Projects

CHLORODIV (2013-2015) - Whole chloroplast genomes of crop species as a tool for population genetics, phylogeography and phylogeny in agrobiodiversity research - Funded by Agropolis Fondation (France)

Project leader: T Couvreur

Scientists involved from our team : T Couvreur, N Scarcelli, JC Pintaud, C Mariac, M Couderc, A Barnaud, Y Vigouroux

Understanding the evolutionary patterns of genetic diversity of cultivated plants and their wild relatives is a fundamental aspect of agrobiodiversity research. Documenting genetic diversity and understanding the evolutionary histories of crops will have important impacts in terms of food security in southern countries such as Africa. The detection and analysis of genetic variation has played a central role in such studies. Next Generation Sequencing (NGS) is poised to revolutionize research in crop evolution and genetic diversity allowing for the generation of thousands of genomes. CHLORODIV aims at defining a universal protocol for complete chloroplast sequencing in monocotyledons using NGS that would be cost effective and simultaneously applicable to hundreds of individuals.

Associated publications:

Scarcelli N, Chaïr H, Causse S, Vesta R, Couvreur T, Vigouroux Y (2017) Crop wild relative conservation: wild yams are not that wild. Biological Conservation 210:325-333

Faye A, Deblauwe V, Mariac C, Richard D, Sonké B, Vigouroux Y, Couvreur TLP (2016) Phylogeography of the genus Podococcus (Palmae/Arecaceae) in Central African rain forests: Climate stability predicts unique genetic diversity. Molecular Phylogenetics and Evolution 105:126-138

Scarcelli N, Mariac C, Couvreur TLP, Faye A, Richard D, Sabot F, Berthouly-Salazar C, Vigouroux Y (2016) Intra-individual polymorphism in chloroplasts from NGS data: where does it come from and how to handle it?. Molecular Eciology Resources 16(2):434-445

Mariac C, Scarcelli N, Pouzadou J, Barnaud A, Billot C, Faye A, Maillol V, Santoni S, Vigouroux Y, Couvreur TLP (2014) Cost-effective enrichment hybridization capture of chloroplast genomes at deep multiplexing levels for population genetics andphylogeography studies. Mol Ecol Res 14(6):1103-1113