메뉴 건너뛰기




Volumn 63, Issue 1, 2009, Pages 1-19

Is a new and general theory of molecular systematics emerging?

Author keywords

Fossil; Genome; Macroevolution; Neanderthal; Phylogeography; Polytomy

Indexed keywords

BIOLOGICAL MODEL; CLASSIFICATION; GENE; GENETIC VARIABILITY; NOTE; PHYLOGENY; SINGLE NUCLEOTIDE POLYMORPHISM; SPECIES DIFFERENTIATION;

EID: 58249100073     PISSN: 00143820     EISSN: 15585646     Source Type: Journal    
DOI: 10.1111/j.1558-5646.2008.00549.x     Document Type: Note
Times cited : (814)

References (148)
  • 1
    • 33845381928 scopus 로고    scopus 로고
    • The posterior and the prior in Bayesian phylogenetics
    • and
    • Alfaro, M. E., and M. T. Holder. 2006. The posterior and the prior in Bayesian phylogenetics. Ann. Rev. Ecol. Evol. Syst. 37 : 19 42.
    • (2006) Ann. Rev. Ecol. Evol. Syst. , vol.37 , pp. 19-42
    • Alfaro, M.E.1    Holder, M.T.2
  • 2
    • 17444424295 scopus 로고    scopus 로고
    • Serial SimCoal: A population genetics model for data from multiple populations and points in time
    • and
    • Anderson, C. N. K., U. Ramakrishnan, Y. L. Chan, and E. A. Hadly. 2005. Serial SimCoal: a population genetics model for data from multiple populations and points in time. Bioinformatics 21 : 1733 1734.
    • (2005) Bioinformatics , vol.21 , pp. 1733-1734
    • Anderson, C.N.K.1    Ramakrishnan, U.2    Chan, Y.L.3    Hadly, E.A.4
  • 6
    • 0002961523 scopus 로고
    • Principles of genealogical concordance in species concepts and biological taxonomy
    • and
    • Avise, J. C., and R. M. J. Ball. 1990. Principles of genealogical concordance in species concepts and biological taxonomy. Oxford Sur. Evol. Biol. 7 : 45 67.
    • (1990) Oxford Sur. Evol. Biol. , vol.7 , pp. 45-67
    • Avise, J.C.1    Ball, R.M.J.2
  • 7
    • 45849108338 scopus 로고    scopus 로고
    • Hemiplasy: A new term in the lexicon of phylogenetics
    • and
    • Avise, J. D., and T. J. Robinson. 2008. Hemiplasy: A new term in the lexicon of phylogenetics. Syst. Boil. 57 : 503 507.
    • (2008) Syst. Boil. , vol.57 , pp. 503-507
    • Avise, J.D.1    Robinson, T.J.2
  • 8
    • 0030760164 scopus 로고    scopus 로고
    • Phylogenetics and the origin of species
    • and
    • Avise, J. C., and K. Wollenberg. 1997. Phylogenetics and the origin of species. Proc. Natl. Acad. Sci. USA 94 : 7748 7755.
    • (1997) Proc. Natl. Acad. Sci. USA , vol.94 , pp. 7748-7755
    • Avise, J.C.1    Wollenberg, K.2
  • 10
    • 0032088099 scopus 로고    scopus 로고
    • Assessing the relative contribution of molecular and morphological characters in simultaneous analysis trees
    • and
    • Baker, R. H., X. B. Yu, and R. DeSalle. 1998. Assessing the relative contribution of molecular and morphological characters in simultaneous analysis trees. Mol. Phylogenet. Evol. 9 : 427 436.
    • (1998) Mol. Phylogenet. Evol. , vol.9 , pp. 427-436
    • Baker, R.H.1    Yu, X.B.2    Desalle, R.3
  • 12
    • 33846839295 scopus 로고    scopus 로고
    • Concordance trees, concordance factors, and the exploration of reticulate genealogy
    • Baum, D. A. 2007. Concordance trees, concordance factors, and the exploration of reticulate genealogy. Taxon. 56 : 417 426.
    • (2007) Taxon. , vol.56 , pp. 417-426
    • Baum, D.A.1
  • 13
    • 34948847222 scopus 로고    scopus 로고
    • A new approach to estimate parameters of speciation models with application to apes
    • and
    • Becquet, C., and M. Przeworski. 2007. A new approach to estimate parameters of speciation models with application to apes. Genome Res. 17 : 1505 1519.
    • (2007) Genome Res. , vol.17 , pp. 1505-1519
    • Becquet, C.1    Przeworski, M.2
  • 14
    • 32144440085 scopus 로고    scopus 로고
    • Comparison of Bayesian and maximum likelihood inference of population genetic parameters
    • Beerli, P. 2006. Comparison of Bayesian and maximum likelihood inference of population genetic parameters. Bioinformatics 22 : 341 345.
    • (2006) Bioinformatics , vol.22 , pp. 341-345
    • Beerli, P.1
  • 15
    • 52149099649 scopus 로고    scopus 로고
    • Multilocus phylogenetics of a rapid radiation in the genus Thomomys (Rodentia: Geomyidae)
    • and
    • Belfiore, N. M., L. Liu, and C. Moritz. 2008. Multilocus phylogenetics of a rapid radiation in the genus Thomomys (Rodentia: Geomyidae). Syst. Biol. 57 : 294 310.
    • (2008) Syst. Biol. , vol.57 , pp. 294-310
    • Belfiore, N.M.1    Liu, L.2    Moritz, C.3
  • 16
    • 0034914770 scopus 로고    scopus 로고
    • Polytomies, the power of phylogenetic inference, and the stochastic nature of molecular evolution: A comment on Walsh et al. (1999)
    • and
    • Braun, E. L., and R. T. Kimball. 2001. Polytomies, the power of phylogenetic inference, and the stochastic nature of molecular evolution: a comment on Walsh et al. (1999). Evolution 55 : 1261 1263.
    • (2001) Evolution , vol.55 , pp. 1261-1263
    • Braun, E.L.1    Kimball, R.T.2
  • 17
    • 77949569929 scopus 로고    scopus 로고
    • Multilocus phylogeography and phylogenetics using sequence-based markers
    • and. doi:.
    • Brito, P., and S. Edwards. 2008. Multilocus phylogeography and phylogenetics using sequence-based markers. Genetica. doi :.
    • (2008) Genetica.
    • Brito, P.1    Edwards, S.2
  • 19
    • 35948952881 scopus 로고    scopus 로고
    • Gene sampling strategies for multi-locus population estimates of genetic diversity (theta)
    • and
    • Carling, M. D., and R. T. Brumfield. 2007. Gene sampling strategies for multi-locus population estimates of genetic diversity (theta). PLoS One 2 : e160.
    • (2007) PLoS One , vol.2
    • Carling, M.D.1    Brumfield, R.T.2
  • 20
    • 34249700809 scopus 로고    scopus 로고
    • Estimating species phylogeny from gene-tree probabilities despite incomplete lineage sorting: An example from melanoplus grasshoppers
    • and
    • Carstens, B. C., and L. L. Knowles. 2007. Estimating species phylogeny from gene-tree probabilities despite incomplete lineage sorting: an example from melanoplus grasshoppers. Syst. Biol. 56 : 400 411.
