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Volumn , Issue , 2012, Pages 1-386

Analysis of phylogenetics and evolution with R: Second edition

Author keywords

[No Author keywords available]

Indexed keywords

FORESTRY; MOLECULAR BIOLOGY; OPEN SOURCE SOFTWARE; OPEN SYSTEMS; STUDENTS; TREES (MATHEMATICS);

EID: 85037094777     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1007/978-1-4614-1743-9     Document Type: Book
Times cited : (527)

References (318)
  • 2
    • 0000025419 scopus 로고    scopus 로고
    • A method for testing the assumption of phylogenetic independence in comparative data
    • Abouheif E. 1999. A method for testing the assumption of phylogenetic independence in comparative data. Evolutionary Ecology Research 1: 895-909.
    • (1999) Evolutionary Ecology Research , vol.1 , pp. 895-909
    • Abouheif, E.1
  • 3
    • 0029974748 scopus 로고    scopus 로고
    • Model of amino acid substitution in proteins encoded by mitochondrial DNA
    • Adachi J. & Hasegawa M. 1996. Model of amino acid substitution in proteins encoded by mitochondrial DNA. Journal of Molecular Evolution 42: 459-468.
    • (1996) Journal of Molecular Evolution , vol.42 , pp. 459-468
    • Adachi, J.1    Hasegawa, M.2
  • 4
    • 0033920569 scopus 로고    scopus 로고
    • Plastid genome phylogeny and a model of amino acid substitution for proteins encoded by chloroplast DNA
    • Adachi J., Waddell P. J., Marin W. & Hasegawa M. 2000. Plastid genome phylogeny and a model of amino acid substitution for proteins encoded by chloroplast DNA. Journal of Molecular Evolution 50: 348-358.
    • (2000) Journal of Molecular Evolution , vol.50 , pp. 348-358
    • Adachi, J.1    Waddell, P.J.2    Marin, W.3    Hasegawa, M.4
  • 5
    • 0036963179 scopus 로고    scopus 로고
    • Power of eight tree shape statistics to detect nonrandom diversification: a comparison by simulation of two models of cladogenesis
    • Agapow P.-M. & Purvis A. 2002. Power of eight tree shape statistics to detect nonrandom diversification: a comparison by simulation of two models of cladogenesis. Systematic Biology 51: 866-872.
    • (2002) Systematic Biology , vol.51 , pp. 866-872
    • Agapow, P.-M.1    Purvis, A.2
  • 6
    • 0000501656 scopus 로고
    • Information theory and an extension of the maximum likelihood principle
    • Petrov B. N. & Csaki F., editors,. Akademia Kiado, Budapest.
    • Akaike H. 1973. Information theory and an extension of the maximum likelihood principle. In: Proceedings of the second international symposium on information theory, Petrov B. N. & Csaki F., editors, pages 267-281. Akademia Kiado, Budapest.
    • (1973) Proceedings of the second international symposium on information theory , pp. 267-281
    • Akaike, H.1
  • 8
    • 21844517119 scopus 로고
    • Darwin's log: a toy model of speciation and extinction
    • Aldous D. 1995. Darwin's log: a toy model of speciation and extinction. Journal of Applied Probability 32: 279-295.
    • (1995) Journal of Applied Probability , vol.32 , pp. 279-295
    • Aldous, D.1
  • 9
    • 0000678416 scopus 로고    scopus 로고
    • Probability distributions on cladograms
    • Aldous D. & Pemantle R., editors. Springer, New York
    • Aldous D. 1996. Probability distributions on cladograms. In: Random discrete structures, Aldous D. & Pemantle R., editors, pages 1-18. Springer, New York.
    • (1996) Random discrete structures , pp. 1-18
    • Aldous, D.1
  • 10
    • 0002717710 scopus 로고    scopus 로고
    • Stochastic models and descriptive statistics for phylogenetic trees, from Yule to today
    • Aldous D. J. 2001. Stochastic models and descriptive statistics for phylogenetic trees, from Yule to today. Statistical Science 16: 23-34.
    • (2001) Statistical Science , vol.16 , pp. 23-34
    • Aldous, D.J.1
  • 12
    • 0038204408 scopus 로고    scopus 로고
    • Phylogeny for the faint of heart: a tutorial
    • Baldauf S. L. 2003. Phylogeny for the faint of heart: a tutorial. Trends in Genetics 19: 345-351.
    • (2003) Trends in Genetics , vol.19 , pp. 345-351
    • Baldauf, S.L.1
  • 15
  • 16
    • 0029149631 scopus 로고
    • Mitochondrial portraits of human populations using median networks
    • Bandelt H. J., Forster P., Sykes B. C. & Richards M. B. 1995. Mitochondrial portraits of human populations using median networks. Genetics 141: 743-753.
    • (1995) Genetics , vol.141 , pp. 743-753
    • Bandelt, H.J.1    Forster, P.2    Sykes, B.C.3    Richards, M.B.4
  • 17
    • 0033928911 scopus 로고    scopus 로고
    • Median networks: speedy construction and greedy reduction, one simulation, and two case studies from human mtDNA
    • Bandelt H. J., Macaulay V. & Richards M. 2000. Median networks: speedy construction and greedy reduction, one simulation, and two case studies from human mtDNA. Molecular Phylogenetics and Evolution 16: 8-28.
    • (2000) Molecular Phylogenetics and Evolution , vol.16 , pp. 8-28
    • Bandelt, H.J.1    Macaulay, V.2    Richards, M.3
  • 21
    • 0023359361 scopus 로고
    • Asynchronous distance between homologous DNA sequences
    • Barry D. & Hartigan J. A. 1987. Asynchronous distance between homologous DNA sequences. Biometrics 43: 261-276.
    • (1987) Biometrics , vol.43 , pp. 261-276
    • Barry, D.1    Hartigan, J.A.2
  • 24
    • 0038325772 scopus 로고    scopus 로고
    • Testing for phylogenetic signal in comparative data: behavioral traits are more labile
    • Blomberg S. P., Garland Jr. T. & Ives A. R. 2003. Testing for phylogenetic signal in comparative data: behavioral traits are more labile. Evolution 57: 717-745.
    • (2003) Evolution , vol.57 , pp. 717-745
    • Blomberg, S.P.1    Garland, T.2    Ives, A.R.3
  • 26
    • 0030301052 scopus 로고    scopus 로고
    • Molecular phylogeny and the historical biogeography of the warblers of the genus Sylvia (Aves)
    • Blondel J., Catzeflis F. & Perret P. 1996. Molecular phylogeny and the historical biogeography of the warblers of the genus Sylvia (Aves). Journal of Evolutionary Biology 9: 871-891.
    • (1996) Journal of Evolutionary Biology , vol.9 , pp. 871-891
    • Blondel, J.1    Catzeflis, F.2    Perret, P.3
  • 28
    • 0344663948 scopus 로고    scopus 로고
    • Testing for equal rates of cladogenesis in diverse taxa
    • Bokma F. 2003. Testing for equal rates of cladogenesis in diverse taxa. Evolution 57: 2469-2474.
    • (2003) Evolution , vol.57 , pp. 2469-2474
    • Bokma, F.1
  • 29
    • 32144453296 scopus 로고    scopus 로고
    • apTreeshape: statistical analysis of phylogenetic tree shape
    • Bortolussi N., Durand E., Blum M. & François O. 2006. apTreeshape: statistical analysis of phylogenetic tree shape. Bioinformatics 22: 363-364.
    • (2006) Bioinformatics , vol.22 , pp. 363-364
    • Bortolussi, N.1    Durand, E.2    Blum, M.3    François, O.4
  • 31
    • 77949616292 scopus 로고    scopus 로고
    • Genomes as documents of evolutionary history
    • Boussau B. & Daubin V. 2010. Genomes as documents of evolutionary history. Trends in Ecology & Evolution 25: 224-232.
    • (2010) Trends in Ecology & Evolution , vol.25 , pp. 224-232
    • Boussau, B.1    Daubin, V.2
  • 33
    • 77955041172 scopus 로고    scopus 로고
    • Scientific journals can advance tropical biology and conservation by requiring data archiving
    • Bruna E. M. 2010. Scientific journals can advance tropical biology and conservation by requiring data archiving. Biotropica 42: 399-401.
    • (2010) Biotropica , vol.42 , pp. 399-401
    • Bruna, E.M.1
  • 34
    • 0030613470 scopus 로고    scopus 로고
    • Model selection: an integral part of inference
    • Buckland S. T., Burnham K. P. & Augustin N. H. 1997. Model selection: an integral part of inference. Biometrics 53: 603-618.
    • (1997) Biometrics , vol.53 , pp. 603-618
    • Buckland, S.T.1    Burnham, K.P.2    Augustin, N.H.3
  • 35
    • 0036146527 scopus 로고    scopus 로고
    • Evaluation of some random effects methodology applicable to bird ringing data
    • Burnham K. P. & White G. C. 2002. Evaluation of some random effects methodology applicable to bird ringing data. Journal of Applied Statistics 29: 245-264.
    • (2002) Journal of Applied Statistics , vol.29 , pp. 245-264
    • Burnham, K.P.1    White, G.C.2
  • 37
    • 79952321812 scopus 로고    scopus 로고
    • The performance of the Congruence Among Distance Matrices (CADM) test in phylogenetic analysis
    • Campbell V., Legendre P. & Lapointe F.-J. 2011. The performance of the Congruence Among Distance Matrices (CADM) test in phylogenetic analysis. BMC Evolutionary Biology 11: 64.
    • (2011) BMC Evolutionary Biology , vol.11 , pp. 64
    • Campbell, V.1    Legendre, P.2    Lapointe, F.-J.3
  • 39
    • 41149089793 scopus 로고    scopus 로고
    • SeqinR 1.0-2: a contributed package to the R project for statistical computing devoted to biological sequences retrieval and analysis
    • Bastolla U., Porto M., Roman H. E. & Vendruscolo M., editors,. Springer Verlag, New York
    • Charif D. & Lobry J. R. 2007. SeqinR 1.0-2: a contributed package to the R project for statistical computing devoted to biological sequences retrieval and analysis. In: Structural approaches to sequence evolution: Molecules, networks, populations, Bastolla U., Porto M., Roman H. E. & Vendruscolo M., editors, pages 207-232. Springer Verlag, New York.
    • (2007) Structural approaches to sequence evolution: Molecules, networks, populations , pp. 207-232
    • Charif, D.1    Lobry, J.R.2
  • 42
    • 0022210656 scopus 로고
    • The quantitative assessment of phylogenetic constraints in comparative analyses: sexual dimorphism in body weight among primates
    • Cheverud J. M., Dow M. M. & Leutenegger W. 1985. The quantitative assessment of phylogenetic constraints in comparative analyses: sexual dimorphism in body weight among primates. Evolution 39: 1335-1351.
