This book considers evolution at different scales: sequences, genes, gene families, organelles, genomes and species. The focus is on the mathematical and computational tools and concepts, which form an essential basis of evolutionary studies, indicate their limitations, and give them orientation. Recent years have witnessed rapid progress in the mathematics of evolution and phylogeny, with models and methods becoming more realistic, powerful, and complex.
Aimed at graduates and researchers in phylogenetics, mathematicians, computer scientists and biologists, and including chapters by leading scientists: A. Bergeron, D. Bertrand, D. Bryant, R. Desper, O. Elemento, N. El-Mabrouk, N. Galtier, O. Gascuel, M. Hendy, S. Holmes, K. Huber, A. Meade, J. Mixtacki, B. Moret, E. Mossel, V. Moulton, M. Pagel, M.-A. Poursat, D. Sankoff, M. Steel, J. Stoye, J. Tang, L.-S. Wang, T. Warnow, Z. Yang, this book of contributed chapters explains the basis and covers the recent results in this highly topical area.
`In-depth discussions make Mathematics of Evolution and Phylogeny a key reference for those with mathematical or computational perspectives on evolution.'
Systematic Biology 2006
`This book gives us an interesting glimpse of how work on phylogenies will be preceived by mathematicians, computer scientists, and statisticians.'
Evolution, 60(4) 00.02.2006
`...an important contribution because it highlights the analysis of evolutionary problems as potential research avenues in applied mathematics.'
Systematic Biology, Vol 55
`Mathematics of evolution and Phylogeny is a valuable research tool for postgraduate students and researchers wanting an in-depth, overall introduction of the topics that i covers.'
Charles Semple, TRENDS in Ecology and Evolution, Vol 20 No 9
Olivier Gascuel: Introduction
1: Richard Desper and Olivier Gascuel: The minimum evolution distance-based approach of phylogenetic inference
2: David Bryant, Nicolas Galtier, and Marie-Anne Poursat: Likelihood calculation in molecular phylogenetics
3: Ziheng Yang: Bayesian inference in molecular phylogenetics
4: Susan Holmes: Statistical approaches to test involving phylogenetics
5: Mark Pagel and Andrew Meade: Mixture models in phylogenetic inference
6: Michael D. Hendy: Hadamard conjugation: an analytic tool for phylogenetics
7: Vincent Moulton and Katharina Huber: Phylogenetic networks
8: Olivier Gascuel, Denis Bertrand, and Olivier Elemento: Recontructing the duplication history of tandemly repeated sequences
9: David Sankoff: Conserved segment statistics and rearrangement inferences in comparative genomics
10: Anne Bergeron, Julia Mixtacki, and Jens Stoye: The inversion distance problem
11: Nadia El-Mabrouk: Genome rearrangement with gene families
12: Bernard M.E. Moret, Jijun Tang, and Tandy Warnow: Reconstructing phylogenies from gene-content and gene-order data
13: Li-San Wang and Tandy Warnow: Distance-based genome rearrangement phylogeny
14: Elchanan Mossel and Mike Steel: How much can evolved characters tell us about the tree that generated them?