Association mapping for soilborne pathogen resistance in synthetic hexaploid wheat

Mulki, Muhammad Aman; Jighly, Abdulqader; Ye, Gouyou; Emebiri, Livinus; Moody, D. Branch; Ansari, Omid; Ogbonnaya, Francis C.

doi:10.1007/s11032-012-9790-z

Cited by 52 publications

(40 citation statements)

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“…DArT markers showed a higher percentage of significant pairs in the inter-chromosomal LDs while SNP markers showed a higher percentage in the intra-chromosomal pairs. Similarly, Crossa et al (2007) obtained an LD at 40 cM in historical bread wheat germplasm, but higher than that observed by Chao et al (2007) and Joukhadar et al (2013) at 20 cM;and Mulki et al (2013) and Tadesse et al (2014) at less than 10 cM. Markers on the 1BS chromosome arm showed high LD with each other ( Figure S1) which could be attributed to the presence of the 1BS/1RL translocation in some of the genotypes within the GWAM germplasm panel.…”

Section: Discussionsupporting

confidence: 50%

“…4 The position of the 3BS QTL identified with both linkage mapping (on the left) and association mapping (on the right) approaches. Several studies have employed GWAM to characterize many agronomic traits, disease and insect pest resistance in wheat consistent with the approach adopted in this study (Maccaferri et al 2011(Maccaferri et al , 2015Miedaner et al 2011;Neumann et al 2011;Yu et al 2011Yu et al , 2012Wang et al 2012;Kollers et al 2013;Mulki et al 2013;Joukhadar et al 2013;Sela et al 2014;Zegeye et al 2014). Standard bi-parental crosses have been initiated using some of the potentially diverse germplasm based on varying disease reaction.…”

Section: Discussionmentioning

confidence: 99%

“…The type I errors are attributed to confounding effects of population structure (Breseghello and Sorrells 2006), but studying the structure for traits that vary due to the environmental gradients which overlap with patterns of population structure, like flowering time, can also lead to type II errors (Brachi et al 2011). The MLM approach has been employed in many recent genetic studies to identify genes that conferred resistance to many biotic stresses as well as uncovering the genetic basis of agronomically useful traits (Maccaferri et al 2011(Maccaferri et al , 2015Miedaner et al 2011;Neumann et al 2011;Yu et al 2011Yu et al , 2012Wang et al 2012;Kollers et al 2013;Mulki et al 2013;Joukhadar et al 2013;Sela et al 2014;Rasheed et al 2014;Zegeye et al 2014;Emebiri and Ogbonnaya 2015). In GWAM, the use of mixed linear models (MLM) (Yu et al 2006;Kang et al 2008;Stich and Melchinger 2009) that utilizes Q and K performs better than general linear model (GLM) in correcting for false-positive results.…”

Section: Introductionmentioning

confidence: 99%

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Genome-wide DArT and SNP scan for QTL associated with resistance to stripe rust (Puccinia striiformis f. sp. tritici) in elite ICARDA wheat (Triticum aestivum L.) germplasm

et al. 2015

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Identified DArT and SNP markers including a first reported QTL on 3AS, validated large effect APR on 3BS. The different genes can be used to incorporate stripe resistance in cultivated varieties. Stripe rust [yellow rust, caused by Puccinia striiformis f. sp. tritici (Pst)] is a serious disease in wheat (Triticum aestivum). This study employed genome-wide association mapping (GWAM) to identify markers linked to stripe rust resistance genes using Diversity Arrays Technology (DArT(®)) and single-nucleotide polymorphism (SNP) Infinium 9K assays in 200 ICARDA wheat genotypes, phenotyped for seedling and adult plant resistance in two sites over two growing seasons in Syria. Only 25.8 % of the genotypes showed resistance at seedling stage while about 33 and 44 % showed moderate resistance and resistance response, respectively. Mixed-linear model adjusted for false discovery rate at p < 0.05 identified 12 DArT and 29 SNP markers on chromosome arms 3AS, 3AL, 1AL, 2AL, 2BS, 2BL, 3BS, 3BL, 5BL, 6AL, and 7DS significantly linked to Pst resistance genes. Of these, the locus on 3AS has not been previously reported to confer resistance to stripe rust in wheat. The QTL on 3AS, 3AL, 1AL, 2AL, and 2BS were effective at seedling and adult plant growth stages while those on 3BS, 3BL, 5BL, 6AL and 7DS were effective at adult plant stage. The 3BS QTL was validated in Cham-6 × Cham-8 recombinant inbred line population; composite interval analysis identified a stripe resistance QTL flanked by the DArT marker, wPt-798970, contributed by Cham-6 parent which accounted for 31.2 % of the phenotypic variation. The DArT marker "wPt-798970" lies 1.6 cM away from the 3BS QTL detected within GWAM. Epistatic interactions were also investigated; only the QTL on 1AL, 3AS and 6AL exhibited interactions with other loci. These results suggest that GWAM can be an effective approach for identifying and improving resistance to stripe rust in wheat.