    • (1985) Evolution , vol.39 , pp. 1335-1351
    • Cheverud, J.M.1    Dow, M.M.2    Leutenegger, W.3
  • 43
    • 29144484019 scopus 로고    scopus 로고
    • Maximum likelihood of evolutionary trees: hardness and approximation
    • Chor B. & Tuller T. 2005. Maximum likelihood of evolutionary trees: hardness and approximation. Bioinformatics 21: i97-i106.
    • (2005) Bioinformatics , vol.21 , pp. i97-i106
    • Chor, B.1    Tuller, T.2
  • 46
    • 0034695919 scopus 로고    scopus 로고
    • Autoregressive models for estimating phylogenetic and environmental effects: accounting for within-species variations
    • Cornillon P. A., Pontier D. & Rochet M. J. 2000. Autoregressive models for estimating phylogenetic and environmental effects: accounting for within-species variations. Journal of Theoretical Biology 202: 247-256.
    • (2000) Journal of Theoretical Biology , vol.202 , pp. 247-256
    • Cornillon, P.A.1    Pontier, D.2    Rochet, M.J.3
  • 48
    • 0022193474 scopus 로고
    • Parsimonious modelling of capturemark-recapture studies
    • Crosbie S. F. & Manly B. F. J. 1985. Parsimonious modelling of capturemark-recapture studies. Biometrics 41: 385-398.
    • (1985) Biometrics , vol.41 , pp. 385-398
    • Crosbie, S.F.1    Manly, B.F.J.2
  • 50
    • 0000228203 scopus 로고
    • A model of evolutionary change in proteins
    • Dayhoff M. O., editor,. National Biomedical Research Foundation, Washington, DC.
    • Dayhoff M. O., Schwartz R. M. & Orcutt B. C. 1978. A model of evolutionary change in proteins. In: Atlas of Protein Sequence and Structure, Vol. 5, suppl. 3, Dayhoff M. O., editor, pages 345-352. National Biomedical Research Foundation, Washington, DC.
    • (1978) Atlas of Protein Sequence and Structure , vol.5 , pp. 345-352
    • Dayhoff, M.O.1    Schwartz, R.M.2    Orcutt, B.C.3
  • 52
    • 13244292527 scopus 로고    scopus 로고
    • Gene tree distributions under the coalescent process
    • Degnan J. H. & Salter L. A. 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.A.2
  • 54
    • 0345094916 scopus 로고    scopus 로고
    • Quantifying phylogenetically structured environmental variation
    • Desdevises Y., Legendre P., Azouzi L. & Morand S. 2003. Quantifying phylogenetically structured environmental variation. Evolution 57: 2647-2652.
    • (2003) Evolution , vol.57 , pp. 2647-2652
    • Desdevises, Y.1    Legendre, P.2    Azouzi, L.3    Morand, S.4
  • 55
    • 0036943052 scopus 로고    scopus 로고
    • Fast and accurate phylogeny reconstruction algorithms based on the minimum-evolution principle
    • Desper R. & Gascuel O. 2002. Fast and accurate phylogeny reconstruction algorithms based on the minimum-evolution principle. Journal of Computational Biology 9: 687-705.
    • (2002) Journal of Computational Biology , vol.9 , pp. 687-705
    • Desper, R.1    Gascuel, O.2
  • 57
    • 3643135272 scopus 로고    scopus 로고
    • An eigenvector method for estimating phylogenetic inertia
    • Diniz-Filho J. A. F., de Sant'Ana C. E. R. & Bini L. M. 1998. An eigenvector method for estimating phylogenetic inertia. Evolution 52: 1247-1262.
    • (1998) Evolution , vol.52 , pp. 1247-1262
    • Diniz-Filho, J.A.F.1    de Sant'Ana, C.E.R.2    Bini, L.M.3
  • 60
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: Multiple sequence alignment with high accuracy and high throughput
    • Edgar R. C. 2004. MUSCLE: Multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32: 1792-1797.
    • (2004) Nucleic Acids Research , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 63
    • 70350136809 scopus 로고    scopus 로고
    • Statistical methods for evolutionary trees
    • Edwards A. W. F. 2009. Statistical methods for evolutionary trees. Genetics 183: 5-12.
    • (2009) Genetics , vol.183 , pp. 5-12
    • Edwards, A.W.F.1
  • 64
    • 58249100073 scopus 로고    scopus 로고
    • Is a new and general theory of molecular systematics emerging?
    • Edwards S. V. 2009. Is a new and general theory of molecular systematics emerging? Evolution 63: 1-19.
    • (2009) Evolution , vol.63 , pp. 1-19
    • Edwards, S.V.1
  • 66
    • 0001077032 scopus 로고
    • Nonparametric estimates of standard error: the jacknife, the bootstrap and other methods
    • Efron B. 1981. Nonparametric estimates of standard error: the jacknife, the bootstrap and other methods. Biometrika 68: 589-599.
    • (1981) Biometrika , vol.68 , pp. 589-599
    • Efron, B.1
  • 67
    • 0346072186 scopus 로고    scopus 로고
    • A. Fisher in the 21st century (with discussion)
    • Efron B. 1998. R. A. Fisher in the 21st century (with discussion). Statistical Science 13: 95-114.
    • (1998) Statistical Science , vol.13 , pp. 95-114
    • Efron, B.1
  • 69
    • 0026311694 scopus 로고
    • Statistical analysis in the computer age
    • Efron B. & Tibshirani R. 1991. Statistical analysis in the computer age. Science 253: 390-395.
    • (1991) Science , vol.253 , pp. 390-395
    • Efron, B.1    Tibshirani, R.2
  • 70
    • 0035576346 scopus 로고    scopus 로고
    • Revealing the demographic histories of species using DNA sequences
    • Emerson B., Paradis E. & Thebaud C. 2001. Revealing the demographic histories of species using DNA sequences. Trends in Ecology & Evolution 16: 707-716.
    • (2001) Trends in Ecology & Evolution , vol.16 , pp. 707-716
    • Emerson, B.1    Paradis, E.2    Thebaud, C.3
  • 71
    • 29144453246 scopus 로고    scopus 로고
    • Life history characteristics of placental nonvolant mammals
    • Ernest S. K. M. 2003. Life history characteristics of placental nonvolant mammals. Ecology 84: 3402. http://www.esapubs.org/archive/ecol/E084/093/default.htm.
    • (2003) Ecology , vol.84
    • Ernest, S.K.M.1
  • 72
    • 61849115722 scopus 로고    scopus 로고
    • Climate, niche evolution, and diversification of the "bird-cage" evening primroses (Oenothera, sections Anogra and Kleinia)
    • Evans M. E. K., Smith S. A., Flynn R. S. & Donoghue M. J. 2009. Climate, niche evolution, and diversification of the "bird-cage" evening primroses (Oenothera, sections Anogra and Kleinia). American Naturalist 173: 225-240.
    • (2009) American Naturalist , vol.173 , pp. 225-240
    • Evans, M.E.K.1    Smith, S.A.2    Flynn, R.S.3    Donoghue, M.J.4
  • 73
    • 0026499429 scopus 로고
    • Conservation evaluation and phylogenetic diversity
    • Faith D. P. 1992. Conservation evaluation and phylogenetic diversity. Biological Conservation 61: 1-10.
    • (1992) Biological Conservation , vol.61 , pp. 1-10
    • Faith, D.P.1
  • 74
    • 0019797407 scopus 로고
    • Evolutionary trees from DNA sequences: a maximum likelihood approach
    • Felsenstein J. 1981. Evolutionary trees from DNA sequences: a maximum likelihood approach. Journal of Molecular Evolution 17: 368-376.
    • (1981) Journal of Molecular Evolution , vol.17 , pp. 368-376
    • Felsenstein, J.1
  • 75
    • 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
  • 76
    • 0022203256 scopus 로고
    • Phylogenies and the comparative method
    • Felsenstein J. 1985. Phylogenies and the comparative method. American Naturalist 125: 1-15.
    • (1985) American Naturalist , vol.125 , pp. 1-15
    • Felsenstein, J.1
  • 78
    • 0024152983 scopus 로고
    • Phylogenies from molecular sequences: inference and reliability
    • Felsenstein J. 1988. Phylogenies from molecular sequences: inference and reliability. Annual Review of Genetics 22: 521-565.
    • (1988) Annual Review of Genetics , vol.22 , pp. 521-565
    • Felsenstein, J.1
  • 82
    • 43949115169 scopus 로고    scopus 로고
    • Comparative methods with sampling error and within-species variation: Contrasts revisited and revised
    • Felsenstein J. 2008. Comparative methods with sampling error and within-species variation: Contrasts revisited and revised. American Naturalist 171: 713-725.
    • (2008) American Naturalist , vol.171 , pp. 713-725
    • Felsenstein, J.1
  • 83
    • 0030034795 scopus 로고    scopus 로고
    • A Hidden Markov model approach to variation among sites in rate of evolution
    • Felsenstein J. & Churchill G. A. 1996. A Hidden Markov model approach to variation among sites in rate of evolution. Molecular Biology and Evolution 13: 93-104.
    • (1996) Molecular Biology and Evolution , vol.13 , pp. 93-104
    • Felsenstein, J.1    Churchill, G.A.2
  • 85
    • 78650666284 scopus 로고    scopus 로고
    • Quantitative traits and diversification
    • FitzJohn R. G. 2010. Quantitative traits and diversification. Systematic Biology 59: 619-633.
    • (2010) Systematic Biology , vol.59 , pp. 619-633
    • FitzJohn, R.G.1
  • 86
    • 72849125317 scopus 로고    scopus 로고
    • Estimating traitdependent speciation and extinction rates from incompletely resolved phylogenies
    • FitzJohn R. G., Maddison W. P. & Otto S. P. 2009. Estimating traitdependent speciation and extinction rates from incompletely resolved phylogenies. Systematic Biology 58: 595-611.
    • (2009) Systematic Biology , vol.58 , pp. 595-611
    • FitzJohn, R.G.1    Maddison, W.P.2    Otto, S.P.3
  • 88
    • 84857362636 scopus 로고    scopus 로고
    • Aspects of the social organization and trajectory of the R project
    • Fox J. 2009. Aspects of the social organization and trajectory of the R project. The R Journal 1: 5-13.
    • (2009) The R Journal , vol.1 , pp. 5-13
    • Fox, J.1
  • 90
    • 67649204837 scopus 로고    scopus 로고
    • The seven deadly sins of comparative analysis
    • Freckleton R. P. 2009. The seven deadly sins of comparative analysis. Journal of Evolutionary Biology 22: 1367-1375.
    • (2009) Journal of Evolutionary Biology , vol.22 , pp. 1367-1375
    • Freckleton, R.P.1
  • 93
  • 94
    • 0031829758 scopus 로고    scopus 로고
    • Inferring pattern and process: Maximumlikelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis
    • Galtier N. & Gouy M. 1998. Inferring pattern and process: Maximumlikelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis. Molecular Biology and Evolution 15: 871-879.
