QTL Mapping for Resistance to Early Blight in a Tetraploid Potato Population

Odilbekov, Firuz; Selga, Catja; Ortíz, Rodomiro; Chawade, Aakash; Liljeroth, Erland

doi:10.3390/agronomy10050728

Cited by 21 publications

(34 citation statements)

References 46 publications

(59 reference statements)

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“…In this study, treating one or several significant SNPs as the fixed effects in GS models resulted in higher accuracies in most cases, compared with those with only the random effects, which was in accordance with the trends in accuracy improvement shown in maize, wheat, and rice (Arruda et al, 2016;Spindel et al, 2016;Herter et al, 2019;Odilbekov et al, 2019). The incorporation of large-effect QTL or SNPs as the fixed effects was also a promising strategy to improve the prediction accuracy of GS (Bernardo, 2014;Herter et al, 2019).…”

Section: Discussionsupporting

confidence: 85%

Genetic Dissection of Grain Yield of Maize and Yield-Related Traits Through Association Mapping and Genomic Prediction

Cao

2021

Front. Plant Sci.

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High yield is the primary objective of maize breeding. Genomic dissection of grain yield and yield-related traits contribute to understanding the yield formation and improving the yield of maize. In this study, two genome-wide association study (GWAS) methods and genomic prediction were made on an association panel of 309 inbred lines. GWAS analyses revealed 22 significant trait–marker associations for grain yield per plant (GYP) and yield-related traits. Genomic prediction analyses showed that reproducing kernel Hilbert space (RKHS) outperformed the other four models based on GWAS-derived markers for GYP, ear weight, kernel number per ear and row, ear length, and ear diameter, whereas genomic best linear unbiased prediction (GBLUP) showed a slight superiority over other modes in most subsets of the trait-associated marker (TAM) for thousand kernel weight and kernel row number. The prediction accuracy could be improved when significant single-nucleotide polymorphisms were fitted as the fixed effects. Integrating information on population structure into the fixed model did not improve the prediction performance. For GYP, the prediction accuracy of TAMs derived from fixed and random model Circulating Probability Unification (FarmCPU) was comparable to that of the compressed mixed linear model (CMLM). For yield-related traits, CMLM-derived markers provided better accuracies than FarmCPU-derived markers in most scenarios. Compared with all markers, TAMs could effectively improve the prediction accuracies for GYP and yield-related traits. For eight traits, moderate- and high-prediction accuracies were achieved using TAMs. Taken together, genomic prediction incorporating prior information detected by GWAS could be a promising strategy to improve the grain yield of maize.

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Section: Discussionsupporting

confidence: 85%

Genetic Dissection of Grain Yield of Maize and Yield-Related Traits Through Association Mapping and Genomic Prediction

Cao

2021

Front. Plant Sci.

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“…Traditionally, resistance against necrotrophic pathogens such as A. solani is considered to be a complex, polygenic trait, contrasting with the gene-for-gene resistance that is typically described for biotrophic pathogens [ 38 , 39 , 40 , 41 ]. Resistance to early blight in potato is indeed usually described as quantitative [ 6 , 27 , 28 , 29 ], but detailed studies on the genetics have not been performed in wild species so far.…”

Section: Discussionmentioning

confidence: 99%

“…In order to make good use of the diversity of wild Solanum , it is instrumental to identify the genes or molecular markers linked to genes that underly traits of interest. Resistance to early blight in potato is usually described as being quantitative [ 6 , 27 , 28 , 29 ], but detailed studies on the genetics in wild species are lacking.…”

Section: Introductionmentioning

confidence: 99%

Qualitative and Quantitative Resistance against Early Blight Introgressed in Potato

Wolters

Wouters

Kromhout

et al. 2021

Biology

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Early blight is a disease of potato that is caused by Alternaria species, notably A. solani. The disease is usually controlled with fungicides. However, A. solani is developing resistance against fungicides, and potato cultivars with genetic resistance to early blight are currently not available. Here, we identify two wild potato species, which are both crossable with cultivated potato (Solanum tuberosum), that show promising resistance against early blight disease. The cross between resistant S. berthaultii and a susceptible diploid S. tuberosum gave rise to a population in which resistance was inherited quantitatively. S. commersonii subsp. malmeanum was also crossed with diploid S. tuberosum, despite a differing endosperm balance number. This cross resulted in triploid progeny in which resistance was inherited dominantly. This is somewhat surprising, as resistance against necrotrophic plant pathogens is usually a quantitative trait or inherited recessively according to the inverse-gene-for-gene model. Hybrids with high levels of resistance to early blight are present among progeny from S. berthaultii as well as S. commersonii subsp. malmeanum, which is an important step towards the development of a cultivar with natural resistance to early blight.

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“…Quantitative trait loci (QTLs) and marker‐assisted selection can facilitate the identification and characterization of resistant/susceptible genes, and this technique enables the transfer of the resistant genes to commercial varieties more quickly and efficiently. Some wild species that can be crossed with S. Iycopersicon have QTLs associated with resistance to EB 53,54 . By contrast, the classical breeding method requires more time and has some constraints, such as dependency on the donor parent of the resistance gene, that may require the use of a third genotype for transferring the gene of interest.…”

Section: Host–pathogen–environment Interactionmentioning

confidence: 99%

“…Some wild species that can be crossed with S. Iycopersicon have QTLs associated with resistance to EB. 53 , 54 By contrast, the classical breeding method requires more time and has some constraints, such as dependency on the donor parent of the resistance gene, that may require the use of a third genotype for transferring the gene of interest. Some species have fruit characteristics that are very different from commercial tomatoes and potatoes.…”

Section: Host–pathogen–environment Interactionmentioning

confidence: 99%

Review: Holistic pest management against early blight disease towards sustainable agriculture

Jindo

Evenhuis

Kempenaar

et al. 2021

Pest Management Science

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Alternaria species are well‐known aggressive pathogens that are widespread globally and warmer temperatures caused by climate change might increase their abundance more drastically. Early blight (EB) disease, caused mainly by Alternaria solani, and brown spot, caused by Alternaria alternata, are major concerns in potato, tomato and eggplant production. The development of EB is strongly linked to varieties, crop development stages, environmental factors, cultivation and field management. Several forecasting models for pesticide application to control EB were created in the last century and more recent scientific advances have included modern breeding technology to detect resistant genes and precision agriculture with hyperspectral sensors to pinpoint damage locations on plants. This paper presents an overview of the EB disease and provides an evaluation of recent scientific advances to control the disease. First of all, we describe the outline of this disease, encompassing biological cycles of the Alternaria genus, favorite climate and soil conditions as well as resistant plant species. Second, versatile management practices to minimize the effect of this pathogen at field level are discussed, covering their limitations and pitfalls. A better understanding of the underlying factors of this disease and the potential of novel research can contribute to implementing integrated pest management systems for an ecofriendly farming system. © 2021 The Authors. Pest Management Science published by John Wiley & Sons Ltd on behalf of Society of Chemical Industry.

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QTL Mapping for Resistance to Early Blight in a Tetraploid Potato Population

Cited by 21 publications

References 46 publications

Genetic Dissection of Grain Yield of Maize and Yield-Related Traits Through Association Mapping and Genomic Prediction

Genetic Dissection of Grain Yield of Maize and Yield-Related Traits Through Association Mapping and Genomic Prediction

Qualitative and Quantitative Resistance against Early Blight Introgressed in Potato

Review: Holistic pest management against early blight disease towards sustainable agriculture

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