Main and epistatic QTL analyses for Sclerotinia Head Rot resistance in sunflower
Sclerotinia Head Rot (SHR), a disease caused by Sclerotinia sclerotiorum, is one of the most limiting factors in sunflower production. In this study, we identified genomic loci associated with resistance to SHR to support the development of assisted breeding strategies. We genotyped 114 Recombinant...
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todo:paper_19326203_v12_n12_p_Zubrzycki2023-10-03T16:34:46Z Main and epistatic QTL analyses for Sclerotinia Head Rot resistance in sunflower Zubrzycki, J.E. Maringolo, C.A. Filippi, C.V. Quiróz, F.J. Nishinakamasu, V. Puebla, A.F. Julio, A.D.R. Escande, A. Lia, V.V. Heinz, R.A. Hopp, H.E. Cervigni, G.D.L. Paniego, N.B. amplified fragment length polymorphism Argentina Article breeding controlled study disease severity epistasis gene locus gene mapping genetic linkage genotype incidence incubation time inoculation nonhuman quantitative trait locus restriction fragment length polymorphism Sclerotinia sclerotiorum scoring system sequence tagged site single nucleotide polymorphism sunflower Ascomycetes chromosomal mapping disease resistance genetic marker genetics inbreeding microbiology phenotype physiology plant disease quantitative trait locus Ascomycota Chromosome Mapping Disease Resistance Epistasis, Genetic Genetic Linkage Genetic Markers Genotype Helianthus Inbreeding Phenotype Plant Diseases Polymorphism, Single Nucleotide Quantitative Trait Loci Sclerotinia Head Rot (SHR), a disease caused by Sclerotinia sclerotiorum, is one of the most limiting factors in sunflower production. In this study, we identified genomic loci associated with resistance to SHR to support the development of assisted breeding strategies. We genotyped 114 Recombinant Inbred Lines (RILs) along with their parental lines (PAC2 –partially resistant–and RHA266 –susceptible–) by using a 384 single nucleotide polymorphism (SNP) Illumina Oligo Pool Assay to saturate a sunflower genetic map. Subsequently, we tested these lines for SHR resistance using assisted inoculations with S. sclerotiorum ascospores. We also conducted a randomized complete-block assays with three replicates to visually score disease incidence (DI), disease severity (DS), disease intensity (DInt) and incubation period (IP) through four field trials (2010–2014). We finally assessed main effect quantitative trait loci (M-QTLs) and epistatic QTLs (E-QTLs) by composite interval mapping (CIM) and mixed-model-based composite interval mapping (MCIM), respectively. As a result of this study, the improved map incorporates 61 new SNPs over candidate genes. We detected a broad range of narrow sense heritability (h 2 ) values (1.86–59.9%) as well as 36 M-QTLs and 13 E-QTLs along 14 linkage groups (LGs). On LG1, LG10, and LG15, we repeatedly detected QTLs across field trials; which emphasizes their putative effectiveness against SHR. In all selected variables, most of the identified QTLs showed high determination coefficients, associated with moderate to high heritability values. Using markers shared with previous Sclerotinia resistance studies, we compared the QTL locations in LG1, LG2, LG8, LG10, LG11, LG15 and LG16. This study constitutes the largest report of QTLs for SHR resistance in sunflower. Further studies focusing on the regions in LG1, LG10, and LG15 harboring the detected QTLs are necessary to identify causal alleles and contribute to unraveling the complex genetic basis governing the resistance. © 2017 Zubrzycki et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. JOUR info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/2.5/ar http://hdl.handle.net/20.500.12110/paper_19326203_v12_n12_p_Zubrzycki |
| institution |
Universidad de Buenos Aires |
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I-28 |
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R-134 |
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Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) |
| topic |
amplified fragment length polymorphism Argentina Article breeding controlled study disease severity epistasis gene locus gene mapping genetic linkage genotype incidence incubation time inoculation nonhuman quantitative trait locus restriction fragment length polymorphism Sclerotinia sclerotiorum scoring system sequence tagged site single nucleotide polymorphism sunflower Ascomycetes chromosomal mapping disease resistance genetic marker genetics inbreeding microbiology phenotype physiology plant disease quantitative trait locus Ascomycota Chromosome Mapping Disease Resistance Epistasis, Genetic Genetic Linkage Genetic Markers Genotype Helianthus Inbreeding Phenotype Plant Diseases Polymorphism, Single Nucleotide Quantitative Trait Loci |
| spellingShingle |