    • (1998) Molecular Biology and Evolution , vol.15 , pp. 871-879
    • Galtier, N.1    Gouy, M.2
  • 97
    • 11944256302 scopus 로고
    • Procedures for the analysis of comparative data using phylogenetically independent contrasts
    • Garland Jr. T., Harvey P. H. & Ives A. R. 1992. Procedures for the analysis of comparative data using phylogenetically independent contrasts. Systematic Biology 41: 18-32.
    • (1992) Systematic Biology , vol.41 , pp. 18-32
    • Garland, T.1    Harvey, P.H.2    Ives, A.R.3
  • 98
    • 0030807655 scopus 로고    scopus 로고
    • BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data
    • Gascuel O. 1997. BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data. Molecular Biology and Evolution 14: 685-695.
    • (1997) Molecular Biology and Evolution , vol.14 , pp. 685-695
    • Gascuel, O.1
  • 99
    • 0000194822 scopus 로고    scopus 로고
    • Concerning the NJ algorithm and its unweighted version, UNJ
    • Mirkin B., Mc-Morris F. R., Roberts F. S. & Rzhetsky A., editors,. American Mathematical Society, Providence, RI.
    • Gascuel O. 1997. Concerning the NJ algorithm and its unweighted version, UNJ. In: Mathematical hierarchies and biology, Mirkin B., Mc-Morris F. R., Roberts F. S. & Rzhetsky A., editors, pages 149-170. American Mathematical Society, Providence, RI.
    • (1997) Mathematical hierarchies and biology , pp. 149-170
    • Gascuel, O.1
  • 100
    • 0034360426 scopus 로고    scopus 로고
    • Data model and classification by trees: the minimum variance reduction (MVR) method
    • Gascuel O. 2000. Data model and classification by trees: the minimum variance reduction (MVR) method. Journal of Classification 17: 67-99.
    • (2000) Journal of Classification , vol.17 , pp. 67-99
    • Gascuel, O.1
  • 101
    • 0034003343 scopus 로고    scopus 로고
    • On the optimization principle in phylogenetic analysis and the minimum-evolution criterion
    • Gascuel O. 2000. On the optimization principle in phylogenetic analysis and the minimum-evolution criterion. Molecular Biology and Evolution 17: 401-405.
    • (2000) Molecular Biology and Evolution , vol.17 , pp. 401-405
    • Gascuel, O.1
  • 102
    • 0035527361 scopus 로고    scopus 로고
    • Strengths and limitations of the minimum evolution principle
    • Gascuel O., Bryant D. & Denis F. 2001. Strengths and limitations of the minimum evolution principle. Systematic Biology 50: 621-627.
    • (2001) Systematic Biology , vol.50 , pp. 621-627
    • Gascuel, O.1    Bryant, D.2    Denis, F.3
  • 104
    • 10044231378 scopus 로고    scopus 로고
    • Some perspectives on statistical computing
    • Gentleman R. 2004. Some perspectives on statistical computing. Canadian Journal of Statistics 32: 209-226.
    • (2004) Canadian Journal of Statistics , vol.32 , pp. 209-226
    • Gentleman, R.1
  • 105
    • 0242404117 scopus 로고    scopus 로고
    • Canonical phylogenetic ordination
    • Giannini N. P. 2003. Canonical phylogenetic ordination. Systematic Biology 52: 684-695.
    • (2003) Systematic Biology , vol.52 , pp. 684-695
    • Giannini, N.P.1
  • 106
    • 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. 2005. A comprehensive analysis of mammalian mitochondrial genome base composition and improved phylogenetic methods. Molecular Biology and Evolution 22: 251-264.
    • (2005) Molecular Biology and Evolution , vol.22 , pp. 251-264
    • Gibson, A.1    Gowri-Shankar, V.2    Higgs, P.G.3    Rattray, M.4
  • 107
    • 0001247687 scopus 로고    scopus 로고
    • Exact numerical simulation of the Ornstein-Uhlenbeck process and its integral
    • Gillespie D. T. 1996. Exact numerical simulation of the Ornstein-Uhlenbeck process and its integral. Physical Review E 54: 2084-2091.
    • (1996) Physical Review E , vol.54 , pp. 2084-2091
    • Gillespie, D.T.1
  • 108
    • 0022840504 scopus 로고
    • Carnivore life history patterns: allometric, phylogenetic and ecological associations
    • Gittleman J. L. 1986. Carnivore life history patterns: allometric, phylogenetic and ecological associations. American Naturalist 127: 744-771.
    • (1986) American Naturalist , vol.127 , pp. 744-771
    • Gittleman, J.L.1
  • 109
    • 84860854099 scopus 로고
    • Adaptation: statistics and a null model for estimating phylogenetic effects
    • Gittleman J. L. & Kot M. 1990. Adaptation: statistics and a null model for estimating phylogenetic effects. Systematic Zoology 39: 227-241.
    • (1990) Systematic Zoology , vol.39 , pp. 227-241
    • Gittleman, J.L.1    Kot, M.2
  • 110
    • 79959436449 scopus 로고    scopus 로고
    • Phylogenetic inference of reciprocal effects between geographic range evolution and diversification.
    • Goldberg E. A., Lancaster L. T. & Ree R. H. 2011. Phylogenetic inference of reciprocal effects between geographic range evolution and diversification. Systematic Biology.
    • (2011) Systematic Biology
    • Goldberg, E.A.1    Lancaster, L.T.2    Ree, R.H.3
  • 111
    • 0032989859 scopus 로고    scopus 로고
    • An improved procedure for testing the effects of key innovations on rate of speciation
    • Goudet J. 1999. An improved procedure for testing the effects of key innovations on rate of speciation. American Naturalist 153: 549-555.
    • (1999) American Naturalist , vol.153 , pp. 549-555
    • Goudet, J.1
  • 112
    • 77956879282 scopus 로고
    • A general coefficient of similarity and some of its properties
    • pas de TAP
    • Gower J. C. 1971. A general coefficient of similarity and some of its properties. Biometrics 27: 623-637. pas de TAP.
    • (1971) Biometrics , vol.27 , pp. 623-637
    • Gower, J.C.1
  • 114
    • 4344644543 scopus 로고    scopus 로고
    • Integrating phylogenetics and environmental niche models to ex plore speciation mechanisms in dendrobatid frogs
    • Graham C. H., Ron S. R., Santos J. C., Schneider C. J. & Moritz C. 2004. Integrating phylogenetics and environmental niche models to ex plore speciation mechanisms in dendrobatid frogs. Evolution 58: 1781-1793.
    • (2004) Evolution , vol.58 , pp. 1781-1793
    • Graham, C.H.1    Ron, S.R.2    Santos, J.C.3    Schneider, C.J.4    Moritz, C.5
  • 115
    • 0242578620 scopus 로고    scopus 로고
    • A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
    • Guindon S. & Gascuel O. 2003. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology 52: 696-704.
    • (2003) Systematic Biology , vol.52 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 116
    • 0030125185 scopus 로고    scopus 로고
    • Molecular phylogenetics and biogeography of tanagers in the genus Ramphocelus (Aves)
    • Hackett S. J. 1996. Molecular phylogenetics and biogeography of tanagers in the genus Ramphocelus (Aves). Molecular Phylogenetics and Evolution 5: 368-382.
    • (1996) Molecular Phylogenetics and Evolution , vol.5 , pp. 368-382
    • Hackett, S.J.1
  • 117
    • 77749249761 scopus 로고    scopus 로고
    • MCMC methods for multi-response generalized linear mixed models: The MCMCglmm R Package
    • Hadfield J. D. 2010. MCMC methods for multi-response generalized linear mixed models: The MCMCglmm R Package. Journal of Statistical Software 33: 1-22.
    • (2010) Journal of Statistical Software , vol.33 , pp. 1-22
    • Hadfield, J.D.1
  • 118
    • 77749279661 scopus 로고    scopus 로고
    • General quantitative genetic methods for comparative biology: phylogenies, taxonomies and multi-trait models for continuous and categorical characters
    • Hadfield J. D. & Nakagawa S. 2010. General quantitative genetic methods for comparative biology: phylogenies, taxonomies and multi-trait models for continuous and categorical characters. Journal of Evolutionary Biology 23: 494-508.
    • (2010) Journal of Evolutionary Biology , vol.23 , pp. 494-508
    • Hadfield, J.D.1    Nakagawa, S.2
  • 120
    • 0242327578 scopus 로고
    • Generating most parsimonious reconstructions on a tree: a generalization of the Farris-Swofford-Maddison method
    • Hanazawa M., Narushima H. & Minaka N. 1995. Generating most parsimonious reconstructions on a tree: a generalization of the Farris-Swofford-Maddison method. Discrete Applied Mathematics 56: 245-265.
    • (1995) Discrete Applied Mathematics , vol.56 , pp. 245-265
    • Hanazawa, M.1    Narushima, H.2    Minaka, N.3
  • 121
    • 0030772835 scopus 로고    scopus 로고
    • Stabilizing selection and the comparative analysis of adaptation
    • Hansen T. F. 1997. Stabilizing selection and the comparative analysis of adaptation. Evolution 51: 1341-1351.
    • (1997) Evolution , vol.51 , pp. 1341-1351
    • Hansen, T.F.1
  • 122
    • 0029660868 scopus 로고    scopus 로고
    • Translating between microevolutionary process and macroevolutionary patterns: the correlation structure of interspecific data
    • Hansen T. F. & Martins E. P. 1996. Translating between microevolutionary process and macroevolutionary patterns: the correlation structure of interspecific data. Evolution 50: 1404-1417.
    • (1996) Evolution , vol.50 , pp. 1404-1417
    • Hansen, T.F.1    Martins, E.P.2
  • 123
    • 49649122039 scopus 로고    scopus 로고
    • Interpreting and estimating measures of community phylogenetic structuring
    • Hardy O. J. & Jost L. 2008. Interpreting and estimating measures of community phylogenetic structuring. Journal of Ecology 96: 849-852.
    • (2008) Journal of Ecology , vol.96 , pp. 849-852
    • Hardy, O.J.1    Jost, L.2
  • 124
    • 34247226174 scopus 로고    scopus 로고
    • Characterizing the phylogenetic structure of communities by an additive partitioning of phylogenetic diversity
    • Hardy O. J. & Senterre B. 2007. Characterizing the phylogenetic structure of communities by an additive partitioning of phylogenetic diversity. Journal of Ecology 95: 493-506.
    • (2007) Journal of Ecology , vol.95 , pp. 493-506
    • Hardy, O.J.1    Senterre, B.2
  • 126
    • 0028561478 scopus 로고
    • Phylogenies without fossils
    • Harvey P. H., May R. M. & Nee S. 1994. Phylogenies without fossils. Evolution 48: 523-529.
    • (1994) Evolution , vol.48 , pp. 523-529
    • Harvey, P.H.1    May, R.M.2    Nee, S.3
  • 128
    • 0025924711 scopus 로고
    • Comparative methods for explaining adaptations
    • Harvey P. H. & Purvis A. 1991. Comparative methods for explaining adaptations. Nature 351: 619-624.
