Genome-Wide Association Studies in Diverse Spring Wheat Panel for Stripe, Stem, and Leaf Rust Resistance

Kumar, Dhiraj; Kumar, Animesh; Chhokar, Vinod; Gangwar, O. P.; Bhardwaj, Subhash; Sivasamy, M.; Prasad, S. V. Sai; Prakasha, T. L.; Khan, Hanif; Singh, R. P.; Sharma, Pradeep; Sheoran, Sonia; Iquebal, Mir Asif; Jaiswal, Sarika; Angadi, U. B.; Rai, Anil; Singh, Gyanendra Pratap; Kumar, Dinesh; Tiwari, Ruchi

doi:10.3389/fpls.2020.00748

Cited by 51 publications

(54 citation statements)

References 168 publications

(206 reference statements)

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“…On the basis of IT scores, our results suggested 110S119 and 238S119 were the most virulent pathotypes in 2018 whereas 110S119 was the most virulent in 2019. Recently, a study of diverse spring wheat panel for stripe rust also showed similar results, i.e., 110S119, the most virulent pathotype (Kumar et al, 2020).…”

Section: Identification Of New Sources Of Resistancementioning

confidence: 59%

“…The determination of extent of genetic diversity and population structure are the foremost requirement for initiating and utilizing plant genetic resources in breeding programs and also for genetic studies (Atwell et al, 2010). We found the marker density of 19,090 SNPs on different chromosomes and identified that Genome B showed the highest marker density as compared to sub-genome A and D. Previous studies also revealed highest marker density of polymorphic SNPs on the B sub-genome (Kumar et al, 2020).…”

Section: Marker Coverage and Population Structurementioning

confidence: 65%

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Identification of QTLs/Defense Genes Effective at Seedling Stage Against Prevailing Races of Wheat Stripe Rust in India

et al. 2020

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Resistance in modern wheat cultivars for stripe rust is not long lasting due to the narrow genetic base and periodical evolution of new pathogenic races. Though nearly 83 Yr genes conferring resistance to stripe rust have been cataloged so far, few of them have been mapped and utilized in breeding programs. Characterization of wheat germplasm for novel sources of resistance and their incorporation into elite cultivars is required to achieve durable resistance and thus to minimize the yield losses. Here, a genome-wide association study (GWAS) was performed on a set of 391 germplasm lines with the aim to identify quantitative trait loci (QTL) using 35K Axiom® array. Phenotypic evaluation disease severity against four stripe rust pathotypes, i.e., 46S119, 110S119, 238S119, and 47S103 (T) at the seedling stage in a greenhouse providing optimal conditions was carried out consecutively for 2 years (2018 and 2019 winter season). We identified, a total of 17 promising QTl which passed FDR criteria. Moreover these 17 QTL identified in the current study were mapped at different genomic locations i.e. 1B, 2A, 2B, 2D, 3A, 3B, 3D, 4B, 5B and 6B. These 17 QTLs identified in the present study might play a key role in marker-assisted breeding for developing stripe rust resistant wheat cultivars.

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Section: Identification Of New Sources Of Resistancementioning

confidence: 59%

Section: Marker Coverage and Population Structurementioning

confidence: 65%

Identification of QTLs/Defense Genes Effective at Seedling Stage Against Prevailing Races of Wheat Stripe Rust in India

et al. 2020

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“…Two novel stripe rust resistance QTLs were identified using the GWAS approach on 5AS and 5AL wheat chromosomes ( 37 ). Similarly, many other GWAS-based studies have identified stripe rust resistance genes/QTLs ( 38 – 40 ). Keeping in view these highlighted examples for the use of GWAS and QTL-Seq in the identification of novel stripe rust resistance genes, both these approaches should be given primary importance in breeding programs focused on development of rust-resistant wheat varieties.…”

