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Volumn 58, Issue 2, 2011, Pages 149-156

Retrieving a mitogenomic mammal tree using composite taxa

Author keywords

Composite sequences; Computer simulations; Congruence; DNA sequences; Missing data; Phylogenetic accuracy; Phylogenomics; Supermatrices

Indexed keywords

MITOCHONDRIAL DNA;

EID: 79951577664     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2010.11.017     Document Type: Article
Times cited : (23)

References (97)
  • 1
    • 48349115697 scopus 로고    scopus 로고
    • Mitogenomic relationships of placental mammals and molecular estimates of their divergences
    • Arnason U., Adegoke J.A., Gullberg A., Harley E.H., Janke A., Kullberg M. Mitogenomic relationships of placental mammals and molecular estimates of their divergences. Gene 2008, 421:37-51.
    • (2008) Gene , vol.421 , pp. 37-51
    • Arnason, U.1    Adegoke, J.A.2    Gullberg, A.3    Harley, E.H.4    Janke, A.5    Kullberg, M.6
  • 2
    • 4344592440 scopus 로고    scopus 로고
    • First combined cladistic analysis of marsupial mammal interrelationships
    • Asher R.J., Horovitz I., Sánchez-Villagra M.R. First combined cladistic analysis of marsupial mammal interrelationships. Mol. Phylogenet. Evol. 2004, 33:240-250.
    • (2004) Mol. Phylogenet. Evol. , vol.33 , pp. 240-250
    • Asher, R.J.1    Horovitz, I.2    Sánchez-Villagra, M.R.3
  • 3
    • 39749195503 scopus 로고    scopus 로고
    • A dated phylogeny of marsupials using a molecular supermatrix and multiple fossil constraints
    • Beck R.M.D. A dated phylogeny of marsupials using a molecular supermatrix and multiple fossil constraints. J. Mammal. 2008, 89:175-189.
    • (2008) J. Mammal. , vol.89 , pp. 175-189
    • Beck, R.M.D.1
  • 4
    • 20444491634 scopus 로고    scopus 로고
    • A review of long-branch attraction
    • Bergsten J. A review of long-branch attraction. Cladistics 2005, 21:163-193.
    • (2005) Cladistics , vol.21 , pp. 163-193
    • Bergsten, J.1
  • 5
    • 0035527411 scopus 로고    scopus 로고
    • Assessment of the accuracy of matrix representation with parsimony analysis supertree construction
    • Bininda-Emonds O.R.P., Sanderson M.J. Assessment of the accuracy of matrix representation with parsimony analysis supertree construction. Syst. Biol. 2001, 50:565-579.
    • (2001) Syst. Biol. , vol.50 , pp. 565-579
    • Bininda-Emonds, O.R.P.1    Sanderson, M.J.2
  • 6
    • 52049092954 scopus 로고    scopus 로고
    • Testing the new animal phylogeny: a phylum level molecular analysis of the animal kingdom
    • Bourlat S.J., Nielsen C., Economou A.D., Telford M.J. Testing the new animal phylogeny: a phylum level molecular analysis of the animal kingdom. Mol. Phylogenet. Evol. 2008, 49:23-31.
    • (2008) Mol. Phylogenet. Evol. , vol.49 , pp. 23-31
    • Bourlat, S.J.1    Nielsen, C.2    Economou, A.D.3    Telford, M.J.4
  • 7
    • 72849151958 scopus 로고    scopus 로고
    • The use and validity of composite taxa in phylogenetic analysis
    • Campbell V., Lapointe F.-J. The use and validity of composite taxa in phylogenetic analysis. Syst. Biol. 2009, 58:560-572.
    • (2009) Syst. Biol. , vol.58 , pp. 560-572
    • Campbell, V.1    Lapointe, F.-J.2
  • 8
    • 79951577210 scopus 로고    scopus 로고
    • in preparation. DNA simulations testing the use of composite taxa in different contexts.
    • Campbell, V., Lapointe, F.-J., in preparation. DNA simulations testing the use of composite taxa in different contexts.
    • Campbell, V.1    Lapointe, F.-J.2
  • 9
    • 8444248889 scopus 로고    scopus 로고
    • Genomic databases and the tree of life
    • Crandall K.A., Buhay J.E. Genomic databases and the tree of life. Science 2004, 306:1144-1145.
