Autumn
2012

FISH/BIOL 340 - Genetics and Molecular Ecology

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Home

Instructors
Instructors

Course Description
Course Description

Syllabus
Syllabus

Grading
Grading

Labs
Labs

seahorse
Lab Project

Required Reading
Reading

Glossary
Glossary of Terms

Links
Links

 

Syllabus

The course will consist of two 80 min lectures (T,Th) and one 3 hour lab class (3 sections, Th pm, Fr am, F pm) per week. Some lectures will be given by guest speakers, who will present case studies of genetic applications in their field.

The class will include both practical and computer labs (see also the Labs page. In the computer laboratories we will use simulation programs to learn about genetic processes and analysis programs to analyze sample data sets. In the practical laboratories we will conduct a study identifying the species of seahorses seized in Seattle (see lab project).

Below is a tentative timetable, including due dates for assigments (Assignments). Please note that the timing of specific topics may change in the course of the quarter - in fact it usually does, as I want to make sure that everybody understands the material and so am more than happy to explain issues again. In addition, time conflicts of guest speakers have to be accommodated. Links in each lecture point to the PowerPoint file of slides I used in class. Final versions of each lecture will be posted here 24 hours before the lecture - if you want a copy during lecture, please print out yourself.

W

D

 

L

Lecture or Lab

SWORD
(due Wed 9pm)
Reading

 

1 Tu 9/25 1 Introduction, Project    

 

Th

9/27

2

DNA

 

Read web page

Lab

DNA extraction (FTR 113)

 

2

Tu

10/2

3

PCR  

Th

10/4

4

PCR & sequencing  

Lab

PCR (FSH136 & FTR113)  

3

Tu

10/9

5

Sequencing  

Vincent et. al 2011

Th

10/11

6

Mendel  

project report instructions

Lab

electrophoresis (FTR113) Draft Introduction

4

Tu

10/16

7

Mendel  


Th

10/18

8

Hardy-Weinberg  

Hallerman et al 2003

Lab

Parentage (FSH136) Review Introduction

5

Tu

10/23

9

Fixation indices  

Th

10/25

10

Genetic drift, Ne  

FST and HWE

Lab

Hardy-Weinberg (FSH136) Draft methods

6

Tu

10/30

Mid term exam  

Th

11/1

11

Trees   Molecular evolution chapter

Lab

Seahorse analysis (FSH136) Review methods

Baldauf et al. 2003

7

Tu

11/6

12

mutation  

Th

11/8

13

mutation/selection  

Lab

Population Genetics (FSH136) Draft results

8

Tu

11/13

14

migration  

Population genetic chapter

Th

11/15

15

migration II   Migration handout

Lab

TBA (FSH136) Review results  

9

Tu

11/20

16

phylogeography    

Th

11/22

Thanksgiving    

Lab

No lab Draft discussion

10 Tu 11/27 17 Genomics    
  Th 11/29 18 Gene expression    

Lab

Cloning I Review discussion

11

Tu

12/4

19

Functional Genomics, GMO    
  Th 12/6 20 Adaptive Traits    
  Lab     Cloning II & Review Final Report (dropbox)  
12 Mon 12/10   Final exam