Abstract
Barley yellow dwarf viruses (BYDVs) are responsible for the disease barley yellow dwarf (BYD) and affect many cereals including oat (Avena sativa L.). Until recently, the molecular marker technology in oat has not allowed for many marker-trait association studies to determine the genetic mechanisms for tolerance. A genome-wide association study (GWAS) was performed on 428 spring oat lines using a recently developed high-density oat single nucleotide polymorphism (SNP) array as well as a SNP-based consensus map. Marker-trait associations were performed using a Q-K mixed model approach to control for population structure and relatedness. Six significant SNP-trait associations representing two QTL were found on chromosomes 3C (Mrg17) and 18D (Mrg04). This is the first report of BYDV tolerance QTL on chromosome 3C (Mrg17) and 18D (Mrg04). Haplotypes using the two QTL were evaluated and distinct classes for tolerance were identified based on the number of favorable alleles. A large number of lines carrying both favorable alleles were observed in the panel.
Publication types
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Research Support, U.S. Gov't, Non-P.H.S.
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Research Support, Non-U.S. Gov't
MeSH terms
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Alleles
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Avena / genetics*
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Avena / virology*
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Chromosome Mapping
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Disease Resistance / genetics*
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Genetics, Population
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Genome, Plant
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Genome-Wide Association Study*
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Genotype
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Haplotypes
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Luteovirus / physiology*
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Phenotype
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Plant Diseases / genetics*
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Plant Diseases / virology*
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Polymorphism, Single Nucleotide
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Quantitative Trait Loci
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Quantitative Trait, Heritable
Grants and funding
This work was funded by grants from the United States Department of Agriculture National Food Research Initiative, the North American Millers’ Association, and the United States Department of Agriculture - Agricultural Research Service specific cooperative agreement 58-3602-2-656. BF acknowledges funding for his graduate assistantship from the United States Department of Agriculture - Agricultural Research Service specific cooperative agreement 58-3602-2-656 and from the University of Illinois at Urbana-Champaign/Illinois Crop Improvement Association J.C. Hackleman Graduate Fellowship. The funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript. Author Eric W. Jackson is employed by General Mills Crop Bioscience. General Mills Crop Bioscience provided support in the form of salary for author EWJ, but did not have any additional role in the study design, data collection and analysis, decision to publish, or preparation of the manuscript. The specific role of this author is articulated in the ‘author contributions’ section.