메뉴 건너뛰기




Volumn 35, Issue 3, 2010, Pages 578-592

Effects of substitution models on divergence time estimates: Simulations and an empirical study of model uncertainty using cornales

Author keywords

Branch length; model misspecification; molecular clock; molecular dating analysis; penalized likelihood; simulations; substitution models

Indexed keywords

CORNALES;

EID: 77956552647     PISSN: 03636445     EISSN: 15482324     Source Type: Journal    
DOI: 10.1600/036364410792495809     Document Type: Article
Times cited : (36)

References (90)
  • 1
    • 0037393246 scopus 로고    scopus 로고
    • An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG II
    • (APG) The Angiosperm Phylogeny Group
    • The Angiosperm Phylogeny Group. 2003. An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG II. Botanical Journal of the Linnean Society 141: 399-436.
    • (2003) Botanical Journal of the Linnean Society , vol.141 , pp. 399-436
  • 3
    • 13444292467 scopus 로고    scopus 로고
    • Dating the Dipsacales: Comparing models, genes, and evolutionary implications
    • Bell, C. D. and M. J. Donoghue. 2005. Dating the Dipsacales: comparing models, genes, and evolutionary implications. American Journal of Botany 92: 284-296.
    • (2005) American Journal of Botany , vol.92 , pp. 284-296
    • Bell, C.D.1    Donoghue, M.J.2
  • 4
    • 9644260415 scopus 로고    scopus 로고
    • Using models of nucleotide evolution to build phylogenetic trees
    • Bos, D. H. and D. Posada. 2005. Using models of nucleotide evolution to build phylogenetic trees. Developmental and Comparative Immunology 29: 211-227.
    • (2005) Developmental and Comparative Immunology , vol.29 , pp. 211-227
    • Bos, D.H.1    Posada, D.2
  • 6
    • 3242670510 scopus 로고    scopus 로고
    • Molecular phylogenetic dating of asterid flowering plants shows Early Cretaceous diversification
    • Bremer, K., E. M. Friis, and B. Bremer. 2004. Molecular phylogenetic dating of asterid flowering plants shows Early Cretaceous diversification. Systematic Biology 53: 496-505.
    • (2004) Systematic Biology , vol.53 , pp. 496-505
    • Bremer, K.1    Friis, E.M.2    Bremer, B.3
  • 8
    • 0035527383 scopus 로고    scopus 로고
    • Exploring among-site rate variation models in a maximum likelihood framework using empirical data: Effects of model assumptions on estimates of topology, branch lengths, and bootstrap support
    • Buckley, T. R., C. Simon, and G. K. Chambers. 2001. Exploring among-site rate variation models in a maximum likelihood framework using empirical data: effects of model assumptions on estimates of topology, branch lengths, and bootstrap support. Systematic Biology 50: 67-86.
    • (2001) Systematic Biology , vol.50 , pp. 67-86
    • Buckley, T.R.1    Simon, C.2    Chambers, G.K.3
  • 9
    • 54549125844 scopus 로고    scopus 로고
    • The taming of the skew: Estimating proper confidence intervals for divergence dates
    • Burbink, F. T. and R. A. Pyron. 2008. The taming of the skew: estimating proper confidence intervals for divergence dates. Systematic Biology 57: 317-328.
    • (2008) Systematic Biology , vol.57 , pp. 317-328
    • Burbink, F.T.1    Pyron, R.A.2
  • 10
    • 0031713421 scopus 로고    scopus 로고
    • Best-fit maximum-likelihood models for phylogenetic inference: Empirical tests with known phylogenies
    • Cunningham, C. W., H. Zhu, and D. M. Hillis. 1998. Best-fit maximum-likelihood models for phylogenetic inference: empirical tests with known phylogenies. Evolution 52: 978-987.
    • (1998) Evolution , vol.52 , pp. 978-987
    • Cunningham, C.W.1    Zhu, H.2    Hillis, D.M.3
  • 11
    • 0002639034 scopus 로고
    • Pollen and Spores: patterns of diversification, ed. Blackmore, S. and S. H. Barnes. Oxford: Clarendon Press
    • Doyle, J. A. and C. L. Hotton. 1991. Pp. 169-195 in Diversification of early angiosperm pollen in a cladistic context. In Pollen and Spores: patterns of diversification, ed. Blackmore, S. and S. H. Barnes. Oxford: Clarendon Press.