    • (1991) Nature , vol.351 , pp. 619-624
    • Harvey, P.H.1    Purvis, A.2
  • 129
    • 0022376704 scopus 로고
    • Dating of the humanape splitting by a molecular clock of mitochondrial DNA
    • Hasegawa M., Kishino H. & Yano T.-a. 1985. Dating of the humanape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution 22: 160-174.
    • (1985) Journal of Molecular Evolution , vol.22 , pp. 160-174
    • Hasegawa, M.1    Kishino, H.2    Yano, T.-A.3
  • 130
    • 77956890234 scopus 로고
    • Monte Carlo sampling methods using Markov chains and their applications
    • Hastings W. K. 1970. Monte Carlo sampling methods using Markov chains and their applications. Biometrika 57: 97-109.
    • (1970) Biometrika , vol.57 , pp. 97-109
    • Hastings, W.K.1
  • 133
    • 0000084234 scopus 로고
    • A framework for the quantitative study of evolutionary trees
    • Hendy M. D. & Penny D. 1989. A framework for the quantitative study of evolutionary trees. Systematic Zoology 38: 297-309.
    • (1989) Systematic Zoology , vol.38 , pp. 297-309
    • Hendy, M.D.1    Penny, D.2
  • 135
    • 0037379673 scopus 로고    scopus 로고
    • Phylogeny estimation: traditional and Bayesian approaches
    • Holder M. & Lewis P. O. 2003. Phylogeny estimation: traditional and Bayesian approaches. Nature Reviews Genetics 4: 275-284.
    • (2003) Nature Reviews Genetics , vol.4 , pp. 275-284
    • Holder, M.1    Lewis, P.O.2
  • 137
    • 3042637206 scopus 로고    scopus 로고
    • Using consensus networks to visualize contradictory evidence for species phylogeny
    • Holland B. R., Huber K. T., Moulton V. & Lockhart P. J. 2004. Using consensus networks to visualize contradictory evidence for species phylogeny. Molecular Biology and Evolution 21: 1459-1461.
    • (2004) Molecular Biology and Evolution , vol.21 , pp. 1459-1461
    • Holland, B.R.1    Huber, K.T.2    Moulton, V.3    Lockhart, P.J.4
  • 138
    • 0037289898 scopus 로고    scopus 로고
    • Statistics for phylogenetic trees
    • Holmes S. 2003. Statistics for phylogenetic trees. Theoretical Population Biology 63: 17-32.
    • (2003) Theoretical Population Biology , vol.63 , pp. 17-32
    • Holmes, S.1
  • 139
    • 28944447963 scopus 로고    scopus 로고
    • Improving the efficiency of SPR moves in phylogenetic tree search methods based on maximum likelihood
    • Hordijk W. & Gascuel O. 2005. Improving the efficiency of SPR moves in phylogenetic tree search methods based on maximum likelihood. Bioinformatics 21: 4338-4347.
    • (2005) Bioinformatics , vol.21 , pp. 4338-4347
    • Hordijk, W.1    Gascuel, O.2
  • 142
    • 0034849408 scopus 로고    scopus 로고
    • MRBAYES: Bayesian inference of phylogenetic trees
    • Huelsenbeck J. P. & Ronquist F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754-755.
    • (2001) Bioinformatics , vol.17 , pp. 754-755
    • Huelsenbeck, J.P.1    Ronquist, F.2
  • 143
    • 0031916854 scopus 로고    scopus 로고
    • Key innovations and the ecology of macroevolution
    • Hunter J. P. 1998. Key innovations and the ecology of macroevolution. Trends in Ecology & Evolution 13: 31-36.
    • (1998) Trends in Ecology & Evolution , vol.13 , pp. 31-36
    • Hunter, J.P.1
  • 145
    • 30744470609 scopus 로고    scopus 로고
    • Application of phylogenetic networks in evolutionary studies
    • Huson D. H. & Bryant D. 2006. Application of phylogenetic networks in evolutionary studies. Molecular Biology and Evolution 23: 254-267.
    • (2006) Molecular Biology and Evolution , vol.23 , pp. 254-267
    • Huson, D.H.1    Bryant, D.2
  • 147
  • 148
    • 85037119019 scopus 로고    scopus 로고
    • Generalized linear mixed models for phylogenetic analyses of community structure
    • Ives A. R. & Helmus M. R. In press. Generalized linear mixed models for phylogenetic analyses of community structure. Ecological Monographs.
    • Ecological Monographs
    • Ives, A.R.1    Helmus, M.R.2
  • 149
    • 34447280382 scopus 로고    scopus 로고
    • Within-species variation and measurement error in phylogenetic comparative methods
    • Ives A. R., Midford P. E. & Garland Jr. T. 2007. Within-species variation and measurement error in phylogenetic comparative methods. Systematic Biology 56: 252-270.
    • (2007) Systematic Biology , vol.56 , pp. 252-270
    • Ives, A.R.1    Midford, P.E.2    Garland, T.3
  • 150
    • 44349095887 scopus 로고    scopus 로고
    • adegenet: A R package for the multivariate analysis of genetic markers
    • Jombart T. 2008. adegenet: A R package for the multivariate analysis of genetic markers. Bioinformatics 24: 1403-1405.
    • (2008) Bioinformatics , vol.24 , pp. 1403-1405
    • Jombart, T.1
  • 151
    • 77955018899 scopus 로고    scopus 로고
    • adephylo: New tools for investigating the phylogenetic signal in biological traits
    • Jombart T., Balloux F. & Dray S. 2010. adephylo: New tools for investigating the phylogenetic signal in biological traits. Bioinformatics 26: 1907-1909.
    • (2010) Bioinformatics , vol.26 , pp. 1907-1909
    • Jombart, T.1    Balloux, F.2    Dray, S.3
  • 152
    • 77952666807 scopus 로고    scopus 로고
    • Putting phylogeny into the analysis of biological traits: A methodological approach
    • Jombart T., Pavoine S., Devillard S. & Pontier D. 2010. Putting phylogeny into the analysis of biological traits: A methodological approach. Journal of Theoretical Biology 264: 693-701.
    • (2010) Journal of Theoretical Biology , vol.264 , pp. 693-701
    • Jombart, T.1    Pavoine, S.2    Devillard, S.3    Pontier, D.4
  • 155
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • Munro H. N., editor. Academic Press, New York
    • Jukes T. H. & Cantor C. R. 1969. Evolution of protein molecules. In: Mammalian Protein Metabolism, Munro H. N., editor, pages 21-132. Academic Press, New York.
    • (1969) Mammalian Protein Metabolism , pp. 21-132
    • Jukes, T.H.1    Cantor, C.R.2
  • 156
    • 0037100671 scopus 로고    scopus 로고
    • MAFFT: A novel method for rapid multiple sequence alignment based on fast Fourier transform
    • Katoh K., Misawa K., Kuma K. & Miyata T. 2002. MAFFT: A novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Research 30: 3059-3066.
    • (2002) Nucleic Acids Research , vol.30 , pp. 3059-3066
    • Katoh, K.1    Misawa, K.2    Kuma, K.3    Miyata, T.4
  • 157
    • 0000231623 scopus 로고
    • Maximum likelihood estimation in the birth-and-death process
    • Keiding N. 1975. Maximum likelihood estimation in the birth-and-death process. Annals of Statistics 3: 363-372.
    • (1975) Annals of Statistics , vol.3 , pp. 363-372
    • Keiding, N.1
  • 159
    • 0002024701 scopus 로고
    • On the generalized "birth-and-death" process
    • Kendall D. G. 1948. On the generalized "birth-and-death" process. Annals of Mathematical Statistics 19: 1-15.
    • (1948) Annals of Mathematical Statistics , vol.19 , pp. 1-15
    • Kendall, D.G.1
  • 161
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • Kimura M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16: 111-120.
    • (1980) Journal of Molecular Evolution , vol.16 , pp. 111-120
    • Kimura, M.1
  • 162
    • 0001464973 scopus 로고
    • Estimation of evolutionary distances between homologous nucleotide sequences
    • Kimura M. 1981. Estimation of evolutionary distances between homologous nucleotide sequences. Proceedings of the National Academy of Sciences USA 78: 454-458.
    • (1981) Proceedings of the National Academy of Sciences USA , vol.78 , pp. 454-458
    • Kimura, M.1
  • 164
    • 0001525977 scopus 로고
    • The average number of generations until fixation of a mutant gene in a finite population
    • Kimura M. & Ohta T. 1969. The average number of generations until fixation of a mutant gene in a finite population. Genetics 61: 763-771.
    • (1969) Genetics , vol.61 , pp. 763-771
    • Kimura, M.1    Ohta, T.2
  • 165
    • 0034530345 scopus 로고    scopus 로고
    • Origin of the coalescent: 1974-1982
    • Kingman J. F. C. 2000. Origin of the coalescent: 1974-1982. Genetics 156: 1461-1463.
    • (2000) Genetics , vol.156 , pp. 1461-1463
    • Kingman, J.F.C.1
  • 166
    • 0001337578 scopus 로고
    • Searching for evolutionary patterns in the shape of a phylogenetic tree
    • Kirkpatrick M. & Slatkin M. 1993. Searching for evolutionary patterns in the shape of a phylogenetic tree. Evolution 47: 1171-1181.
    • (1993) Evolution , vol.47 , pp. 1171-1181
    • Kirkpatrick, M.1    Slatkin, M.2
  • 168
    • 9644310428 scopus 로고    scopus 로고
    • Column sorting: rapid calculation of the phylogenetic likelihood function
    • Kosakovsky Pond S. L. & Muse S. V. 2004. Column sorting: rapid calculation of the phylogenetic likelihood function. Systematic Biology 53: 685-692.
    • (2004) Systematic Biology , vol.53 , pp. 685-692
    • Kosakovsky Pond, S.L.1    Muse, S.V.2
  • 169
  • 170
    • 0028177080 scopus 로고
    • Simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates
    • Kuhner M. K. & Felsenstein J. 1994. Simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates. Molecular Biology and Evolution 11: 459-468.
    • (1994) Molecular Biology and Evolution , vol.11 , pp. 459-468
    • Kuhner, M.K.1    Felsenstein, J.2
  • 171
    • 0031835126 scopus 로고    scopus 로고
    • Maximum likelihood estimation of population growth rates based on the coalescent
    • Kuhner M. K., Yamato J. & Felsenstein J. 1998. Maximum likelihood estimation of population growth rates based on the coalescent. Genetics 149: 429-434.
    • (1998) Genetics , vol.149 , pp. 429-434
    • Kuhner, M.K.1    Yamato, J.2    Felsenstein, J.3
  • 172
    • 85037082052 scopus 로고    scopus 로고
    • MacTrees made easy-Review of "Phylogenetic trees made easy: a how-to manual for molecular biologists" by Barry G
    • Kumar S. 2003. MacTrees made easy-Review of "Phylogenetic trees made easy: a how-to manual for molecular biologists" by Barry G. Hall. Molecular Phylogenetics and Evolution 27: 165-167.