    • (2007) Syst. Biol. , vol.56 , pp. 400-411
    • Carstens, B.C.1    Knowles, L.L.2
  • 21
    • 12444323629 scopus 로고    scopus 로고
    • Accounting for coalescent stochsticity in testing phylogeographical hypotheses: Modelling Pleistocene population structure in the Idaho giant salamander Dicamptodon aterrimus
    • and
    • Carstens, B. C., J. D. Degenhardt, A. L. Stevenson, and J. Sullivan. 2005. Accounting for coalescent stochsticity in testing phylogeographical hypotheses: modelling Pleistocene population structure in the Idaho giant salamander Dicamptodon aterrimus. Mol. Ecol. 14 : 255 265.
    • (2005) Mol. Ecol. , vol.14 , pp. 255-265
    • Carstens, B.C.1    Degenhardt, J.D.2    Stevenson, A.L.3    Sullivan, J.4
  • 22
    • 0014024705 scopus 로고
    • Population structure and human evolution
    • Cavalli-Sforza, L. L. 1964. Population structure and human evolution. Proc. R. Soc. Lond. B 164 : 362 379.
    • (1964) Proc. R. Soc. Lond. B , vol.164 , pp. 362-379
    • Cavalli-Sforza, L.L.1
  • 23
    • 0000305961 scopus 로고
    • A neo-Darwinian commentary on macroevolution
    • and
    • Charlesworth, B., R. Lande, and M. Slatkin. 1982. A neo-Darwinian commentary on macroevolution. Evolution 36 : 474 498.
    • (1982) Evolution , vol.36 , pp. 474-498
    • Charlesworth, B.1    Lande, R.2    Slatkin, M.3
  • 24
    • 0035130163 scopus 로고    scopus 로고
    • Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees
    • and
    • Chen, F. C., and W. H. Li. 2001. Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees. Am. J. Hum. Genet. 68 : 444 456.
    • (2001) Am. J. Hum. Genet. , vol.68 , pp. 444-456
    • Chen, F.C.1    Li, W.H.2
  • 25
    • 0029096506 scopus 로고
    • Sampling properties of DNA sequence data in phylogenetic analysis
    • and
    • Cummings, M. P., S. P. Otto, and J. Wakeley. 1995. Sampling properties of DNA sequence data in phylogenetic analysis. Mol. Biol. Evol. 12 : 814 822.
    • (1995) Mol. Biol. Evol. , vol.12 , pp. 814-822
    • Cummings, M.P.1    Otto, S.P.2    Wakeley, J.3
  • 26
    • 51549089796 scopus 로고    scopus 로고
    • A genealogical approach to quantifying lineage divergence
    • and
    • Cummings, M. P., M. C. Neel, and K. L. Shaw. 2008. A genealogical approach to quantifying lineage divergence. Evolution 62 : 2411 2422.
    • (2008) Evolution , vol.62 , pp. 2411-2422
    • Cummings, M.P.1    Neel, M.C.2    Shaw, K.L.3
  • 27
    • 33646928341 scopus 로고    scopus 로고
    • Discordance of species trees with their most likely gene trees
    • and
    • Degnan, J. H., and N. A. Rosenberg. 2006. Discordance of species trees with their most likely gene trees. PLoS Genet. 2 : 762 768.
    • (2006) PLoS Genet. , vol.2 , pp. 762-768
    • Degnan, J.H.1    Rosenberg, N.A.2
  • 28
    • 85094301715 scopus 로고    scopus 로고
    • Gene tree discordance, phylogenetic inference, and the multispecies coalescent
    • and. in press.
    • Degnan, J. H., and N. A. Rosenberg. 2008. Gene tree discordance, phylogenetic inference, and the multispecies coalescent. Trends Ecol. Evol. in press.
    • (2008) Trends Ecol. Evol.
    • Degnan, J.H.1    Rosenberg, N.A.2
  • 29
    • 13244292527 scopus 로고    scopus 로고
    • Gene tree distributions under the coalescent process
    • and
    • Degnan, J. H., and L. Salter. 2005. Gene tree distributions under the coalescent process. Evolution 59 : 24 37.
    • (2005) Evolution , vol.59 , pp. 24-37
    • Degnan, J.H.1    Salter, L.2
  • 31
    • 17744394753 scopus 로고    scopus 로고
    • Phylogenomics and the reconstruction of the tree of life
    • and
    • Delsuc, F., H. Brinkmann, and H. Philippe. 2005. Phylogenomics and the reconstruction of the tree of life. Nat. Rev. Genet. 6 : 361 375.
    • (2005) Nat. Rev. Genet. , vol.6 , pp. 361-375
    • Delsuc, F.1    Brinkmann, H.2    Philippe, H.3
  • 32
    • 33644536713 scopus 로고    scopus 로고
    • Tunicates and not cephalochordates are the closest living relatives of vertebrates
    • and
    • Delsuc, F., H. Brinkmann, D. Chourrout, and H. Philippe. 2006. Tunicates and not cephalochordates are the closest living relatives of vertebrates. Nature 439 : 965 968.
    • (2006) Nature , vol.439 , pp. 965-968
    • Delsuc, F.1    Brinkmann, H.2    Chourrout, D.3    Philippe, H.4
  • 33
    • 12044251056 scopus 로고
    • For consensus (sometimes)
    • de Queiroz, A. 1993. For consensus (sometimes). Syst. Biol. 42 : 368 372.
    • (1993) Syst. Biol. , vol.42 , pp. 368-372
    • De Queiroz, A.1
  • 34
    • 18244371073 scopus 로고    scopus 로고
    • Ernst Mayr and the modern concept of species
    • de Queiroz, K. 2005. Ernst Mayr and the modern concept of species. Proc. Natl. Acad. Sci. USA 102 : 6600 6607.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , pp. 6600-6607
    • De Queiroz, K.1
  • 35
    • 0001546577 scopus 로고
    • Separate versus combined analysis of phylogenetic evidence
    • and
    • de Queiroz, A., M. J. Donoghue, and J. Kim. 1995. Separate versus combined analysis of phylogenetic evidence. Ann. Rev. Ecol. Syst. 26 : 657 681.
    • (1995) Ann. Rev. Ecol. Syst. , vol.26 , pp. 657-681
    • De Queiroz, A.1    Donoghue, M.J.2    Kim, J.3
  • 36
    • 33847790997 scopus 로고    scopus 로고
    • Pattern pluralism and the Tree of Life hypothesis
    • and
    • Doolittle, W. F., and E. Bapteste. 2007. Pattern pluralism and the Tree of Life hypothesis. Proc. Natl. Acad. Sci. USA 104 : 2043 2049.
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 2043-2049
    • Doolittle, W.F.1    Bapteste, E.2
  • 37
    • 0037329108 scopus 로고    scopus 로고
    • Comparison of Bayesian and maximum likelihood bootstrap measures of phylogenetic reliability
    • and
    • Douady, C. J., F. Delsuc, Y. Boucher, W. F. Doolittle, and E. J. P. Douzery. 2003. Comparison of Bayesian and maximum likelihood bootstrap measures of phylogenetic reliability. Mol. Biol. Evol. 20 : 248 254.
