CSB1000
- Special topics in Genomics: the Hazelnut Blight Genome Project
Organized
by David Guttman and Alan Moses
Course
Objectives:
Hazelnut
blight is a devastating disease of an important agricultural crop. CAGEF has obtained >2GB of shotgun
sequence reads from two bacterial species that are thought to cause this
disease. Our goal for this module is to
assemble and annotate these complete genome sequences. If successful, this will represent (to our
knowledge) the first time complete genome sequences have been produced entirely
by students in a course in Canada.
Schedule
and topics:
|
Class |
Date |
Topic(s) |
|
1 |
Oct.
14th |
-Why
is this course possible? (introduction to “new” sequencing, lecture by David
Guttman) -What
is Hazelnut Blight? (introduction to bacterial plant pathogens, lecture by
David Guttman) -Where
can we see the data? (introduction to servers, directories and files, lecture
by Alan Moses) -Organization
of the course -Assignment
of short read assembly papers |
|
2 |
Oct.
21st |
-Assembly
of short reads (lecture by Mike Brudno) -Discussion
of short read assembly papers -Formation
of assembly teams |
|
3 |
Nov.
4th |
-Student
teams present assembly results |
|
4 |
Nov.
11th |
-Gene
finding and annotation (lecture by Alan Moses) -Assignment
of annotation (gene finding) papers |
|
5 |
Nov.
18th |
-Discussion
of gene-finding papers -Formation
of annotation teams |
|
6 |
Dec.
2nd |
-Student
teams presentation of annotation results -Assignment
of final projects |
Course
meets in ESC 3044 from 2-3:30pm on the dates listed