Genome-wide association study for resistance to the southern root-knot nematode (Meloidogyne incognita) in soybean

Passianotto, André Luiz de Lima; Sonah, Humira; Dias, W. P.; Marcelino-Guimarães, Francismar Corrêa; Belzile, François; Abdelnoor, R. V.

doi:10.1007/s11032-017-0744-3

Cited by 29 publications

(19 citation statements)

References 42 publications

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“…In another hand, a smaller number of SNPs were detected on the smallest chromosomes, as chromosome 11. A very similar pattern of distribution of the SNPs was obtained in recent GWAS for resistance to Sclerotinia sclerotiorum [19] and Meloidogyne incognita [34] The GWAS conducted in the present work revealed a highly significant association of resistance to SSC with a 478 kbp region on chromosome 14. Therefore, we may assume that the main SSC resistance presenting in our panel is related to this region, although previous studies of genetic mapping have detected other loci involved in SSC resistance, and even we have used an isolate able to select to different R genes.…”

Section: Genomic Wide Association Study For Southern Stem Canker Diseasesupporting

confidence: 86%

Association mapping of a locus that confers Southern stem canker resistance in soybean

Santos

Ferreira

Passianotto

et al. 2019

Preprint

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Background Southern stem canker (SSC), caused by Diaporthe aspalathi (E. Jansen, Castl. & Crous) is an important soybean disease, which has been responsible for severe losses in the past. The main strategy to control this fungus is through the introgression of resistance genes. So far, five main loci have been associated with resistance to Southern stem canker. However, there is a lack of information about useful allelic variation at these loci. In this work, a genome-wide association study (GWAS) was performed to identify allelic variation associated with resistance against Diaporthe aspalathi and to provide molecular markers useful in breeding programs. Results We characterized the response to Southern stem canker infection in a panel of 295 accessions from different regions of the world including important Brazilian elite cultivars. Using a GBS approach, the panel was genotyped and we identified marker loci associated with Diaporthe aspalathi resistance using GWAS analysis. We identified 19 SNPs associated with Southern stem canker resistance, all on chromosome 14. The peak SNP showed an extremely high degree of association (p-value = 6.35E-27) and explained a high level of the phenotypic variance (R2 = 70%). This strongly suggests that a single major gene is responsible for resistance to D. aspalathi present inn most of the lines comprising this panel. We also identified in resequenced soybean materials other SNPs in the region identified by GWAS in the same LD block that clearly differentiate resistance and susceptible accessions. The peak SNP was selected and used to develop a cost-effective molecular marker assay, which was validated in a subset of the initial panel. In an accuracy test, this SNP assay demonstrated 98% of selection efficiency. Conclusions Our results suggest a relevant importance of this locus in SSC resistance in soybean cultivars and accessions from different countries and the SNP marker assay developed in this study can be directly applied in MAS studies in breeding programs to select resistance materials against this pathogen and support its introgression.

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Section: Genomic Wide Association Study For Southern Stem Canker Diseasesupporting

confidence: 86%

Association mapping of a locus that confers Southern stem canker resistance in soybean

Santos

Ferreira

Passianotto

et al. 2019

Preprint

Self Cite

View full text Add to dashboard Cite

show abstract

“…On the other hand, a smaller number of SNPs were detected on the smallest chromosomes, such as chromosome 11. Very similar SNP distribution patterns were obtained in recent GWASs for resistance to Sclerotinia sclerotiorum [19] and Meloidogyne incognita [34].…”

Section: Genome Wide Association Study For Southern Stem Canker Diseasesupporting

confidence: 74%

Association mapping of a locus that confers southern stem canker resistance in soybean and SNP marker development

