Umeå Plant Science Centre
Department of Plant Physiology, Umeå University
MOLECULAR ECOLOGY, 15ECTS
Spring 2015 24/03 – 05/06
Course teachers
Course leaders
BA
SJ
NS
PI
SP
VHD
KR
XRW
OR
Benedicte Albrectsen
Stefan Jansson
Nathaniel Street
Pelle Ingvarsson
Stefano Papazian
Vicki Huizu Decker
Kerstin Richau
Xiau-Ru Wang
Owen Rowe
Benedicte.albrectsen@umu.se
Stefan.jansson@umu.se
Nathaniel.street@umu.se
Par.ingvarsson@umu.se
Stefano.papazian@umu.se
Huizu.guo@umu.se
Kerstin.richau@umu.se
Xiau_ru.wang@umu.se
Owen.rowe@umu.se
Course Book: “An Introduction to Molecular Ecology”, 2nd Edition, 2008. Trevor Beebee
& Graham Rowe, Oxford University Press. ISBN13: 978-0-199-29205-9.
Webpage: Cambro
Literature: Additional material will be provided on Cambro electronically during the
course.
NB: Due to our policy of environmental awareness, paper hand-outs will NOT be
provided!
Examination: Lab reports, discussions, project writing, presentation, and
defence.
Grading:
< 60 % correct = Underkänd(U), >60% correct = Godkänd (G) and >80% correct = Väl
godkänd(VG)
Molecular Ecology Spring 2015
Umeå Plant Science Centre
Department of Plant Physiology, Umeå University
Date/Time
Tues 24/03
10:00-11:45
13:00-15:00
Wed 25/03
09:00-11:00
13:00-15:00
Thurs 26/03
09:00-11:00
13:00-15:00
Fri 27/03
Lecture
WEEK 13
Teacher
L1.Course start, Introduction and Registration
L2. Genomics I: An historical and current overview
SJ/BA
NS
C3-28-41
KB4C10
L3. Chap 1-3 discussion
L4. Genomics II: Sequencing technologies
SJ
NS
KB4C10
L5. Genomics III: Transcript profiling using microarrays
L6. Genomics IV: Transcript profiling using sequencing
NS
NS
KB4C10
KB4C10
Reading (Scientific papers for group discussion week 14)
Date/Time
Mon 30/03
Location
Lecture
WEEK 14
Individual
Teacher
Location
Synthesis of lectures Chap 1-3
Preparation for projects
SJ
/BA
C3-28-41
L7. Plant-animal interactions – a molecular perspective.
BA
C3-28-41
L8. Behaviour: Sex bias, Dispersal Chap 4
A brief intro: working environmental safety
BA
VHG/SP
C3-28-41
BA
C3-28-41
Fri 03/04
Scientific writing
Synthesis of lectures Chap 4 and papers
Easter
Date/Time
Week 15
Lecture
Easter Break
Tues 31/03
09.00-11.00
Wed 01/04
09:00-11:00
11.15-12.00
Thurs 02/04
09.00-10.00
10.15-12.00
WEEK 15
Molecular Ecology Spring 2015
Teacher
Location
Umeå Plant Science Centre
Department of Plant Physiology, Umeå University
Date/Time
Lecture
Teacher Location
Mon 13/04
09:00-11:00
13:00-15:00
Tues 14/04
WEEK 16
Background for assay
Lab B: Bio Assay set-up
VHG/SP
Individual
Group activities, Paper Reading
Wed 15/04
10:00-12:00
13.00-15:00
Thurs 16/04
09:00-12:00
13:00-16:00
Fri 17/04
09:00-11:00
11:00-13:00
Date/Time
Mon 20/04
09:00-11:00
13:00-15:00
Tues 21/04
10.00-12.00
13:00-15:00
Wed 22/04
11:00-13:00
14:00-16:00
Thurs 23/04
9.00-11.00
12:00-14:00
Fri 24/04
11:00-13:00
Paper discussion
Lab B: Termination of experiment. Trait data collection.
