Phylogenetic Systematics Readings,Fall 2007

*A 20-30 min. preparatorypresentation will occur one class period before the discussion.

 

Paper

PDF

Presenter

Disc.
Date*

Shapiro, B., D. Sibthorpe, A. Rambaut, J. Austin, et al. 2002. Flight of the Dodo. Science 295:1683.

link

Dr. J

early

Lamarck's 1809 tree (see Steve Gould's nice essay "A Tree Grows in Paris")

link

Dr. J

early

Darwin, C. Origin of Species. 6th Ed. Ch. 14

link

Dr. J

Sept. 11 & 13

Dayrat, B. 2003. The roots of phylogeny: how did Haeckel build his trees? Systematic Biology 52:515-527.

link

Dr. J

Sept. 18

No Class - Dr. Jordan in France - I'll bring back legal requests... Let me know!

 

 

Sept. 25

Brady, S. n. G., S. Sipes, A. Pearson, and B. N. Danforth. 2006. Recent and simultaneous origins of eusociality in halictid bees. Proceedings of the Royal Society B: Biological Sciences 273:1643-1649.

link

Dr. Capaldi

Sept. 27

Lecture and Dana's presentation.

 

Dr. J

Oct. 2

Grenfell, B. T., O. G. Pybus, J. R. Gog, J. L. N. Wood, et al. 2004. Unifying the Epidemiological and Evolutionary Dynamics of Pathogens. Science 303:327-332.

link

Dana

Oct. 4

Jenner, R. A., and M. A. Wills. 2007. The choice of model organisms in evo-devo. Nature Reviews Genetics 8:311-314.

link

Eric

Oct. 9

Losos, J. B., T. R. Jackman, A. Larson, K. de Queiroz, et al. 1998. Contingency and determinism in replicated adaptive radiations of island lizards. Science 279:2115-2118.

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Brandon

Oct. 11

No Class - Fall Recess

 

 

Oct. 16

Driscoll, C. A., M. Menotti-Raymond, A. L. Roca, K. Hupe, et al. 2007. The Near Eastern Origin of Cat Domestication. Science 317:519-523.

link

Natalie

Oct. 18

Green, R. E., J. Krause, S. E. Ptak, A. W. Briggs, et al. 2006. Analysis of one million base pairs of Neanderthal DNA. Nature 444:330-336.

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Lisa

Oct. 23

Holmes, E. C., E. Ghedin, N. Miller, J. Taylor, et al. 2005. Whole-Genome Analysis of Human Influenza A Virus Reveals Multiple Persistent Lineages and Reassortment among Recent H3N2 Viruses. PLoS Biology 3:e300.

 

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Ceal

Oct. 25

Sabeti, P. C., S. F. Schaffner, B. Fry, J. Lohmueller, et al. 2006. Positive natural selection in the human lineage. Science 312:1614-1620.

link

Dan

Oct. 30

Daugherty, C. H., A. Cree, J. M. Hay, and M. B. Thompson. 1990. Neglected taxonomy and continuing extinctions of tuatara (Sphenodon). Nature 347:177-179.

 and

 May, R. M. 1990. Taxonomy as destiny. Nature 347:129-130.

link

 

link

Isabel

Nov. 1

Milinkovitch, M. C., A. Caccone, and G. Amato. 2004. Molecular phylogenetic analyses indicate extensive morphological convergence between the "yeti" and primates. Molecular Phylogenetics and Evolution 31:1-3.  Background information here.

link

 Alex

Nov. 6

Reed, D. L., V. S. Smith, S. L. Hammond, A. R. Rogers, et al. 2004. Genetic Analysis of Lice Supports Direct Contact between Modern and Archaic Humans. PLoS Biology 2:e340.

 and

2004. Did We or Didn't We? Louse Genetic Analysis Says Yes. PLoS Biology 2:e378.

link

 

 

link

Brittany

Nov. 8

Ou, C.-Y., C. A. Ciesielski, G. Myers, C. I. Bandea, et al. 1992. Molecular Epidemiology of HIV Transmission in a Dental Practice. Science 256:1165-1171.

link

Kristina

Nov. 13

Woese, C.R., Kandler, O., Wheelis, M.L. 1990. Towards a natural system of organisms: Proposal for the domains Archaea, Bacteria, and Eucarya. Proceedings of the National Academy of Sciences, 87(12):4576-4579.

link

Ashley

Nov. 15

Hewitt, G. M. 2004. Genetic consequences of climatic oscillations in the Quaternary. Philosophical Transactions of the Royal Society of London B 359:183-195.

link

Brandon

Nov. 20

No Class - Thanksgiving

 

 

Nov. 22

Cavalli-Sforza, L. L., and M. W. Feldman. 2003. The application of molecular genetic approaches to the study of human evolution. Nature Genetics 83:266-275.

link

Tomo

Nov. 27

Searls, D. B. 2003. Pharmacophylogenomics: genes, evolution and drug targets. Nature Reviews Drug Discovery 2:613-623.

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Margaret

Nov. 29

     

Dec. 4

Rossman, Amy Y., Miller, Douglass R. Systematics Solves Problems in Agriculture and Forestry. 1996. Annals of the Missouri Botanical Garden 83: 17-28

link

Dr. J

not covered

Acinas, S. G., V. Klepac-Ceraj, D. E. Hunt, C. Pharino, et al. 2004. Fine-scale phylogenetic architecture of a complex bacterial community. Nature 430:551-554.

link

Dr. J

not covered

Zuckerkandl, E and Pauling, LB (1962). "Molecular disease, evolution, and genetic heterogeneity", in Kasha, M. and Pullman, B (editors): Horizons in Biochemistry. Academic Press, New York.

Molecules as documents of evolutionary history. J. Theoret Biol.( 1965), 357-366.

Zuckerkandl, E., and L. Pauling. 1965. Evolutionary divergence and convergence in proteins. In V. Bryson and H. J. Vogel (eds.), Evolving Genes and Proteins, Academic Press, New York, 97-166.

link

Dr. J

not covered