    • (2003) Hall. Molecular Phylogenetics and Evolution , vol.27 , pp. 165-167
    • Kumar, S.1
  • 173
    • 33645359202 scopus 로고    scopus 로고
    • Cut-off and hitting times of a sample of Ornstein-Uhlenbeck processes and its average
    • Lachaud B. 2005. Cut-off and hitting times of a sample of Ornstein-Uhlenbeck processes and its average. Journal of Applied Probability 42: 1069-1080.
    • (2005) Journal of Applied Probability , vol.42 , pp. 1069-1080
    • Lachaud, B.1
  • 174
    • 0028181246 scopus 로고
    • Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances
    • Lake J. A. 1994. Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances. Proceedings of the National Academy of Sciences USA 91: 1455-1459.
    • (1994) Proceedings of the National Academy of Sciences USA , vol.91 , pp. 1455-1459
    • Lake, J.A.1
  • 175
    • 70350318829 scopus 로고    scopus 로고
    • Reconstructing ancestral ranges in historical biogeography: properties and prospects
    • Lamm K. S. & Redelings B. D. 2009. Reconstructing ancestral ranges in historical biogeography: properties and prospects. Journal of Systematics and Evolution 47: 369-382.
    • (2009) Journal of Systematics and Evolution , vol.47 , pp. 369-382
    • Lamm, K.S.1    Redelings, B.D.2
  • 177
    • 46149108174 scopus 로고    scopus 로고
    • Morphometrics of the avian small intestine compared with that of nonflying mammals: A phylogenetic approach
    • Lavin S. R., Karasov W. H., Ives A. R., Middleton K. M. & Garland T. 2008. Morphometrics of the avian small intestine compared with that of nonflying mammals: A phylogenetic approach. Physiological and Biochemical Zoology 81: 526-550.
    • (2008) Physiological and Biochemical Zoology , vol.81 , pp. 526-550
    • Lavin, S.R.1    Karasov, W.H.2    Ives, A.R.3    Middleton, K.M.4    Garland, T.5
  • 178
    • 45849154166 scopus 로고    scopus 로고
    • An improved general amino acid replacement matrix
    • Le S. Q. & Gascuel O. 2008. An improved general amino acid replacement matrix. Molecular Biology and Evolution 25: 1307-1320.
    • (2008) Molecular Biology and Evolution , vol.25 , pp. 1307-1320
    • Le, S.Q.1    Gascuel, O.2
  • 179
    • 67651033292 scopus 로고    scopus 로고
    • Independent contrasts and regression through the origin
    • Legendre P. & Desdevises Y. 2009. Independent contrasts and regression through the origin. Journal of Theoretical Biology 259: 727-743.
    • (2009) Journal of Theoretical Biology , vol.259 , pp. 727-743
    • Legendre, P.1    Desdevises, Y.2
  • 180
    • 0036554493 scopus 로고    scopus 로고
    • A statistical test for host-parasite coevolution
    • Legendre P., Desdevises Y. & Bazin E. 2002. A statistical test for host-parasite coevolution. Systematic Biology 51: 217-234.
    • (2002) Systematic Biology , vol.51 , pp. 217-234
    • Legendre, P.1    Desdevises, Y.2    Bazin, E.3
  • 181
    • 0242529706 scopus 로고    scopus 로고
    • Dynamic generation of statistical reports using literate data analysis
    • Haerdle W. & Roenz B., editors,. Physika Verlag, Heidelberg.
    • Leisch F. 2002. Dynamic generation of statistical reports using literate data analysis. In: Compstat 2002-Proceedings in Computational Statistics, Haerdle W. & Roenz B., editors, pages 575-580. Physika Verlag, Heidelberg.
    • (2002) Compstat 2002-Proceedings in Computational Statistics , pp. 575-580
    • Leisch, F.1
  • 183
    • 77649173768 scopus 로고
    • Longitudinal data analysis using generalized linear models
    • Liang K.-Y. & Zeger S. L. 1986. Longitudinal data analysis using generalized linear models. Biometrika 73: 13-22.
    • (1986) Biometrika , vol.73 , pp. 13-22
    • Liang, K.-Y.1    Zeger, S.L.2
  • 184
    • 45849097600 scopus 로고    scopus 로고
    • Codivergence in heteromyid rodents (Rodentia: Heteromyidae) and their sucking lice of the genus Fahrenholzia (Phthiraptera: Anoplura)
    • Light J. E. & Hafner M. S. 2008. Codivergence in heteromyid rodents (Rodentia: Heteromyidae) and their sucking lice of the genus Fahrenholzia (Phthiraptera: Anoplura). Systematic Biology 57: 449-465.
    • (2008) Systematic Biology , vol.57 , pp. 449-465
    • Light, J.E.1    Hafner, M.S.2
  • 185
    • 70350247510 scopus 로고    scopus 로고
    • Maximum tree: a consistent estimator of the species tree
    • Liu L., Yu L. & Pearl D. K. 2010. Maximum tree: a consistent estimator of the species tree. Journal of Mathematical Biology 60: 95-106.
    • (2010) Journal of Mathematical Biology , vol.60 , pp. 95-106
    • Liu, L.1    Yu, L.2    Pearl, D.K.3
  • 186
    • 0028361182 scopus 로고
    • Recovering evolutionary trees under a more realistic model of sequence evolution
    • Lockhart P. J., Steel M. A., Hendy M. D. & Penny D. 1994. Recovering evolutionary trees under a more realistic model of sequence evolution. Molecular Biology and Evolution 11: 605-612.
    • (1994) Molecular Biology and Evolution , vol.11 , pp. 605-612
    • Lockhart, P.J.1    Steel, M.A.2    Hendy, M.D.3    Penny, D.4
  • 187
    • 12044255652 scopus 로고
    • An approach to the analysis of comparative data when a phylogeny is unavailable or incomplete
    • Losos J. B. 1994. An approach to the analysis of comparative data when a phylogeny is unavailable or incomplete. Systematic Biology 43: 117-123.
    • (1994) Systematic Biology , vol.43 , pp. 117-123
    • Losos, J.B.1
  • 188
    • 0028973861 scopus 로고
    • Stumped by trees? A generalized null model for patterns of organismal diversity
    • Losos J. B. & Adler F. R. 1995. Stumped by trees? A generalized null model for patterns of organismal diversity. American Naturalist 145: 329-342.
    • (1995) American Naturalist , vol.145 , pp. 329-342
    • Losos, J.B.1    Adler, F.R.2
  • 189
    • 0038364009 scopus 로고    scopus 로고
    • Phylogenetic comparative methods and the geography of speciation
    • Losos J. B. & Glor R. E. 2003. Phylogenetic comparative methods and the geography of speciation. Trends in Ecology & Evolution 18: 220-227.
    • (2003) Trends in Ecology & Evolution , vol.18 , pp. 220-227
    • Losos, J.B.1    Glor, R.E.2
  • 190
    • 0026293261 scopus 로고
    • Methods for the analysis of comparative data in evolutionary biology
    • Lynch M. 1991. Methods for the analysis of comparative data in evolutionary biology. Evolution 45: 1065-1080.
    • (1991) Evolution , vol.45 , pp. 1065-1080
    • Lynch, M.1
  • 192
    • 0031504952 scopus 로고    scopus 로고
    • Gene trees in species trees
    • Maddison W. P. 1997. Gene trees in species trees. Systematic Biology 46: 523-536.
    • (1997) Systematic Biology , vol.46 , pp. 523-536
    • Maddison, W.P.1
  • 193
    • 33644606488 scopus 로고    scopus 로고
    • Inferring phylogeny despite incomplete lineage sorting
    • Maddison W. P. & Knowles L. L. 2006. Inferring phylogeny despite incomplete lineage sorting. Systematic Biology 55: 21-30.
    • (2006) Systematic Biology , vol.55 , pp. 21-30
    • Maddison, W.P.1    Knowles, L.L.2
  • 194
    • 34548657597 scopus 로고    scopus 로고
    • Estimating a binary character's effect on speciation and extinction
    • Maddison W. P., Midford P. E. & Otto S. P. 2007. Estimating a binary character's effect on speciation and extinction. Systematic Biology 56: 701-710.
    • (2007) Systematic Biology , vol.56 , pp. 701-710
    • Maddison, W.P.1    Midford, P.E.2    Otto, S.P.3
  • 195
    • 0034765180 scopus 로고    scopus 로고
    • Absolute diversification rates in angiosperm clades
    • Magalĺon S. & Sanderson M. J. 2001. Absolute diversification rates in angiosperm clades. Evolution 55: 1762-1780.
    • (2001) Evolution , vol.55 , pp. 1762-1780
    • Magalĺon, S.1    Sanderson, M.J.2
  • 196
    • 0001216360 scopus 로고
    • R2 measures based on Wald and likelihood ratio joint significance tests
    • Magee L. 1990. R2 measures based on Wald and likelihood ratio joint significance tests. American Statistician 44: 250-253.
    • (1990) American Statistician , vol.44 , pp. 250-253
    • Magee, L.1
  • 197
    • 0030021366 scopus 로고    scopus 로고
    • Conducting phylogenetic comparative studies when the phylogeny is not known
    • Martins E. P. 1996. Conducting phylogenetic comparative studies when the phylogeny is not known. Evolution 50: 12-22.
    • (1996) Evolution , vol.50 , pp. 12-22
    • Martins, E.P.1
  • 198
    • 0026054313 scopus 로고
    • Phylogenetic analyses of the correlated evolution of continuous characters: a simulation study
    • Martins E. P. & Garland Jr. T. 1991. Phylogenetic analyses of the correlated evolution of continuous characters: a simulation study. Evolution 45: 534-557.
    • (1991) Evolution , vol.45 , pp. 534-557
    • Martins, E.P.1    Garland, T.2
  • 199
    • 0030619995 scopus 로고    scopus 로고
    • Phylogenies and the comparative method: a general approach to incorporating phylogenetic information into the analysis of interspecific data
    • Erratum vol. 153, p. 488
    • Martins E. P. & Hansen T. F. 1997. Phylogenies and the comparative method: a general approach to incorporating phylogenetic information into the analysis of interspecific data. American Naturalist 149: 646-667. Erratum vol. 153, p. 488.
    • (1997) American Naturalist , vol.149 , pp. 646-667
    • Martins, E.P.1    Hansen, T.F.2
  • 200
    • 0001426025 scopus 로고
    • Taxonomy as destiny
    • May R. M. 1990. Taxonomy as destiny. Nature 347: 129-130.
    • (1990) Nature , vol.347 , pp. 129-130
    • May, R.M.1
  • 201
    • 1642276441 scopus 로고    scopus 로고
    • A likelihood-based method for testing for nonstochastic variation of diversification rates in phylogenies
    • McConway K. J. & Sims H. J. 2004. A likelihood-based method for testing for nonstochastic variation of diversification rates in phylogenies. Evolution 58: 12-23.