    • (1991) Diversification of Early Angiosperm Pollen in A Cladistic Context , pp. 169-195
    • Doyle, J.A.1    Hotton, C.L.2
  • 12
    • 38649110663 scopus 로고    scopus 로고
    • BEAST: Bayesian evolutionary analysis by sampling trees
    • Drummond, A. J. and A. Rambaut. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evolutionary Biology 7: 214.
    • (2007) BMC Evolutionary Biology , vol.7 , pp. 214
    • Drummond, A.J.1    Rambaut, A.2
  • 13
    • 0000500344 scopus 로고
    • Archamamelis, hamamelidalean flowers from the Upper Cretaceous of Sweden
    • Endress, P. K. and E. M. Friis. 1991. Archamamelis, hamamelidalean flowers from the Upper Cretaceous of Sweden. Plant Systematics and Evolution 175: 101-114.
    • (1991) Plant Systematics and Evolution , vol.175 , pp. 101-114
    • Endress, P.K.1    Friis, E.M.2
  • 14
    • 4944237780 scopus 로고    scopus 로고
    • Stockholm: Bergius Botanic Garden. Available at
    • Eriksson, T. 2002. The r8s-bootstrap-kit. Stockholm: Bergius Botanic Garden. Available at: http://www.bergianska.se/index-forskning-soft.html.
    • (2002) The r8s-bootstrap-kit
    • Eriksson, T.1
  • 15
    • 51849181764 scopus 로고
    • Comprehending Cornus: Puzzles and progress in the sys-tematics of the dogwoods
    • Eyde, R. H. 1988. Comprehending Cornus: puzzles and progress in the sys-tematics of the dogwoods. Botanical Review 54: 233-351.
    • (1988) Botanical Review , vol.54 , pp. 233-351
    • Eyde, R.H.1
  • 17
    • 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
  • 18
    • 0000461280 scopus 로고
    • Confidence intervals on phylogenies: An approach using the bootstrap
    • Felsenstein, J. 1985. Confidence intervals on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
    • (1985) Evolution , vol.39 , pp. 783-791
    • Felsenstein, J.1
  • 19
    • 0003437299 scopus 로고    scopus 로고
    • version 3.6. Distributed by the author. Seattle: Department of Genome Sciences, University of Washington
    • Felsenstein, J. 2005. PHYLIP (Phylogeny Inference Package) version 3.6. Distributed by the author. Seattle: Department of Genome Sciences, University of Washington.
    • (2005) PHYLIP (Phylogeny Inference Package)
    • Felsenstein, J.1
  • 20
    • 0035527390 scopus 로고    scopus 로고
    • Phylogeny of Saxifragales (angiosperms, eudicots): Analysis of a rapid, ancient radiation
    • Fishbein, M., C.Hibsch-Jetter, D. E.Soltis, and L. Hufford. 2001. Phylogeny of Saxifragales (angiosperms, eudicots): analysis of a rapid, ancient radiation. Systematic Biology 50: 817-847.
    • (2001) Systematic Biology , vol.50 , pp. 817-847
    • Fishbein, M.1    Hibsch-Jetter, C.2    Soltis, D.3    Hufford, L.4
  • 21
    • 0021003230 scopus 로고
    • Estimates of DNA and protein sequence divergence: An examination of some assumptions
    • Golding, G. B. 1983. Estimates of DNA and protein sequence divergence: an examination of some assumptions. Molecular Biology and Evolution 1: 125-142.
    • (1983) Molecular Biology and Evolution , vol.1 , pp. 125-142
    • Golding, G.B.1
  • 22
    • 2442719922 scopus 로고    scopus 로고
    • Cambridge: Cambridge University Press. [Stratigraphic chart provided by the International Commission on Stratigraphy]
    • Gradstein, F. M., J. G. Ogg, and A. G. Smith. 2004. A Geologic Time Scale. Cambridge: Cambridge University Press. [Stratigraphic chart provided by the International Commission on Stratigraphy; www. stratigraphy.org/cheu.pdf].