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 248-254
    • Douady, C.J.1    Delsuc, F.2    Boucher, Y.3    Doolittle, W.F.4    Douzery, E.J.P.5
  • 38
    • 0000989175 scopus 로고
    • Gene trees and species trees: Molecular systematics as one character taxonomy
    • Doyle, J. J. 1992. Gene trees and species trees: molecular systematics as one character taxonomy. Syst. Bot. 17 : 144 163.
    • (1992) Syst. Bot. , vol.17 , pp. 144-163
    • Doyle, J.J.1
  • 39
    • 0031221403 scopus 로고    scopus 로고
    • Trees within trees: Genes and species, molecules and morphology
    • Doyle, J. J. 1997. Trees within trees: genes and species, molecules and morphology. Syst. Biol. 46 : 537 553.
    • (1997) Syst. Biol. , vol.46 , pp. 537-553
    • Doyle, J.J.1
  • 43
    • 56549103832 scopus 로고    scopus 로고
    • Does gene flow destroy phylogenetic signal? the performances of three methods for estimating species phylogenies in the presence of gene flow
    • and
    • Eckert, A. J., and B. C. Carstens. 2008. Does gene flow destroy phylogenetic signal? The performances of three methods for estimating species phylogenies in the presence of gene flow. Mol. Phyl. Evol. 49 : 832 842.
    • (2008) Mol. Phyl. Evol. , vol.49 , pp. 832-842
    • Eckert, A.J.1    Carstens, B.C.2
  • 44
    • 0034496840 scopus 로고    scopus 로고
    • Perspective: Gene divergence, population divergence, and the variance in coalescence time in phylogeographic studies
    • and
    • Edwards, S. V., and P. Beerli. 2000. Perspective: 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
  • 46
    • 34347256397 scopus 로고    scopus 로고
    • High-resolution species trees without concatenation
    • and
    • Edwards, S. V., L. Liu, and D. K. Pearl. 2007. High-resolution species trees without concatenation. Proc. Natl. Acad. Sci. USA 104 : 5936 5941.
    • (2007) Proc. Natl. Acad. Sci. USA , vol.104 , pp. 5936-5941
    • Edwards, S.V.1    Liu, L.2    Pearl, D.K.3
  • 47
    • 0033930797 scopus 로고    scopus 로고
    • Macroevolution is more than repeated rounds of microevolution
    • Erwin, D. H. 2000. Macroevolution is more than repeated rounds of microevolution. Evol. Develop. 2 : 78 84.
    • (2000) Evol. Develop. , vol.2 , pp. 78-84
    • Erwin, D.H.1
  • 48
    • 33846633697 scopus 로고    scopus 로고
    • Resolving the paradox of stasis: Models with stabilizing selection explain evolutionary divergence on all timescales
    • and
    • Estes, S., and S. J. Arnold. 2007. Resolving the paradox of stasis: models with stabilizing selection explain evolutionary divergence on all timescales. Am. Nat. 169 : 227 244.
    • (2007) Am. Nat. , vol.169 , pp. 227-244
    • Estes, S.1    Arnold, S.J.2
  • 50
    • 0041817568 scopus 로고    scopus 로고
    • Inference of population structure using multilocus genotype data: Linked loci and correlated allele frequencies
    • and
    • Falush, D., M. Stephens, and J. K. Pritchard. 2003. Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164 : 1567 1587.
    • (2003) Genetics , vol.164 , pp. 1567-1587
    • Falush, D.1    Stephens, M.2    Pritchard, J.K.3
  • 51
    • 34447120219 scopus 로고    scopus 로고
    • Inference of population structure using multilocus genotype data: Dominant markers and null alleles
    • and
    • Falush, D., M. Stephens, and J. K. Pritchard. 2007. Inference of population structure using multilocus genotype data: dominant markers and null alleles. Mol. Ecol. Notes 7 : 574 578.
    • (2007) Mol. Ecol. Notes , vol.7 , pp. 574-578
    • Falush, D.1    Stephens, M.2    Pritchard, J.K.3
  • 52
    • 0001708655 scopus 로고
    • Evolutionary trees from gene-frequencies and quantitative characters - Finding maximum-likelihood estimates
    • Felsenstein, J. 1981. Evolutionary trees from gene-frequencies and quantitative characters - finding maximum-likelihood estimates. Evolution 35 : 1229 1242.
    • (1981) Evolution , vol.35 , pp. 1229-1242
    • Felsenstein, J.1
  • 53
    • 0024152983 scopus 로고
    • Phylogenies from molecular sequences: Inference and reliability
    • Felsenstein, J. 1988. Phylogenies from molecular sequences: inference and reliability. Ann. Rev. Genet. 22 : 521 565.
    • (1988) Ann. Rev. Genet. , vol.22 , pp. 521-565
    • Felsenstein, J.1
  • 55
    • 33244495782 scopus 로고    scopus 로고
    • Accuracy of coalescent likelihood estimates: Do we need more sites, more sequences, or more loci?
    • Felsenstein, J. 2006. Accuracy of coalescent likelihood estimates: do we need more sites, more sequences, or more loci? Mol. Biol. Evol. 23 : 691 700.
    • (2006) Mol. Biol. Evol. , vol.23 , pp. 691-700
    • Felsenstein, J.1
  • 56
    • 14844313275 scopus 로고    scopus 로고
    • Inferring species phylogenies from multiple genes: Concatenated sequence tree versus consensus gene tree
    • and
    • Gadagkar, S. R., M. S. Rosenberg, and S. Kumar. 2005. Inferring species phylogenies from multiple genes: concatenated sequence tree versus consensus gene tree. J. Exp. Zool. Mol. Dev. Evol. 304 : 64 74.
    • (2005) J. Exp. Zool. Mol. Dev. Evol. , vol.304 , pp. 64-74
    • Gadagkar, S.R.1    Rosenberg, M.S.2    Kumar, S.3
  • 57
    • 22844438847 scopus 로고    scopus 로고
    • Hidden likelihood support in genomic data: Can forty-five wrongs make a right?
    • and
    • Gatesy, J., and R. H. Baker. 2005. Hidden likelihood support in genomic data: can forty-five wrongs make a right? Syst. Biol. 54 : 483 492.
    • (2005) Syst. Biol. , vol.54 , pp. 483-492
    • Gatesy, J.1    Baker, R.H.2
  • 58
    • 34547415681 scopus 로고    scopus 로고
    • Experimental design criteria in phylogenetics: Where to add taxa
    • and
    • Geuten, K., T. Massingham, P. Darius, E. Smets, and N. Goldman. 2007. Experimental design criteria in phylogenetics: where to add taxa. Syst. Biol. 56 : 609 622.
    • (2007) Syst. Biol. , vol.56 , pp. 609-622
    • Geuten, K.1    Massingham, T.2    Darius, P.3    Smets, E.4    Goldman, N.5
  • 59
    • 84972048145 scopus 로고
    • Is a new and general theory of evolution emerging?
    • Gould, S. J. 1980. Is a new and general theory of evolution emerging? Paleobiology 6 : 119 130.
