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High-resolution genetic and physical map of the Rvi1 (Vg) apple scab resistance locus

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Abstract

Apple scab, caused by the fungal pathogen V. inaequalis, is one of the most prejudicial diseases in apple (Malus × domestica Borkh.). At least 17 monogenic resistances against this pathogen have been identified in the Malus genus, but only two, Rvi6 (Vf) and Rvi15 (Vr2), have been cloned and functionally characterized so far. Here, we describe the first steps of the cloning of a new scab resistance gene, Rvi1 (Vg). This gene is carried by the well-known cultivar ‘Golden Delicious’ and confers specific resistance against V. inaequalis strains carrying the AvrRvi1 avirulence factor. With a fine mapping approach on a population of 1,983 individuals, we developed SSR markers tightly linked to the Rvi1 gene. Sequencing of two bacterial artificial chromosome (BAC) clones covering, respectively, the Rvi1 apple scab resistant and susceptible allele, allowed the identification of a 110-kilo base pairs (kbps) sequence flanked by two linked markers (Vg12- and Vg15-SSR). Open reading frames were predicted on these BACs: four TIR–NBS–LRR (TNL) putative genes, a putative TNL pseudogene and one serine/threonine protein phosphatase 2A were identified.

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Acknowledgments

The authors would like to thank the FEM sequencing facility (lead by Dr Pindo) for all the work done for BAC sequencing and the Provincia Autonoma di Trento for the funding. The authors are grateful to the technicians of the INRA greenhouse facilities, especially Nicolas Dousset who was leading the facilities at that time.

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Author notes

  1. Pauline Lasserre-Zuber

    Present address: UMR1095, Genetics, Diversity and Ecophysiology of Cereals, INRA, 5 chemin de Beaulieu, 63100, Clermont-Ferrand, France

Authors and Affiliations

  1. Department of Genomics and Biology of Fruit Crops, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via E. Mach 1, 38010, San Michele all’Adige, TN, Italy

    Valentina Cova, Stefano Piazza, Alessandro Cestaro, Riccardo Velasco & Mickael Malnoy

  2. UMR1345 Institut de Recherche en Horticulture et Semences – IRHS, SFR 4207 QUASAV, PRES L’UNAM, INRA, 42 rue Georges Morel, 49071, Beaucouze Cedex, France

    Pauline Lasserre-Zuber & Charles Eric Durel

  3. UMR1345 Institut de Recherche en Horticulture et Semences – IRHS, AgroCampus-Ouest, 49045, Angers, France

    Charles Eric Durel

  4. UMR1345 Institut de Recherche en Horticulture et Semences – IRHS, Université d’Angers, 49045, Angers, France

    Charles Eric Durel

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  1. Valentina Cova
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  2. Pauline Lasserre-Zuber
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  3. Stefano Piazza
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  4. Alessandro Cestaro
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  7. Mickael Malnoy
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Correspondence to Mickael Malnoy.

Additional information

Valentina Cova and Pauline Lasserre-Zuber have contributed equally to the work.

Sequences have been submitted to EMBL database: Accession #: HG792593 for Malus domestica TNL-Rvi1-3R gene for TIR–NBS–LRR disease resistance protein, cultivar Golden Delicious; Acc. #: HG792594 for TNL-Rvi1-2R; Acc. #: HG792595 for TNL-Rvi1-1R; Acc. #: HG792596 for TNL-Rvi1-3S; Acc. #: HG792597 for TNL-Rvi1-4S; Acc. #: HG792598 for TNL-Rvi1-1S; Acc. #: HG792599 for TNL-Rvi1-2S; Acc. #: HG792600 for TNL-Rvi1-4R; Acc. #: HG792601 for Malus domestica PP2A-GdRvi1-R gene for putative predicted protein cv Golden Delicious; Acc. #: HG792602 for Malus domestica PP2A-GdRvi1-S gene.

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Cova, V., Lasserre-Zuber, P., Piazza, S. et al. High-resolution genetic and physical map of the Rvi1 (Vg) apple scab resistance locus. Mol Breeding 35, 16 (2015). https://doi.org/10.1007/s11032-015-0245-1

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