    • (2004) A Geologic Time Scale
    • Gradstein, F.M.1    Ogg, J.G.2    Smith, A.G.3
  • 23
    • 1642554676 scopus 로고    scopus 로고
    • Reading the entrails of chickens: Molecular timescales of evolution and the illusion of precision
    • Graur, D. and W. Martin. 2004. Reading the entrails of chickens: molecular timescales of evolution and the illusion of precision. Trends in Genetics 20: 80-86.
    • (2004) Trends in Genetics , vol.20 , pp. 80-86
    • Graur, D.1    Martin, W.2
  • 24
    • 0032025857 scopus 로고    scopus 로고
    • Is it better to add taxa or characters to a difficult phylo-genetic problem?
    • Graybeal, A. 1998. Is it better to add taxa or characters to a difficult phylo-genetic problem? Systematic Biology 47: 9-17.
    • (1998) Systematic Biology , vol.47 , pp. 9-17
    • Graybeal, A.1
  • 25
    • 0029068893 scopus 로고
    • Maximum likelihood estimation of the heterogeneity of substitution rate among nucleotide sites
    • Gu, X., Y.-X. Fu, and W.-H. Li. 1995. Maximum likelihood estimation of the heterogeneity of substitution rate among nucleotide sites. Molecular Biology and Evolution 12: 546-557.
    • (1995) Molecular Biology and Evolution , vol.12 , pp. 546-557
    • Gu, X.1    Fu, Y.-X.2    Li, W.-H.3
  • 26
    • 0022376704 scopus 로고
    • Dating the human-ape splitting by a molecular clock of mitochondrial DNA
    • Hasegawa, M., K. Kishino, and T. Yano. 1985. Dating the human-ape splitting by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution 22: 160-174.
    • (1985) Journal of Molecular Evolution , vol.22 , pp. 160-174
    • Hasegawa, M.1    Kishino, K.2    Yano, T.3
  • 27
    • 0346936227 scopus 로고    scopus 로고
    • Divisestylus gen. nov. (Aff. Iteaceae), a fossil saxifrage from the Late Cretaceous of New Jersey, USA
    • Hermsen, E. J., M. A. Gandolfo, K. C. Nixon, and W. L. Crepet. 2003. Divisestylus gen. nov. (Aff. Iteaceae), a fossil saxifrage from the Late Cretaceous of New Jersey, USA. American Journal of Botany 90: 1373-1388.
    • (2003) American Journal of Botany , vol.90 , pp. 1373-1388
    • Hermsen, E.J.1    Gandolfo, M.A.2    Nixon, K.C.3    Crepet, W.L.4
  • 29
    • 67649566183 scopus 로고    scopus 로고
    • Hydrangeaceae
    • ed. K. Kubitzki. New York: Springer-Verlag Berlin Heidelber
    • Hufford, L. 2004. Hydrangeaceae. Pp. 202-215 in The Families and Genera of Vascular Plants, vol.VI, ed. K. Kubitzki. New York: Springer-Verlag Berlin Heidelber.
    • (2004) The Families and Genera of Vascular Plants , vol.6 , pp. 202-215
    • Hufford, L.1
  • 30
    • 0041926467 scopus 로고    scopus 로고
    • The major clades of Loasaceae: Phylogenetic analysis using the plastid matK and trnL-trnF regions
    • Hufford, L., M. M. McMahon, A. M. Sherwood, G. Reeves, and M. W. Chase. 2003. The major clades of Loasaceae: phylogenetic analysis using the plastid matK and trnL-trnF regions. American Journal of Botany 90: 1215-1228.
    • (2003) American Journal of Botany , vol.90 , pp. 1215-1228
    • Hufford, L.1    McMahon, M.M.2    Sherwood, A.M.3    Reeves, G.4    Chase, M.W.5
  • 31
  • 32
    • 0034968699 scopus 로고    scopus 로고
    • A phylogenetic analysis of Hydrangeaceae based on sequences of the plastid gene matK and their combination with rbcL and morphological data
    • Hufford, L., M. L. Moody, and D. E. Soltis. 2001. A phylogenetic analysis of Hydrangeaceae based on sequences of the plastid gene matK and their combination with rbcL and morphological data. International Journal of Plant Sciences 162: 835-846.
