Agritrop
Accueil

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

Plomion Christophe, Bartholomé Jérôme, Lesur Isabelle, Boury Christophe, Rodríguez-Quilón I., Lagraulet Hélène, Ehrenmann François, Bouffier L., Gion Jean-Marc, Grivet D., de Miguel Marina, de Maria Nuria, Cervera María-Teresa, Bagnoli F., Isik F., Vendramin Giovanni G., González-Martínez S.C.. 2016. High-density SNP assay development for genetic analysis in maritime pine (Pinus pinaster). Molecular Ecology Resources, 16 : 574-587.

Article de revue ; Article de revue à facteur d'impact
[img] Version Online first - Anglais
Accès réservé aux personnels Cirad
Utilisation soumise à autorisation de l'auteur ou du Cirad.
GionJM-2005(Mol-Ecol-Res-EarlyV-.pdf

Télécharger (697kB) | Demander une copie
[img] Version publiée - Anglais
Accès réservé aux personnels Cirad
Utilisation soumise à autorisation de l'auteur ou du Cirad.
578100.pdf

Télécharger (681kB) | Demander une copie

Quartile : Q1, Sujet : ECOLOGY / Quartile : Q1, Sujet : EVOLUTIONARY BIOLOGY / Quartile : Q1, Sujet : BIOCHEMISTRY & MOLECULAR BIOLOGY

Résumé : 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.

Mots-clés Agrovoc : Pinus pinaster, zone méditerranéenne, polymorphisme génétique, polymorphisme de longueur des fragments amplifiés, sélection, génétique des populations, variation génétique, distribution géographique, écologie forestière, adaptation aux changements climatiques, dynamique des populations, marqueur génétique

Mots-clés géographiques Agrovoc : France, Portugal

Classification Agris : K01 - Foresterie - Considérations générales
F30 - Génétique et amélioration des plantes
P40 - Météorologie et climatologie

Champ stratégique Cirad : Axe 1 (2014-2018) - Agriculture écologiquement intensive

Auteurs et affiliations

  • Plomion Christophe, INRA (FRA)
  • Bartholomé Jérôme, INRA (FRA) ORCID: 0000-0002-0855-3828
  • Lesur Isabelle, INRA (FRA)
  • Boury Christophe, INRA (FRA)
  • Rodríguez-Quilón I., INIA [Espagne] (ESP)
  • Lagraulet Hélène, INRA (FRA)
  • Ehrenmann François, INRA (FRA)
  • Bouffier L., INRA (FRA)
  • Gion Jean-Marc, CIRAD-BIOS-UMR AGAP (FRA)
  • Grivet D., INRA (FRA)
  • de Miguel Marina, INRA (FRA)
  • de Maria Nuria, INIA [Espagne] (ESP)
  • Cervera María-Teresa, INIA [Espagne] (ESP)
  • Bagnoli F., National Research Council (ITA)
  • Isik F., North Carolina State University (USA)
  • Vendramin Giovanni G., National Research Council (ITA)
  • González-Martínez S.C., INIA [Espagne] (ESP)

Source : Cirad-Agritrop (https://agritrop.cirad.fr/578100/)

Voir la notice (accès réservé à Agritrop) Voir la notice (accès réservé à Agritrop)

[ Page générée et mise en cache le 2024-03-29 ]