    • (2004) Science , vol.306 , pp. 1144-1145
    • Crandall, K.A.1    Buhay, J.E.2
  • 10
    • 33644536713 scopus 로고    scopus 로고
    • Tunicates and not cephalochordates are the closest living relatives of vertebrates
    • Delsuc F., Brinkmann H., Chourrout D., Philippe H. Tunicates and not cephalochordates are the closest living relatives of vertebrates. Nature 2006, 439:965-968.
    • (2006) Nature , vol.439 , pp. 965-968
    • Delsuc, F.1    Brinkmann, H.2    Chourrout, D.3    Philippe, H.4
  • 11
    • 17744394753 scopus 로고    scopus 로고
    • Phylogenomics and the reconstruction of the tree of life
    • Delsuc F., Brinkmann H., Philippe H. Phylogenomics and the reconstruction of the tree of life. Nat. Rev. Genet. 2005, 6:361-375.
    • (2005) Nat. Rev. Genet. , vol.6 , pp. 361-375
    • Delsuc, F.1    Brinkmann, H.2    Philippe, H.3
  • 13
    • 43249097687 scopus 로고    scopus 로고
    • A new effective method for estimating missing values in the sequence data prior to phylogenetic analysis
    • Diallo A.B., Lapointe F.-J., Makarenkov V. A new effective method for estimating missing values in the sequence data prior to phylogenetic analysis. Evol. Bioinform. 2006, 2:127-135.
    • (2006) Evol. Bioinform. , vol.2 , pp. 127-135
    • Diallo, A.B.1    Lapointe, F.-J.2    Makarenkov, V.3
  • 14
    • 0344756485 scopus 로고    scopus 로고
    • Local molecular clocks in three nuclear genes: divergence times for rodents and other mammals and incompatibility among fossil calibrations
    • Douzery E.J.P., Delsuc F., Stanhope M.J., Huchon D. Local molecular clocks in three nuclear genes: divergence times for rodents and other mammals and incompatibility among fossil calibrations. J. Mol. Evol. 2003, 57:S201-S213.
    • (2003) J. Mol. Evol. , vol.57
    • Douzery, E.J.P.1    Delsuc, F.2    Stanhope, M.J.3    Huchon, D.4
  • 15
    • 0023108274 scopus 로고
    • The importance of fossils in elucidating seed plant phylogeny and macroevolution
    • Doyle J.A., Donoghue M.J. The importance of fossils in elucidating seed plant phylogeny and macroevolution. Rev. Palaeobot. Palynol. 1987, 50:63-95.
    • (1987) Rev. Palaeobot. Palynol. , vol.50 , pp. 63-95
    • Doyle, J.A.1    Donoghue, M.J.2
  • 18
    • 46349087007 scopus 로고    scopus 로고
    • Phylogenetic analyses of two mitochondrial metabolic genes sampled in parallel from angiosperms find fundamental interlocus incongruence
    • Duvall M.R., Robinson J.W., Mattson J.G., Moore A. Phylogenetic analyses of two mitochondrial metabolic genes sampled in parallel from angiosperms find fundamental interlocus incongruence. Am. J. Bot. 2008, 95:871-884.
    • (2008) Am. J. Bot. , vol.95 , pp. 871-884
    • Duvall, M.R.1    Robinson, J.W.2    Mattson, J.G.3    Moore, A.4
  • 19
    • 0015808083 scopus 로고
    • Maximum-likelihood estimation of evolutionary trees from continuous characters
    • Felsenstein J. Maximum-likelihood estimation of evolutionary trees from continuous characters. Am. J. Hum. Genet. 1973, 25:471-492.
    • (1973) Am. J. Hum. Genet. , vol.25 , pp. 471-492
    • Felsenstein, J.1
  • 20
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA sequences: a maximum likelihood approach
    • Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J. Mol. Evol. 1981, 17:368-376.
    • (1981) J. Mol. Evol. , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 21
    • 0000399236 scopus 로고
    • Obtaining common pruned trees
    • Finden C.R., Gordon A.D. Obtaining common pruned trees. J. Classif. 1985, 2:255-276.
    • (1985) J. Classif. , vol.2 , pp. 255-276
    • Finden, C.R.1    Gordon, A.D.2
  • 22
    • 19044400807 scopus 로고    scopus 로고
    • Molecular phylogeny of the Carnivora (Mammalia): assessing the impact of increased sampling on resolving enigmatic relationships
    • Flynn J.J., Finarelli J.A., Zehr S., Hsu J., Nedbal M.A. Molecular phylogeny of the Carnivora (Mammalia): assessing the impact of increased sampling on resolving enigmatic relationships. Syst. Biol. 2005, 54:317-337.