    • (2001) International Journal of Plant Sciences , vol.162 , pp. 835-846
    • Hufford, L.1    Moody, M.L.2    Soltis, D.E.3
  • 33
    • 34547762740 scopus 로고    scopus 로고
    • The impact of fossils and taxon sampling on ancient molecular dating analyses
    • Hug, L. A. and A. J. Roger. 2007. The impact of fossils and taxon sampling on ancient molecular dating analyses. Molecular Biology and Evolution 24: 1889-1897.
    • (2007) Molecular Biology and Evolution , vol.24 , pp. 1889-1897
    • Hug, L.A.1    Roger, A.J.2
  • 34
    • 0000890115 scopus 로고
    • Phylogenetic inferenceinSaxifragaceae sensu stricto and Gilia (Polemoniaceae) using matK sequences
    • Johnson,L.E.andD.E.Soltis. 1995. Phylogenetic inferenceinSaxifragaceae sensu stricto and Gilia (Polemoniaceae) using matK sequences. Annals of the Missouri Botanical Garden 82: 149-175.
    • (1995) Annals of the Missouri Botanical Garden , vol.82 , pp. 149-175
    • Johnson, L.E.1    Soltis, D.E.2
  • 35
    • 0025061094 scopus 로고
    • Limitations of the evolutionary parsimony method of phylogenetic analysis
    • Jin, L. and M. Nei. 1990. Limitations of the evolutionary parsimony method of phylogenetic analysis. Molecular Biology and Evolution 7 82-102.
    • (1990) Molecular Biology and Evolution , vol.7 , pp. 82-102
    • Jin, L.1    Nei, M.2
  • 36
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • ed. H. M. Munro. New York: Academic Press
    • Jukes, T. H. and C. R. Cantor. 1969. Evolution of protein molecules. Pp. 21-132 in Mammalian Protein Metabolism, ed. H. M. Munro. New York: Academic Press.
    • (1969) Mammalian Protein Metabolism , pp. 21-132
    • Jukes, T.H.1    Cantor, C.R.2
  • 38
    • 0029750565 scopus 로고    scopus 로고
    • Fossil flowers and fruits of the Actinidiaceae from the Campanian (Late Cretaceous) of Georgia
    • Keller, J. A., P. S. Herendeen, and P. R. Crane. 1996. Fossil flowers and fruits of the Actinidiaceae from the Campanian (Late Cretaceous) of Georgia. American Journal of Botany 83: 528-541.
    • (1996) American Journal of Botany , vol.83 , pp. 528-541
    • Keller, J.A.1    Herendeen, P.S.2    Crane, P.R.3
  • 39
    • 0019296687 scopus 로고
    • Asimple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences
    • Kimura, M. 1980.Asimple method for estimating evolutionary rate 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
  • 40
    • 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
  • 41
    • 0030864643 scopus 로고    scopus 로고
    • Phylogenetics relationships of Rhododendroideae (Ericaceae)
    • Kron, K. A. 1997. Phylogenetics relationships of Rhododendroideae (Ericaceae). American Journal of Botany 84: 973-980.
    • (1997) American Journal of Botany , vol.84 , pp. 973-980
    • Kron, K.A.1
  • 42
    • 67449163699 scopus 로고    scopus 로고
    • The effect of ambiguous data on phylogenetic estimates obtained by maximum likelihood and Bayesian inference
    • Lemmon, A. R., J. M. Brown, K. Stanger-Hall, and E. Moriarty-Lemmon. 2009. The effect of ambiguous data on phylogenetic estimates obtained by maximum likelihood and Bayesian inference. Systematic Biology 58: 130-145.
    • (2009) Systematic Biology , vol.58 , pp. 130-145
    • Lemmon, A.R.1    Brown, J.M.2    Stanger-Hall, K.3    Moriarty-Lemmon, E.4
  • 43
    • 2442581218 scopus 로고    scopus 로고
    • The importance of proper model assumption in Bayesian phylogenetics
    • Lemmon, A. R. and E. C. Moriarty. 2004. The importance of proper model assumption in Bayesian phylogenetics. Systematic Biology 53: 265-277.