Section: Applications Of Advanced Genomics Tools For Identification Omentioning

confidence: 89%

Role of Genetics, Genomics, and Breeding Approaches to Combat Stripe Rust of Wheat

et al. 2020

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Puccinia striiformis (Pst) is a devastating biotrophic fungal pathogen that causes wheat stripe rust. It usually loves cool and moist places and can cause 100% crop yield losses in a single field when ideal conditions for disease incidence prevails. Billions of dollars are lost due to fungicide application to reduce stripe rust damage worldwide. Pst is a macrocyclic, heteroecious fungus that requires primary (wheat or grasses) as well as secondary host ( Berberis or Mahonia spp.) for completion of life cycle. In this review, we have summarized the knowledge about pathogen life cycle, genes responsible for stripe rust resistance, and susceptibility in wheat. In the end, we discussed the importance of conventional and modern breeding tools for the development of Pst -resistant wheat varieties. According to our findings, genetic engineering and genome editing are less explored tools for the development of Pst -resistant wheat varieties; hence, we highlighted the putative use of advanced genome-modifying tools, i.e., base editing and prime editing, for the development of Pst -resistant wheat.

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“…All QTLs that explain more than 10% of the total variation is considered major QTLs [20,48]. Previous studies identi ed QTLs on chromosomes 2A and 4A associated with stripe rust adult plant resistance [28,29].…”

Section: Genome-wide Association Study For Stripe Rust Resistancementioning

confidence: 99%

“…It has been applied successfully to study the genetic architecture of disease resistance in wheat [20][21][22][23][24][25][26][27]. For stripe rust resistance, GWAS was reported as an effective tool to identify a large number of favorable alleles controlling the resistance [28].…”

Section: Introductionmentioning

confidence: 99%

Genomic regions associated with stripe rust resistance against the Egyptian race revealed by genome-wide association study

Mohamed

Mourad

2020

Preprint

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Background: Wheat stripe rust (caused by Puccinia striiformis f. sp. Tritici), is a major disease that causes huge yield damage. New pathogen races appeared in the last few years and caused a broke down in the resistant genotypes. In Egypt, some of the resistant genotypes began to be susceptible to stripe rust in recent years. This situation increases the need to produce new genotypes with durable resistance. Besides, looking for a new resistant source from the available wheat genotypes all over the world help in enhancing the breeding programs. Results: In the recent study, a set of 103-spring wheat genotypes from different fourteen countries were evaluated to their field resistant to stripe rust for two years. These genotypes included 17 Egyptian genotypes from the old and new cultivars. The 103-spring wheat genotypes were reported to be well adapted to the Egyptian environmental conditions. Out of the tested genotypes, eight genotypes from four different countries were found to be resistant in both years. Genotyping was carried out using genotyping-by-sequencing and a set of 26,703 SNPs were used in the genome-wide association study. Five SNP markers, located on chromosomes 2A and 4A, were found to be significantly associated with the resistance in both years. Three gene models associated with disease resistance and underlying these significant SNPs were identified. One immune Iranian genotype, with the highest number of different alleles from the most resistant Egyptian genotypes, was detected. Conclusion: the high variation among the tested genotypes in their resistance to the Egyptian stripe rust race confirming the possible improvement of stripe rust resistance in the Egyptian wheat genotypes. The identified five SNP markers are stable and could be used in marker-assisted selection after validation in different genetic backgrounds. Crossing between the immune Iranian genotype and the Egyptian genotypes will improve stripe rust resistance in Egypt.

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Genome-Wide Association Studies in Diverse Spring Wheat Panel for Stripe, Stem, and Leaf Rust Resistance

Cited by 51 publications

References 168 publications

Identification of QTLs/Defense Genes Effective at Seedling Stage Against Prevailing Races of Wheat Stripe Rust in India

Identification of QTLs/Defense Genes Effective at Seedling Stage Against Prevailing Races of Wheat Stripe Rust in India

Role of Genetics, Genomics, and Breeding Approaches to Combat Stripe Rust of Wheat

Genomic regions associated with stripe rust resistance against the Egyptian race revealed by genome-wide association study

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