    • (2005) Syst. Biol. , vol.54 , pp. 317-337
    • Flynn, J.J.1    Finarelli, J.A.2    Zehr, S.3    Hsu, J.4    Nedbal, M.A.5
  • 23
    • 0030807655 scopus 로고    scopus 로고
    • BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data
    • Gascuel O. BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data. Mol. Biol. Evol. 1997, 14:685-695.
    • (1997) Mol. Biol. Evol. , vol.14 , pp. 685-695
    • Gascuel, O.1
  • 25
    • 0024258114 scopus 로고
    • Amniote phylogeny and the importance of fossils
    • Gauthier J., Kluge A.G., Rowe T. Amniote phylogeny and the importance of fossils. Cladistics 1988, 4:105-210.
    • (1988) Cladistics , vol.4 , pp. 105-210
    • Gauthier, J.1    Kluge, A.G.2    Rowe, T.3
  • 26
    • 12344282043 scopus 로고    scopus 로고
    • A comprehensive analysis of mammalian mitochondrial genome base composition and improved phylogenetic methods
    • Gibson A., Gowri-Shankar V., Higgs P.G., Rattray M. A comprehensive analysis of mammalian mitochondrial genome base composition and improved phylogenetic methods. Mol. Biol. Evol. 2005, 22:251-264.
    • (2005) Mol. Biol. Evol. , vol.22 , pp. 251-264
    • Gibson, A.1    Gowri-Shankar, V.2    Higgs, P.G.3    Rattray, M.4
  • 28
    • 0001904904 scopus 로고
    • On the assessment and comparison of classifications
    • INRIA, Le Chesnay, France, R. Tomassone (Ed.)
    • Gordon A.D. On the assessment and comparison of classifications. Analyse de données et informatique 1980, 149-160. INRIA, Le Chesnay, France. R. Tomassone (Ed.).
    • (1980) Analyse de données et informatique , pp. 149-160
    • Gordon, A.D.1
  • 29
    • 0242578620 scopus 로고    scopus 로고
    • A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
    • Guindon S., Gascuel O. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst. Biol. 2003, 52:696-704.
    • (2003) Syst. Biol. , vol.52 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 30
    • 43249090276 scopus 로고    scopus 로고
    • Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment?
    • Hartmann S., Vision T.J. Using ESTs for phylogenomics: can one accurately infer a phylogenetic tree from a gappy alignment?. BMC Evol. Biol. 2008, 8:95.
    • (2008) BMC Evol. Biol. , vol.8 , pp. 95
    • Hartmann, S.1    Vision, T.J.2
  • 31
    • 0024234855 scopus 로고
    • Clustal: a package for performing multiple sequence alignment on a microcomputer
    • Higgins D.G., Sharp P.M. Clustal: a package for performing multiple sequence alignment on a microcomputer. Gene 1988, 73:237-244.
    • (1988) Gene , vol.73 , pp. 237-244
    • Higgins, D.G.1    Sharp, P.M.2
  • 32
    • 11944260381 scopus 로고
    • Approaches for assessing phylogenetic accuracy
    • Hillis D.M. Approaches for assessing phylogenetic accuracy. Syst. Biol. 1995, 44:3-16.
    • (1995) Syst. Biol. , vol.44 , pp. 3-16
    • Hillis, D.M.1
  • 33
    • 0242669921 scopus 로고    scopus 로고
    • Is sparse taxon sampling a problem for phylogenetic inference?
    • Hillis D.M., Pollock D.D., McGuire J.A., Zwickl D.J. Is sparse taxon sampling a problem for phylogenetic inference?. Syst. Biol. 2003, 52:124-126.
    • (2003) Syst. Biol. , vol.52 , pp. 124-126
    • Hillis, D.M.1    Pollock, D.D.2    McGuire, J.A.3    Zwickl, D.J.4
  • 34
    • 33847091208 scopus 로고    scopus 로고
    • Phylogenetic analyses of complete mitochondrial genome sequences suggest a basal divergence of the enigmatic rodent Anomalurus
    • Horner D.S., Lefkimmiatis K., Reyes A., Gissi C., Saccone C., Pesole G. Phylogenetic analyses of complete mitochondrial genome sequences suggest a basal divergence of the enigmatic rodent Anomalurus. BMC Evol. Biol. 2007, 7:16.