amplified fragment length polymorphism Argentina Article breeding controlled study disease severity epistasis gene locus gene mapping genetic linkage genotype incidence incubation time inoculation nonhuman quantitative trait locus restriction fragment length polymorphism Sclerotinia sclerotiorum scoring system sequence tagged site single nucleotide polymorphism sunflower Ascomycetes chromosomal mapping disease resistance genetic marker genetics inbreeding microbiology phenotype physiology plant disease quantitative trait locus Ascomycota Chromosome Mapping Disease Resistance Epistasis, Genetic Genetic Linkage Genetic Markers Genotype Helianthus Inbreeding Phenotype Plant Diseases Polymorphism, Single Nucleotide Quantitative Trait Loci Zubrzycki, J.E. Maringolo, C.A. Filippi, C.V. Quiróz, F.J. Nishinakamasu, V. Puebla, A.F. Julio, A.D.R. Escande, A. Lia, V.V. Heinz, R.A. Hopp, H.E. Cervigni, G.D.L. Paniego, N.B. Main and epistatic QTL analyses for Sclerotinia Head Rot resistance in sunflower |
| topic_facet |
amplified fragment length polymorphism Argentina Article breeding controlled study disease severity epistasis gene locus gene mapping genetic linkage genotype incidence incubation time inoculation nonhuman quantitative trait locus restriction fragment length polymorphism Sclerotinia sclerotiorum scoring system sequence tagged site single nucleotide polymorphism sunflower Ascomycetes chromosomal mapping disease resistance genetic marker genetics inbreeding microbiology phenotype physiology plant disease quantitative trait locus Ascomycota Chromosome Mapping Disease Resistance Epistasis, Genetic Genetic Linkage Genetic Markers Genotype Helianthus Inbreeding Phenotype Plant Diseases Polymorphism, Single Nucleotide Quantitative Trait Loci |
| description |
Sclerotinia Head Rot (SHR), a disease caused by Sclerotinia sclerotiorum, is one of the most limiting factors in sunflower production. In this study, we identified genomic loci associated with resistance to SHR to support the development of assisted breeding strategies. We genotyped 114 Recombinant Inbred Lines (RILs) along with their parental lines (PAC2 –partially resistant–and RHA266 –susceptible–) by using a 384 single nucleotide polymorphism (SNP) Illumina Oligo Pool Assay to saturate a sunflower genetic map. Subsequently, we tested these lines for SHR resistance using assisted inoculations with S. sclerotiorum ascospores. We also conducted a randomized complete-block assays with three replicates to visually score disease incidence (DI), disease severity (DS), disease intensity (DInt) and incubation period (IP) through four field trials (2010–2014). We finally assessed main effect quantitative trait loci (M-QTLs) and epistatic QTLs (E-QTLs) by composite interval mapping (CIM) and mixed-model-based composite interval mapping (MCIM), respectively. As a result of this study, the improved map incorporates 61 new SNPs over candidate genes. We detected a broad range of narrow sense heritability (h 2 ) values (1.86–59.9%) as well as 36 M-QTLs and 13 E-QTLs along 14 linkage groups (LGs). On LG1, LG10, and LG15, we repeatedly detected QTLs across field trials; which emphasizes their putative effectiveness against SHR. In all selected variables, most of the identified QTLs showed high determination coefficients, associated with moderate to high heritability values. Using markers shared with previous Sclerotinia resistance studies, we compared the QTL locations in LG1, LG2, LG8, LG10, LG11, LG15 and LG16. This study constitutes the largest report of QTLs for SHR resistance in sunflower. Further studies focusing on the regions in LG1, LG10, and LG15 harboring the detected QTLs are necessary to identify causal alleles and contribute to unraveling the complex genetic basis governing the resistance. © 2017 Zubrzycki et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. |
| format |
JOUR |
| author |
Zubrzycki, J.E. Maringolo, C.A. Filippi, C.V. Quiróz, F.J. Nishinakamasu, V. Puebla, A.F. Julio, A.D.R. Escande, A. Lia, V.V. Heinz, R.A. Hopp, H.E. Cervigni, G.D.L. Paniego, N.B. |
| author_facet |
Zubrzycki, J.E. Maringolo, C.A. Filippi, C.V. Quiróz, F.J. Nishinakamasu, V. Puebla, A.F. Julio, A.D.R. Escande, A. Lia, V.V. Heinz, R.A. Hopp, H.E. Cervigni, G.D.L. Paniego, N.B. |
| author_sort |
Zubrzycki, J.E. |
| title |
Main and epistatic QTL analyses for Sclerotinia Head Rot resistance in sunflower |
| title_short |
Main and epistatic QTL analyses for Sclerotinia Head Rot resistance in sunflower |
| title_full |
Main and epistatic QTL analyses for Sclerotinia Head Rot resistance in sunflower |
| title_fullStr |
Main and epistatic QTL analyses for Sclerotinia Head Rot resistance in sunflower |
| title_full_unstemmed |
Main and epistatic QTL analyses for Sclerotinia Head Rot resistance in sunflower |
| title_sort |
main and epistatic qtl analyses for sclerotinia head rot resistance in sunflower |
| url |
http://hdl.handle.net/20.500.12110/paper_19326203_v12_n12_p_Zubrzycki |
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