Diseases caused by necrotrophic fungi, such as the cosmopolitan Sclerotinia sclerotiorum and the Diaporthe/Phomopsis complex, are among the most destructive diseases of sunflower worldwide. The lack of complete resistance combined with the inefficiency of chemical control makes assisted breeding the best strategy for disease control. In this work, we present an integrated genome-wide association (GWA) study investigating the response of a diverse panel of sunflower inbred lines to both pathogens. Phenotypic data for Sclerotinia head rot (SHR) consisted of five disease descriptors (disease incidence, DI; disease severity, DS; area under the disease progress curve for DI, AUDPCI, and DS, AUDPCS; and incubation period, IP). Two disease descriptors (DI and DS) were evaluated for two manifestations of Diaporthe/Phomopsis: Phomopsis stem canker (PSC) and Phomopsis head rot (PHR). In addition, a principal component (PC) analysis was used to derive transformed phenotypes as inputs to a univariate GWA (PC-GWA). Genotypic data comprised a panel of 4269 single nucleotide polymorphisms (SNP), generated via genotyping-by-sequencing. The GWA analysis revealed 24 unique marker–trait associations for SHR, 19 unique marker–trait associations for Diaporthe/Phomopsis diseases, and 7 markers associated with PC1 and PC2. No common markers were found for the response to the two pathogens. Nevertheless, epistatic interactions were identified between markers significantly associated with the response to S. sclerotiorum and Diaporthe/Phomopsis. This suggests that, while the main determinants of resistance may differ for the two pathogens, there could be an underlying common genetic basis. The exploration of regions physically close to the associated markers yielded 364 genes, of which 19 were predicted as putative disease resistance genes. This work presents the first simultaneous evaluation of two manifestations of Diaporthe/Phomopsis in sunflower, and undertakes a comprehensive GWA study by integrating PSC, PHR, and SHR data. The multiple regions identified, and their exploration to identify candidate genes, contribute not only to the understanding of the genetic basis of resistance, but also to the development of tools for assisted breeding.
The aims of the present study were to assess the phenotypic diversity among 221 sunflower accessions of INTA Pergamino Sunflower Breeding Program, to obtain discriminant functions that allow the classification of new accessions in similar groups and to evaluate the relationship between genetic distance pairwise accessions and hybrid performance for grain yield and oil content. We used 19 quantitative descriptors to evaluate phenotypic and morphological variability. Principal Component Analysis (PCA) and Hierarchical Cluster Analysis (HCA) were used to evaluate simultaneously all the variables and to describe phenotypic variation patterns of the germplasm. The distribution of germplasm in the dendrogram did not follow a clear pattern with regard to the predefined groups. This study revealed the variability observed among the lines that form the INTA Pergamino breeding program despite the highly selective forces applied to obtain inbred lines that produce superior hybrids for the Argentinean sunflower area. This work demonstrates the need for more in-depth study of genetic variability to be used as a predictor of heterosis in sunflower.
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