Publications des agents du Cirad


High-density SNP assay development for genetic analysis in maritime pine (Pinus pinaster)

Plomion C., Bartholomé J., Lesur I., Boury C., Rodríguez-Quilón I., Lagraulet H., Ehrenmann F., Bouffier L., Gion J.M., Grivet D., de Miguel M., de Maria N., Cervera M.T., Bagnoli F., Isik F., Vendramin G.G., González-Martínez S.C.. 2016. Molecular Ecology Resources, 16 : p. 574-587.

Maritime pine provides essential ecosystem services in the south-western Mediterranean basin, where it covers around 4 million ha. Its scattered distribution over a range of environmental conditions makes it an ideal forest tree species for studies of local adaptation and evolutionary responses to climatic change. Highly multiplexed single nucleotide polymorphism (SNP) genotyping arrays are increasingly used to study genetic variation in living organisms and for practical applications in plant and animal breeding and genetic resource conservation. We developed a 9k Illumina Infinium SNP array and genotyped maritime pine trees from (i) a three-generation inbred (F2) pedigree, (ii) the French breeding population and (iii) natural populations from Portugal and the French Atlantic coast. A large proportion of the exploitable SNPs (2052/8410, i.e. 24.4%) segregated in the mapping population and could be mapped, providing the densest ever gene-based linkage map for this species. Based on 5016 SNPs, natural and breeding populations from the French gene pool exhibited similar level of genetic diversity. Population genetics and structure analyses based on 3981 SNP markers common to the Portuguese and French gene pools revealed high levels of differentiation, leading to the identification of a set of highly differentiated SNPs that could be used for seed provenance certification. Finally, we discuss how the validated SNPs could facilitate the identification of ecologically and economically relevant genes in this species, improving our understanding of the demography and selective forces shaping its natural genetic diversity, and providing support for new breeding strategies. (Résumé d'auteur)

Mots-clés : marqueur génétique; dynamique des populations; adaptation aux changements climatiques; Écologie forestière; distribution géographique; variation génétique; génétique des populations; sélection; polymorphisme de longueur des fragments amplifiés; polymorphisme génétique; zone méditerranéenne; pinus pinaster; portugal; france

Thématique : Foresterie - Considérations générales; Génétique et amélioration des plantes; Météorologie et climatologie

Documents associés

Article de revue

Agents Cirad, auteurs de cette publication :