    • (2007) BMC Evol. Biol. , vol.7 , pp. 16
    • Horner, D.S.1    Lefkimmiatis, K.2    Reyes, A.3    Gissi, C.4    Saccone, C.5    Pesole, G.6
  • 35
    • 84960586331 scopus 로고
    • When are fossils better than extant taxa in phylogenetic analysis?
    • Huelsenbeck J.P. When are fossils better than extant taxa in phylogenetic analysis?. Syst. Zool. 1991, 40:458-469.
    • (1991) Syst. Zool. , vol.40 , pp. 458-469
    • Huelsenbeck, J.P.1
  • 36
    • 11944268967 scopus 로고
    • Performance of phylogenetic methods in simulation
    • Huelsenbeck J.P. Performance of phylogenetic methods in simulation. Syst. Biol. 1995, 44:17-48.
    • (1995) Syst. Biol. , vol.44 , pp. 17-48
    • Huelsenbeck, J.P.1
  • 37
    • 0034849408 scopus 로고    scopus 로고
    • MRBAYES: Bayesian inference of phylogenetic trees
    • Huelsenbeck J.P., Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 2001, 17:754-755.
    • (2001) Bioinformatics , vol.17 , pp. 754-755
    • Huelsenbeck, J.P.1    Ronquist, F.2
  • 38
    • 34547753508 scopus 로고    scopus 로고
    • Rates of genome evolution and branching order from whole genome analysis
    • Huttley G.A., Wakefield M.J., Easteal S. Rates of genome evolution and branching order from whole genome analysis. Mol. Biol. Evol. 2007, 24:1722-1730.
    • (2007) Mol. Biol. Evol. , vol.24 , pp. 1722-1730
    • Huttley, G.A.1    Wakefield, M.J.2    Easteal, S.3
  • 39
    • 0030305457 scopus 로고    scopus 로고
    • R: a language for data analysis and graphics
    • Ihaka R., Gentleman R. R: a language for data analysis and graphics. J. Comput. Graph. Stat. 1996, 5:299-314.
    • (1996) J. Comput. Graph. Stat. , vol.5 , pp. 299-314
    • Ihaka, R.1    Gentleman, R.2
  • 41
    • 0036554650 scopus 로고    scopus 로고
    • Fragmentary taxa, missing data, and ambiguity: mistaken assumptions and conclusions
    • Kearney M. Fragmentary taxa, missing data, and ambiguity: mistaken assumptions and conclusions. Syst. Biol. 2002, 51:369-381.
    • (2002) Syst. Biol. , vol.51 , pp. 369-381
    • Kearney, M.1
  • 42
    • 33846906954 scopus 로고    scopus 로고
    • Site specific rates of mitochondrial genomes and the phylogeny of eutheria
    • Kjer K.M., Honeycutt R.L. Site specific rates of mitochondrial genomes and the phylogeny of eutheria. BMC Evol. Biol. 2007, 7:8.
    • (2007) BMC Evol. Biol. , vol.7 , pp. 8
    • Kjer, K.M.1    Honeycutt, R.L.2
  • 43
    • 0021277009 scopus 로고
    • A new method for calculating evolutionary substitution rates
    • Lanave C., Preparata G., Saccone C., Serio G. A new method for calculating evolutionary substitution rates. J. Mol. Evol. 1984, 20:86-93.
    • (1984) J. Mol. Evol. , vol.20 , pp. 86-93
    • Lanave, C.1    Preparata, G.2    Saccone, C.3    Serio, G.4
  • 44
    • 11844295999 scopus 로고    scopus 로고
    • Assessing congruence among distance matrices: single-malt scotch whiskies revisited
    • Legendre P., Lapointe F.-J. Assessing congruence among distance matrices: single-malt scotch whiskies revisited. Aust. Nz J. Stat. 2004, 46:615-629.
    • (2004) Aust. Nz J. Stat. , vol.46 , pp. 615-629
    • Legendre, P.1    Lapointe, F.-J.2
  • 45
    • 0036897677 scopus 로고    scopus 로고
    • Four new mitochondrial genomes and the increased stability of evolutionary trees of mammals from improved taxon sampling
    • Lin Y.H., McLenachan P.A., Gore A.R., Phillips M.J., Ota R., Hendy M.D., Penny D. Four new mitochondrial genomes and the increased stability of evolutionary trees of mammals from improved taxon sampling. Mol. Biol. Evol. 2002, 19:2060-2070.