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Section: Discussionsupporting

confidence: 50%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genome-wide DArT and SNP scan for QTL associated with resistance to stripe rust (Puccinia striiformis f. sp. tritici) in elite ICARDA wheat (Triticum aestivum L.) germplasm

et al. 2015

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“…CROC_1/AE. SQUARROSA (224)//OPATA) have been classified for their resistance to soil borne pathogens, including CCNs and the root lesion nematode P. thornei Mulki et al 2013). In India, varieties Raj MR 1, CCNRV2, and CCNRV4 showed potential resistance to H. avenae (Bishnoi 2009), while in Australia, ten wheat cultivars including Meering, Festiguay, Molineux, Frame, Chara, and Annuello showed moderate resistance to H. avenae (Lewis et al 2009).…”

Section: Genetic Resistancementioning

confidence: 99%

“…Barloy et al (2007) also determined that pyramiding the CreX and CreY genes increased levels of resistance to H. avenae pathotype Ha12, compared to either gene separately. Furthermore, new sources and genes for CCN resistance have been identified in primary synthetic bread wheat, which is easily crossable with modern bread wheat and can be utilized in breeding (Mulki et al 2013). …”

Section: Genetic Resistancementioning

confidence: 99%

The importance and management strategies of cereal cyst nematodes, Heterodera spp., in Turkey

Dababat¹,

İmren

Erginbaş-Orakci³

et al. 2014

Euphytica

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Cereal cyst nematodes (CCNs) can cause significant economic yield losses alone or in combination with other biotic and abiotic factors. The damage caused by these nematodes can be enormous when they occur in a disease complex, particularly in areas subject to water stress. Of the 12 valid CCN species, Heterodera avenae, H. filipjevi, and H. latipons are considered the most economically important in different parts of the world. This paper reviews current approaches to managing CCNs via genetic resistance, biological agents, cultural practices, and chemical strategies. Recent research within the soil borne pathogen program of the International Maize and Wheat Improvement Center has focused on germplasm screening, the potential of this germplasm as sources of resistance, and how to incorporate new sources of resistance into breeding programs. Breeding for resistance is particularly complicated and difficult when different species and pathotypes coexist in nature. A lack of expertise and recognition of CCNs as a factor limiting wheat production potential, combined with inappropriate breeding strategies and slow screening processes limit genetic gains for resistance to CCNs.

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Synthetic Hexaploids: Harnessing Species of the Primary Gene Pool for Wheat Improvement

Ogbonnaya

Abdalla

Mujeeb‐Kazi

et al. 2013

Plant Breeding Reviews

184

133

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Association mapping for soilborne pathogen resistance in synthetic hexaploid wheat

Cited by 52 publications

References 53 publications

Genome-wide DArT and SNP scan for QTL associated with resistance to stripe rust (Puccinia striiformis f. sp. tritici) in elite ICARDA wheat (Triticum aestivum L.) germplasm

Genome-wide DArT and SNP scan for QTL associated with resistance to stripe rust (Puccinia striiformis f. sp. tritici) in elite ICARDA wheat (Triticum aestivum L.) germplasm

The importance and management strategies of cereal cyst nematodes, Heterodera spp., in Turkey

Synthetic Hexaploids: Harnessing Species of the Primary Gene Pool for Wheat Improvement

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