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CNV4SEL

Indéfini
Titre du projet: 
Strategies for CNV discovery in animal and plant species and their use in breeding
Coordinateur: 
Dominique Rocha (GABI, Jouy en Josas)
Participants: 
V. Loux, S. Derozier
Partenaires: 
GABI, SIgenae, URGI, MIA, AGAP, PEGASE, GENPHYSE,AGPF, EPGV
Début-fin: 
2015-2017
Année de fin: 
Dimanche, Décembre 31, 2017
Appel d'offre: 
Métaprogramme SELGEN
Equipe(s): 
Migale
Résumé: 

Copy Number Variants (CNVs) are a novel type of polymorphism involving large regions, often corresponding to duplications or deletions of chromosomal fragments, including sometimes expressed genes. These CNVs have been discovered recently and are under strong investigations because of their potential functional effect. Since 2003-2004, CNVs have been documented in an increasing number of species. However, despite their potential impact, CNV surveys have been done only for a limited number of animal breeds and plant cultivars.

The aim of the CNV4Sel project is mostly to establish a network of scientists interested in studying the impact of CNVs. This network will, initially, include colleagues working on four animal (cattle, chicken, goat and sheep) and four plant (grapevine, maize, poplar and wheat) species. This scientific network will address issues on how to (1) identify CNVs, (2) experimentally validate CNVs and (3) study the putative effects of some of these polymorphisms on agronomical traits.

Several methods to identify in silico and validate experimentally subsets of CNVs will be tested and compared. Data from different animal and plant species will be assayed to benchmark the different tools and techniques. Expected outcomes will be some validated CNVs for few species and a set of recommendations on how to choose the most appropriate tools/methods. In addition, bioinformatics pipelines and workflows for CNV identification and analyses will be developed and made publicly-available. Databases hosting

animal and plant CNV data will also be set up/improved.

 

 



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Contrat | by Dr. Radut