Genome‐Wide Association Study of a Worldwide Collection of Wheat Genotypes Reveals Novel Quantitative Trait Loci for Leaf Rust Resistance

Sapkota, Suraj; Hao, Yuanfeng; Johnson, J. W.; Buck, James W.; Aoun, Meriem; Mohamed, Maryati

doi:10.3835/plantgenome2019.05.0033

Cited by 28 publications

(23 citation statements)

References 125 publications

(142 reference statements)

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“…Three QTL, QLr.ags‐2BS1 , QLr.ags‐2BS2 , and QLr.ags‐2BS3 , were detected on chromosome 2BS in the vicinity of seven known Lr genes i.e., Lr13, Lr16, Lr23, Lr48, Lr73, LrZH22 , and LrA2K (McIntosh et al., 2008; Park, Mohler, Nazari, & Singh, 2014; Sapkota et al., 2019a, 2019b; Wang et al., 2016). Of these, Lr48 linked marker ( Xgwm429b ) was located closest to QLr.ags‐2BS1 (6.38 cM proximal), based on the wheat consensus map (Maccaferri et al., 2015), and likely represent the same locus since both confer adult plant LR resistance.…”

Section: Discussionmentioning

confidence: 99%

“…For seedling or all‐stage resistance (ASR‐GH20) test, plant material preparation, inoculation, disease scoring, and statistical analysis of the phenotypic data was done as described in Sapkota et al. (2019a, 2019b). P. triticina race, MFGKG, which is a current common race in GA (Sapkota et al., 2019b) was used.…”

Section: Methodsmentioning

confidence: 99%

“…tritici (Herrera-Foessel et al, 2014;Pinto da Silva et al, 2018;William, Singh, Huerta-Espino, Islas, & Hoisington, 2003). Linkage mapping using bi-parental populations and association mapping using diversity panels have been used in identifying QTL for LR resistance (Qureshi et al, 2018;Sapkota et al, 2019aSapkota et al, , 2019b. However, the majority of LR resistance QTL have been identified using bi-parental crosses (Pinto da Silva et al, 2018).…”

Section: Core Ideasmentioning

confidence: 99%

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A novel adult plant leaf rust resistance gene Lr2K38 mapped on wheat chromosome 1AL

et al. 2020

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Soft red winter wheat (SRWW) cultivar AGS 2038 has a high level of seedling and adult plant leaf rust (LR) resistance. To map and characterize LR resistance in AGS 2038, a recombinant inbred line (RIL) population consisting of 225 lines was developed from a cross between AGS 2038 and moderately resistant line UGA 111729. The parents and RIL population were phenotyped for LR response in three field environments at Plains and Griffin, GA, in the 2017–2018 and 2018–2019 growing seasons, one greenhouse environment at the adult‐plant stage, and at seedling stage. The RIL population was genotyped with the Illumina iSelect 90K SNP marker array, and a total of 7667 polymorphic markers representing 1513 unique loci were used to construct a linkage map. Quantitative trait loci (QTL) analysis detected six QTL, QLr.ags‐1AL, QLr.ags‐2AS, QLr.ags‐2BS1, QLr.ags‐2BS2, QLr.ags‐2BS3, and QLr.ags‐2DS, for seedling and adult plant LR resistance. Of these, the major adult plant leaf rust resistance QTL, QLr.ags‐1AL, was detected on all field and greenhouse adult plant tests and explained up to 34.45% of the phenotypic variation. QLr.ags‐1AL, tightly flanked by IWB20487 and IWA4022 markers, was contributed by AGS 2038. Molecular marker analysis using a diagnostic marker linked to Lr59 showed that QLr.ags‐1AL was different from Lr59, the only known LR resistance gene on 1AL. Therefore, the QTL was temporarily designated as Lr2K38. Lr2K38‐linked marker IWB20487 was highly polymorphic among 30 SRWW lines and should be useful for selecting the Lr2K38 in wheat breeding programs.

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Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Core Ideasmentioning

confidence: 99%

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A novel adult plant leaf rust resistance gene Lr2K38 mapped on wheat chromosome 1AL

et al. 2020

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“…Currently, 79 Lr -genes ( Lr1 - Lr79 ) and 82 Yr -genes have been formally cataloged from common wheat, durum wheat, and other related species ( McIntosh et al, 2017 ; Qureshi et al, 2018 ; USDA Cereal disease lab, ). Of the 79 Lr -genes and 82 Yr -genes, 64 and 15 Lr -genes, and 59 and 19 Yr -genes confer seedling and APR, respectively ( McIntosh et al, 2017 ; Da Silva et al, 2018 ; Sapkota et al, 2019a ). Among the 15 Lr -genes and 19 Yr -genes for APR, seven ( Lr12 , Lr13 , Lr22a/b , Lr35 , Lr37 , Lr48 , and Lr49 ) and eight ( Lr34 , Lr46 , Lr67 , Lr68 , Lr74 , Lr75 , Lr77 , and Lr78 ) Lr -genes and five ( Yr11, Yr12, Yr13, Yr14 , and Yr34 ) and fourteen ( Yr16, Yr18, Yr29, Yr30, Yr36, Yrns-B, YrA1, YrA2, YrA3, YrA4, YrA5, YrA6, YrA7 , and YrA8 ) Yr -genes are reported to confer race-specific and race non-specific resistance, respectively ( McIntosh et al, 2017 ; Da Silva et al, 2018 ; Waqar et al, 2018 ).…”