VHG/SP
C4-30-24
Wallenberg GH
KB4C9
Lab B: RNA-extraction
Lab B: PCR
VHG/SP
Lab B: Data collection
Preparations for report
Lecture
C4-30-23
Wallenberg GH
WEEK 17
VHG/SP
KB4C9 or our
lab dependent
on Nr of
attendance
Teacher
Location
Metagenomics; an overall view on special relations in
nature
Metagenomics made in Umea
KR
Lecture: advanced techniques in metagenomic
analysis
L13. Metagenomics
KR
KBF30
NS
KB4C10
Different systems different friends
Guest lecture
KR
OW
KBF30
KBF30
What is going on in and out there?
A close look at endo- and epiphytes (literature)
KR
C3-28-41
The What, Why and How of metagenomics
KR
C4-30-23
Molecular Ecology Spring 2015
C3-28-41
C3-28-41
Umeå Plant Science Centre
Department of Plant Physiology, Umeå University
WEEK 18
Lecture
Mon 27/04
09:00-11:30
Tues 28/04
09:00-11:30
Wed 29/04
Teacher
L4. Population Genetics Chap 5
PI
C3-28-41
L15. Molecular and adaptive variation Chap 6
PI
C3-28-41
Individual
Group discussions
Thurs 30/04
12:00-14:00
Fri 01/05
Lecture
Mon 04/05
09:00-11:00
Tues 05/05
09:15-11:00
Wed 06/05
10:00-12:00
Thurs 07/05
09:00-11:00
Fri 08/05
09:00-11:00
Location
L16. Phylogeography Chap 7
International Workers Day
Dead-line Lab Report
WEEK 19
XRW
Teacher
Group discussions
Synthesis of lectures Chap 5-7
C3-28-41
Location
BA
C3-28-41
Chemical Ecology in a Genomic Era,
Group discussions
BA
C3-28-41
Group work
BA
Individual
Chemical Ecology in a Genomic Era
Group discussions, preparations for presentations
BA
C3-28-41
Presentations: Chemical Ecology in Genomic Era
BA
C3-28-41
WEEK 20
Date/Time
Mon 11/05
09:00-11:00
L17. GMO
SJ
C3-28-41
Tues 12/05
09:00-11:00
Synthesis of lectures Chap 9 and 10
BA
C3-28-41
0Wed 13/05
13:00-16:00
Preparations for project work
BA
C3-28-41
BA
Individual
Thurs 14/05
Fri 15/05
09:00-11:00
Lecture
Teacher
Location
Ascension Day
Project work
WEEK 21
Lecture
Mon 18Fri 22/05
Teacher
Project work
BA
Individual
Mon 25Fri 29/05
Project work
BA
Individual
Date/Time
Lecture
WEEK 23
Molecular Ecology Spring 2015
Location
Teacher
Location
Umeå Plant Science Centre
Department of Plant Physiology, Umeå University
Mon 01-02/06
Wed 03/06
09:00-16:00
Thurs 04/06
Fri 05/06
Report reading
Project Presentations
Catch-up day
Evaluation day
Molecular Ecology Spring 2015
SJ/BA
C3-28-41
C3-28-41
Umeå Plant Science Centre
Department of Plant Physiology, Umeå University
Lecture rooms
All lectures will be held in the KBC environment, and most lectures will be held within the
UPSC part of the building complex. There may be minor changes to the schedule, so make
sure to check the newest version which will always be available on Cambro.
Course webpage
The course starts off with registration and introduction on Thursday March 27, 2015 in C328-41 at 10.00. Please let me know if you are unable to attend the registration and
introduction, but still intend to follow the course.
The course textbook is “An Introduction to Molecular Ecology”, 2nd Edition, 2008. Trevor
Beebee & Graham Rowe, Oxford University Press. ISBN13: 978-0-199-29205-9.
We encourage you to obtain a copy prior to the start of the course.
All material provided during the course will be available at the course site in Cambro.
For instance lectures or parts of them, study questions and background material
(scientific papers and other online resources). In order to look at or download these
papers, you will most often need to be situated on the University network. Due the
restricted access to the journals, these are only available as full-text through the Umeå
University Library (http://www.ub.umu.se/) subscriptions.
You must be registered on the course in order to access the course site in Cambro.
Information will be added both before the course starts and during the course. If any
material is missing, please inform me.
You are most welcome to contact me if you have any questions regarding the course.
Course Coordinator:
Benedicte Albrectsen
e-mail: benedicte.albrectsen@plantphys.umu.se
Phone: +46 90-786 7011 // +46 70 338 49 19
Molecular Ecology Spring 2015