    • (1980) Paleobiology , vol.6 , pp. 119-130
    • Gould, S.J.1
  • 60
    • 0032025857 scopus 로고    scopus 로고
    • Is it better to add taxa or characters to a difficult phylogenetic problems?
    • Graybeal, A. 1998. Is it better to add taxa or characters to a difficult phylogenetic problems? Syst. Biol. 47 : 9 17.
    • (1998) Syst. Biol. , vol.47 , pp. 9-17
    • Graybeal, A.1
  • 61
    • 33747339757 scopus 로고    scopus 로고
    • Resolution of phylogenetic conflict in large data sets by increased taxon sampling
    • and
    • Hedtke, S. M., T. M. Townsend, and D. M. Hillis. 2006. Resolution of phylogenetic conflict in large data sets by increased taxon sampling. Syst. Biol. 55 : 522 529.
    • (2006) Syst. Biol. , vol.55 , pp. 522-529
    • Hedtke, S.M.1    Townsend, T.M.2    Hillis, D.M.3
  • 62
    • 0037803577 scopus 로고    scopus 로고
    • The study of structured populations - New hope for a difficult and divided science
    • and
    • Hey, J., and C. A. Machado. 2003. The study of structured populations - new hope for a difficult and divided science. Nat. Rev. Genet. 4 : 535 543.
    • (2003) Nat. Rev. Genet. , vol.4 , pp. 535-543
    • Hey, J.1    MacHado, C.A.2
  • 63
    • 0023501273 scopus 로고
    • Molecular versus morphological approaches to systematics
    • Hillis, D. M. 1987. Molecular versus morphological approaches to systematics. Ann. Rev. Ecol. Syst. 18 : 23 42.
    • (1987) Ann. Rev. Ecol. Syst. , vol.18 , pp. 23-42
    • Hillis, D.M.1
  • 64
    • 0027722963 scopus 로고
    • Analysis of DNA sequence data: Phylogenetic inference
    • and
    • Hillis, D. M., M. W. Allard, and M. M. Miyamoto. 1993. Analysis of DNA sequence data: phylogenetic inference. Meth. Enzymol. 224 : 456 487.
    • (1993) Meth. Enzymol. , vol.224 , pp. 456-487
    • Hillis, D.M.1    Allard, M.W.2    Miyamoto, M.M.3
  • 65
    • 33847253862 scopus 로고    scopus 로고
    • Genomic relationships and speciation times of human, chimpanzee, and gorilla inferred from a coalescent hidden Markov model
    • and
    • Hobolth, A., O. F. Christensen, T. Mailund, and M. H. Schierup. 2007. Genomic relationships and speciation times of human, chimpanzee, and gorilla inferred from a coalescent hidden Markov model. PLoS Genet 3 : e7.
    • (2007) PLoS Genet , vol.3
    • Hobolth, A.1    Christensen, O.F.2    Mailund, T.3    Schierup, M.H.4
  • 66
    • 15944415088 scopus 로고    scopus 로고
    • Visualizing conflicting evolutionary hypotheses in large collections of trees: Using consensus networks to study the origins of placentals and hexapods
    • and
    • Holland, B., F. Delsuc, and V. Moulton. 2005. Visualizing conflicting evolutionary hypotheses in large collections of trees: using consensus networks to study the origins of placentals and hexapods. Syst. Biol. 54 : 66 76.
    • (2005) Syst. Biol. , vol.54 , pp. 66-76
    • Holland, B.1    Delsuc, F.2    Moulton, V.3
  • 67
    • 33646584166 scopus 로고    scopus 로고
    • Improved consensus network techniques for genome-scale phylogeny
    • and
    • Holland, B. R., L. S. Jermiin, and V. Moulton. 2006. Improved consensus network techniques for genome-scale phylogeny. Mol. Biol. Evol. 23 : 848 855.
    • (2006) Mol. Biol. Evol. , vol.23 , pp. 848-855
    • Holland, B.R.1    Jermiin, L.S.2    Moulton, V.3
  • 68
    • 0026747106 scopus 로고
    • Gene trees, species trees and the segregation of ancestral alleles
    • Hudson, R. R. 1992. Gene trees, species trees and the segregation of ancestral alleles. Genetics 131 : 509 512.
    • (1992) Genetics , vol.131 , pp. 509-512
    • Hudson, R.R.1
  • 69
    • 0037286419 scopus 로고    scopus 로고
    • Stochasticity overrules the "three-times rule": Genetic drift, genetic draft, and coalescence times for nuclear loci versus mitochondrial DNA
    • and
    • Hudson, R. R., and M. Turelli. 2003. Stochasticity overrules the "three-times rule": genetic drift, genetic draft, and coalescence times for nuclear loci versus mitochondrial DNA. Evolution 57 : 182 190.
    • (2003) Evolution , vol.57 , pp. 182-190
    • Hudson, R.R.1    Turelli, M.2
  • 70
    • 0034849408 scopus 로고    scopus 로고
    • MRBAYES: Bayesian inference of phylogenetic trees
    • and
    • 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
  • 71
    • 0036806280 scopus 로고    scopus 로고
    • Potential applications and pitfalls of Bayesian inference of phylogeny
    • and
    • Huelsenbeck, J. P., B. Larget, R. E. Miller, and F. Ronquist. 2002. Potential applications and pitfalls of Bayesian inference of phylogeny. Syst. Biol. 51 : 673 688.
    • (2002) Syst. Biol. , vol.51 , pp. 673-688
    • Huelsenbeck, J.P.1    Larget, B.2    Miller, R.E.3    Ronquist, F.4
  • 72
    • 60249086300 scopus 로고    scopus 로고
    • Recombination and nucleotide diversity in the sex chromosomal pseudoautosomal region of the Emu, Dromaius novaehollandiae
    • Janes, D. E., T. Ezaz, J. A. Marshall Graves, and S. V. Edwards. 2008. Recombination and nucleotide diversity in the sex chromosomal pseudoautosomal region of the Emu, Dromaius novaehollandiae. J. Hered. doi: "10.1093/ jhered/esn065".
    • (2008) J. Hered.
    • Janes, D.E.1    Ezaz, T.2    Marshall Graves, J.A.3    Edwards, S.V.4
  • 73
    • 25644452054 scopus 로고    scopus 로고
    • Speciational history of Australian grass finches (Poephila) inferred from 30 gene trees
    • Jennings, W. B., and S. V. Edwards. 2005. Speciational history of Australian grass finches (Poephila) inferred from 30 gene trees. Evolution 59 : 2033 2047.
    • (2005) Evolution , vol.59 , pp. 2033-2047
    • Jennings, W.B.1    Edwards, S.V.2
  • 74
    • 84959806898 scopus 로고
    • A concern for evidence and a phylogenetic hypothesis of relationships among Epicrates (Boidae, Serpentes)
    • Kluge, A. G. 1989. A concern for evidence and a phylogenetic hypothesis of relationships among Epicrates (Boidae, Serpentes). Syst Zool 38 : 7 25.
    • (1989) Syst Zool , vol.38 , pp. 7-25
    • Kluge, A.G.1
  • 75
    • 0002748161 scopus 로고
    • Cladistics and the classification of great apes
    • Pp. in. R. L. Ciochan, and. R. S. Coruccini, eds. Plenum, New York.