    • (2002) Mol. Biol. Evol. , vol.19 , pp. 2060-2070
    • Lin, Y.H.1    McLenachan, P.A.2    Gore, A.R.3    Phillips, M.J.4    Ota, R.5    Hendy, M.D.6    Penny, D.7
  • 46
    • 0037055264 scopus 로고    scopus 로고
    • Pika and vole mitochondrial genomes increase support for both rodent monophyly and glires
    • Lin Y.H., Waddell P.J., Penny D. Pika and vole mitochondrial genomes increase support for both rodent monophyly and glires. Gene 2002, 294:119-129.
    • (2002) Gene , vol.294 , pp. 119-129
    • Lin, Y.H.1    Waddell, P.J.2    Penny, D.3
  • 49
    • 33750952290 scopus 로고    scopus 로고
    • Phylogenetic systematics of the colorful, cyanide-producing millipedes of Appalachia (Polydesmida, Xystodesmidae, Apheloriini) using a total evidence Bayesian approach
    • Marek P.E., Bond J.E. Phylogenetic systematics of the colorful, cyanide-producing millipedes of Appalachia (Polydesmida, Xystodesmidae, Apheloriini) using a total evidence Bayesian approach. Mol. Phylogenet. Evol. 2006, 41:704-729.
    • (2006) Mol. Phylogenet. Evol. , vol.41 , pp. 704-729
    • Marek, P.E.1    Bond, J.E.2
  • 50
    • 58149289890 scopus 로고    scopus 로고
    • Suprafamilial relationships among Rodentia and the phylogenetic effect of removing fast-evolving nucleotides in mitochondrial, exon and intron fragments
    • Montgelard C., Forty E., Arnal V., Matthee C.A. Suprafamilial relationships among Rodentia and the phylogenetic effect of removing fast-evolving nucleotides in mitochondrial, exon and intron fragments. BMC Evol. Biol. 2008, 8:321.
    • (2008) BMC Evol. Biol. , vol.8 , pp. 321
    • Montgelard, C.1    Forty, E.2    Arnal, V.3    Matthee, C.A.4
  • 52
    • 39749188544 scopus 로고    scopus 로고
    • Rooting the eutherian tree: the power and pitfalls of phylogenomics
    • Nishihara H., Okada N., Hasegawa M. Rooting the eutherian tree: the power and pitfalls of phylogenomics. Genome Biology 2007, 8:R199.
    • (2007) Genome Biology , vol.8
    • Nishihara, H.1    Okada, N.2    Hasegawa, M.3
  • 54
    • 1042304216 scopus 로고    scopus 로고
    • APE: analyses of phylogenetics and evolution in R language
    • Paradis E., Claude J., Strimmer K. APE: analyses of phylogenetics and evolution in R language. Bioinformatics 2004, 20:289-290.
    • (2004) Bioinformatics , vol.20 , pp. 289-290
    • Paradis, E.1    Claude, J.2    Strimmer, K.3
  • 55
    • 0031554287 scopus 로고    scopus 로고
    • The platypus put in its place
    • Penny D., Hasegawa M. The platypus put in its place. Nature 1997, 387:549-550.
    • (1997) Nature , vol.387 , pp. 549-550
    • Penny, D.1    Hasegawa, M.2
  • 56
    • 0031301965 scopus 로고    scopus 로고
    • Rodent monophyly: pitfalls of molecular phylogenies
    • Philippe H. Rodent monophyly: pitfalls of molecular phylogenies. J. Mol. Evol. 1997, 45:712-715.
    • (1997) J. Mol. Evol. , vol.45 , pp. 712-715
    • Philippe, H.1
  • 59
    • 17744386162 scopus 로고    scopus 로고
    • Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia
    • Philippe H., Lartillot N., Brinkmann H. Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa, and Protostomia. Mol. Biol. Evol. 2005, 22:1246-1253.