Santos

Ferreira

Passianotto

et al. 2019

Preprint

Self Cite

View full text Add to dashboard Cite

Background Southern stem canker (SSC), caused by Diaporthe aspalathi (E. Jansen, Castl. & Crous), is an important soybean disease that has been responsible for severe losses in the past. The main strategy for controlling this fungus involves the introgression of resistance genes. Thus far, five main loci have been associated with resistance to SSC. However, there is a lack of information about useful allelic variation at these loci. In this work, a genome-wide association study (GWAS) was performed to identify allelic variation associated with resistance against Diaporthe aspalathi and to provide molecular markers that will be useful in breeding programs. Results We characterized the response to SSC infection in a panel of 295 accessions from different regions of the world, including important Brazilian elite cultivars. Using a GBS approach, the panel was genotyped, and we identified marker loci associated with Diaporthe aspalathi resistance through GWAS. We identified 19 SNPs associated with southern stem canker resistance, all on chromosome 14. The peak SNP showed an extremely high degree of association ( p-value = 6.35E-27) and explained a large amount of the observed phenotypic variance (R² = 70%). This strongly suggests that a single major gene is responsible for resistance to D. aspalathi in most of the lines constituting this panel. In resequenced soybean materials, we identified other SNPs in the region identified through GWAS in the same LD block that clearly differentiate resistant and susceptible accessions. The peak SNP was selected and used to develop a cost-effective molecular marker assay, which was validated in a subset of the initial panel. In an accuracy test, this SNP assay demonstrated 98% selection efficiency. Conclusions Our results suggest relevance of this locus to SSC resistance in soybean cultivars and accessions from different countries, and the SNP marker assay developed in this study can be directly applied in MAS studies in breeding programs to select materials that are resistant against this pathogen and support its introgression

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“…Many studies of nematode resistance have indicated the action of few genes with greater effect (Passianotto, et al, 2017;Mota, et al, 2020). There are also other results, that indicate the action of lesser effect genes that have evolved over time, according to the gene-for-gene theory (Bell et al, 2019;Przybylska;Obrępalska-Stęplowska, 2020).…”

Section: Resultsmentioning

confidence: 99%

Resistance of new Coffea canephora clones to root-knot nematode (Meloidogyne incognita) in the western amazon

Rudnick

Junior

Fernandes

et al. 2020

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Root-knot disease is among the main diseases affecting coffee crop. The plant selection to the development new resistant cultivars is among one the most efficient methods of control. The present work aimed to quantify the resistance responses of Coffea canephora clones to root-knot nematode Meloidogyne incognita in the Western Amazon. For this, 17 previously selected clones were evaluated in three experimental trials, carried out in the municipalities of Ji-Paraná and Porto Velho, Rondônia. The resistance to root-knot nematodes M. incognita were evaluated by the numbers of gall in the roots (NG) and by the reproductive factor (RF). The resistance response was also interpreted according the genetic diversity of the clones based in their morphological traits. The clones BRS3210, C12, BRS2314, BRS3137 and BRS1216 are resistant to M. incognita with RF of 0.34, 0.62, 0.79, 0.86 and 0.98, respectively. BRS3213, C125, C15, BRS2336, BRS3220 and C09 clones were classified as susceptible, with RF of 1.93, 1.95, 2.00, 2.31, 2.32 and 2.35. The BRS3193, C160 and BRS2357 clones were classified as very susceptible, with RF values of 3.03, 4.41 and 5.82, respectively. The clustering based on the genetic diversity of morphological traits indicated that genotypes more similar to the Robusta botanic variety had lower RF. The hybrid plants showed intermediate degrees of resistance indicating the segregation for the character of the M. incognita resistance. The clones BRS3210, C12, BRS2299, BRS2314, BRS3137 and BRS1216 expressed resistance responses to M. incognita with potential for growing resistant genotypes in the Western Amazon.

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Genome-wide association study for resistance to the southern root-knot nematode (Meloidogyne incognita) in soybean

Cited by 29 publications

References 42 publications

Association mapping of a locus that confers Southern stem canker resistance in soybean

Association mapping of a locus that confers Southern stem canker resistance in soybean

Association mapping of a locus that confers southern stem canker resistance in soybean and SNP marker development

Resistance of new Coffea canephora clones to root-knot nematode (Meloidogyne incognita) in the western amazon

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