Molecular Biology and Evolution, Vol 12, 823-833, Copyright © 1995 by Society for Molecular Biology and Evolution
N Takezaki, A Rzhetsky and M Nei
To estimate approximate divergence times of species or species groups with
molecular data, we have developed a method of constructing a linearized
tree under the assumption of a molecular clock. We present two tests of the
molecular clock for a given topology: two-cluster test and branch-length
test. The two-cluster test examines the hypothesis of the molecular clock
for the two lineages created by an interior node of the tree, whereas the
branch-length test examines the deviation of the branch length between the
tree root and a tip from the average length. Sequences evolving excessively
fast or slow at a high significance level may be eliminated. A linearized
tree will then be constructed for a given topology for the remaining
sequences under the assumption of rate constancy. We have used these
methods to analyze hominoid mitochondrial DNA and drosophilid Adh gene
sequences.
ORIGINAL ARTICLE
Phylogenetic test of the molecular clock and linearized trees
Institute of Molecular Evolutionary Genetics, Pennsylvania State University, University Park 16802, USA.
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 W. J. Murphy, E. Eizirik, S. J. O'Brien, O. Madsen, M. Scally, C. J. Douady, E. Teeling, O. A. Ryder, M. J. Stanhope, W. W. de Jong, et al. Resolution of the Early Placental Mammal Radiation Using Bayesian Phylogenetics Science, December 14, 2001; 294(5550): 2348 - 2351. [Abstract] [Full Text] [PDF]
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A. D. Briscoe Functional Diversification of Lepidopteran Opsins Following Gene Duplication Mol. Biol. Evol., December 1, 2001; 18(12): 2270 - 2279. [Abstract] [Full Text] [PDF]
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R. L. Stauffer, A. Walker, O. A. Ryder, M. Lyons-Weiler, and S. B. Hedges Human and Ape Molecular Clocks and Constraints on Paleontological Hypotheses J. Hered., November 1, 2001; 92(6): 469 - 474. [Abstract] [Full Text] [PDF]
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E. Haring, L. Kruckenhauser, A. Gamauf, M. J. Riesing, and W. Pinsker The Complete Sequence of the Mitochondrial Genome of Buteo buteo (Aves, Accipitridae) Indicates an Early Split in the Phylogeny of Raptors Mol. Biol. Evol., October 1, 2001; 18(10): 1892 - 1904. [Abstract] [Full Text] [PDF]
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D. S. Heckman, D. M. Geiser, B. R. Eidell, R. L. Stauffer, N. L. Kardos, and S. B. Hedges Molecular Evidence for the Early Colonization of Land by Fungi and Plants Science, August 10, 2001; 293(5532): 1129 - 1133. [Abstract] [Full Text] [PDF]
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M. J. Sanderson and J. A. Doyle Sources of error and confidence intervals in estimating the age of angiosperms from rbcL and 18S rDNA data Am. J. Botany, August 1, 2001; 88(8): 1499 - 1516. [Full Text]
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 L. Zsak, Z. Lu, T. G. Burrage, J. G. Neilan, G. F. Kutish, D. M. Moore, and D. L. Rock African Swine Fever Virus Multigene Family 360 and 530 Genes Are Novel Macrophage Host Range Determinants J. Virol., April 1, 2001; 75(7): 3066 - 3076. [Abstract] [Full Text]
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C. Su and M. Nei Evolutionary Dynamics of the T-Cell Receptor VB Gene Family as Inferred from the Human and Mouse Genomic Sequences Mol. Biol. Evol., April 1, 2001; 18(4): 503 - 513. [Abstract] [Full Text] [PDF]
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A. Termonia, T. H. Hsiao, J. M. Pasteels, and M. C. Milinkovitch Feeding specialization and host-derived chemical defense in Chrysomeline leaf beetles did not lead to an evolutionary dead end PNAS, March 16, 2001; (2001) 61034598. [Abstract] [Full Text]
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