    • Kluge, A. G. 1983. Cladistics and the classification of great apes. Pp. 151 177 in R. L. Ciochan, and R. S. Coruccini, eds. New Interpretations of Ape and Human Ancestry. Plenum, New York.
    • (1983) New Interpretations of Ape and Human Ancestry. , pp. 151-177
    • Kluge, A.G.1
  • 76
    • 2942525509 scopus 로고    scopus 로고
    • On total evidence: For the record
    • Kluge, A. G. 2004. On total evidence: for the record. Cladistics 20 : 205 207.
    • (2004) Cladistics , vol.20 , pp. 205-207
    • Kluge, A.G.1
  • 77
    • 7244221755 scopus 로고    scopus 로고
    • Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous
    • and
    • Kolaczkowski, B., and J. W. Thornton. 2004. Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous. Nature 431 : 980 984.
    • (2004) Nature , vol.431 , pp. 980-984
    • Kolaczkowski, B.1    Thornton, J.W.2
  • 78
  • 79
    • 44649184070 scopus 로고    scopus 로고
    • A mixed branch length model of heterotachy improves phylogenetic accuracy
    • and
    • Kolaczkowski, B., and J. W. Thornton. 2008. A mixed branch length model of heterotachy improves phylogenetic accuracy. Mol. Biol. Evol. 25 : 1054 1066.
    • (2008) Mol. Biol. Evol. , vol.25 , pp. 1054-1066
    • Kolaczkowski, B.1    Thornton, J.W.2
  • 80
    • 33847302458 scopus 로고    scopus 로고
    • Inconsistency of phylogenetic estimates from concatenated data under coalescence
    • and
    • Kubatko, L. S., and J. H. Degnan. 2007. Inconsistency of phylogenetic estimates from concatenated data under coalescence. Syst. Biol. 56 : 17 24.
    • (2007) Syst. Biol. , vol.56 , pp. 17-24
    • Kubatko, L.S.1    Degnan, J.H.2
  • 81
    • 33645108873 scopus 로고    scopus 로고
    • LAMARC 2.0: Maximum likelihood and Bayesian estimation of population parameters
    • Kuhner, M. K. 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
  • 82
    • 7244221627 scopus 로고    scopus 로고
    • SIMCOAL 2.0: A program to simulate genomic diversity over large recombining regions in a subdivided population with a complex history
    • and
    • Laval, G., and L. Excoffier. 2004. SIMCOAL 2.0: a program to simulate genomic diversity over large recombining regions in a subdivided population with a complex history. Bioinformatics 20 : 2485 2487.
    • (2004) Bioinformatics , vol.20 , pp. 2485-2487
    • Laval, G.1    Excoffier, L.2
  • 83
    • 57249086459 scopus 로고    scopus 로고
    • Divergence across Australia's Carpentarian barrier: Statistical phylogeography of the Red-backed Fairy Wren (Malurus melanocephalus)
    • and
    • Lee, J. Y., and S. V. Edwards. 2008. Divergence across Australia's Carpentarian barrier: statistical phylogeography of the Red-backed Fairy Wren (Malurus melanocephalus). Evolution 62 : 3117 3134.
    • (2008) Evolution , vol.62 , pp. 3117-3134
    • Lee, J.Y.1    Edwards, S.V.2
  • 84
    • 19044373497 scopus 로고    scopus 로고
    • Polytomies and Bayesian phylogenetic inference
    • and
    • Lewis, P. O., M. T. Holder, and K. E. Holsinger. 2005. Polytomies and Bayesian phylogenetic inference. Syst. Biol. 54 : 241 253.
    • (2005) Syst. Biol. , vol.54 , pp. 241-253
    • Lewis, P.O.1    Holder, M.T.2    Holsinger, K.E.3
  • 85
    • 58249100872 scopus 로고    scopus 로고
    • Phylogenetic analysis in the anomaly zone
    • and. Cambridge, MA.
    • Liu, L., and S. V. Edwards. 2008. Phylogenetic analysis in the anomaly zone. Manuscript, Cambridge, MA.
    • (2008) Manuscript
    • Liu, L.1    Edwards, S.V.2
  • 87
    • 34548575126 scopus 로고    scopus 로고
    • Species trees from gene trees: Reconstructing Bayesian posterior distributions of a species phylogeny using estimated gene tree distributions
    • and
    • Liu, L., and D. K. Pearl. 2007. Species trees from gene trees: reconstructing Bayesian posterior distributions of a species phylogeny using estimated gene tree distributions. Syst. Biol. 56 : 504 514.
    • (2007) Syst. Biol. , vol.56 , pp. 504-514
    • Liu, L.1    Pearl, D.K.2
  • 88
    • 47749093183 scopus 로고    scopus 로고
    • Estimating species trees using multiple-allele DNA sequence data
    • and
    • Liu, L., D. K. Pearl, R. T. Brumfield, and S. V. Edwards. 2008. Estimating species trees using multiple-allele DNA sequence data. Evolution 2080 2091.
    • (2008) Evolution , pp. 2080-2091
    • Liu, L.1    Pearl, D.K.2    Brumfield, R.T.3    Edwards, S.V.4
  • 89
    • 0027384944 scopus 로고
    • A method for calibrating molecular clocks and its application to animal mitochondrial DNA
    • and
    • Lynch, M., and P. E. Jarrell. 1993. A method for calibrating molecular clocks and its application to animal mitochondrial DNA. Genetics 135 : 1197 1208.
    • (1993) Genetics , vol.135 , pp. 1197-1208
    • Lynch, M.1    Jarrell, P.E.2
  • 90
    • 0031504952 scopus 로고    scopus 로고
    • Gene trees in species trees
    • Maddison, W. P. 1997. Gene trees in species trees. Syst. Biol. 46 : 523 536.
    • (1997) Syst. Biol. , vol.46 , pp. 523-536
    • Maddison, W.P.1
  • 91
    • 33644606488 scopus 로고    scopus 로고
    • Inferring phylogeny despite incomplete lineage sorting
    • and
    • Maddison, W. P., and L. L. Knowles. 2006. Inferring phylogeny despite incomplete lineage sorting. Syst. Biol. 55 : 21 30.
    • (2006) Syst. Biol. , vol.55 , pp. 21-30
    • Maddison, W.P.1    Knowles, L.L.2
  • 93
    • 38449104891 scopus 로고    scopus 로고
    • Phylogenetic mixtures on a single tree can mimic a tree of another topology
    • and
    • Matsen, F. A., and M. Steel. 2007. Phylogenetic mixtures on a single tree can mimic a tree of another topology. Syst. Biol. 56 : 767 775.
    • (2007) Syst. Biol. , vol.56 , pp. 767-775
    • Matsen, F.A.1    Steel, M.2
  • 94
    • 0344243515 scopus 로고    scopus 로고
    • Reanalysis of Murphy et al.'s data gives various mammalian phylogenies and suggests overcredibility of Bayesian trees
    • and
    • Misawa, K., and M. Nei. 2003. Reanalysis of Murphy et al.'s data gives various mammalian phylogenies and suggests overcredibility of Bayesian trees. J. Mol. Evol. 57 : S290 S296.
