Estimation of Divergence times
We will read papers that discuss methods and applications of estimation of
divergence times in a phylogenetic and population genetic context
[we meet Wednesday at 12:30, CEB commons, Dirac 1st floor]
| 01-19 | The molecular clock chapter of the section Applications of Molecular Systematics: The State of the Field and a Look to the Future by D. M. Hillis, B. K. Mable, and C. Moritz (PDF) in Molecular Systematics edited by David M. Hillis, Craig Moritz,, and Barbara K. Mable. (1996). |
| 01-26 | Arbogast, B. S., S. V. Edwards, J. Wakeley, P. Beerli, J. J. Slowinksi 2002. ESTIMATING DIVERGENCE TIMES FROM MOLECULAR DATA ON PHYLOGENETIC AND POPULATION GENETIC TIMESCALES . ANNUAL REVIEW OF ECOLOGY AND SYSTEMATICS 33: 707-740 2002 (link to official PDF download site) |
| 02-02 | Second week on Arbogast, B. S., S. V. Edwards, J. Wakeley, P. Beerli, J. J. Slowinksi 2002. (link to official PDF download site) |
| 02-09 | Thorne, J. L., H. Kishino, and I. S. Painter. 1998. Estimating the rate of evolution of the rate of molecular evolution. Mol Biol Evol 15:1647-57. (official PDF) [Dave] |
| 02-16 | Sanderson, M. J. 2002. Estimating absolute rates of molecular evolution and divergence times: a penalized likelihood approach. Mol Biol Evol 19:101-9. (official PDF) [Grant] |
| 02-23 | Marshall, C. R. 1990. The fossil record and estimating divergence times between lineages: maximum divergence times and the importance of reliable phylogenies. J Mol Evol 30:400-8. (PDF) [Albert] |
| 03-02 | Takahata, N., and Y. Satta. 1997. Evolution of the primate lineage leading to modern humans: Phylogenetic and demographic inferences from DNA sequences. Proceedings Of the National Academy Of Sciences Of the United States Of America 94:4811-4815. (PDF) [David] |
| 03-16 | Rannala, B., and Z. Yang. 2003. Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci. Genetics 164:1645-56. (PDF) [Peter] |
| 03-23 | 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 lemur species. Syst Biol 52:705-16.(official PDF) (alternative PDF download) Yoder, A. D., and Z. Yang. 2004. Divergence dates for Malagasy lemurs estimated from multiple gene loci: geological and evolutionary context. Mol Ecol 13:757-73. (PDF)[Trisha] |
| 03-30 |
Bromham, L., A. Rambaut, R. Fortey, A. Cooper, and D. Penny. 1998. Testing the Cambrian explosion hypothesis by using a molecular dating technique. Proc Natl Acad Sci U S A 95:12386-9 (PDF). |
| 04-06 | Near, T. J., and M. J. Sanderson. 2004. Assessing the quality of molecular divergence time estimates by fossil calibrations and fossil-based model selection. Philos Trans R Soc Lond B Biol Sci 359:1477-83. [Phong] |
| 04-13 | Jody Hey and Rasmus Nielsen (2004) Multilocus Methods for Estimating Population Sizes, Migration Rates and Divergence Time, With Applications to the Divergence of Drosophila pseudoobscura and D. persimilis (PDF) |
| 04-20 | TBA [Don] |