    • (2004) Systematic Biology , vol.53 , pp. 265-277
    • Lemmon, A.R.1    Moriarty, E.C.2
  • 44
    • 77956522761 scopus 로고    scopus 로고
    • Phylogenetic reconstruction in the Hamamelidaceae based on matK gene DNA sequences
    • Li, J., A. L. Bogle, and A. S. Klein. 1997. Phylogenetic reconstruction in the Hamamelidaceae based on matK gene DNA sequences. American Journal of Botany 84 (6 supplement): 212.
    • (1997) American Journal of Botany , vol.84 , Issue.6 SUPPL. , pp. 212
    • Li, J.1    Bogle, A.L.2    Klein, A.S.3
  • 45
    • 18144364012 scopus 로고    scopus 로고
    • Taxon sampling effects in molecular clock dating: An example from the African Restionaceae
    • Linder, P. H., R. H. Christopher, and F. Rutschmann. 2005. Taxon sampling effects in molecular clock dating: an example from the African Restionaceae. Molecular Phylogenetics and Evolution 35: 569-582.
    • (2005) Molecular Phylogenetics and Evolution , vol.35 , pp. 569-582
    • Linder, P.H.1    Christopher, R.H.2    Rutschmann, F.3
  • 47
    • 0002425043 scopus 로고
    • Beitrage zur Geschichte einiger holziger Saxifragales-Gattungen
    • Mai, D. H. 1985. Beitrage zur Geschichte einiger holziger Saxifragales-Gattungen. Gleditschia 13: 75-88.
    • (1985) Gleditschia , vol.13 , pp. 75-88
    • Mai, D.H.1
  • 48
    • 0031926546 scopus 로고    scopus 로고
    • Contribution to the flora of the middle Oligocene Calau Beds in Brandenburg, Germany
    • Mai, D. H. 1998. Contribution to the flora of the middle Oligocene Calau Beds in Brandenburg, Germany. Review of Palaeobotany and Palynology 101: 43-70.
    • (1998) Review of Palaeobotany and Palynology , vol.101 , pp. 43-70
    • Mai, D.H.1
  • 49
    • 0028558169 scopus 로고
    • Fruits and seeds of the Middle Eocene Nut Beds Flora, Clarno Formation, Oregon
    • Manchester, S. R. 1994. Fruits and seeds of the Middle Eocene Nut Beds Flora, Clarno Formation, Oregon. Palaeontographica Americana 58: 1-205.
    • (1994) Palaeontographica Americana , vol.58 , pp. 1-205
    • Manchester, S.R.1
  • 50
    • 0036277508 scopus 로고    scopus 로고
    • Leaves and fruits of Davidia (Cornales) from the Paleocene of North America
    • Manchester, S. R. 2002. Leaves and fruits of Davidia (Cornales) from the Paleocene of North America. Systematic Botany 27: 368-382.
    • (2002) Systematic Botany , vol.27 , pp. 368-382
    • Manchester, S.R.1
  • 51
    • 0032966396 scopus 로고    scopus 로고
    • An extinct genus with affinities to extant Davidia and Camptotheca (Cornales) from the Paleocene of North America and Eastern Asia
    • Manchester, S. R., P. R. Crane, and L. B. Golovneva. 1999. An extinct genus with affinities to extant Davidia and Camptotheca (Cornales) from the Paleocene of North America and Eastern Asia. International Journal of Plant Sciences 160: 188-207.
    • (1999) International Journal of Plant Sciences , vol.160 , pp. 188-207
    • Manchester, S.R.1    Crane, P.R.2    Golovneva, L.B.3
  • 52
    • 4444369196 scopus 로고    scopus 로고
    • Phylogeny and biogeography of Rhododendron subsection Pontica, a group with a Tertiary relict distribution
    • Milne, R. I. 2004. Phylogeny and biogeography of Rhododendron subsection Pontica, a group with a Tertiary relict distribution. Molecular Phylogenetics and Evolution 33: 389-401.
