Genome-wide association mapping for five major pest resistances in wheat

Joukhadar, Reem; El‐Bouhssini, M.; Jighly, Abdulqader; Ogbonnaya, Francis C.

doi:10.1007/s11032-013-9924-y

Cited by 71 publications

(63 citation statements)

References 89 publications

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“…The use of an elite panel limited the array of allelic variation assessed in this study and, as expected, failed to detect a few QTLs that have been previously shown to be associated with WSS resistance (Sherman et al, 2010;Joukhadar et al, 2013). Nevertheless, the use of this panel allowed us to determine the genetic basis of WSS resistance available within North American breeding programs.…”

Section: Discussionmentioning

confidence: 86%

“…The QTLs on chromosomes 1B, 2D, 4A and 5B were identified in a recombinant inbred line population derived from a cross between the spring wheat lines Conan (PI607549) (WestBred, LLC) and Reeder (PI613586) (Sherman et al, 2010), which are the parent cultivars described in Weaver et al (2009). The remaining QTLs were identified in an associationmapping panel comprised of wheat landraces, synthetic hexaploid wheat, and elite lines from West Asia (Joukhadar et al, 2013). Lines that head late in the season escape infestation because their stems are not suitable for egg-laying during the WSS oviposition period.…”

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confidence: 99%

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Association Analysis of Stem Solidness and Wheat Stem Sawfly Resistance in a Panel of North American Spring Wheat Germplasm

et al. 2015

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The expanding geographical range of wheat stem sawfly (WSS) damage, coupled with the limited number of effective control measures, calls for a need to better characterize and explore the genetic variability for resistance in wheat (Triticum aestivum L.) germplasm from North America. An association‐mapping analysis for stem solidness and wheat stem sawfly resistance was conducted using a set of 244 elite spring wheat lines from 10 North American breeding programs. Three previously identified quantitative trait loci (QTL) for resistance were confirmed, including QTL for stem solidness, heading date, and stem cutting. Three new QTL on chromosomes 2A, 3A, and 5B were identified to be associated with larval mortality and a QTL associated with early stem solidness was identified on chromosome 5D. Genetic variation for late stem solidness is mainly determined by the solid‐stem QTL on chromosome 3B, while variation for early solidness is affected by chromosomal regions on 1B, 3B, and 5D. Potential sources of a novel resistance mechanism causing larval mortality were identified among the panel lines. Favorable alleles for stem solidness and other resistance traits are available within North American wheat germplasm, but only Montana and South Dakota breeding programs appear to have favorable alleles for all QTLs detected in this study. Improvements in wheat stem sawfly management, for both historically impacted areas and for regions first experiencing damage, may be obtained using alleles that already exist in elite germplasm.

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Section: Discussionmentioning

confidence: 86%

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confidence: 99%

Association Analysis of Stem Solidness and Wheat Stem Sawfly Resistance in a Panel of North American Spring Wheat Germplasm

et al. 2015

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“…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%

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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“…Marker-trait associations using association mapping have been identified in different crops (Zhu et al, 2008) using different types of molecular markers. Similarly, association mapping studies have been performed in wheat for grain yield (Crossa et al, 2007;Edae et al, 2014;Lopes et al, 2014;Ogbonnaya et al, 2017), resistance to foliar diseases (Crossa et al, 2007;Tadesse et al, 2014;Sukumaran et al, 2015Sukumaran et al, , 2016Jighly et al, 2015), soil-borne pathogens (Mulki et al, 2013), and resistance to major insect pests ( Joukhadar et al, 2013). Similarly, association mapping studies have been performed in wheat for grain yield (Crossa et al, 2007;Edae et al, 2014;Lopes et al, 2014;Ogbonnaya et al, 2017), resistance to foliar diseases (Crossa et al, 2007;Tadesse et al, 2014;Sukumaran et al, 2015Sukumaran et al, , 2016Jighly et al, 2015), soil-borne pathogens (Mulki et al, 2013), and resistance to major insect pests ( Joukhadar et al, 2013).…”

Section: Heat-tolerant Qtls Associated With Grain Yield and Its Compomentioning

confidence: 99%

Heat‐Tolerant QTLs Associated with Grain Yield and Its Components in Spring Bread Wheat under Heat‐Stressed Environments of Sudan and Egypt

Tadesse¹,

Suleiman

Tahir

et al. 2019

Crop Science

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Heat stress decreases photosynthesis, pollen viability, and grain number and weight and hence lowers yield and quality of wheat (Triticum aestivum L.) by variable amounts among different cultivars and genotypes. The present study was performed to determine genetic variability of spring bread wheat genotypes for yield and other agronomic traits under heat‐stressed (Wad Medani, Sudan) and high‐yielding (Sids, Egypt) environments and to identify linked single nucleotide polymorphism (SNP) markers through association mapping. A heat association panel of 197 spring wheat genotypes from ICARDA was evaluated for yield and agronomic traits at Wad Medani and Sids stations for 2 yr (2014–2015). A total of 111 significant marker‐trait associations were detected. The wsnp_Ex_c12812_20324622 marker on chromosome 4A was significantly correlated with yield at both locations. At Wad Medani, wsnp_Ex_c2526_4715978 on chromosome 5A was significantly correlated with grain yield. Wheat genotypes carrying the cytosine base at the wsnp_Ex_c12812_20324622 and wsnp_Ex_c2526_4715978 markers outyielded the ones carrying the alternative bases by 15%, whereas genotypes carrying the cytosine base at only one of the two markers increased their yield by 7.9 to 10%, suggesting the importance of using these markers for marker‐assisted selection in breeding programs to increase yield under heat stress. The top 20 high‐yielding and heat‐tolerant genotypes identified in this study have been distributed to the national research systems of Central and West Asia and North Africa (CWANA) and sub‐Saharan Africa (SSA) for potential direct release and/or use as parents after local adaptation trials.

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Genome-wide association mapping for five major pest resistances in wheat

Cited by 71 publications

References 89 publications

Association Analysis of Stem Solidness and Wheat Stem Sawfly Resistance in a Panel of North American Spring Wheat Germplasm

Association Analysis of Stem Solidness and Wheat Stem Sawfly Resistance in a Panel of North American Spring Wheat 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

Heat‐Tolerant QTLs Associated with Grain Yield and Its Components in Spring Bread Wheat under Heat‐Stressed Environments of Sudan and Egypt

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