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| WEEK | DATE | LECTURE TOPIC | ASSIGNMENT | |
| 1 |
Aug 25 |
Introduction to course: Tree of Life Uses |
None (NCBI assignment - due 9/3) Understanding Trees (pp. 121-128) and start Metzker et al 02 (for Lab 2) |
|
| 2 | Sep 1 Sep 3 |
Labor Day Understanding Trees (cont.) |
No Class Understanding Trees (pp. 128-137) |
|
| 3 | Sep 8 Sep 10 |
Molecular Systematics (see Readings page for upcoming assignments) Molecular Systematics cont. (P&H Chs. 1-2 handout distributed) |
Start Page & Holmes, chs. 1-2 Trees worksheet due |
|
| 4 | Sep 15 Sep 17 |
Phylogenetic trees, distances, parsimony criterion Phylogenies (cont.) and lab prep. |
Page & Holmes: Chs. 1 & 2 Page & Holmes: Chs. 1 & 2 (no quiz) |
|
| 5 | Sep 22 Sep 24 |
Substitutions and Indels Simulating Molecular Evolution |
Li: pp. 1-11, skim pp. 12-20 Li: pp. 21-34 (Dr. Valdez Seminar - 4 pm) |
|
| 6 | Sep 29 Oct 1 |
Simulating Molecular Evolution (lab prep.) Review |
TBA TBA |
|
| 7 | Oct 6 Oct 8 |
Midterm I
Multiple sequence alignment |
TBA Clustal W Online Help |
|
| 8 | Oct 13 Oct 15 |
Comparative Genomics Phylogenomics |
Aguileta et al. 2008 | |
| 9 | Oct 20 Oct 22 |
Primer design for molecular systematics | TBA TBA |
|
| 10 | Oct 27 Oct 29 |
Species problems, hybrids, introgression Hybrid zones, speciation by hybridization |
McGuire et al. 2007 | |
| 11 | Nov 3 Nov 5 |
Emerging Trends in Phylogenetics Comparing Phylogenetic Approaches |
TBA Page & Holmes Ch. 6 |
|
| 12 | Nov 10 Nov 12 |
Phylogenetics (cont.) |
Page & Holmes Ch. 6 TBA |
|
| 13 | Nov 17 Nov 19 |
TBA - Review and Work on Final Projects Midterm II |
TBA |
|
| 14 | Nov 24-28 |
Fall Break |
No Class | |
| 15 | Dec 1 Dec 3 |
Primary Literature Article - TBA High-level phylogeny of animals (Paleobiology article) |
TBA Peterson_2005 (+ skim pp. 443-452) |
|
| 16 | Dec 8 Dec 10 |
Final Project Presentations Final Project Presentations |
TBA |
|
| Finals | Dec 15-19 | FINAL PROJECT WRITE-UPS DUE MONDAY DEC. 15 |
Turn in to MH282 by 5 p.m. |