    • (2005) Mol. Biol. Evol. , vol.22 , pp. 1246-1253
    • Philippe, H.1    Lartillot, N.2    Brinkmann, H.3
  • 61
    • 33644586178 scopus 로고    scopus 로고
    • Combined mitochondrial and nuclear DNA sequences resolve the interrelations of the major Australasian marsupial radiations
    • Phillips M.J., McLenachan P.A., Down C., Gibb G.C., Penny D. Combined mitochondrial and nuclear DNA sequences resolve the interrelations of the major Australasian marsupial radiations. Syst. Biol. 2006, 55:122-137.
    • (2006) Syst. Biol. , vol.55 , pp. 122-137
    • Phillips, M.J.1    McLenachan, P.A.2    Down, C.3    Gibb, G.C.4    Penny, D.5
  • 62
    • 0031773680 scopus 로고    scopus 로고
    • MODELTEST: testing the model of DNA substitution
    • Posada D., Crandall K.A. MODELTEST: testing the model of DNA substitution. Bioinformatics 1998, 14:817-818.
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 63
    • 33745001667 scopus 로고    scopus 로고
    • Arrival and diversification of caviomorph rodents and platyrrhine primates in South America
    • Poux C., Chevret P., Huchon D., de Jong W.W., Douzery E.J.P. Arrival and diversification of caviomorph rodents and platyrrhine primates in South America. Syst. Biol. 2006, 55:228-244.
    • (2006) Syst. Biol. , vol.55 , pp. 228-244
    • Poux, C.1    Chevret, P.2    Huchon, D.3    de Jong, W.W.4    Douzery, E.J.P.5
  • 64
    • 49749129961 scopus 로고    scopus 로고
    • Confirming the phylogeny of mammals by use of large comparative sequence data sets
    • Prasad A.B., Allard M.W., Green E.D. Confirming the phylogeny of mammals by use of large comparative sequence data sets. Mol. Biol. Evol. 2008, 25:1795-1808.
    • (2008) Mol. Biol. Evol. , vol.25 , pp. 1795-1808
    • Prasad, A.B.1    Allard, M.W.2    Green, E.D.3
  • 65
    • 0029818407 scopus 로고    scopus 로고
    • Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference
    • Rannala B., Yang Z.H. Probability distribution of molecular evolutionary trees: a new method of phylogenetic inference. J. Mol. Evol. 1996, 43:304-311.
    • (1996) J. Mol. Evol. , vol.43 , pp. 304-311
    • Rannala, B.1    Yang, Z.H.2
  • 66
    • 1542376765 scopus 로고    scopus 로고
    • Congruent mammalian trees from mitochondrial and nuclear genes using Bayesian methods
    • Reyes A., Gissi C., Catzeflis F., Nevo E., Pesole G., Saccone C. Congruent mammalian trees from mitochondrial and nuclear genes using Bayesian methods. Mol. Biol. Evol. 2004, 21:397-403.
    • (2004) Mol. Biol. Evol. , vol.21 , pp. 397-403
    • Reyes, A.1    Gissi, C.2    Catzeflis, F.3    Nevo, E.4    Pesole, G.5    Saccone, C.6
  • 67
    • 0039348203 scopus 로고
    • Comparisons on Weighted Labelled Trees
    • Springer-Verlag, Berlin
    • Robinson D.F., Foulds L.R. Comparisons on Weighted Labelled Trees. Lecture Notes in Mathematics 1979, Springer-Verlag, Berlin, pp. 119-126.
    • (1979) Lecture Notes in Mathematics , pp. 119-126
    • Robinson, D.F.1    Foulds, L.R.2
  • 68
    • 0019424782 scopus 로고
    • Comparison of phylogenetic trees
    • Robinson D.F., Foulds L.R. Comparison of phylogenetic trees. Math. Biosci. 1981, 53:131-147.
    • (1981) Math. Biosci. , vol.53 , pp. 131-147
    • Robinson, D.F.1    Foulds, L.R.2
  • 73
    • 0000347343 scopus 로고
    • Consensus indices for comparing classifications
    • Rohlf F.J. Consensus indices for comparing classifications. Math. Biosci. 1982, 59:131-144.
    • (1982) Math. Biosci. , vol.59 , pp. 131-144
    • Rohlf, F.J.1
  • 74
    • 17744398025 scopus 로고    scopus 로고
    • More genes or more taxa? The relative contribution of gene number and taxon number to phylogenetic accuracy
    • Rokas A., Carroll S.B. More genes or more taxa? The relative contribution of gene number and taxon number to phylogenetic accuracy. Mol. Biol. Evol. 2005, 22:1337-1344.
