Links between maximum likelihood and maximum parsimony under a simple model of site substitution
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Stochastic models of nucleotide substitution are playing an increasingly important role in phylogenetic reconstruction through such methods as maximum likelihood. Here, we examine the behaviour of a simple substitution model, and establish some links between the methods of maximum parsimony and maximum likelihood under this model.
KeywordsMaximum Parsimony Binary Tree Mutation Probability Symmetric Model Internal Vertex
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- Felsenstein, J. 1981. A likelihood approach to character weighting and what it tells us about parsimony and compatibility.Biological J. Linnean Soc. 16, 183–196.Google Scholar
- Fukami, K. and Y. Tateno. 1989. On the maximum likelihood method for estimating molecular trees: uniqueness of the likelihood point.J. Molecular Evolution 28, 460–464.Google Scholar
- Harary, F. 1969.Graph Theory. Series in Mathematics. Reading, MA: Addison-Wesley.Google Scholar
- Jukes, T. H. and C. R. Cantor 1969. Evolution of protein molecules. InMammalian Protein Metabolism, H. N. Munro (Ed), pp. 21–132. New York: Academic Press.Google Scholar
- Neyman, J. 1971. Molecular studies of evolution: A source of novel statistical problems. InStatistical Decision Theory and Related Topics, S. S. Gupta and J. Yackel (Eds), pp. 1–27. New York: Academic Press.Google Scholar
- Penny, D., P. J. Lockhart, M. A. Steel and M. D. Hendy. 1994. The role of models in reconstructing evolutionary trees. InModels in Phylogeny Reconstruction, R. W. Scotland, D. J. Siebert and D. M. Williams (Eds), Systematic Association Special Vol. 52, pp. 211–230. Oxford: Clarendon Press.Google Scholar
- Swofford, D. L., G. J. Olsen, P. J. Waddell and D. M. Hillis. 1996. Phylogenetic inference. InMolecular Systematics, 2nd ed., D. M. Hillis, C. Moritz and B. K. Marble (Eds), ch. 11, pp. 407–514. Sinauer Associates.Google Scholar