    • (2004) Molecular Phylogenetics and Evolution , vol.33 , pp. 389-401
    • Milne, R.I.1
  • 53
    • 0242487488 scopus 로고    scopus 로고
    • Performance-based selection of likelihood models for phylogeny estimation
    • Minin, V., Z. Abdo, P. Joyce, and J. Sullivan. 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
  • 54
    • 0000719266 scopus 로고    scopus 로고
    • Phylogenetic relationships of Loasaceae subfamily Gronovioideae inferred from matK and its sequence data
    • Moody, M. L., L. Hufford, D. E. Soltis, and P. S. Soltis. 2001. Phylogenetic relationships of Loasaceae subfamily Gronovioideae inferred from matK and its sequence data. American Journal of Botany 88: 326-336.
    • (2001) American Journal of Botany , vol.88 , pp. 326-336
    • Moody, M.L.1    Hufford, L.2    Soltis, D.E.3    Soltis, P.S.4
  • 55
    • 0842345393 scopus 로고    scopus 로고
    • Biogeography of discontinuously distributed hydrophytes: A molecular appraisal of intercontinental disjunctions
    • Moody, M. L., D. H. Les, D. J. Crawford, R. T. Kimball, and E. Landolt. 2003. Biogeography of discontinuously distributed hydrophytes: a molecular appraisal of intercontinental disjunctions. International Journal of Plant Sciences 164: 917-932.
    • (2003) International Journal of Plant Sciences , vol.164 , pp. 917-932
    • Moody, M.L.1    Les, D.H.2    Crawford, D.J.3    Kimball, R.T.4    Landolt, E.5
  • 56
    • 0027382565 scopus 로고
    • Late Cretaceous fossil flowers of eri-calean affinity
    • Nixon, K. C. and W. L. Crepet. 1993. Late Cretaceous fossil flowers of eri-calean affinity. American Journal of Botany 80: 616-623.
    • (1993) American Journal of Botany , vol.80 , pp. 616-623
    • Nixon, K.C.1    Crepet, W.L.2
  • 57
    • 34250781238 scopus 로고    scopus 로고
    • Molecular phylogenetic evidence for the origin of a diploid hybrid of Paeonia (Paeoniaceae)
    • Pan, J., D. Zhang, and T. Sang. 2007. Molecular phylogenetic evidence for the origin of a diploid hybrid of Paeonia (Paeoniaceae). American Journal of Botany 94: 400-408.
    • (2007) American Journal of Botany , vol.94 , pp. 400-408
    • Pan, J.1    Zhang, D.2    Sang, T.3
  • 59
    • 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. and T. R. Buckley. 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
  • 60
    • 0031773680 scopus 로고    scopus 로고
    • Modeltest: Testing the model of DNA substitution
    • Posada, D. and K. A. Crandall. 1998. Modeltest: testing the model of DNA substitution. Bioinformatics 14: 817-818.
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 61
    • 0000498018 scopus 로고    scopus 로고
    • Phylogenetic relationships of Theaceae inferred from chloroplast DNA sequence data
    • Prince, L. M. and C. R. Parks. 2001. Phylogenetic relationships of Theaceae inferred from chloroplast DNA sequence data. American Journal of Botany 88: 2309-2320.
    • (2001) American Journal of Botany , vol.88 , pp. 2309-2320
    • Prince, L.M.1    Parks, C.R.2
  • 65
    • 34548556039 scopus 로고    scopus 로고
    • Inferring speciation times under an episodic molecular clock
    • Rannala, B. and Z. Yang. 2007. Inferring speciation times under an episodic molecular clock. Systematic Biology 56: 453-466.
    • (2007) Systematic Biology , vol.56 , pp. 453-466
    • Rannala, B.1    Yang, Z.2
  • 67
    • 33644820816 scopus 로고    scopus 로고
    • Underparameterized model of sequence evolution leads to bias in the estimation of diversification rates from molecular phylogenies
    • Revell, L. J., L. J. Harmon, and R. E. Glor. 2005. Underparameterized model of sequence evolution leads to bias in the estimation of diversification rates from molecular phylogenies. Systematic Biology 54: 973-983.
    • (2005) Systematic Biology , vol.54 , pp. 973-983
    • Revell, L.J.1    Harmon, L.J.2    Glor, R.E.3
  • 68
    • 0041386108 scopus 로고    scopus 로고
    • MrBayes 3: Bayesian phyloge-netic inference under mixed models
    • Ronquist, F. and J. P. Huelsenbeck. 2003. MrBayes 3: Bayesian phyloge-netic inference under mixed models. Bioinformatics 19: 1572-1574.