    • (2005) Mol. Biol. Evol. , vol.22 , pp. 1337-1344
    • Rokas, A.1    Carroll, S.B.2
  • 75
    • 0242365676 scopus 로고    scopus 로고
    • Genome-scale approaches to resolving incongruence in molecular phylogenies
    • Rokas A., Williams B.L., King N., Carroll S.B. Genome-scale approaches to resolving incongruence in molecular phylogenies. Nature 2003, 425:798-804.
    • (2003) Nature , vol.425 , pp. 798-804
    • Rokas, A.1    Williams, B.L.2    King, N.3    Carroll, S.B.4
  • 76
    • 0037291976 scopus 로고    scopus 로고
    • Taxon sampling, bioinformatics, and phylogenomics
    • Rosenberg M.S., Kumar S. Taxon sampling, bioinformatics, and phylogenomics. Syst. Biol. 2003, 52:119-124.
    • (2003) Syst. Biol. , vol.52 , pp. 119-124
    • Rosenberg, M.S.1    Kumar, S.2
  • 77
    • 0042232552 scopus 로고    scopus 로고
    • Expressed sequence tags: alternative or complement to whole genome sequences?
    • Rudd S. Expressed sequence tags: alternative or complement to whole genome sequences?. Trends Plant. Sci. 2003, 8:321-329.
    • (2003) Trends Plant. Sci. , vol.8 , pp. 321-329
    • Rudd, S.1
  • 78
    • 0042695888 scopus 로고    scopus 로고
    • The challenge of constructing large phylogenetic trees
    • Sanderson M.J., Driskell A.C. The challenge of constructing large phylogenetic trees. Trends Plant. Sci. 2003, 8:374-379.
    • (2003) Trends Plant. Sci. , vol.8 , pp. 374-379
    • Sanderson, M.J.1    Driskell, A.C.2
  • 80
    • 0036220666 scopus 로고    scopus 로고
    • The complete mitochondrial sequence of Tarsius bancanus: evidence for an extensive nucleotide compositional plasticity of primate mitochondrial DNA
    • Schmitz J., Ohme M., Zischler H. The complete mitochondrial sequence of Tarsius bancanus: evidence for an extensive nucleotide compositional plasticity of primate mitochondrial DNA. Mol. Biol. Evol. 2002, 19:544-553.
    • (2002) Mol. Biol. Evol. , vol.19 , pp. 544-553
    • Schmitz, J.1    Ohme, M.2    Zischler, H.3
  • 81
    • 39749180353 scopus 로고    scopus 로고
    • A new estimate of afrotherian phylogeny based on simultaneous analysis of genomic, morphological, and fossil evidence
    • Seiffert E.R. A new estimate of afrotherian phylogeny based on simultaneous analysis of genomic, morphological, and fossil evidence. BMC Evol. Biol. 2007, 7:224.
    • (2007) BMC Evol. Biol. , vol.7 , pp. 224
    • Seiffert, E.R.1
  • 82
    • 0032085453 scopus 로고    scopus 로고
    • Higher taxonomic relationships among extant mammals based on morphology, with selected comparisons of results from molecular data
    • Shoshani J., McKenna M.C. Higher taxonomic relationships among extant mammals based on morphology, with selected comparisons of results from molecular data. Mol. Phylogenet. Evol. 1998, 9:572-584.
    • (1998) Mol. Phylogenet. Evol. , vol.9 , pp. 572-584
    • Shoshani, J.1    McKenna, M.C.2
  • 83
    • 34447328395 scopus 로고    scopus 로고
    • Mammalian evolution and biomedicine: new views from phylogeny
    • Springer M.S., Murphy W.J. Mammalian evolution and biomedicine: new views from phylogeny. Biol. Rev. 2007, 82:375-392.
    • (2007) Biol. Rev. , vol.82 , pp. 375-392
    • Springer, M.S.1    Murphy, W.J.2
  • 87
    • 0002671410 scopus 로고
    • Some probabilistic and statistical problems on the analysis of DNA sequences
    • Tavaré S. Some probabilistic and statistical problems on the analysis of DNA sequences. Lec. Math. Life Sci 1986, 17:57-86.
    • (1986) Lec. Math. Life Sci , vol.17 , pp. 57-86
    • Tavaré, S.1
  • 88
    • 36048980287 scopus 로고    scopus 로고
    • Phylogenomics
    • Telford M.J. Phylogenomics. Curr. Biol. 2007, 17:R945-R946.
