MCB/GENE/ECOL/BIOC/INSC 545 Concepts in Genetic Analysis Fall 2002 Molecular Population and Evolutionary Genetics  This site contains is for Bill Birky's lectures and exam. Link to Course Homepage

Bill's office: 218 BSW phone: 626-6513 email: birky@u.arizona.edu Office hours by appointment.

Send corrections/problems to birky@u.arizona.edu.

VERY TENTATIVE LECTURE OUTLINE

Background Definitions of molecular population and evolutionary genetics Applications of population and evolutionary genetics Course objectives Analyzing sequence data I: comparing species (evolutionary genetics) Getting the data Aligning sequences Making phylogenetic trees What trees tell us about evolutionary history Relatedness of organisms Gene duplication Horizontal transfer Rates of evolution Timing of evolutionary events; molecular clocks Coevolution Analyzing sequence data II: detecting variation within species (population genetics) How to think about populations Everybody's different, but how different? Evolutionary models and mechanisms Asexual vs. sexual and haploid vs. diploid models Mutation Random drift and neutral models Natural selection Combining mutation, drift, and selection Different patterns of variation within species and how to explain them Differences in evolutionary rates between regions of genes, genes, genomes, and species, and how to explain them Detecting positive selection Who's having sex? Detecting furtive, cryptic, or rare sex. Variation and evolution of genome structure

FINAL EXAMINATION FinalExam02.pdf FinalExamKey02.pdf OTHER DOWNLOADS ExercisesFor10 26.pdf ExercisesFor12 5.pdf Handouts pp1-11.pdf

PRACTICE PROBLEMS AND ANSWERS PracticeProblems1.pdf PracticeProblems1Answers.pdf PracticeProblems2.pdf PracticeProblems2Answers.pdf Old Exam GENE545/99FinalExam.pdf GENE545/00FinalExam.pdf GENE545/00FinalExamKey.pdf

DON'T DO THESE UNTIL YOU ARE TOLD ... PLEASE!!   Population and Evolutionary Genetics Exercises Required Exercises! Bill's Evolution Simulation 1. Go to the web site Genetic Drift. You may find the text informative or boring, but do the simulation. Unfortunately only the simulation of random drift is available. 2. Use the Driftworms program that Bill will e-mail to you. If you do the manual simulation, you will need a list of random numbers. Optional Exercise! EvoTutor This is a nice web site with some good simulations. These simulations graph changes in gene frequencies over time. Download and read my directions: EvoTutorDirections.pdf. Open Internet Explorer (preferred) or Netscape Navigator. Go to the web site EvolTutor. Follow my directions, or the directions on the site.