Basic Molecular Evolution Workshop: 1 - 2 July 2010


Organized by the Regional Student Group - Eastern Africa (RSG-EA)


The Regional students group of Eastern Africa in collaboration with the International Livestock Research Institute (ILRI) and Biosciences East and Central Africa (BecA) are organizing a two day training workshop on Basic Molecular Evolution.

Date

1st - 2nd July, 2010

Venue

Participants can join from the various hubs listed in the confirmed hubs section. The main hub will be the BecA-ILRI Hub in Nairobi, Kenya.

Why Molecular Evolution?

Molecular evolution can be defined as the study of nucleic acid and protein evolution, as well as the use of these molecules in studies of phylogenetics, population genetics, biogeography etc. The need for effective and informed analysis of biological sequence data is increasing with the explosive growth of biological sequence databases and the next generation sequencing technology. Since a molecular evolutionary framework is central to many bioinformatics analyses, the explicit use of molecular evolutionary and phylogenetic analyses will provide important insights. These include for example the analysis of adaptive evolution in viruses such as HIV and their host molecules thus providing clues of their host-pathogen interactions.

Target audience

This course aims to provide members already familiar with basic phylogeny the theoretical knowledge and practical skills to carry out informed molecular evolutionary analyses on sequence data. This will entail the latest algorithms in sequence
alignment
, phylogeny reconstruction, hypothesis testing, and population genetic approaches.


How to apply

To apply and participate in the main ILRI/BecA Hub, kindly follow this link http://hpc.ilri.cgiar.org/phylogeny/index.php. To participate in the satellite Hubs, kindly confirm with the person in charge.


Key dates

Application deadline: 20th June 2010
Notification date: Successful applicants will be notified by 21st June 2010.

Kindly note that successful applicants at the ILRI/BecA Hub are required to make their own travel and lunch arrangements. Satellite Hubs will have their own arrangements so kindly confirm with the person in charge below.



Workshop program


NB:
 Kindly
 note,
 all
 times 
are
 in
 GMT 
so 
please confirm
 the 
correct 
time 
within
 your
 geographical 
region. P/S the satellite hubs will only participate in the presentations so note these times as shown below:

Tentative course timetable:


Thursday July 1st 2010

GMT
EastAfrica
(Kenya)
SouthernAfrica
(SouthAfrica)
NorthAfrica
(Morocco)
West Africa
(Nigeria)

0500 - 0600
0800 - 0900



Registration at ILRI/BecA Host HUB
0600 - 0700
0900 - 1000



RSG presentation
0700 - 0720
1000 - 1020
0900 - 0920
0800 - 0820
0800 - 0820
Virtual Break
0720 - 0800
1020 - 1100
0920 - 1000
0820 - 0900
0820 - 0900
Introduction of the course, hubs and speakers
0800 - 1000
1100 - 1300
1000 - 1200
0900 - 1100
0900 - 1100
Carolin Kosiol
1000 - 1100
1300 - 1400



Virtual break
1100 - 1200
1400 - 1500



Practicals (Prank, Gblocks)
1200 - 1300
1500 - 1600
1400 - 1500
1300 - 1400
1300 - 1400
Maria Anisimova
1300 - 1400
1600 - 1700



Practicals (PhyML, Dendroscope)

Friday July 2nd 2010

GMT
East Africa
(Kenya)
Southern Africa
(South Africa)
North Africa
(Morocco)
West Africa
(Nigeria)

0500 - 0630
0800 - 0930



Practicals (PAML: baseml, codeml)
0630 - 0700
0930 - 1000
0830 - 0900
0730 - 0800
0730 - 0800
Virtual Break
0700 - 0930
1000 - 1230
0900 - 1130
0800 - 1030
0800 - 1030
Aidan Budd
0930 - 1020
1230 - 1320



Virtual break
1020 - 1050
1320 - 1350



Practicals (Splitstree)
1100-1200
1400 - 1500
1300 - 1400
1200 - 1300
1200 - 1300
Rasmus Nielsen
1200 - 1400
1500 - 1700



Practicals (PAML: codeml)
1400 -
1700 -



Feedback/Closing



You can download a copy of the workshop program here:





Invited speakers (in alphabetical order)


Each invited speaker will present an online tutorial during the course. See the timetable for their talk schedule.
Speaker
Affiliation
Topic
Aidan Budd
EMBL Heidelberg
Advances in Phylogeny trees and phylogeny networks
Carolin Kosiol
Department of population genetics Veterinary university of Vienna
Trends in Evolutionary Models
Maria Anisimova
Institute of Computational Science, ETH Zurich
Branch supports in Phylogeny
**Rasmus Nielsen**
Department of intergrative biology University of Berkeley
Human adaptation


Course materials


Practicals for interpreting and estimating phylogenies










Hubs

Confirmed hubs

1. ILRI/BecA Nairobi-Kenya : Main hub
2. SMBI Tangier-Morocco : Satellite hub
3. SMBI Casablanca-Morocco: Satellite hub
4. SMBI Rabat-Morocco: Satellite hub
5. SANBI UWC South Africa: Satellite hub
6. UCT South Africa: Satellite hub
7. University of Pretoria: Satellite hub
8. University of Mauritus: Satellite hub


Interested in setting up a new hub?

As renowned scientists in the field of molecular evolution will be presenting their research, our aim is to have many students from Africa benefit from this opportunity, therefore, we will be happy to assist anyone willing to set up a hub in their respective institution. There are no hub fees!

Requirements for a hub

  1. Good internet connection
  2. Hub coordinator
  3. Audience

Videoconferencing platform

We will use Cisco webex platform
If you wish to form a satellite hub in your institution, please write to us using the addresses on the contact us section


Contact us

Sheila Ommeh: s.ommeh@cgiar.org
Mtakai Ngara: ngaravald@gmail.com


The Team

Organizers

Sheila Ommeh - ILRI
Mtakai Ngara – IITA/University of Manchester
Isaac Njaci – University of Manchester
Allan Orth - ILRI/BecA
Sonal Patel - STPHI/ILRI
Nelson Ndegwa - University of Manchester
George Githinji - KEMRI/Wellcome Trust Center for Georgaphical Medicine


Volunteers at ILRI/BecA Hub

Kimita Gathii - Question Taker all hubs
Geoffrey Mtenyo - Question taker ILRI/BecA hub


Hub coordinators

Kavisha Ramdayal - SANBI
Dale Gibbs - SANBI
Ayton Meintjes - CBIO
Fouzia Radouani - Institute Pasteur di Cassablanca Morocco
Amina Elgo - Institute Pasteur di Cassablanca Morocco
Ahmed Elamrani -
Raouf Alami
Benjamin Kumweda - University of Pretoria
Yasmina Jaufeerally Fakim - University of Mauritius


Supporting mentors

Dr. Etienne de Villiers - ILRI/BecA
Dr. Amal Maurady - SMBI Morocco
Prof. Alan Christoffels - SANBI
Prof. Nicola Mulder - UCT
Prof. Winston Hide - Harvard