Genome-wide association studies in sunflower : towards sclerotinia sclerotiorum and diaporthe/phomopsis resistance breeding
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...
| Main Authors: | , , , , , , , , , , |
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| Format: | Artículo |
| Language: | Inglés |
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MDPI
2022
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| Subjects: | |
| Online Access: | http://hdl.handle.net/20.500.12123/13697 https://www.mdpi.com/2073-4425/13/12/2357 https://doi.org/10.3390/genes13122357 |
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| author | Filippi, Carla Valeria Corro Molas, Andres Ezequiel Dominguez, Matías Colombo, Denis Nahuel Heinz, Nicolás Troglia, Carolina Beatriz Maringolo, Carla Andrea Quiroz, Facundo Jose Alvarez, Daniel Lia, Veronica Viviana Paniego, Norma Beatriz |
| author_browse | Alvarez, Daniel Colombo, Denis Nahuel Corro Molas, Andres Ezequiel Dominguez, Matías Filippi, Carla Valeria Heinz, Nicolás Lia, Veronica Viviana Maringolo, Carla Andrea Paniego, Norma Beatriz Quiroz, Facundo Jose Troglia, Carolina Beatriz |
| author_facet | Filippi, Carla Valeria Corro Molas, Andres Ezequiel Dominguez, Matías Colombo, Denis Nahuel Heinz, Nicolás Troglia, Carolina Beatriz Maringolo, Carla Andrea Quiroz, Facundo Jose Alvarez, Daniel Lia, Veronica Viviana Paniego, Norma Beatriz |
| author_sort | Filippi, Carla Valeria |
| collection | INTA Digital |
| description | 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 univariateGWA (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. |
| format | Artículo |
| id | INTA13697 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | MDPI |
| publisherStr | MDPI |
| record_format | dspace |
| spelling | INTA136972022-12-26T10:57:20Z Genome-wide association studies in sunflower : towards sclerotinia sclerotiorum and diaporthe/phomopsis resistance breeding Filippi, Carla Valeria Corro Molas, Andres Ezequiel Dominguez, Matías Colombo, Denis Nahuel Heinz, Nicolás Troglia, Carolina Beatriz Maringolo, Carla Andrea Quiroz, Facundo Jose Alvarez, Daniel Lia, Veronica Viviana Paniego, Norma Beatriz Sunflowers Diaporthe Phomopsis Genomes Girasol Helianthus annuus Sclerotinia sclerotiorum Diaporthe helianthi Genomas GWAS 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 univariateGWA (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. Instituto de Biotecnología Fil: Filippi, Carla Valeria. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina Fil: Filippi, Carla Valeria. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Corro Molas, Andres. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Anguil. Agencia de Extensión Rural General Pico; Argentina Fil: Dominguez, Matías. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Pergamino; Argentina Fil: Colombo, Denis Nahuel. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Anguil; Argentina Fil: Heinz, N. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Manfredi; Argentina Fil: Troglia, Carolina Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina Fil: Maringolo, Carla Andrea. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina Fil: Quiroz, Facundo Jose. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina Fil: Alvarez, Daniel. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Manfredi; Argentina Fil: Lia, Veronica Viviana. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina Fil: Lia, Veronica Viviana. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Lia, Veronica Viviana. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina Fil: Paniego, Norma Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina Fil: Paniego, Norma Beatriz. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina 2022-12-26T10:46:01Z 2022-12-26T10:46:01Z 2022-12 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://hdl.handle.net/20.500.12123/13697 https://www.mdpi.com/2073-4425/13/12/2357 2073-4425 https://doi.org/10.3390/genes13122357 eng info:eu-repograntAgreement/INTA/2019-PE-E6-I114-001/2019-PE-E6-I114-001/AR./Caracterización de la diversidad genética de plantas, animales y microorganismos mediante herramientas de genómica aplicada. info:eu-repograntAgreement/INTA/2019-PE-E6-I127-001/2019-PE-E6-I127-001/AR./Mejoramiento genético de soja, girasol y oleaginosas invernales en calidad y valor agregado, productividad, y estabilidad y plasticidad ante estreses bióticos y abióticos info:eu-repograntAgreement/INTA/2019-PD-E4-I090-001/2019-PD-E4-I090-001/AR./Análisis de patosistemas en cultivos agrícolas y especies forestales. Caracterización de sus componentes info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) application/pdf MDPI Genes 13 (12) : 2357 (Diciembre 2022) |
| spellingShingle | Sunflowers Diaporthe Phomopsis Genomes Girasol Helianthus annuus Sclerotinia sclerotiorum Diaporthe helianthi Genomas GWAS Filippi, Carla Valeria Corro Molas, Andres Ezequiel Dominguez, Matías Colombo, Denis Nahuel Heinz, Nicolás Troglia, Carolina Beatriz Maringolo, Carla Andrea Quiroz, Facundo Jose Alvarez, Daniel Lia, Veronica Viviana Paniego, Norma Beatriz Genome-wide association studies in sunflower : towards sclerotinia sclerotiorum and diaporthe/phomopsis resistance breeding |
| title | Genome-wide association studies in sunflower : towards sclerotinia sclerotiorum and diaporthe/phomopsis resistance breeding |
| title_full | Genome-wide association studies in sunflower : towards sclerotinia sclerotiorum and diaporthe/phomopsis resistance breeding |
| title_fullStr | Genome-wide association studies in sunflower : towards sclerotinia sclerotiorum and diaporthe/phomopsis resistance breeding |
| title_full_unstemmed | Genome-wide association studies in sunflower : towards sclerotinia sclerotiorum and diaporthe/phomopsis resistance breeding |
| title_short | Genome-wide association studies in sunflower : towards sclerotinia sclerotiorum and diaporthe/phomopsis resistance breeding |
| title_sort | genome wide association studies in sunflower towards sclerotinia sclerotiorum and diaporthe phomopsis resistance breeding |
| topic | Sunflowers Diaporthe Phomopsis Genomes Girasol Helianthus annuus Sclerotinia sclerotiorum Diaporthe helianthi Genomas GWAS |
| url | http://hdl.handle.net/20.500.12123/13697 https://www.mdpi.com/2073-4425/13/12/2357 https://doi.org/10.3390/genes13122357 |
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