Population structure and genetic basis of the stripe rust resistance of 140 Chinese wheat landraces revealed by a genome-wide association study

Yao, Fangjie; Li, Long; Wang, Yuqi; Duan, Luyao; Zhao, Xuyang; Li, Hao; Pu, Zhien; Li, Wei; Jiang, Qiantao; Wang, Jirui; Wei, Yuming; Ma, Jian; Kang, Houyang; Dai, Shoufen; Qi, Pengfei; Zheng, Youliang; Chen, Xianming; Chen, Guoyue

doi:10.1016/j.plantsci.2020.110688

Cited by 15 publications

(12 citation statements)

References 67 publications

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“…The avirulence/virulence formulae of the isolates are provided in Supplementary Table 2 . Disease severity (DS) were recorded three times starting at the boot stage (Zadoks 45) with 7-day intervals as described in our previous study ( Yao et al, 2020 ). Stripe rust infection type (IT) was estimated using the 0–9 scale ( Line and Qayoum, 1992 ).…”

Section: Methodsmentioning

confidence: 99%

“…Simple sequence repeat (SSR), diversity array technology (DArT) and single-nucleotide polymorphism (SNP) are the main marker technologies commonly used for genotyping ( Boukhatem et al, 2002 ; Chen, 2005 ; Lan et al, 2010 ; Zhou et al, 2017 ; Yao et al, 2020 ). Compared to other types of markers, SNP markers have relatively high density, capability for high-throughput and commercialization and flexibility, and relatively low cost as they can be easily arranged into arrays or platforms ( Sun et al, 2020 ).…”

Section: Introductionmentioning

confidence: 99%

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Genome-Wide Association Analysis of Stable Stripe Rust Resistance Loci in a Chinese Wheat Landrace Panel Using the 660K SNP Array

et al. 2021

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Stripe rust (caused by Puccinia striiformis f. sp. tritici) is one of the most severe diseases affecting wheat production. The disease is best controlled by developing and growing resistant cultivars. Chinese wheat (Triticum aestivum) landraces have excellent resistance to stripe rust. The objectives of this study were to identify wheat landraces with stable resistance and map quantitative trait loci (QTL) for resistance to stripe rust from 271 Chinese wheat landraces using a genome-wide association study (GWAS) approach. The landraces were phenotyped for stripe rust responses at the seedling stage with two predominant Chinese races of P. striiformis f. sp. tritici in a greenhouse and the adult-plant stage in four field environments and genotyped using the 660K wheat single-nucleotide polymorphism (SNP) array. Thirteen landraces with stable resistance were identified, and 17 QTL, including eight associated to all-stage resistance and nine to adult-plant resistance, were mapped on chromosomes 1A, 1B, 2A, 2D, 3A, 3B, 5A, 5B, 6D, and 7A. These QTL explained 6.06–16.46% of the phenotypic variation. Five of the QTL, QYrCL.sicau-3AL, QYrCL.sicau-3B.4, QYrCL.sicau-3B.5, QYrCL.sicau-5AL.1 and QYrCL.sicau-7AL, were likely new. Five Kompetitive allele specific PCR (KASP) markers for four of the QTL were converted from the significant SNP markers. The identified wheat landraces with stable resistance to stripe rust, significant QTL, and KASP markers should be useful for breeding wheat cultivars with durable resistance to stripe rust.

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Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Genome-Wide Association Analysis of Stable Stripe Rust Resistance Loci in a Chinese Wheat Landrace Panel Using the 660K SNP Array

et al. 2021

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“…The informative markers linked to QYr.GX-2AS were screened using the Wheat 55K or Wheat 660K SNP arrays in accordance with the method described by Long et al (2021) . The SNP genotype data and the phenotype data (FDS) were obtained from recently published studies ( Cheng et al, 2019 ; Long et al, 2019 ; Yao et al, 2019 , 2020 ; Ye et al, 2019 ; Wang et al, 2021 ). Haplotype variants were detected using Haploview v4.2.…”

Section: Methodsmentioning

confidence: 99%

“…GTM-5DL (Wu et al, 2020), and QYr.AYH-5BL (Long et al, 2021). Recently, our research program evaluated more than 1,000 Chinese wheat landrace accessions collected from all 10 agro-ecological zones (Zhou et al, 2017) for responses to stripe rust in the greenhouse and the field under inoculation with selected Chinese predominant races of Pst (Cheng et al, 2019;Long et al, 2019;Yao et al, 2019Yao et al, , 2020Ye et al, 2019;Wang et al, 2021). Many resistant accessions of Chinese wheat landraces continually display APR to stripe rust in the field, providing a novel resistance resource for the breeding of wheat cultivars with durable resistance to stripe rust.…”