Section: Genetics Of Lr and Sr Resistance And Breeding Strategiesmentioning

confidence: 99%

Fusarium Head Blight and Rust Diseases in Soft Red Winter Wheat in the Southeast United States: State of the Art, Challenges and Future Perspective for Breeding

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Among the biotic constraints to wheat (Triticum aestivum L.) production, fusarium head blight (FHB), caused by Fusarium graminearum, leaf rust (LR), caused by Puccinia triticina, and stripe rust (SR) caused by Puccinia striiformis are problematic fungal diseases worldwide. Each can significantly reduce grain yield while FHB causes additional food and feed safety concerns due to mycotoxin contamination of grain. Genetic resistance is the most effective and sustainable approach for managing wheat diseases. In the past 20 years, over 500 quantitative trait loci (QTLs) conferring small to moderate effects for the different FHB resistance types have been reported in wheat. Similarly, 79 Lr-genes and more than 200 QTLs and 82 Yr-genes and 140 QTLs have been reported for seedling and adult plant LR and SR resistance, respectively. Most QTLs conferring rust resistance are race-specific generally conforming to a classical gene-for-gene interaction while resistance to FHB exhibits complex polygenic inheritance with several genetic loci contributing to one resistance type. Identification and deployment of additional genes/ QTLs associated with FHB and rust resistance can expedite wheat breeding through marker-assisted and/or genomic selection to combine small-effect QTL in the gene pool. LR disease has been present in the southeast United States for decades while SR and FHB have become increasingly problematic in the past 20 years, with FHB arguably due to increased corn acreage in the region. Currently, QTLs on chromosome 1B from

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“…Wheat ( Triticum aestivum L.) is a major crop worldwide contributing about 20% of calories to the human population. Current genetic and genomic improvements in wheat have helped increase its production; however, further improvements are essential to increasing wheat productivity to feed the world's population, which is projected to reach over nine billion by 2050 (Hertel, 2011 ; Sapkota et al, 2019 ). Wheat production is often reduced by several biotic and abiotic stresses including drought and heat.…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Association Mapping for Yield and Related Traits Under Drought Stressed and Non-stressed Environments in Wheat

et al. 2021

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Understanding the genetics of drought tolerance in hard red spring wheat (HRSW) in northern USA is a prerequisite for developing drought-tolerant cultivars for this region. An association mapping (AM) study for drought tolerance in spring wheat in northern USA was undertaken using 361 wheat genotypes and Infinium 90K single-nucleotide polymorphism (SNP) assay. The genotypes were evaluated in nine different locations of North Dakota (ND) for plant height (PH), days to heading (DH), yield (YLD), test weight (TW), and thousand kernel weight (TKW) under rain-fed conditions. Rainfall data and soil type of the locations were used to assess drought conditions. A mixed linear model (MLM), which accounts for population structure and kinship (PC+K), was used for marker–trait association. A total of 69 consistent QTL involved with drought tolerance-related traits were identified, with p ≤ 0.001. Chromosomes 1A, 3A, 3B, 4B, 4D, 5B, 6A, and 6B were identified to harbor major QTL for drought tolerance. Six potential novel QTL were identified on chromosomes 3D, 4A, 5B, 7A, and 7B. The novel QTL were identified for DH, PH, and TKW. The findings of this study can be used in marker-assisted selection (MAS) for drought-tolerance breeding in spring wheat.

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Genome‐Wide Association Study of a Worldwide Collection of Wheat Genotypes Reveals Novel Quantitative Trait Loci for Leaf Rust Resistance

Cited by 28 publications

References 125 publications

A novel adult plant leaf rust resistance gene Lr2K38 mapped on wheat chromosome 1AL

A novel adult plant leaf rust resistance gene Lr2K38 mapped on wheat chromosome 1AL

Fusarium Head Blight and Rust Diseases in Soft Red Winter Wheat in the Southeast United States: State of the Art, Challenges and Future Perspective for Breeding

Genome-Wide Association Mapping for Yield and Related Traits Under Drought Stressed and Non-stressed Environments in Wheat

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