    • (2004) Evolution , vol.58 , pp. 12-23
    • McConway, K.J.1    Sims, H.J.2
  • 202
    • 0033468677 scopus 로고    scopus 로고
    • Assessing the reliability of statistical software: Part II
    • McCullough B. D. 1999. Assessing the reliability of statistical software: Part II. American Statistician 53: 149-159.
    • (1999) American Statistician , vol.53 , pp. 149-159
    • McCullough, B.D.1
  • 204
    • 21344479285 scopus 로고
    • Parsimony, model adequacy and periodic correlation in time-series forecasting
    • McLeod A. I. 1993. Parsimony, model adequacy and periodic correlation in time-series forecasting. International Statistical Review 61: 387-393.
    • (1993) International Statistical Review , vol.61 , pp. 387-393
    • McLeod, A.I.1
  • 205
    • 0035983971 scopus 로고    scopus 로고
    • Phylogeny of the genus Apodemus with a special emphasis on the subgenus Sylvaemus using the nuclear IRBP gene and two mitochondrial markers: cytochrome b and 12S rRNA
    • Michaux J., Chevret P., Filipucci M.-G. & Macholan M. 2002. Phylogeny of the genus Apodemus with a special emphasis on the subgenus Sylvaemus using the nuclear IRBP gene and two mitochondrial markers: cytochrome b and 12S rRNA. Molecular Phylogenetics and Evolution 23: 123-136.
    • (2002) Molecular Phylogenetics and Evolution , vol.23 , pp. 123-136
    • Michaux, J.1    Chevret, P.2    Filipucci, M.-G.3    Macholan, M.4
  • 206
    • 0242487488 scopus 로고    scopus 로고
    • Performance-based selection of likelihood models for phylogeny estimation
    • Minin V., Abdo Z., Joyce P. & Sullivan J. 2003. Performance-based selection of likelihood models for phylogeny estimation. Systematic Biology 52: 674-683.
    • (2003) Systematic Biology , vol.52 , pp. 674-683
    • Minin, V.1    Abdo, Z.2    Joyce, P.3    Sullivan, J.4
  • 208
    • 76549254593 scopus 로고
    • Notes on continuous stochastic phenomena
    • Moran P. A. P. 1950. Notes on continuous stochastic phenomena. Biometrika 37: 17-23.
    • (1950) Biometrika , vol.37 , pp. 17-23
    • Moran, P.A.P.1
  • 210
    • 79960767356 scopus 로고    scopus 로고
    • Phylogenetic versus functional signals in the evolution of form-function relationships in terrestrial vision
    • Motani R. & Schmitz L. 2011. Phylogenetic versus functional signals in the evolution of form-function relationships in terrestrial vision. Evolution doi:10.1111/j.1558-5646.2011.01271.x.
    • (2011) Evolution
    • Motani, R.1    Schmitz, L.2
  • 211
    • 36749063069 scopus 로고    scopus 로고
    • Chapman & Hall/CRC, Boca Raton, FL
    • Murrell P. 2006. R Graphics. Chapman & Hall/CRC, Boca Raton, FL.
    • (2006) R Graphics
    • Murrell, P.1
  • 212
    • 77956887506 scopus 로고
    • A note on a general definition of the coefficient of determination
    • Nagelkerke N. J. D. 1991. A note on a general definition of the coefficient of determination. Biometrika 78: 691-692.
    • (1991) Biometrika , vol.78 , pp. 691-692
    • Nagelkerke, N.J.D.1
  • 213
    • 0242264231 scopus 로고    scopus 로고
    • A more efficient algorithm for MPR problems in phylogeny
    • Narushima H. & Hanazawa M. 1997. A more efficient algorithm for MPR problems in phylogeny. Discrete Applied Mathematics 80: 231-238.
    • (1997) Discrete Applied Mathematics , vol.80 , pp. 231-238
    • Narushima, H.1    Hanazawa, M.2
  • 215
    • 0030680940 scopus 로고    scopus 로고
    • Extinction and the loss of evolutionary history
    • Nee S. & May R. M. 1997. Extinction and the loss of evolutionary history. Science 278: 692-694.
    • (1997) Science , vol.278 , pp. 692-694
    • Nee, S.1    May, R.M.2
  • 219
    • 0001909091 scopus 로고
    • Measures of phylogenetic diversity
    • Novacek M. J. & Wheeler Q. D., editors,. Columbia University Press, New York.
    • Nixon K. C. & Wheeler Q. D. 1992. Measures of phylogenetic diversity. In: Extinction and Phylogeny, Novacek M. J. & Wheeler Q. D., editors, pages 216-234. Columbia University Press, New York.
    • (1992) Extinction and Phylogeny , pp. 216-234
    • Nixon, K.C.1    Wheeler, Q.D.2
  • 221
    • 30544450456 scopus 로고    scopus 로고
    • Maximum likelihood models of trait evolution
    • Oakley T. H. 2003. Maximum likelihood models of trait evolution. Comments on Theoretical Biology 8: 1-17.
    • (2003) Comments on Theoretical Biology , vol.8 , pp. 1-17
    • Oakley, T.H.1
  • 222
    • 33745252203 scopus 로고    scopus 로고
    • Orthonormal transform to decompose the variance of a life-history trait across a phylogenetic tree
    • Ollier S., Couteron P. & Chessel D. 2006. Orthonormal transform to decompose the variance of a life-history trait across a phylogenetic tree. Biometrics 62: 471-477.
    • (2006) Biometrics , vol.62 , pp. 471-477
    • Ollier, S.1    Couteron, P.2    Chessel, D.3
  • 223
    • 0028097770 scopus 로고
    • Detecting correlated evolution on phylogenies: a general method for the comparative analysis of discrete characters
    • Pagel M. 1994. Detecting correlated evolution on phylogenies: a general method for the comparative analysis of discrete characters. Proceedings of the Royal Society of London. Series B. Biological Sciences 255: 37-45.
    • (1994) Proceedings of the Royal Society of London. Series B. Biological Sciences , vol.255 , pp. 37-45
    • Pagel, M.1
  • 224
    • 0033613376 scopus 로고    scopus 로고
    • Inferring the historical patterns of biological evolution
    • Pagel M. 1999. Inferring the historical patterns of biological evolution. Nature 401: 877-884.
    • (1999) Nature , vol.401 , pp. 877-884
    • Pagel, M.1
  • 225
    • 0035102570 scopus 로고    scopus 로고
    • Akaike's information criterion in generalized estimating equations
    • Pan W. 2001. Akaike's information criterion in generalized estimating equations. Biometrics 57: 120-125.
    • (2001) Biometrics , vol.57 , pp. 120-125
    • Pan, W.1
  • 226
    • 0030823492 scopus 로고    scopus 로고
    • Assessing temporal variations in diversification rates from phylogenies: estimation and hypothesis testing
    • Paradis E. 1997. Assessing temporal variations in diversification rates from phylogenies: estimation and hypothesis testing. Proceedings of the Royal Society of London. Series B. Biological Sciences 264: 1141-1147.
    • (1997) Proceedings of the Royal Society of London. Series B. Biological Sciences , vol.264 , pp. 1141-1147
    • Paradis, E.1
  • 227
    • 0001594991 scopus 로고    scopus 로고
    • Testing for constant diversification rates using molecular phylogenies: a general approach based on statistical tests for goodness of fit
    • Paradis E. 1998. Testing for constant diversification rates using molecular phylogenies: a general approach based on statistical tests for goodness of fit. Molecular Biology and Evolution 15: 476-479.
    • (1998) Molecular Biology and Evolution , vol.15 , pp. 476-479
    • Paradis, E.1
  • 229
    • 2642553790 scopus 로고    scopus 로고
    • Can extinction rates be estimated without fossils?
    • Paradis E. 2004. Can extinction rates be estimated without fossils? Journal of Theoretical Biology 229: 19-30.
    • (2004) Journal of Theoretical Biology , vol.229 , pp. 19-30
    • Paradis, E.1
  • 230
    • 13244298387 scopus 로고    scopus 로고
    • Statistical analysis of diversification with species traits
    • Paradis E. 2005. Statistical analysis of diversification with species traits. Evolution 59: 1-12.
    • (2005) Evolution , vol.59 , pp. 1-12
    • Paradis, E.1
  • 231
    • 77949527981 scopus 로고    scopus 로고
    • pegas: An R package for population genetics with an integrated-modular approach
    • Paradis E. 2010. pegas: An R package for population genetics with an integrated-modular approach. Bioinformatics 26: 419-420.
    • (2010) Bioinformatics , vol.26 , pp. 419-420
    • Paradis, E.1
  • 232
    • 79952045899 scopus 로고    scopus 로고
    • Time-dependent speciation and extinction from phylogenies: A least squares approach
    • Paradis E. 2011. Time-dependent speciation and extinction from phylogenies: A least squares approach. Evolution 65: 661-672.
    • (2011) Evolution , vol.65 , pp. 661-672
    • Paradis, E.1
  • 234
    • 0036402267 scopus 로고    scopus 로고
    • Analysis of comparative data using generalized estimating equations
    • Paradis E. & Claude J. 2002. Analysis of comparative data using generalized estimating equations. Journal of Theoretical Biology 218: 175-185.
    • (2002) Journal of Theoretical Biology , vol.218 , pp. 175-185
    • Paradis, E.1    Claude, J.2
  • 235
    • 1042304216 scopus 로고    scopus 로고
    • APE: analyses of phylogenetics and evolution in R language
    • Paradis E., Claude J. & Strimmer K. 2004. APE: analyses of phylogenetics and evolution in R language. Bioinformatics 20: 289-290.
    • (2004) Bioinformatics , vol.20 , pp. 289-290
    • Paradis, E.1    Claude, J.2    Strimmer, K.3
  • 236
    • 0033928038 scopus 로고    scopus 로고
    • Direct calculation of a tree length using a distance matrix
    • Pauplin Y. 2000. Direct calculation of a tree length using a distance matrix. Journal of Molecular Evolution 51: 41-47.
    • (2000) Journal of Molecular Evolution , vol.51 , pp. 41-47
    • Pauplin, Y.1
  • 237
    • 77955263611 scopus 로고    scopus 로고
    • Decomposition of trait diversity among the nodes of a phylogenetic tree
    • Pavoine S., Baguette M. & Bonsall M. B. 2010. Decomposition of trait diversity among the nodes of a phylogenetic tree. Ecological Monographs 80: 485-507.
    • (2010) Ecological Monographs , vol.80 , pp. 485-507
    • Pavoine, S.1    Baguette, M.2    Bonsall, M.B.3
  • 238
    • 20444389407 scopus 로고    scopus 로고
    • Is the originality of a species measurable?
    • Pavoine S., Ollier S. & Dufour A.-B. 2005. Is the originality of a species measurable? Ecology Letters 8: 579-586.
    • (2005) Ecology Letters , vol.8 , pp. 579-586
    • Pavoine, S.1    Ollier, S.2    Dufour, A.-B.3
  • 239
    • 18844397307 scopus 로고    scopus 로고
    • Measuring diversity from dissimilarities with Rao's quadratic entropy: Are any dissimilarities suitable?
