.37 , pp. 417-425
    • Quinn, T.W.1    Wilson, A.C.2
  • 38
    • 0003108328 scopus 로고
    • Evolution of diving adaptations in the stiff-tailed ducks
    • Raikow, R. J. 1970. Evolution of diving adaptations in the stiff-tailed ducks. Univ. Calif. Publ. Zool. 94:1-52.
    • (1970) Univ. Calif. Publ. Zool. , vol.94 , pp. 1-52
    • Raikow, R.J.1
  • 39
    • 0030928378 scopus 로고    scopus 로고
    • Seq-Gen: An application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees
    • Rambaut, A., and N. C. Crassly. 1997. Seq-Gen: An application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees. Comput. Appl. Biosci. 13:235-238.
    • (1997) Comput. Appl. Biosci. , vol.13 , pp. 235-238
    • Rambaut, A.1    Crassly, N.C.2
  • 40
    • 0022833247 scopus 로고
    • The number of nucleotides required to determine the branching order of three species, with special reference to the human-chimpanzee-gorilla divergence
    • Saitou, N., and M. Nei. 1986. The number of nucleotides required to determine the branching order of three species, with special reference to the human-chimpanzee-gorilla divergence. J. Mol. Evol. 24:189-204.
    • (1986) J. Mol. Evol. , vol.24 , pp. 189-204
    • Saitou, N.1    Nei, M.2
  • 41
    • 0036623258 scopus 로고    scopus 로고
    • An approximately unbiased test of phylogenetic tree selection
    • Shimodaira, H. 2002. An approximately unbiased test of phylogenetic tree selection. Syst. Biol. 51:492-508.
    • (2002) Syst. Biol. , vol.51 , pp. 492-508
    • Shimodaira, H.1
  • 42
    • 0004273765 scopus 로고    scopus 로고
    • Boston University, Boston, Massachusetts
    • Sorenson, M. D. 1999. TreeRot, version 2. Boston University, Boston, Massachusetts.
    • (1999) TreeRot, Version 2
    • Sorenson, M.D.1
  • 43
    • 0033161156 scopus 로고    scopus 로고
    • Primers for a PCR-based approach to mitochondrial genome sequencing in birds and other vertebrates
    • Sorenson, M. D., J. C. Ast, D. E. Dimcheff, T. Yuri, and D. P. Mindell. 1999. Primers for a PCR-based approach to mitochondrial genome sequencing in birds and other vertebrates. Mol. Phylogenet. Evol. 12:105-114.
    • (1999) Mol. Phylogenet. Evol. , vol.12 , pp. 105-114
    • Sorenson, M.D.1    Ast, J.C.2    Dimcheff, D.E.3    Yuri, T.4    Mindell, D.P.5
  • 44
    • 0030479894 scopus 로고    scopus 로고
    • Multiple independent transpositions of mitochondrial DNA control region sequences to the nucleus
    • Sorenson, M. D., and R. C. Fleischer. 1996. Multiple independent transpositions of mitochondrial DNA control region sequences to the nucleus. Proc. Nat. Acad. Sci. USA 93:15239-15243.
    • (1996) Proc. Nat. Acad. Sci. USA , vol.93 , pp. 15239-15243
    • Sorenson, M.D.1    Fleischer, R.C.2
  • 45
    • 0035544553 scopus 로고    scopus 로고
    • A single, ancient origin of obligate brood parasitism in African finches: Implications for host-parasite coevolution
    • Sorenson, M. D., and R. B. Payne. 2001. A single, ancient origin of obligate brood parasitism in African finches: Implications for host-parasite coevolution. Evolution 55:2550-2567.
    • (2001) Evolution , vol.55 , pp. 2550-2567
    • Sorenson, M.D.1    Payne, R.B.2
  • 46
    • 0031884718 scopus 로고    scopus 로고
    • Numts: A challenge for avian systematics and population biology
    • Sorenson, M. D., and T. W. Quinn, T. W. 1998. Numts: A challenge for avian systematics and population biology. Auk 115:214-221.
    • (1998) Auk , vol.115 , pp. 214-221
    • Sorenson, M.D.1    Quinn, T.W.2
  • 47
    • 0002334203 scopus 로고    scopus 로고
    • Molecular relationships within Australian waterfowl (Anseriformes)
    • Sraml, M., L. Christidis, S. Easteal, P. Horn, and C. Collet. 1996. Molecular relationships within Australian waterfowl (Anseriformes). Aust. J. Zool. 44:47-58.
    • (1996) Aust. J. Zool. , vol.44 , pp. 47-58
    • Sraml, M.1    Christidis, L.2    Easteal, S.3    Horn, P.4    Collet, C.5
  • 49
    • 0021066244 scopus 로고
    • Evolutionary relationships of DNA sequences in finite populations
    • Tajima, F. 1983. Evolutionary relationships of DNA sequences in finite populations. Genetics 105:437-460.
    • (1983) Genetics , vol.105 , pp. 437-460
    • Tajima, F.1
  • 50
    • 0028987610 scopus 로고
    • Mhc diversity and selection
    • Takahata, M. 1995. Mhc diversity and selection. Immunol. Rev. 143:225-247.
    • (1995) Immunol. Rev. , vol.143 , pp. 225-247
    • Takahata, M.1
  • 51
    • 0027968068 scopus 로고
    • Clustal W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties, and weight matrix choice
    • Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. Clustal W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties, and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 53
    • 0032805794 scopus 로고    scopus 로고
    • Polytomies and the power of phylogenetic inference
    • Walsh, H. E., M. G. Kidd, T. Moum, and V. L. Friesen. 1999. Polytomies and the power of phylogenetic inference. Evolution 53:932-937.
    • (1999) Evolution , vol.53 , pp. 932-937
    • Walsh, H.E.1    Kidd, M.G.2    Moum, T.3    Friesen, V.L.4
  • 54
    • 0001857390 scopus 로고    scopus 로고
    • Optimization alignment: The end of multiple sequence alignment in phylogenetics?
    • Wheeler, W. C. 1996. Optimization alignment: The end of multiple sequence alignment in phylogenetics? Cladistics 12:1-9.
    • (1996) Cladistics , vol.12 , pp. 1-9
    • Wheeler, W.C.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.