    • (2007) Curr. Biol. , vol.17
    • Telford, M.J.1
  • 89
    • 41649100679 scopus 로고    scopus 로고
    • Resolving animal phylogeny: a sledgehammer for a tough nut?
    • Telford M.J. Resolving animal phylogeny: a sledgehammer for a tough nut?. Dev. Cell 2008, 14:457-459.
    • (2008) Dev. Cell , vol.14 , pp. 457-459
    • Telford, M.J.1
  • 90
    • 0033084970 scopus 로고    scopus 로고
    • Using novel phylogenetic methods to evaluate mammalian mtDNA, including amino acid-invariant sites-logdet plus site stripping, to detect internal conflicts in the data, with special reference to the positions of hedgehog, armadillo and elephant
    • Waddell P.J., Cao Y., Hauf J., Hasegawa M. Using novel phylogenetic methods to evaluate mammalian mtDNA, including amino acid-invariant sites-logdet plus site stripping, to detect internal conflicts in the data, with special reference to the positions of hedgehog, armadillo and elephant. Syst. Biol. 1999, 48:31-53.
    • (1999) Syst. Biol. , vol.48 , pp. 31-53
    • Waddell, P.J.1    Cao, Y.2    Hauf, J.3    Hasegawa, M.4
  • 91
    • 0032225748 scopus 로고    scopus 로고
    • Does adding characters with missing data increase or decrease phylogenetic accuracy?
    • Wiens J.J. Does adding characters with missing data increase or decrease phylogenetic accuracy?. Syst. Biol. 1998, 47:625-640.
    • (1998) Syst. Biol. , vol.47 , pp. 625-640
    • Wiens, J.J.1
  • 92
    • 0042905752 scopus 로고    scopus 로고
    • Missing data, incomplete taxa, and phylogenetic accuracy
    • Wiens J.J. Missing data, incomplete taxa, and phylogenetic accuracy. Syst. Biol. 2003, 52:528-538.
    • (2003) Syst. Biol. , vol.52 , pp. 528-538
    • Wiens, J.J.1
  • 93
    • 30344464074 scopus 로고    scopus 로고
    • Can incomplete taxa rescue phylogenetic analyses from long-branch attraction
    • Wiens J.J. Can incomplete taxa rescue phylogenetic analyses from long-branch attraction?. Syst. Biol. 2005, 54:731-742.
    • (2005) Syst. Biol. , vol.54 , pp. 731-742
    • Wiens, J.J.1
  • 94
    • 31344471014 scopus 로고    scopus 로고
    • Missing data and the design of phylogenetic analyses
    • Wiens J.J. Missing data and the design of phylogenetic analyses. J. Biomed. Inform. 2006, 39:34-42.
    • (2006) J. Biomed. Inform. , vol.39 , pp. 34-42
    • Wiens, J.J.1
  • 95
    • 28644436536 scopus 로고    scopus 로고
    • Hylid frog phylogeny and sampling strategies for speciose clades
    • Wiens J.J., Fetzner J.W., Parkinson C.L., Reeder T.W. Hylid frog phylogeny and sampling strategies for speciose clades. Syst. Biol. 2005, 54:719-748.
    • (2005) Syst. Biol. , vol.54 , pp. 719-748
    • Wiens, J.J.1    Fetzner, J.W.2    Parkinson, C.L.3    Reeder, T.W.4
  • 96
    • 0029466830 scopus 로고
    • Combining data sets with different numbers of taxa for phylogenetic analysis
    • Wiens J.J., Reeder T.W. Combining data sets with different numbers of taxa for phylogenetic analysis. Syst. Biol. 1995, 44:548-558.
    • (1995) Syst. Biol. , vol.44 , pp. 548-558
    • Wiens, J.J.1    Reeder, T.W.2
  • 97
    • 0027132974 scopus 로고
    • Maximum-likelihood estimation of phylogeny from DNA sequences when substitution rates differ over sites
    • Yang Z.H. Maximum-likelihood estimation of phylogeny from DNA sequences when substitution rates differ over sites. Mol. Biol. Evol. 1993, 10:1396-1401.
    • (1993) Mol. Biol. Evol. , vol.10 , pp. 1396-1401
    • Yang, Z.H.1


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