    • (2003) Bioinformatics , vol.19 , pp. 1572-1574
    • Ronquist, F.1    Huelsenbeck, J.P.2
  • 69
    • 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
  • 70
    • 0037314098 scopus 로고    scopus 로고
    • R8s: Inferring absolute rates of molecular evolution and divergence times in the absence of a molecular clock
    • Sanderson, M. J. 2003. r8s: inferring absolute rates of molecular evolution and divergence times in the absence of a molecular clock. Bioinformatics 19: 301-302.
    • (2003) Bioinformatics , vol.19 , pp. 301-302
    • Sanderson, M.J.1
  • 72
    • 0001654063 scopus 로고    scopus 로고
    • Sources of error and confidence intervals in estimating the age of angiosperms from rbcL and 18S rDNA data
    • Sanderson, M. J. and J. A. Doyle. 2001. Sources of error and confidence intervals in estimating the age of angiosperms from rbcL and 18S rDNA data. American Journal of Botany 88: 1499-1516.
    • (2001) American Journal of Botany , vol.88 , pp. 1499-1516
    • Sanderson, M.J.1    Doyle, J.A.2
  • 74
    • 0004098021 scopus 로고    scopus 로고
    • (and onwards) Version 8, June 2007
    • Stevens, P. F. 2001 (and onwards). Angiosperm phylogeny website. Version 8, June 2007 http://www.mobot.org/MOBOT/research/APweb/.
    • (2001) Angiosperm Phylogeny Website
    • Stevens, P.F.1
  • 75
    • 19544387609 scopus 로고    scopus 로고
    • Evaluating the performance of a successive-approximations approach to parameter optimization in maximum-likelihood phylogeny estimation
    • Sullivan, J., Z. Abdo, P. Joyce, and D. L. Swofford. 2005. Evaluating the performance of a successive-approximations approach to parameter optimization in maximum-likelihood phylogeny estimation. Molecular Biology and Evolution 22: 1386-1392.
    • (2005) Molecular Biology and Evolution , vol.22 , pp. 1386-1392
    • Sullivan, J.1    Abdo, Z.2    Joyce, P.3    Swofford, D.L.4
  • 77
    • 21144455470 scopus 로고    scopus 로고
    • Hironoia fusiformis gen. et sp. nov.; A cornalean fruit from the Kamikitaba locality (Upper Cretaceous, Lower Coniacian) in northeastern Japan
    • Takahashi, M., P. R. Crane, and S. R. Manchester. 2002. Hironoia fusiformis gen. et sp. nov.; a cornalean fruit from the Kamikitaba locality (Upper Cretaceous, Lower Coniacian) in northeastern Japan. Journal of Plant Research 115: 463-473.
    • (2002) Journal of Plant Research , vol.115 , pp. 463-473
    • Takahashi, M.1    Crane, P.R.2    Manchester, S.R.3
  • 78
    • 0027157960 scopus 로고
    • Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
    • Tamura, K. and M. Nei. 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
  • 79
    • 0015219691 scopus 로고
    • Fitting discrete probability distributions to evolutionary events
    • Uzzell, T. and K. W. Corbin. 1971. Fitting discrete probability distributions to evolutionary events. Science 172: 1089-1096.
    • (1971) Science , vol.172 , pp. 1089-1096
    • Uzzell, T.1    Corbin, K.W.2
  • 81
    • 0036375819 scopus 로고    scopus 로고
    • Relationships within Cornales and circumscription of Cornaceae-matK and rbcL sequence data and effects of outgroups and long branches
    • Xiang, Q., M. L. Moody, D. E. Soltis, C. Z. Fan, and P. S. Soltis. 2002. Relationships within Cornales and circumscription of Cornaceae-matK and rbcL sequence data and effects of outgroups and long branches. Molecular Phylogenetics and Evolution 24: 35-57.
