Unfortunately, we have to postpone this course to October 2022, as an on-site course was not possible in February.
Objectives Polyploidy is widespread and frequent in plants (including many crops), but also occurs in animals such as fish and amphibians. However, our understanding of the genetics of polyploid populations and populations of mixed ploidy is still poor. This is mainly because population genetics theory was originally developed for diploids. Moreover, there is often a gap between theory developed for polyploids and its practical implementation. This practically-oriented course will attempt to bridge this gap. Simulation-based exercises (among others using R) will elucidate theoretical foundations of both diploid and polyploid population genetics. Additionally, analyzes of real or realistic example datasets (microsatellite and SNP markers) will give participants hands-on training in several available methods for the population genetic analysis of polyploids.
The exact topics will include clustering methods with specific attention to the problem of mixed ploidy, analysis of population genetic / genomic structure in polyploid complexes, effect of mating system variation and analysis of selection in polyploid genomes. Participants will also devote time to a group project focused on application of gathered knowledge in further modeling or on analyzes of empirical datasets with discussion of further prospects and methods limitations. Materials from the previous course run can be found here .
Tentative schedule :
|
Date |
Time slot |
Activity |
|
|
Sat |
9-12 |
Mental preparation and travel |
|
|
14-17 |
Arrival |
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|
19-… |
Arrival |
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|
Sun |
9-12 |
Arrival |
|
|
14-17 |
Arrival (ideally no later than 17.00)
[optional for those not yet comfortable with R simulations] |
|
|
|
19-… |
Participant presentations, Welcome reception |
|
|
|
Mon |
9-12 |
|
|
|
14-17 |
|
|
|
|
19-… |
Participant presentations, selection of group project |
|
|
|
Tue |
9-11 |
|
|
|
11-12 |
|
|
|
|
14-17 |
|
|
|
|
19-… |
Work on group project |
|
|
|
Wed |
9-12 |
(Polina Novikova) |
|
|
14-17 |
D. continued |
|
|
|
19-… |
Work on group project |
|
|
|
Thu |
9-12 |
|
|
|
14-17 |
E. continued |
|
|
|
19-… |
Work on group project |
|
|
|
Fri |
9-12 |
Practical data evaluation - data workflow, problems & applications |
|
|
14-17 |
Group project presentations |
|
|
|
19-… |
Farewell social event |
|
|
|
Sat |
9-12 |
Leaving |
|
|
14-17 |
Travel and sleep |
|
|
|
19-… |
More sleep |
|
|
Prerequisites : Basic knowledge of R programming language and general knowledge of population genetic foundations of diploid populations (diversity, differentiation). Experience in scripting in R is useful, but for the beginners there will be an extra R-introductory day before the workshop starts.
Course teachers : Magdalena Bohutínská , Olivier Hardy , Filip Kolář , Patrick Meirmans , Polina Novikova , Marc Stift
Recommended background : Basic knowledge of R programming language and general knowledge of population genetic foundations of diploid populations (diversity, differentiation). Experience in scripting in R is useful, but for the beginners there will be an extra R-introductory day before the workshop starts.
Course level : The course is aimed at PhD students. Motivated MSc students can be admitted as well. The format of this course requires students to identify the need of using these methods in their research. A 2 ECTS course certificate will be given to students that pass the course by ForBio.
Costs : Course participation is free and includes food and accommodation, but travel arrangements are at own cost except for ForBio members.
Travel, food and accommodation : Shared accommodation is free of charge. In addition, ForBio will cover travel for Norwegian ForBio members. Meals are included, and the venue has cooking facilities and participants will prepare food together in shifts.
Course plan : The preliminary course schedule can be downloaded here .
Application : Closed
Contact Hugo de Boer or Quentin Mauvisseau for more information.