Genetic diversity and genome-wide association studies in sweet cherry

  1. José Antonio Campoy 1
  2. Emilie Lerigoleur-Balsemin 3
  3. Hélène Christmann 1
  4. Rémi Beauvieux 1
  5. Nabil Girollet 2
  6. José Quero-Garcia 1
  7. Elisabeth Dirlewanger 1
  8. Teresa Barreneche 1
  1. 1 University of Bordeaux
    info

    University of Bordeaux

    Burdeos, Francia

    ROR https://ror.org/057qpr032

  2. 2 UMR Ecophysiologie et Génomique Fonctionnelle de la Vigne, ISVV, INRA, Villenave d’Ornon
  3. 3 UMR Géographie de l’environnement, CNRS, Toulouse
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Actas:
8th International Rosaceae Genomics Conference (RGC8)

Año de publicación: 2016

Tipo: Aportación congreso

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Resumen

Description of the genetic diversity, linkage disequilibrium and population structure is necessary for the efficient management of genetic resources and for genome-wide association studies (GWAS). In this study we present the evaluation of the genetic diversity, the detection of linkage disequilibrium (LD) patterns, the estimation of the levels of population structure, the identification of a first “core collection” and preliminary data on GWAS in sweet cherry.A total of 210 genotypes including breeds and land races from 16 countries were genotyped using the RosBREED cherry 6K SNP array v1. Structure analysis using STRUCTURE software detected two ancestral populations. Principal Coordinate Analysis confirmed these results. Further analyses identified nine subgroups using STRUCTURE and Discriminant Analysis of Principal Components. These sub-groups matched to different eco-geographic regions of landraces distribution. LD was evaluated showing lower values than in peach, the reference Prunus species. A core collection containing 156 accessions was constructed using the maximum length sub tree method. Preliminary analysis allowed the identification of significant SNPs controlling important agronomical traits.We present the first population genetics analysis in cultivated sweet cherry using a medium-density SNP marker array. We provide data on LD, genetic structure and GWAS, and we propose the definition of a first INRA’s sweet cherry core collection useful for breeding programs, germ plasm management and association genetics studies.