Molecular characterization of the European rice collection in view of association mapping

Courtois Brigitte, Greco Rafaella, Bruschi Gianluca, Frouin Julien, Ahmadi Nourollah, Droc Gaëtan, Hamelin Chantal, Ruiz Manuel, Evrard Jean-Charles, Katsantonis Dimitrios, Oliveira Margarida, Negrão Sonia, Cavigiolo Stefano, Lupotto Elisabetta, Piffanelli Pietro. 2011. Molecular characterization of the European rice collection in view of association mapping. Plant Genetic Resources, 9 (2) : pp. 233-235.

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Abstract : In South Europe, rice is grown as an irrigated crop in river deltas where it plays an important role in soil desalinization. Specific varieties are needed for these tough conditions. We analyzed the genetic structure of a set of 305 varieties coming from the European Rice Germplasm Collection (ERGC) with 90 single nucleotide polymorphisms and compared it with a reference set representative of the diversity of Oryza sativa (mini-Germplasm Bank (GB)). These accessions had been characterized for their grain type and growth cycle duration. The polymorphism information contents of the ERGC were lower than those of the mini-GB, indicating a narrower genetic basis. Indeed, almost all ERGC accessions belong to the japonica group. Within the japonica group, both a dendrogram and a Bayesian clustering identified two major clusters. The first cluster encompassed tropical japonicas and American varieties from USA and Argentina characterized by long and narrow grains and medium to long duration. On a finer level, tropical japonicas appear separated from the other accessions. The second cluster is composed of European varieties mostly early or medium in duration and Asian temperate accessions, with a subgrouping based on grain format. A set of 200 accessions was composed for association mapping studies on traits such as salt tolerance. (Résumé d'auteur)

Mots-clés Agrovoc : Oryza sativa, Variation génétique, Carte génétique, Collection de matériel génétique, Polymorphisme génétique

Mots-clés géographiques Agrovoc : Europe

Mots-clés complémentaires : Oryza sativa japonica

Classification Agris : F70 - Plant taxonomy and geography
F30 - Plant genetics and breeding

Champ stratégique Cirad : Axe 1 (2005-2013) - Intensification écologique

Auteurs et affiliations

  • Courtois Brigitte, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0003-2118-7102
  • Greco Rafaella, Parco Tecnologico Padano (ITA)
  • Bruschi Gianluca, Parco Tecnologico Padano (ITA)
  • Frouin Julien, CIRAD-BIOS-UMR AGAP (FRA)
  • Ahmadi Nourollah, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0003-0072-6285
  • Droc Gaëtan, CIRAD-BIOS-UMR AGAP (FRA)
  • Hamelin Chantal, CIRAD-BIOS-UMR AGAP (FRA)
  • Ruiz Manuel, CIRAD-BIOS-UMR AGAP (FRA) ORCID: 0000-0001-8153-276X
  • Evrard Jean-Charles, CIRAD-BIOS-UMR AGAP (FRA)
  • Katsantonis Dimitrios, NAGREF (GRC)
  • Oliveira Margarida, ITQB (PRT)
  • Negrão Sonia, ITQB (PRT)
  • Cavigiolo Stefano, Istituto Sperimentale per la Cerealicoltura (ITA)
  • Lupotto Elisabetta, Istituto Sperimentale per la Cerealicoltura (ITA)
  • Piffanelli Pietro, Parco Tecnologico Padano (ITA)

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