Journal Articles

Genome‐wide association links candidate genes to resistance to Plum Pox Virus in apricot (Prunus armeniaca)

September 10, 2015

Genome‐wide association links candidate genes to resistance to Plum Pox Virus in apricot (Prunus armeniaca)New Phytol. 2015 Sep 10, Mariette S1,2,3, Wong Jun Tai F1,4, Roch G5,6, Barre A4, Chague A1, Decroocq S1, Groppi A4, Laizet Y2,3, Lambert P5, Tricon D1, Nikolski M4, Audergon JM5,Abbott AG1,7, Decroocq V1.

  • 1UMR 1332 Biologie du Fruit et Pathologie, Equipe de Virologie, INRA, Université de Bordeaux, CS20032, F-33882, Villenave d’Ornon, France.
  • 2UMR 1202 BIOGECO, INRA, F-33610, Cestas, France.
  • 3UMR 1202 BIOGECO, Université de Bordeaux, F-33400, Talence, France.
  • 4Bordeaux Bioinformatics Center CBiB, Université de Bordeaux, 351 cours de la Libération, F-33405, Talence, France.
  • 5UR1052 GAFL, Domaine Saint Maurice, INRA, CS60094, F-84143, Montfavet, France.
  • 6CEP INNOVATION, INRA, 23 rue Jean Baldassini, F-69364, LYON Cedex 7, France.
  • 7University of Kentucky, 106 T. P. Cooper Hall, Lexington, KY, 40546-0073, USA

Note: Genome sequencing and other services for this research were conducted at the David H. Murdock Research Institute.

Abstract

In fruit tree species, many important traits have been characterized genetically by using single-family descent mapping in progenies segregating for the traits. However, most mapped loci have not been sufficiently resolved to the individual genes due to insufficient progeny sizes for high resolution mapping and the previous lack of whole-genome sequence resources of the study species. To address this problem for Plum Pox Virus (PPV)candidate resistance gene identification in Prunus species, we implemented a genome-wide association (GWA) approach in apricots. This study exploited the broad genetic diversity of the apricot (Prunus armeniaca) germplasm containing resistance to PPV, next-generation sequence-based genotyping, and the high-quality peach (Prunus persica) genome reference sequence for single nucleotide polymorphism (SNP) identification. The results of this GWA study validated previously reported PPV resistance quantitative trait loci (QTL) intervals, highlighted other potential resistanceloci, and resolved each to a limited set of candidate genes for further study. This work substantiates the association genetics approach for resolution of QTL to candidate genes in apricot and suggests that this approach could simplify identification of other candidate genes for other marked trait intervals in this germplasm.

© 2015 INRA, UMR 1332 BFP New Phytologist © 2015 New Phytologist Trust.

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