    • (2003) J. Mol. Evol. , vol.57
    • Misawa, K.1    Nei, M.2
  • 96
    • 25844516325 scopus 로고    scopus 로고
    • Phylogenetic MCMC algorithms are misleading on mixtures of trees
    • and
    • Mossel, E., and E. Vigoda. 2005. Phylogenetic MCMC algorithms are misleading on mixtures of trees. Science 309 : 2207 2209.
    • (2005) Science , vol.309 , pp. 2207-2209
    • Mossel, E.1    Vigoda, E.2
  • 98
    • 0002267691 scopus 로고
    • Phylogenetic relationships of mitochondrial DNA under various demographic models of speciation
    • and. Pp. in. S. Karlin, and. E. Nevo, eds. Academic Press, New York.
    • Neigel, J. E., and J. C. Avise. 1986. Phylogenetic relationships of mitochondrial DNA under various demographic models of speciation. Pp. 515 534 in S. Karlin, and E. Nevo, eds. Evolutionary processes and theory. Academic Press, New York.
    • (1986) Evolutionary Processes and Theory. , pp. 515-534
    • Neigel, J.E.1    Avise, J.C.2
  • 99
    • 0032051440 scopus 로고    scopus 로고
    • Maximum likelihood estimation of population divergence times and population phylogenies under the infinite sites model
    • Nielsen, R. 1998. Maximum likelihood estimation of population divergence times and population phylogenies under the infinite sites model. Theor. Pop. Biol. 53 : 143 151.
    • (1998) Theor. Pop. Biol. , vol.53 , pp. 143-151
    • Nielsen, R.1
  • 100
    • 0031879154 scopus 로고    scopus 로고
    • Maximum-likelihood estimation of population divergence times and population phylogeny in models without mutation
    • and
    • Nielsen, R., J. L. Mountain, J. P. Huelsenbeck, and M. Slatkin. 1998. Maximum-likelihood estimation of population divergence times and population phylogeny in models without mutation. Evolution 52 : 669 677.
    • (1998) Evolution , vol.52 , pp. 669-677
    • Nielsen, R.1    Mountain, J.L.2    Huelsenbeck, J.P.3    Slatkin, M.4
  • 103
    • 0000353810 scopus 로고    scopus 로고
    • Inferring phylogenies from DNA sequence data: The effects of sampling
    • and. Pp. in. P. H. Harvey, A. J. Leigh Brown, J. Maynard Smith, and. S. Nee, eds. Oxfore University Press, New York.
    • Otto, S. P., M. P. Cummings, and J. Wakeley. 1996. Inferring phylogenies from DNA sequence data: the effects of sampling. Pp. 103 115 in P. H. Harvey, A. J. Leigh Brown, J. Maynard Smith, and S. Nee, eds. New Uses for new Phylogenies. Oxfore University Press, New York.
    • (1996) New Uses for New Phylogenies. , pp. 103-115
    • Otto, S.P.1    Cummings, M.P.2    Wakeley, J.3
  • 104
    • 0031110886 scopus 로고    scopus 로고
    • From gene to organismal phylogeny: Reconciled trees and the gene tree/species tree problem
    • and
    • Page, R., and M. A. Charleston. 1997. From gene to organismal phylogeny: reconciled trees and the gene tree/species tree problem. Mol. Phylogenet. Evol. 7 : 231 240.
    • (1997) Mol. Phylogenet. Evol. , vol.7 , pp. 231-240
    • Page, R.1    Charleston, M.A.2
  • 105
    • 0023822631 scopus 로고
    • Relationships between gene trees and species trees
    • and
    • Pamilo, P., and M. Nei. 1988. Relationships between gene trees and species trees. Mol. Biol. Evol. 5 : 568 583.
    • (1988) Mol. Biol. Evol. , vol.5 , pp. 568-583
    • Pamilo, P.1    Nei, M.2
  • 106
    • 33745591114 scopus 로고    scopus 로고
    • Genetic evidence for complex speciation of humans and chimpanzees
    • and
    • Patterson, N., D. J. Richter, S. Gnerre, E. S. Lander, and D. Reich. 2006. Genetic evidence for complex speciation of humans and chimpanzees. Nature 441 : 1103 1108.
    • (2006) Nature , vol.441 , pp. 1103-1108
    • Patterson, N.1    Richter, D.J.2    Gnerre, S.3    Lander, E.S.4    Reich, D.5
  • 107
    • 36549087172 scopus 로고    scopus 로고
    • Do we need an extended evolutionary synthesis?
    • Pigliucci, M. 2007. Do we need an extended evolutionary synthesis? Evolution 61 : 2743 2749.
    • (2007) Evolution , vol.61 , pp. 2743-2749
    • Pigliucci, M.1
  • 108
    • 33750437728 scopus 로고    scopus 로고
    • Widespread discordance of gene trees with species tree in Drosophila: Evidence for incomplete lineage sorting
    • and
    • Pollard, D. A., V. N. Iyer, A. M. Moses, and M. B. Eisen. 2006. Widespread discordance of gene trees with species tree in Drosophila: evidence for incomplete lineage sorting. Plos Genet. 2 : 1634 1647.
    • (2006) Plos Genet. , vol.2 , pp. 1634-1647
    • Pollard, D.A.1    Iyer, V.N.2    Moses, A.M.3    Eisen, M.B.4
  • 109
    • 0036699885 scopus 로고    scopus 로고
    • Increased taxon sampling is advantageous for phylogenetic inference
    • and
    • Pollock, D. D., D. J. Zwickl, J. A. McGuire, and D. M. Hillis. 2002. Increased taxon sampling is advantageous for phylogenetic inference. Syst. Biol. 51 : 664 671.
    • (2002) Syst. Biol. , vol.51 , pp. 664-671
    • Pollock, D.D.1    Zwickl, D.J.2    McGuire, J.A.3    Hillis, D.M.4
  • 110
    • 0030928378 scopus 로고    scopus 로고
    • Seq-Gen: An application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees
    • and
    • Rambaut, A., and N. C. Grassly. 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    Grassly, N.C.2
  • 111
    • 0041817551 scopus 로고    scopus 로고
    • Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci
    • and
    • Rannala, B., and Z. Yang. 2003. Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci. Genetics 164 : 1645 1656.
    • (2003) Genetics , vol.164 , pp. 1645-1656
    • Rannala, B.1    Yang, Z.2
  • 112
    • 38849160068 scopus 로고    scopus 로고
    • Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes
    • and
    • Rasmussen, M. D., and M. Kellis. 2007. Accurate gene-tree reconstruction by learning gene- and species-specific substitution rates across multiple complete genomes. Genome Res. 17 : 1932 1942.
    • (2007) Genome Res. , vol.17 , pp. 1932-1942
    • Rasmussen, M.D.1    Kellis, M.2
  • 113
    • 0242365676 scopus 로고    scopus 로고
    • Genome-scale approaches to resolving incongruence in molecular phylogenies
    • and
    • Rokas, A., B. Williams, N. King, and S. Carroll. 2003. Genome-scale approaches to resolving incongruence in molecular phylogenies. Nature 425 : 798 804.
