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Development and characterization of a new set of 164 polymorphic EST-SSR markers for diversity and breeding studies in rubber tree (Hevea brasiliensis Müll. Arg.)

Cubry Philippe, Pujade-Renaud Valérie, Garcia Dominique, Espeout Sandra, Le Guen Vincent, Granet Françoise, Seguin Marc. 2014. Development and characterization of a new set of 164 polymorphic EST-SSR markers for diversity and breeding studies in rubber tree (Hevea brasiliensis Müll. Arg.). Plant Breeding, 133 (3) : pp. 419-426.

Journal article ; Article de recherche ; Article de revue à facteur d'impact
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Quartile : Q2, Sujet : AGRONOMY / Quartile : Q2, Sujet : PLANT SCIENCES / Quartile : Q3, Sujet : BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Abstract : Despite its economic importance and recent genome release, the need for molecular tools for Hevea brasiliensis is high. In the frame of a disease resistance study, EST sequences were retrieved from public database or generated by sequencing SSH libraries. Sequences were trimmed and microsatellite motifs searched using an ad hoc bioinformatic pipeline, and pairs of primers for the amplification of candidate markers were generated. We found a total of 10 499 unigenes from both sources of sequences, and 673 microsatellites motifs were detected using the default parameters of the pipeline. Two hundred sixty-four primer pairs were tested and 226 (85.6%) successfully amplified. Out of the amplified candidate markers, 164 exhibited polymorphism. Relationships based on dendrograms using simple matching index and diversity statistics based on EST-SSRs were compared with Genomic SSRs, showing the potentialities of EST-derived microsatellites for resistance studies but also for population genetics approaches. (Résumé d'auteur)

Mots-clés Agrovoc : Hevea brasiliensis, Résistance aux maladies, Résistance génétique, Polymorphisme génétique, Séquence nucléotidique, Microsatellite, Génotype, Variation génétique, Amélioration des plantes, Génie génétique, Biologie moléculaire, Bioinformatique, Microcyclus ulei

Mots-clés complémentaires : SSR

Mots-clés libres : Rubber tree, EST-SSR, Microsatellite, Hevea

Classification Agris : F30 - Plant genetics and breeding
H20 - Plant diseases
U30 - Research methods

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

Auteurs et affiliations

  • Cubry Philippe, Manufacture Michelin (FRA)
  • Pujade-Renaud Valérie, CIRAD-BIOS-UMR AGAP (FRA)
  • Garcia Dominique, CIRAD-BIOS-UMR AGAP (FRA)
  • Espeout Sandra, CIRAD-BIOS-UMR AGAP (FRA)
  • Le Guen Vincent, CIRAD-BIOS-UMR AGAP (FRA)
  • Granet Françoise, Michelin (FRA)
  • Seguin Marc, CIRAD-BIOS-UMR AGAP (FRA)

Source : Cirad-Agritrop (https://agritrop.cirad.fr/579493/)

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