Section: Introductionmentioning

confidence: 99%

“…Numerous stripe rust genes or QTL have been identified, such as Yr1 ( Bansal et al, 2009 ), Yr18 ( Krattinger et al, 2009 ), Yr81 ( Gessese et al, 2019 ), YrYL ( Wu et al, 2016a ), YrBai ( Ma et al, 2015 ), Yrqbc ( Cao et al, 2020 ), QYr.caas-5AL ( Lan et al, 2010 ), QYr.cau-6DL ( Zhang et al, 2017 ), QYr.cau-2AL ( Wang et al, 2019a ), QYr.GTM-5DL ( Wu et al, 2020 ), and QYr.AYH-5BL ( Long et al, 2021 ). Recently, our research program evaluated more than 1,000 Chinese wheat landrace accessions collected from all 10 agro-ecological zones ( Zhou et al, 2017 ) for responses to stripe rust in the greenhouse and the field under inoculation with selected Chinese predominant races of Pst ( Cheng et al, 2019 ; Long et al, 2019 ; Yao et al, 2019 , 2020 ; Ye et al, 2019 ; Wang et al, 2021 ). Many resistant accessions of Chinese wheat landraces continually display APR to stripe rust in the field, providing a novel resistance resource for the breeding of wheat cultivars with durable resistance to stripe rust.…”

Section: Introductionmentioning

confidence: 99%

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Molecular Mapping and Analysis of an Excellent Quantitative Trait Loci Conferring Adult-Plant Resistance to Stripe Rust in Chinese Wheat Landrace Gaoxianguangtoumai

et al. 2021

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The Chinese wheat landrace “Gaoxianguangtoumai” (GX) has exhibited a high level of adult-plant resistance (APR) to stripe rust in the field for more than a decade. To reveal the genetic background for APR to stripe rust in GX, a set of 249 F6:8 (F6, F7, and F8) recombinant inbred lines (RILs) was developed from a cross between GX and the susceptible cultivar “Taichung 29.” The parents and RILs were evaluated for disease severity at the adult-plant stage in the field by artificial inoculation with the currently predominant Chinese Puccinia striiformis f. sp. tritici races during three cropping seasons and genotyped using the Wheat 55K single-nucleotide polymorphism (SNP) array to construct a genetic map with 1,871 SNP markers finally. Two stable APR quantitative trait loci (QTL), QYr.GX-2AS and QYr.GX-7DS in GX, were detected on chromosomes 2AS and 7DS, which explained 15.5–27.0% and 11.5–13.5% of the total phenotypic variation, respectively. Compared with published Yr genes and QTL, QYr.GX-7DS and Yr18 may be the same, whereas QYr.GX-2AS is likely to be novel. Haplotype analysis revealed that QYr.GX-2AS is likely to be rare which presents in 5.3% of the 325 surveyed Chinese wheat landraces. By analyzing a heterogeneous inbred family (HIF) population from a residual heterozygous plant in an F8 generation of RIL, QYr.GX-2AS was further flanked by KP2A_36.85 and KP2A_38.22 with a physical distance of about 1.37Mb and co-segregated with the KP2A_37.09. Furthermore, three tightly linked Kompetitive allele-specific PCR (KASP) markers were highly polymorphic among 109 Chinese wheat cultivars. The results of this study can be used in wheat breeding for improving resistance to stripe rust.

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A major yellow rust resistance QTL on chromosome 6A shows increased frequency in recent Norwegian spring wheat cultivars and breeding lines

et al. 2023

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Key message A major yellow rust resistance QTL, QYr.nmbu.6A, contributed consistent adult plant resistance in field trials across Europe, China, Kenya and Mexico. Abstract Puccinia striiformis f. sp. tritici, causing wheat yellow rust (YR), is one of the most devastating biotrophic pathogens affecting global wheat yields. Owing to the recent epidemic of the PstS10 race group in Europe, yellow rust has become a reoccurring disease in Norway since 2014. As all stage resistances (ASR) (or seedling resistances) are usually easily overcome by pathogen evolution, deployment of durable adult plant resistance (APR) is crucial for yellow rust resistance breeding. In this study, we assessed a Nordic spring wheat association mapping panel (n = 301) for yellow rust field resistance in seventeen field trials from 2015 to 2021, including nine locations in six countries across four different continents. Nine consistent QTL were identified across continents by genome-wide association studies (GWAS). One robust QTL on the long arm of chromosome 6A, QYr.nmbu.6A, was consistently detected in nine out of the seventeen trials. Haplotype analysis of QYr.nmbu.6A confirmed significant QTL effects in all tested environments and the effect was also validated using an independent panel of new Norwegian breeding lines. Increased frequency of the resistant haplotype was found in new varieties and breeding lines in comparison to older varieties and landraces, implying that the resistance might have been selected for due to the recent changes in the yellow rust pathogen population in Europe.

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Population structure and genetic basis of the stripe rust resistance of 140 Chinese wheat landraces revealed by a genome-wide association study

Cited by 15 publications

References 67 publications

Genome-Wide Association Analysis of Stable Stripe Rust Resistance Loci in a Chinese Wheat Landrace Panel Using the 660K SNP Array

Genome-Wide Association Analysis of Stable Stripe Rust Resistance Loci in a Chinese Wheat Landrace Panel Using the 660K SNP Array

Molecular Mapping and Analysis of an Excellent Quantitative Trait Loci Conferring Adult-Plant Resistance to Stripe Rust in Chinese Wheat Landrace Gaoxianguangtoumai

A major yellow rust resistance QTL on chromosome 6A shows increased frequency in recent Norwegian spring wheat cultivars and breeding lines

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