    • (2003) Nature , vol.425 , pp. 798-804
    • Rokas, A.1    Williams, B.2    King, N.3    Carroll, S.4
  • 114
    • 0042697667 scopus 로고    scopus 로고
    • The shapes of neutral gene genealogies in two species: Probabilities of monophyly, paraphyly, and polyphyly in a coalescent model
    • Rosenberg, N. A. 2003. The shapes of neutral gene genealogies in two species: probabilities of monophyly, paraphyly, and polyphyly in a coalescent model. Evol. Int. J. Org. Evol. 57 : 1465 1477.
    • (2003) Evol. Int. J. Org. Evol. , vol.57 , pp. 1465-1477
    • Rosenberg, N.A.1
  • 115
    • 33947104905 scopus 로고    scopus 로고
    • Statistical tests for taxonomic distinctiveness from observations of monophyly
    • Rosenberg, N. A. 2007. Statistical tests for taxonomic distinctiveness from observations of monophyly. Evolution 61 : 317 323.
    • (2007) Evolution , vol.61 , pp. 317-323
    • Rosenberg, N.A.1
  • 116
    • 58149357704 scopus 로고    scopus 로고
    • A two-stage pruning algorithm for likelihood computation for a population tree
    • and
    • RoyChoudhury, A., J. Felsenstein, and E. A. Thompson. 2008. A two-stage pruning algorithm for likelihood computation for a population tree. Genetics 180.
    • (2008) Genetics , pp. 180
    • Roychoudhury, A.1    Felsenstein, J.2    Thompson, E.A.3
  • 117
    • 34248217100 scopus 로고    scopus 로고
    • Inferring angiosperm phylogeny from EST data with widespread gene duplication
    • and
    • Sanderson, M. J., and M. M. McMahon. 2007. Inferring angiosperm phylogeny from EST data with widespread gene duplication. BMC Evol Biol 7 (Suppl 1 S3.
    • (2007) BMC Evol Biol , vol.7 , Issue.1
    • Sanderson, M.J.1    McMahon, M.M.2
  • 118
    • 0034031477 scopus 로고    scopus 로고
    • DNA archives and our nearest relative: The trichotomy problem revisited
    • and
    • Satta, Y., J. Klein, and N. Takahata. 2000. DNA archives and our nearest relative: the trichotomy problem revisited. Mol. Phylogenet. Evol. 14 : 259 275.
    • (2000) Mol. Phylogenet. Evol. , vol.14 , pp. 259-275
    • Satta, Y.1    Klein, J.2    Takahata, N.3
  • 119
    • 50949129519 scopus 로고    scopus 로고
    • Calculating bootstrap probabilities of phylogeny using multilocus sequence data
    • Seo, T. K. 2008. Calculating bootstrap probabilities of phylogeny using multilocus sequence data. Mol. Biol. Evol. 25 : 960 971.
    • (2008) Mol. Biol. Evol. , vol.25 , pp. 960-971
    • Seo, T.K.1
  • 120
    • 15444373349 scopus 로고    scopus 로고
    • Incorporating gene-specific variation when inferring and evaluating optimal evolutionary tree topologies from multilocus sequence data
    • and
    • Seo, T. K., H. Kishino, and J. L. Thorne. 2005. Incorporating gene-specific variation when inferring and evaluating optimal evolutionary tree topologies from multilocus sequence data. Proc. Natl. Acad. Sci. USA 102 : 4436 4441.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , pp. 4436-4441
    • Seo, T.K.1    Kishino, H.2    Thorne, J.L.3
  • 121
    • 1242352069 scopus 로고    scopus 로고
    • How meaningful are Bayesian support values?
    • and
    • Simmons, M. P., K. M. Pickett, and M. Miya. 2004. How meaningful are Bayesian support values? Mol. Biol. Evol. 21 : 188 199.
    • (2004) Mol. Biol. Evol. , vol.21 , pp. 188-199
    • Simmons, M.P.1    Pickett, K.M.2    Miya, M.3
  • 122
    • 33645234370 scopus 로고    scopus 로고
    • The concordance of gene trees and species trees at two linked loci
    • and
    • Slatkin, M., and J. L. Pollack. 2006. The concordance of gene trees and species trees at two linked loci. Genetics 172 : 1979 1984.
    • (2006) Genetics , vol.172 , pp. 1979-1984
    • Slatkin, M.1    Pollack, J.L.2
  • 123
    • 0034782849 scopus 로고    scopus 로고
    • Molecular polytomies
    • Slowinski, J. B. 2001. Molecular polytomies. Mol Phylogenet Evol 19 : 114 120.
    • (2001) Mol Phylogenet Evol , vol.19 , pp. 114-120
    • Slowinski, J.B.1
  • 124
    • 0033278654 scopus 로고    scopus 로고
    • How should species phylogenies be inferred from sequence data?
    • and
    • Slowinski, J., and R. D. M. Page. 1999. How should species phylogenies be inferred from sequence data? Syst. Biol. 48 : 814 825.
    • (1999) Syst. Biol. , vol.48 , pp. 814-825
    • Slowinski, J.1    Page, R.D.M.2
  • 125
    • 0020987353 scopus 로고
    • The genetics of stasis and punctuation
    • Smith, J. M. 1983. The genetics of stasis and punctuation. Ann. Rev. Genet. 17 : 11 25.
    • (1983) Ann. Rev. Genet. , vol.17 , pp. 11-25
    • Smith, J.M.1
  • 126
    • 34047232697 scopus 로고    scopus 로고
    • The Bayesian "star paradox" persists for long finite sequences
    • and
    • Steel, M., and F. A. Matsen. 2007. The Bayesian "star paradox" persists for long finite sequences. Mol. Biol. Evol. 24 : 1075 1079.
    • (2007) Mol. Biol. Evol. , vol.24 , pp. 1075-1079
    • Steel, M.1    Matsen, F.A.2
  • 127
    • 41849131023 scopus 로고    scopus 로고
    • Maximum likelihood supertrees
    • and
    • Steel, M., and A. Rodrigo. 2008. Maximum likelihood supertrees. Syst. Biol. 57 : 243 250.
    • (2008) Syst. Biol. , vol.57 , pp. 243-250
    • Steel, M.1    Rodrigo, A.2
  • 128
    • 0034350430 scopus 로고    scopus 로고
    • Simple but fundamental limitations on supertree and consensus tree methods
    • and
    • Steel, M., A. W. Dress, and S. Bocker. 2000. Simple but fundamental limitations on supertree and consensus tree methods. Syst. Biol. 49 : 363 368.
    • (2000) Syst. Biol. , vol.49 , pp. 363-368
    • Steel, M.1    Dress, A.W.2    Bocker, S.3
  • 129
    • 0037058983 scopus 로고    scopus 로고
    • Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics
    • and
    • Suzuki, Y., G. V. Glazko, and M. Nei. 2002. Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics. Proc. Natl. Acad. Sci. USA 99 : 16138 16143.
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 16138-16143
    • Suzuki, Y.1    Glazko, G.V.2    Nei, M.3
  • 130
    • 0001336205 scopus 로고    scopus 로고
    • Phylogenetic inference
    • and. Pp. in. D. M. Hillis, C. Moritz, and. B. K. Mable, eds. Sinauer, Sunderland, MA.