    • Pavoine S., Ollier S. & Pontier D. 2005. Measuring diversity from dissimilarities with Rao's quadratic entropy: Are any dissimilarities suitable? Theoretical Population Biology 67: 231-239.
    • (2005) Theoretical Population Biology , vol.67 , pp. 231-239
    • Pavoine, S.1    Ollier, S.2    Pontier, D.3
  • 240
    • 37849013027 scopus 로고    scopus 로고
    • Testing for phylogenetic signal in phenotypic traits: New matrices of phylogenetic proximities
    • Pavoine S., Ollier S., Pontier D. & Chessel D. 2008. Testing for phylogenetic signal in phenotypic traits: New matrices of phylogenetic proximities. Theoretical Population Biology 73: 79-91.
    • (2008) Theoretical Population Biology , vol.73 , pp. 79-91
    • Pavoine, S.1    Ollier, S.2    Pontier, D.3    Chessel, D.4
  • 241
    • 0002393841 scopus 로고
    • The use of tree comparison metrics
    • Penny D. & Hendy M. D. 1985. The use of tree comparison metrics. Systematic Zoology 34: 75-82.
    • (1985) Systematic Zoology , vol.34 , pp. 75-82
    • Penny, D.1    Hendy, M.D.2
  • 243
    • 0037289895 scopus 로고    scopus 로고
    • A note on distributions of times to coalescence, under time-dependent population size
    • Polanski A., Bobrowski A. & Kimmel M. 2003. A note on distributions of times to coalescence, under time-dependent population size. Theoretical Population Biology 63: 33-40.
    • (2003) Theoretical Population Biology , vol.63 , pp. 33-40
    • Polanski, A.1    Bobrowski, A.2    Kimmel, M.3
  • 244
    • 9644301241 scopus 로고    scopus 로고
    • Model selection and model averaging in phylogenetics: advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests
    • Posada D. & Buckley T. R. 2004. Model selection and model averaging in phylogenetics: advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests. Systematic Biology 53: 793-808.
    • (2004) Systematic Biology , vol.53 , pp. 793-808
    • Posada, D.1    Buckley, T.R.2
  • 245
    • 0031773680 scopus 로고    scopus 로고
    • MODELTEST: testing the model of DNA substitution
    • Posada D. & Crandall K. A. 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
  • 246
    • 0035527410 scopus 로고    scopus 로고
    • Selecting the best-fit model of nucleotide substitution
    • Posada D. & Crandall K. A. 2001. Selecting the best-fit model of nucleotide substitution. Systematic Biology 50: 580-601.
    • (2001) Systematic Biology , vol.50 , pp. 580-601
    • Posada, D.1    Crandall, K.A.2
  • 247
    • 0036900111 scopus 로고    scopus 로고
    • Combining multiple data sets in a likelihood analysis: which models are the best?
    • Pupko T., Huchon D., Cao Y., Okada N. & Hasegawa M. 2002. Combining multiple data sets in a likelihood analysis: which models are the best? Molecular Biology and Evolution 19: 2294-2307.
    • (2002) Molecular Biology and Evolution , vol.19 , pp. 2294-2307
    • Pupko, T.1    Huchon, D.2    Cao, Y.3    Okada, N.4    Hasegawa, M.5
  • 248
    • 12044252802 scopus 로고
    • Polytomies in comparative analyses of continuous characters
    • Purvis A. & Garland Jr. T. 1993. Polytomies in comparative analyses of continuous characters. Systematic Biology 42: 569-575.
    • (1993) Systematic Biology , vol.42 , pp. 569-575
    • Purvis, A.1    Garland, T.2
  • 251
    • 0036964355 scopus 로고    scopus 로고
    • New inferences from tree shape: numbers of missing taxa and population growth rates
    • Pybus O. G., Rambaut A., Holmes E. C. & Harvey P. H. 2002. New inferences from tree shape: numbers of missing taxa and population growth rates. Systematic Biology 51: 881-888.
    • (2002) Systematic Biology , vol.51 , pp. 881-888
    • Pybus, O.G.1    Rambaut, A.2    Holmes, E.C.3    Harvey, P.H.4
  • 255
    • 85129154611 scopus 로고    scopus 로고
    • LASER: A maximum likelihood toolkit for detecting temporal shifts in diversification rates from molecular phylogenies
    • Rabosky D. L. 2006. LASER: A maximum likelihood toolkit for detecting temporal shifts in diversification rates from molecular phylogenies. Evolutionary Bioinformatics 2: 257-260.
    • (2006) Evolutionary Bioinformatics , vol.2 , pp. 257-260
    • Rabosky, D.L.1
  • 256
    • 33748559495 scopus 로고    scopus 로고
    • Likelihood methods for detecting temporal shifts in diversification rates
    • Rabosky D. L. 2006. Likelihood methods for detecting temporal shifts in diversification rates. Evolution 60: 1152-1164.
    • (2006) Evolution , vol.60 , pp. 1152-1164
    • Rabosky, D.L.1
  • 259
    • 47749105699 scopus 로고    scopus 로고
    • Explosive evolutionary radiations: decreasing speciation or increasing extinction through time?
    • Rabosky D. L. & Lovette I. J. 2008. Explosive evolutionary radiations: decreasing speciation or increasing extinction through time? Evolution 62: 1866-1875.
    • (2008) Evolution , vol.62 , pp. 1866-1875
    • Rabosky, D.L.1    Lovette, I.J.2
  • 260
    • 0030928378 scopus 로고    scopus 로고
    • Seq-Gen: An application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees
    • Rambaut A. & Grassly N. C. 1997. Seq-Gen: An application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees. Computer Applications in the Biosciences 13: 235-238.
    • (1997) Computer Applications in the Biosciences , vol.13 , pp. 235-238
    • Rambaut, A.1    Grassly, N.C.2
  • 261
    • 0003143622 scopus 로고
    • Diversity and dissimilarity coefficients: A unified approach
    • Rao C. R. 1982. Diversity and dissimilarity coefficients: A unified approach. Theoretical Population Biology 21: 24-43.
    • (1982) Theoretical Population Biology , vol.21 , pp. 24-43
    • Rao, C.R.1
  • 263
    • 33845507435 scopus 로고    scopus 로고
    • Incorporating evolutionary measures into conservation prioritization
    • Redding D. W. & Mooers A. O. 2006. Incorporating evolutionary measures into conservation prioritization. Conservation Biology 20: 1670-1678.
    • (2006) Conservation Biology , vol.20 , pp. 1670-1678
    • Redding, D.W.1    Mooers, A.O.2
  • 264
    • 67649223800 scopus 로고    scopus 로고
    • Prospects and challenges for parametric models in historical biogeographical inference
    • Ree R. H. & Sanmartin I. 2009. Prospects and challenges for parametric models in historical biogeographical inference. Journal of Biogeography 36: 1211-1220.
    • (2009) Journal of Biogeography , vol.36 , pp. 1211-1220
    • Ree, R.H.1    Sanmartin, I.2
  • 265
    • 47749135700 scopus 로고    scopus 로고
    • Maximum likelihood inference of geographic range evolution by dispersal, local extinction, and cladogenesis
    • Ree R. H. & Smith S. A. 2008. Maximum likelihood inference of geographic range evolution by dispersal, local extinction, and cladogenesis. Systematic Biology 57: 4-14.
    • (2008) Systematic Biology , vol.57 , pp. 4-14
    • Ree, R.H.1    Smith, S.A.2
  • 266
    • 70350280178 scopus 로고    scopus 로고
    • Size-correction and principal components for interspecific comparative studies
    • Revell L. J. 2009. Size-correction and principal components for interspecific comparative studies. Evolution 63: 3258-3268.
    • (2009) Evolution , vol.63 , pp. 3258-3268
    • Revell, L.J.1
  • 267
  • 268
    • 0034487265 scopus 로고    scopus 로고
    • Comparative analysis of phylogenetic and fishing effects in life history patterns of teleost fishes
    • Rochet M.-J., Cornillon P.-A., Sabatier R. & Pontier D. 2000. Comparative analysis of phylogenetic and fishing effects in life history patterns of teleost fishes. Oikos 91: 255-270.
    • (2000) Oikos , vol.91 , pp. 255-270
    • Rochet, M.-J.1    Cornillon, P.-A.2    Sabatier, R.3    Pontier, D.4
  • 270
    • 0031476053 scopus 로고    scopus 로고
    • Dispersal-vicariance analysis: a new approach to the quantification of historical biogeography
    • Ronquist F. 1997. Dispersal-vicariance analysis: a new approach to the quantification of historical biogeography. Systematic Biology 46: 195-203.
    • (1997) Systematic Biology , vol.46 , pp. 195-203
    • Ronquist, F.1
  • 271
    • 67349159068 scopus 로고    scopus 로고
    • MtZoa: a general mitochondrial amino acid substitutions model for animal evolutionary studies
    • Rota-Stabelli O., Yang Z. & Telford M. 2009. MtZoa: a general mitochondrial amino acid substitutions model for animal evolutionary studies. Molecular Phylogenetics and Evolution 52: 268-272.
    • (2009) Molecular Phylogenetics and Evolution , vol.52 , pp. 268-272
    • Rota-Stabelli, O.1    Yang, Z.2    Telford, M.3
  • 272
    • 0026660413 scopus 로고
    • A simple method for estimating and testing minimum-evolution trees
    • Rzhetsky A. & Nei M. 1992. A simple method for estimating and testing minimum-evolution trees. Molecular Biology and Evolution 9: 945-967.
    • (1992) Molecular Biology and Evolution , vol.9 , pp. 945-967
    • Rzhetsky, A.1    Nei, M.2
  • 273
    • 0027185401 scopus 로고
    • Theoretical foundation of the minimumevolution method of phylogenetic inference
    • Rzhetsky A. & Nei M. 1993. Theoretical foundation of the minimumevolution method of phylogenetic inference. Molecular Biology and Evolution 10: 1073-1095.
    • (1993) Molecular Biology and Evolution , vol.10 , pp. 1073-1095
    • Rzhetsky, A.1    Nei, M.2
  • 274
    • 77749279679 scopus 로고    scopus 로고
    • Phylogenetically structured variance in felid bite force: the role of phylogeny in the evolution of biting performance
    • Sakamoto M., Lloyd G. T. & Benton M. J. 2010. Phylogenetically structured variance in felid bite force: the role of phylogeny in the evolution of biting performance. Journal of Evolutionary Biology 23: 463-478.
    • (2010) Journal of Evolutionary Biology , vol.23 , pp. 463-478
    • Sakamoto, M.1    Lloyd, G.T.2    Benton, M.J.3
  • 275
    • 0030773749 scopus 로고    scopus 로고
    • A nonparametric approach to estimating divergence times in the absence of rate constancy
    • Sanderson M. J. 1997. A nonparametric approach to estimating divergence times in the absence of rate constancy. Molecular Biology and Evolution 14: 1218-1231.
