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Quantitative Trait Loci (QTL) and Mendelian Trait Loci (MTL) Analysis in Prunus: a Breeding Perspective and Beyond

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Abstract

Trait loci analysis, a classic procedure in quantitative (quantitative trait loci, QTL) and qualitative (Mendelian trait loci, MTL) genetics, continues to be the most important approach in studies of gene labeling in Prunus species from the Rosaceae family. Since 2011, the number of published Prunus QTLs and MTLs has doubled. With increased genomic resources, such as whole genome sequences and high-density genotyping platforms, trait loci analysis can be more readily converted to markers that can be directly utilized in marker-assisted breeding. To provide this important resource to the community and to integrate it with other genomic, genetic, and breeding data, a global review of the QTLs and MTLs linked to agronomic traits in Prunus has been performed and the data made available in the Genome Database for Rosaceae. We describe detailed information on 760 main QTLs and MTLs linked to a total of 110 agronomic traits related to tree development, pest and disease resistance, flowering, ripening, and fruit and seed quality. Access to these trait loci enables the application of this information in the post-genomic era, characterized by the availability of a high-quality peach reference genome and new high-throughput DNA and RNA analysis technologies.

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Acknowledgments

This study has been partially supported by the following projects from the Spanish Ministry of Economy and Competiveness: “Almond breeding” (AGL2010-22197-C02-02), “Apricot breeding” (AGL2010-21903) and “Gene expression analysis of the resistance to Plum pox virus, PPV (Sharka) in apricot by transcriptome deep-sequencing (RNA-Seq)” (AGL2010-16335), and the USDA SCRI funded projects tree fruit Genome Database Resources (Award # 2009-51181-7659) and RosBREED (Award # 2009-51181-05808).

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Authors and Affiliations

  1. Departamento de Mejora Vegetal, CEBAS-CSIC, PO Box 164, 30100, Espinardo, Murcia, Spain

    Juan Alfonso Salazar, David Ruiz, Pedro Martínez-Gómez & Manuel Rubio

  2. UMR 1332 de Biologie du Fruit et Pathologie, Université de Bordeaux, 33140, Villenave d’Ornon, France

    José Antonio Campoy

  3. UMR 1332 de Biologie du Fruit et Pathologie, INRA, 33140, Villenave d’Ornon, France

    José Antonio Campoy

  4. Plant Biochemistry Lab, Faculty of Science, University of Copenhagen, 1871, Copenhagen C, Denmark

    Raquel Sánchez-Pérez

  5. Department of Plant Science, University of California-Davis, Davis, CA, 95616, USA

    Carlos H. Crisosto & Pedro J. Martínez-García

  6. Department of Genetics and Biochemistry, Clemson University, Clemson, SC, 29634, USA

    Anna Blenda

  7. Department of Horticulture, Washington State University, 45 Johnson Hall, Pullman, WA, 99164-6414, USA

    Sook Jung & Dorrie Main

  8. Department of Biology, Erskine College, Due West, SC, 29639, USA

    Anna Blenda

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  1. Juan Alfonso Salazar
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Correspondence to Dorrie Main or Pedro Martínez-Gómez.

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Salazar, J.A., Ruiz, D., Campoy, J.A. et al. Quantitative Trait Loci (QTL) and Mendelian Trait Loci (MTL) Analysis in Prunus: a Breeding Perspective and Beyond. Plant Mol Biol Rep 32, 1–18 (2014). https://doi.org/10.1007/s11105-013-0643-7

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