    • Swofford, D. L., G. J. Olsen, P. J. Waddell, and D. M. Hillis. 1996. Phylogenetic inference. Pp. 407 514 in D. M. Hillis, C. Moritz, and B. K. Mable, eds. Molecular Systematics, 2nd ed. Sinauer, Sunderland, MA.
    • (1996) Molecular Systematics, 2nd Ed. , pp. 407-514
    • Swofford, D.L.1    Olsen, G.J.2    Waddell, P.J.3    Hillis, D.M.4
  • 131
    • 0024713112 scopus 로고
    • Gene genealogy in three related populations: Consistency probability between gene and population trees
    • Takahata, N. 1989. Gene genealogy in three related populations: consistency probability between gene and population trees. Genetics 122 : 957 966.
    • (1989) Genetics , vol.122 , pp. 957-966
    • Takahata, N.1
  • 132
    • 3242795999 scopus 로고    scopus 로고
    • An assessment of accuracy, error, and conflict with support values from genome-scale phylogenetic data
    • and
    • Taylor, D. J., and W. H. Piel. 2004. An assessment of accuracy, error, and conflict with support values from genome-scale phylogenetic data. Mol. Biol. Evol. 21 : 1534 1537.
    • (2004) Mol. Biol. Evol. , vol.21 , pp. 1534-1537
    • Taylor, D.J.1    Piel, W.H.2
  • 133
    • 55049088739 scopus 로고    scopus 로고
    • Developing markers for multilocus phylogenetics in non-model organisms: A test case with turtles
    • and. doi:.
    • Thomson, R. C., A. M. Shedlock, S. V. Edwards, and H. B. Shaffer. 2008. Developing markers for multilocus phylogenetics in non-model organisms: a test case with turtles. Mol. Phylogenet. Evol. doi :.
    • (2008) Mol. Phylogenet. Evol.
    • Thomson, R.C.1    Shedlock, A.M.2    Edwards, S.V.3    Shaffer, H.B.4
  • 134
    • 0035752767 scopus 로고    scopus 로고
    • A phylogenetic foundation for comparative mammalian genomics
    • and
    • Waddell, P. J., H. Kishino, and R. Ota. 2001. A phylogenetic foundation for comparative mammalian genomics. Genome Informatics 12 : 141 154.
    • (2001) Genome Informatics , vol.12 , pp. 141-154
    • Waddell, P.J.1    Kishino, H.2    Ota, R.3
  • 135
    • 0142089657 scopus 로고    scopus 로고
    • Very fast algorithms for evaluating the stability of ML and Bayesian phylogenetic trees from sequence data
    • and
    • Waddell, P. J., H. Kishino, and R. Ota. 2002. Very fast algorithms for evaluating the stability of ML and Bayesian phylogenetic trees from sequence data. Genome Informatics 13 : 82 92.
    • (2002) Genome Informatics , vol.13 , pp. 82-92
    • Waddell, P.J.1    Kishino, H.2    Ota, R.3
  • 136
    • 0031018637 scopus 로고    scopus 로고
    • Estimating ancestral population parameters
    • and
    • Wakeley, J., and J. Hey. 1997. Estimating ancestral population parameters. Genetics 145 : 847 855.
    • (1997) Genetics , vol.145 , pp. 847-855
    • Wakeley, J.1    Hey, J.2
  • 137
    • 0032805794 scopus 로고    scopus 로고
    • Polytomies and the power of phylogenetic inference
    • and
    • Walsh, H. E., M. G. Kidd, T. Moum, and T. 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, T.4
  • 138
    • 0032226105 scopus 로고    scopus 로고
    • Combining data sets with different phylogenetic histories
    • Wiens, J. J. 1998. Combining data sets with different phylogenetic histories. Syst. Biol. 47 : 568 581.
    • (1998) Syst. Biol. , vol.47 , pp. 568-581
    • Wiens, J.J.1
  • 139
    • 0033382149 scopus 로고    scopus 로고
    • Polymorphism in systematics and comparative biology
    • Wiens, J. J. 1999. Polymorphism in systematics and comparative biology. Ann. Rev. Ecol. Syst. 30 : 327 362.
    • (1999) Ann. Rev. Ecol. Syst. , vol.30 , pp. 327-362
    • Wiens, J.J.1
  • 141
    • 34248679898 scopus 로고    scopus 로고
    • Phylogenetic incongruence in the Drosophila melanogaster species group
    • and
    • Wong, A., J. D. Jensen, J. E. Pool, and C. F. Aquadro. 2007. Phylogenetic incongruence in the Drosophila melanogaster species group. Mol. Phylogenet. Evol. 43 : 1138 1150.
    • (2007) Mol. Phylogenet. Evol. , vol.43 , pp. 1138-1150
    • Wong, A.1    Jensen, J.D.2    Pool, J.E.3    Aquadro, C.F.4
  • 142
    • 0026031181 scopus 로고
    • Inferences of species phylogeny in relation to segregation of ancient polymorphisms
    • Wu, C. I. 1991. Inferences of species phylogeny in relation to segregation of ancient polymorphisms. Genetics 127 : 429 435.
    • (1991) Genetics , vol.127 , pp. 429-435
    • Wu, C.I.1
  • 143
    • 0030741747 scopus 로고    scopus 로고
    • On the estimation of ancestral population sizes of modern humans
    • Yang, Z. 1997. On the estimation of ancestral population sizes of modern humans. Genetical Research 69 : 111 116.
    • (1997) Genetical Research , vol.69 , pp. 111-116
    • Yang, Z.1
  • 145
    • 22844452772 scopus 로고    scopus 로고
    • Branch-length prior influences Bayesian posterior probability of phylogeny
    • and
    • Yang, Z., and B. Rannala. 2005. Branch-length prior influences Bayesian posterior probability of phylogeny. Syst. Biol. 54 : 455 470.
    • (2005) Syst. Biol. , vol.54 , pp. 455-470
    • Yang, Z.1    Rannala, B.2
  • 146
    • 33746283089 scopus 로고    scopus 로고
    • Rigor and species concepts
    • Zink, R. M. 2006. Rigor and species concepts. Auk 123 : 887 891.
    • (2006) Auk , vol.123 , pp. 887-891
    • Zink, R.M.1
  • 147
    • 42449136665 scopus 로고    scopus 로고
    • Mitochondrial DNA under siege in avian phylogeography
    • and
    • Zink, R. M., and G. F. Barrowclough. 2008. Mitochondrial DNA under siege in avian phylogeography. Mol. Ecol. 17 : 2107 2121.
    • (2008) Mol. Ecol. , vol.17 , pp. 2107-2121
    • Zink, R.M.1    Barrowclough, G.F.2
  • 148
    • 0036699481 scopus 로고    scopus 로고
    • Increased taxon sampling greatly reduces phylogenetic error
    • and
    • Zwickl, D. J., and D. M. Hillis. 2002. Increased taxon sampling greatly reduces phylogenetic error. Syst. Biol. 51 : 588 598.
    • (2002) Syst. Biol. , vol.51 , pp. 588-598
    • Zwickl, D.J.1    Hillis, D.M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.