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Genome-wide association mapping of agronomic traits in relevant barley germplasm in Uruguay

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Abstract

The genetic basis of agronomic traits determining adaptation to specific production conditions is a key factor for the improvement of crops, including malting barley (Hordeum vulgare L.). The aim of this study was to determine the genome-wide genetic components associated with agronomic phenotypes of local and global significance in a population of 76 barley genotypes that have been introduced into Uruguay in different chronological periods. The phenotypic database was obtained from five field experiments, planted in 2 years and in two locations, where a total of 13 agronomic traits were determined. The population was genotyped with 1,033 single nucleotide polymorphisms. We found a total of 41 quantitative trait loci (QTL) in a combined analysis using all datasets and 79 QTL if we considered all the trait/experiment combinations analyzed. The highest concentration of QTL was detected on chromosomes 2H and 4H. Most QTL were detected for grain plumpness and weight. Two linkage disequilibrium (LD) blocks associated with a large number of traits were detected on 2HS. The largest LD block was composed of three haplotypes, possibly derived from three ancestors of different geographical origin. We also detected three genomic regions in different chromosomes (2H, 5H and 7H) in LD between them, associated with agronomic traits. This study provides a contribution to the understanding of the genetics of barley adaptation in the southern cone of South America. Our results showed that elite varieties have favorable alleles at different QTL, indicating that gains can be made through plant breeding.

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Acknowledgments

The authors thank Sergio Pieroni and Alvaro Medina for their help in the Ombúes de Lavalle experiments. They also want to thank Dr. María Muñoz-Amatraín for her help with the location of the SNPs and two anonymous reviewers for their comments on the manuscript. The authors also wish to thank Tanya Filichkin and Phinrayat Kongprakhon for their help in the lab work. This research was funded by competitive grants awarded by the Instituto Nacional de Investigación Agropecuaria, Uruguay (FPTA 227) and the Fondo Regional de Tecnología Agropecuaria (FONTAGRO, www.fontagro.org) (Project FTG-05617-06).

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Authors and Affiliations

  1. Departamento de Producción Vegetal, Est. Exp. “Dr. Mario A. Cassinoni”, Facultad de Agronomía, Universidad de la República, Ruta 3, km 363, 60000, Paysandú, Uruguay

    Andrés Locatelli & Ariel J. Castro

  2. Polo Agroalimentario e Industrial, Centro Universitario de Paysandú, Universidad de la República, Ruta 3, km 363, 60000, Paysandú, Uruguay

    Andrés Locatelli

  3. Department of Crop and Soil Science, Oregon State University, Corvallis, OR, 97331-3002, USA

    Alfonso Cuesta-Marcos & Patrick M. Hayes

  4. Departamento de Biometría, Estadística y Cómputos, Facultad de Agronomía, Universidad de la República, Garzón 780, 12900, Montevideo, Uruguay

    Lucía Gutiérrez

  5. Department of Agronomy and Plant Genetics, 1991 Upper Buford Circle, Ste 411 Borlaug Hall, St. Paul, MN, 55108, USA

    Kevin P. Smith

Authors
  1. Andrés Locatelli
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  2. Alfonso Cuesta-Marcos
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  3. Lucía Gutiérrez
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  4. Patrick M. Hayes
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  5. Kevin P. Smith
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  6. Ariel J. Castro
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Corresponding author

Correspondence to Ariel J. Castro.

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Locatelli, A., Cuesta-Marcos, A., Gutiérrez, L. et al. Genome-wide association mapping of agronomic traits in relevant barley germplasm in Uruguay. Mol Breeding 31, 631–654 (2013). https://doi.org/10.1007/s11032-012-9820-x

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  • DOI: https://doi.org/10.1007/s11032-012-9820-x

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