    • (1997) Molecular Biology and Evolution , vol.14 , pp. 1218-1231
    • Sanderson, M.J.1
  • 276
    • 0036135468 scopus 로고    scopus 로고
    • Estimating absolute rates of molecular evolution and divergence times: a penalized likelihood approach
    • Sanderson M. J. 2002. Estimating absolute rates of molecular evolution and divergence times: a penalized likelihood approach. Molecular Biology and Evolution 19: 101-109.
    • (2002) Molecular Biology and Evolution , vol.19 , pp. 101-109
    • Sanderson, M.J.1
  • 278
    • 79951548848 scopus 로고    scopus 로고
    • phangorn: Phylogenetic analysis in R
    • Schliep K. P. 2011. phangorn: Phylogenetic analysis in R. Bioinformatics 27: 592-593.
    • (2011) Bioinformatics , vol.27 , pp. 592-593
    • Schliep, K.P.1
  • 279
    • 0031417707 scopus 로고    scopus 로고
    • Likelihood of ancestor states in adaptive radiation
    • Schluter D., Price T., Mooers A. Ø. & Ludwig D. 1997. Likelihood of ancestor states in adaptive radiation. Evolution 51: 1699-1711.
    • (1997) Evolution , vol.51 , pp. 1699-1711
    • Schluter, D.1    Price, T.2    Mooers, A.O.3    Ludwig, D.4
  • 280
    • 79955751114 scopus 로고    scopus 로고
    • Nocturnality in dinosaurs inferred from scleral ring and orbit morphology
    • Schmitz L. & Motani R. 2011. Nocturnality in dinosaurs inferred from scleral ring and orbit morphology. Science 332: 705-708.
    • (2011) Science , vol.332 , pp. 705-708
    • Schmitz, L.1    Motani, R.2
  • 281
    • 0000858427 scopus 로고
    • The Anolis lizards of Bimini: Resource partitioning in a complex fauna
    • Schoener T. W. 1968. The Anolis lizards of Bimini: Resource partitioning in a complex fauna. Ecology 49: 704-726.
    • (1968) Ecology , vol.49 , pp. 704-726
    • Schoener, T.W.1
  • 283
    • 0032766857 scopus 로고    scopus 로고
    • Multiple comparisons of loglikelihoods with applications to phylogenetic inference
    • Shimodaira H. & Hasegawa M. 1999. Multiple comparisons of loglikelihoods with applications to phylogenetic inference. Molecular Biology and Evolution 16: 1114-1116.
    • (1999) Molecular Biology and Evolution , vol.16 , pp. 1114-1116
    • Shimodaira, H.1    Hasegawa, M.2
  • 286
    • 0027137315 scopus 로고
    • Testing whether certain traits have caused amplified diversification: an improved method based on a model of random speciation and extinction
    • Slowinski J. B. & Guyer C. 1993. Testing whether certain traits have caused amplified diversification: an improved method based on a model of random speciation and extinction. American Naturalist 142: 1019-1024.
    • (1993) American Naturalist , vol.142 , pp. 1019-1024
    • Slowinski, J.B.1    Guyer, C.2
  • 287
    • 33750403801 scopus 로고    scopus 로고
    • RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
    • Stamatakis A. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-2690.
    • (2006) Bioinformatics , vol.22 , pp. 2688-2690
    • Stamatakis, A.1
  • 288
    • 14644397888 scopus 로고    scopus 로고
    • RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees
    • Stamatakis A., Ludwig T. & Meier H. 2005. RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees. Bioinformatics 21: 456-463.
    • (2005) Bioinformatics , vol.21 , pp. 456-463
    • Stamatakis, A.1    Ludwig, T.2    Meier, H.3
  • 290
    • 12044252586 scopus 로고
    • Distributions of tree comparison metrics- Some new results
    • Steel M. A. & Penny D. 1993. Distributions of tree comparison metrics- Some new results. Systematic Biology 42: 126-141.
    • (1993) Systematic Biology , vol.42 , pp. 126-141
    • Steel, M.A.1    Penny, D.2
  • 291
  • 292
    • 0041149190 scopus 로고
    • Anderson-Darling test for goodness of fit
    • Kotz S. & Johnson N. L., editors,. John Wiley & Sons, New York
    • Stephens M. A. 1982. Anderson-Darling test for goodness of fit. In: Encyclopedia of statistical science. Volume 1, Kotz S. & Johnson N. L., editors, pages 81-85. John Wiley & Sons, New York.
    • (1982) Encyclopedia of statistical science , vol.1 , pp. 1-85
    • Stephens, M.A.1
  • 294
    • 0000142497 scopus 로고
    • Reconstructing ancestral character states under Wagner parsimony
    • Swofford D. L. & Maddison W. P. 1987. Reconstructing ancestral character states under Wagner parsimony. Mathematical Biosciences 87: 199-229.
    • (1987) Mathematical Biosciences , vol.87 , pp. 199-229
    • Swofford, D.L.1    Maddison, W.P.2
  • 295
    • 0346467488 scopus 로고
    • Goodness of fit. In: Encyclopedia of statistical science
    • Kotz S. & Johnson N. L., editors,. John Wiley & Sons, New York.
    • Tallis G. M. 1983. Goodness of fit. In: Encyclopedia of statistical science. Volume 3, Kotz S. & Johnson N. L., editors, pages 451-461. John Wiley & Sons, New York.
    • (1983) , vol.3 , pp. 451-461
    • Tallis, G.M.1
  • 296
    • 0026711010 scopus 로고
    • Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G+C-content biases
    • Tamura K. 1992. Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G+C-content biases. Molecular Biology and Evolution 9: 678-687.
    • (1992) Molecular Biology and Evolution , vol.9 , pp. 678-687
    • Tamura, K.1
  • 297
    • 0027157960 scopus 로고
    • Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
    • Tamura K. & Nei M. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Molecular Biology and Evolution 10: 512-526.
    • (1993) Molecular Biology and Evolution , vol.10 , pp. 512-526
    • Tamura, K.1    Nei, M.2
  • 298
    • 3342920601 scopus 로고    scopus 로고
    • Prospects for inferring very large phylogenies by using the neighbor-joining method
    • Tamura K., Nei M. & Kumar S. 2004. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proceedings of the National Academy of Sciences USA 101: 11030-11035.
    • (2004) Proceedings of the National Academy of Sciences USA , vol.101 , pp. 11030-11035
    • Tamura, K.1    Nei, M.2    Kumar, S.3
  • 299
    • 0031574072 scopus 로고    scopus 로고
    • The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools
    • Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F. & Higgins D. G. 1997. The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 25: 4876-4882.
    • (1997) Nucleic Acids Research , vol.25 , pp. 4876-4882
    • Thompson, J.D.1    Gibson, T.J.2    Plewniak, F.3    Jeanmougin, F.4    Higgins, D.G.5
  • 300
    • 0031741182 scopus 로고    scopus 로고
    • Estimating the rate of evolution of the rate of molecular evolution
    • Thorne J. L., Kishino H. & Painter I. S. 1998. Estimating the rate of evolution of the rate of molecular evolution. Molecular Biology and Evolution 15: 1647-1657.
    • (1998) Molecular Biology and Evolution , vol.15 , pp. 1647-1657
    • Thorne, J.L.1    Kishino, H.2    Painter, I.S.3
  • 303
    • 58849095783 scopus 로고    scopus 로고
    • Emerging patterns in the comparative analysis of phylogenetic community structure
    • Vamosi S. M., Heard S. B., Vamosi J. C. & Webb C. O. 2009. Emerging patterns in the comparative analysis of phylogenetic community structure. Molecular Ecology 18: 572-592.
    • (2009) Molecular Ecology , vol.18 , pp. 572-592
    • Vamosi, S.M.1    Heard, S.B.2    Vamosi, J.C.3    Webb, C.O.4
  • 304
    • 20644442464 scopus 로고    scopus 로고
    • Endless tests: guidelines for analysing non-nested sister-group comparisons
    • Vamosi S. M. & Vamosi J. C. 2005. Endless tests: guidelines for analysing non-nested sister-group comparisons. Evolutionary Ecology Research 7: 567-579.
    • (2005) Evolutionary Ecology Research , vol.7 , pp. 567-579
    • Vamosi, S.M.1    Vamosi, J.C.2
  • 310
    • 54849427082 scopus 로고    scopus 로고
    • Environmental niche equivalency versus conservatism: quantitative approaches to niche evolution
    • Warren D. L., Glor R. E. & Turelli M. 2008. Environmental niche equivalency versus conservatism: quantitative approaches to niche evolution. Evolution 62: 2868-2883.
    • (2008) Evolution , vol.62 , pp. 2868-2883
    • Warren, D.L.1    Glor, R.E.2    Turelli, M.3
  • 311
    • 0035031966 scopus 로고    scopus 로고
    • A general empirical model of protein evolution derived from multiple protein families using a maximumlikelihood approach
    • Whelan S. & Goldman N. 2001. A general empirical model of protein evolution derived from multiple protein families using a maximumlikelihood approach. Molecular Biology and Evolution 18: 691-699.
    • (2001) Molecular Biology and Evolution , vol.18 , pp. 691-699
    • Whelan, S.1    Goldman, N.2
  • 313
    • 0027333304 scopus 로고
    • Diversification of carnivorous parasitic insects: extraordinary radiation or specialized dead end?
    • Wiegmann B., Mitter C. & Farrell B. 1993. Diversification of carnivorous parasitic insects: extraordinary radiation or specialized dead end? American Naturalist 142: 737-754.
    • (1993) American Naturalist , vol.142 , pp. 737-754
    • Wiegmann, B.1    Mitter, C.2    Farrell, B.3
  • 314
    • 0028214103 scopus 로고
    • Estimating the pattern of nucleotide substitution
    • Yang Z. 1994. Estimating the pattern of nucleotide substitution. Journal of Molecular Evolution 39: 105-111.
    • (1994) Journal of Molecular Evolution , vol.39 , pp. 105-111
    • Yang, Z.1
  • 315
    • 0028064845 scopus 로고
    • Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods
    • Yang Z. 1994. Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods. Journal of Molecular Evolution 39: 306-314.
    • (1994) Journal of Molecular Evolution , vol.39 , pp. 306-314
    • Yang, Z.1
  • 316
    • 0030451420 scopus 로고    scopus 로고
    • Among-site rate variation and its impact on phylogenetic analyses
    • Yang Z. 1996. Among-site rate variation and its impact on phylogenetic analyses. Trends in Ecology & Evolution 11: 367-372.
    • (1996) Trends in Ecology & Evolution , vol.11 , pp. 367-372
    • Yang, Z.1
  • 318
    • 0031792828 scopus 로고    scopus 로고
    • Models of amino acid substitution and applications to Mitochondrial protein evolution
    • Yang Z., Nielsen R. & Hasegawa M. 1998. Models of amino acid substitution and applications to Mitochondrial protein evolution. Molecular Biology and Evolution 15: 1600-1611.
    • (1998) Molecular Biology and Evolution , vol.15 , pp. 1600-1611
    • Yang, Z.1    Nielsen, R.2    Hasegawa, M.3


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