Phylogenetic Analysis of DNA Sequences

This book reviews current findings in comparative analysis of DNA sequences, and should be of use to botanists and zoologists involved in systematics/taxonomy and evolution.

1. Phylogenetic inference, DNA sequence analysis, and the future of molecular systematics; 2. DNA sequencing: strategy and methods to directly sequence large DNA molecules; 3. The application of automated DNA sequence analysis to phylogenetic studies; 4. Computer alignment of sequences; 5. Aligning DNA sequences: homology and phylogenetic weighting; 6. Relative efficiencies of different tree-making methods for molecular data; 7. Compositional statistics evaluated by computer simulations; 8. Weighted parsimony: does it work?; 9. Testing the theory of descent; 10. Parsimony and phylogenetic inference using DNA sequences: some methodological strategies; 11. Evolutionary analysis of length-variable sequences: divergent domains of robosomal RNA; 12. Statistical methods for testing molecular phylogenies; 13. Discriminating between phylogenetic signal and random noise in DNA sequences; 14. When are phylogeny estimates from morphological and molecular data incongruent?; 15. Congruence among data sets: a Bayesian approach