Systematics Spring 2022

Instructor: Dr. April Wright

Office: Ryan Hall 403

Office hours: TTh 11-1, W 1-3, Th 1-3

This course has a total of 250 points. Each week, there will be a 10 point homework. The final project will be worth 100 points. Readings listed are to read for the following week. Non-open access articles will be available on Moodle.

Below is the schedule for spring semester

Date	Topic	Homework	Readings
Jan 25	Morphological Homology and Molecular Homology Assignment	MSA homework	Technology: Eaton and Overcast, Application: Satler et al, Application: Devitt et al
Feb 1	Homology assignment in genomic data	ddRAD homework	Felsenstein 1978, Mayr 1981, Application: Barden 2016
Feb 8	Parsimony and Models	PAUP Homework	Jukes and Cantor, Holder and Zwickl, Felsenstein 81
Feb 14	Finish Models Discussion	Models Homework	Hastings, RevBayes
Feb 21	Bayes and MCMC	Likelihood Calcs	Wright and Hillis 2014, Lewis 2001 Wright 2019
March 7	Molecular Data	Molecular Models Homework	Holder and Lewis, Huelsenbeck et al
March 14	Morphology	Morphology Homework	Khakurel et al. 2022
March 21	Partitioned Data	Partition Homework	Wright and Warnock 2021, Zuckerkandl and Pauling, Application: Smith et al.
March 28	Molecular Clocks	Molecular Clocks Homework	Heath et al 2014, Wright et al 2021, Barido-Sottani et al
April 5	FBD model	TBD
April 11	Phylogenetic Comparative Methods	TBD	Felsenstein 81, Slater et al, Cooper et al
April 25	Phylogenetic Comparative Methods	TBD	Ree and Smith, Landis et al, Landis
May 2	Biogeography	TBD	None
Monday, May 9, 12:30 p.m. - 2:30 p.m.	Final	TBD