Autumn
2011

FISH/BIOL 340 - Genetics and Molecular Ecology

Home
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

 

Laboratories

Section A: Th, 1:30 - 4:20
Section B: F, 8:30 - 11:20
Section C: F, 1:30 - 4:20

The class will include both molecular and computer labs. In the computer laboratories we will use simulation programs to learn about genetic processes and analysis programs to analyze sample data sets. In the molecular laboratories we will conduct a study identifying dried seahorses to species (see project page).

Lab handouts and materials will be posted here by Tuesday of the respective week in the tables below. Students are required to print out these handouts, read them and bring them to the lab (there will be no print-outs in the lab). At the end of each handout, there are some pre-lab questions. These questions are very easy to answer if you read the handout - your answers will be graded and you will not be allowed to proceed if you haven't answered them. In some labs, there is also a lab report, which are questions that groups are required to fill in during the lab. Please print those out as well and bring to the lab.

You will be required to keep a lab notebook - here are some guidelines how it should look like. We will talk more about lab notebooks in the first lab. These lab notebooks will be collected and marked twice during the quarter.

In each lab, there will be some form of reporting, which will vary among labs. Make sure to come on time and take notes.

Make up labs: laboratories take considerable time to prepare. Therefore, we will not offer make-up labs. If you cannot come to a lab, let us know at least a week in advance. If the absence is justified, we will try to accommodate you in one of the other sections.


 

 

Molecular Labs

page1

Molecular Labs will be offered in rooms FTR 113. These labs represent a new molecular teaching facility of the School of Aquatic and Fishery Sciences. Most of the equipment (especially pipettes) is new, so take care of it.

Rules

Always remember that we are working with hazardous materials. Sloppy handling of such materials does not only endanger you, but also other course participants. We will give you some additional information about lab safety in the first lab.

  1. No eating or drinking in the laboratory. Do not store food or drink in any of the laboratory refrigerators.
  2. Store bags and coats on the hangers provided. The use of cell phones is not permitted during class time.
  3. Wear clothing that leaves minimal bare skin showing, i.e. long pants, long sleeves, socks with shoes. Open-toe sandals are not allowed. If you are not suitably dressed, you will not be admitted to the laboratory.
  4. Lab coats are required. Students who have lab coats (maybe from chemistry labs) should bring them to molecular labs. If you dont have one, lab coats can be purchased from the Biochemistry Stores for US$ 11-14.
  5. All accidents and spillages must be reported to the instructor or the TA.
  6. Goggles and gloves have to be worn while working with hazardous materials.
  7. Do not move any equipment, or change any set parameters on any equipment, without permission of instructor or TA.

 

Molecular Lab Timetable and Documents

Week
Title Location Handouts Post-Lab
1
DNA extraction FTR 113 Handout
Postlab questions
2
PCR & RFLP FTR 113 Handout,
Seahorse sequence
Postlab questions
3
Electrophoresis FTR 113 Handout, Spreadsheet Postlab questions
10
Cloning FTR 113 Handout&Questions  


 

Parentage

Computer Labs

PopG

 

Most computer labs will be offered in room FSH 136, which has 24 new PCs. Some knowledge of Excel will be assumed, though we are happy to help you. Computer labs usually involve some homework - as we sometimes finish early, the remaining time is a great way to do this homework with our help. You can also use that time to ask questions about lecture.

Computer Labs Timetable and Documents

Week
Title Location Handouts
Files
4
Analysis of parentage and kinship FSH 136

Handout
Postlab

Clicker questions

Genotypes.xls
Parentage Simulation 2010.xlsx

5
Hardy-Weinberg Equilibrium FSH 136

Handout
Postlab

Clicker questions

HardyWeinbergWorksheet 11.xlsx
6
Phylogenetic Reconstruction FSH136

Handout
Clicker questions

Seahorse_Tree1.meg
Seahorse_Tree2.meg
Seahorse_Tree3.meg
Seahorse_Tree4.meg
Seahorse_Tree5.meg
Seahorse_Tree6.meg
Seahorse_Tree7.meg
Seahorse Morphology.xls

8
Population Genetic Analysis FSH 136

Handout
Postlab

Guppies11.xlsx
Pops1 11.xlsx