    • (2002) Molecular Phylogenetics and Evolution , vol.24 , pp. 35-57
    • Xiang, Q.1    Moody, M.L.2    Soltis, D.E.3    Fan, C.Z.4    Soltis, P.S.5
  • 82
    • 0032228898 scopus 로고    scopus 로고
    • Phylogenetic relationships of Cornaceae and close relatives inferred from matK and rbcL sequences
    • Xiang, Q., D. E. Soltis, and P. S. Soltis. 1998. Phylogenetic relationships of Cornaceae and close relatives inferred from matK and rbcL sequences. American Journal of Botany 85: 285-297.
    • (1998) American Journal of Botany , vol.85 , pp. 285-297
    • Xiang, Q.1    Soltis, D.E.2    Soltis, P.S.3
  • 83
    • 33645686896 scopus 로고    scopus 로고
    • Species level phylogeny of the genus Cornus (Cornaceae) based on molecular and morphological evidence-implications for taxonomy and Tertiary intercontinental migration
    • Xiang, Q. Y. J., D. T. Thomas, W. Zhang, S. R. Manchester, and Z. Murrell. 2006. Species level phylogeny of the genus Cornus (Cornaceae) based on molecular and morphological evidence-implications for taxonomy and Tertiary intercontinental migration. Taxon 55: 9-30.
    • (2006) Taxon , vol.55 , pp. 9-30
    • Xiang, Q.Y.J.1    Thomas, D.T.2    Zhang, W.3    Manchester, S.R.4    Murrell, Z.5
  • 84
    • 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
  • 85
    • 0028267146 scopus 로고
    • Comparison of models for nucleotide substitution used in maximum-likelihood phylogenetic estimation
    • Yang, Z., N. Goldman, and A. Friday. 1994. Comparison of models for nucleotide substitution used in maximum-likelihood phylogenetic estimation. Molecular Biology and Evolution 11: 316-324.
    • (1994) Molecular Biology and Evolution , vol.11 , pp. 316-324
    • Yang, Z.1    Goldman, N.2    Friday, A.3
  • 86
    • 0242571576 scopus 로고    scopus 로고
    • Comparison of likelihood and Bayesian methods for estimating divergence times using multiple gene loci and calibration points, with application to a radiation of cute-looking mouse lemurs
    • Yang, Z. and A. D. Yoder. 2003. Comparison of likelihood and Bayesian methods for estimating divergence times using multiple gene loci and calibration points, with application to a radiation of cute-looking mouse lemurs. Systematic Biology 52: 705-716.
    • (2003) Systematic Biology , vol.52 , pp. 705-716
    • Yang, Z.1    Yoder, A.D.2
  • 87
    • 1642363902 scopus 로고    scopus 로고
    • Divergence dates for Malagasy lemurs estimated from multiple gene loci: Geological and evolutionary context
    • Yoder, A. D. and Z.Yang. 2004. Divergence dates for Malagasy lemurs estimated from multiple gene loci: geological and evolutionary context. Molecular Ecology 13: 757-773.
    • (2004) Molecular Ecology , vol.13 , pp. 757-773
    • Yoder, A.D.1    Yang, Z.2
  • 88
    • 38949144329 scopus 로고    scopus 로고
    • Sequence analyses of the ITS regions and the matK gene for determining phylogenetic relationships of Diospyros kaki (persimmon) with other wild Diospyros (Ebenaceae) species
    • Yonemori, K., C. Honsho, S. Kanzaki, H. Ino, A. Ikegami, A. Kitajima, A. Sugiura, and D. E. Parfitt. 2008. Sequence analyses of the ITS regions and the matK gene for determining phylogenetic relationships of Diospyros kaki (persimmon) with other wild Diospyros (Ebenaceae) species. Tree Genetics & Genomes 4: 149-158.
    • (2008) Tree Genetics & Genomes , vol.4 , pp. 149-158
    • Yonemori, K.1    Honsho, C.2    Kanzaki, S.3    Ino, H.4    Ikegami, A.5    Kitajima, A.6    Sugiura, A.7    Parfitt, D.E.8
  • 90
    • 0028108336 scopus 로고
    • Estimation of evolutionary distances between nucle-otide sequences
    • Zharkikh, A. 1994. Estimation of evolutionary distances between nucle-otide sequences. Journal of Molecular Evolution 39: 315-329.
    • (1994) Journal of Molecular Evolution , vol.39 , pp. 315-329
    • Zharkikh, A.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.