Genome-wide association mapping of Fusarium head blight resistance in contemporary barley breeding germplasm

Massman, Jon M.; Cooper, B.; Horsley, Richard D.; Neate, Stephen M.; Dill‐Macky, Ruth; Chao, Shiaoman; Dong, Yanhong; Schwarz, Paul; Muehlbauer, Gary J.; Smith, Kevin P.

doi:10.1007/s11032-010-9442-0

Cited by 145 publications

(139 citation statements)

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“…The developments of numerous molecular markers for various plant species, high throughput sequencing techniques (Metzker, 2009), and modern analytical tools (Yu et al, 2005;Kang et al, 2008;Kang and Sul, 2010;Zhang et al, 2010) have led to new initiatives for utilizing AM to identify causal variants for diverse traits (Zhu et al, 2008) such as flowering time, kernel composition, and kernel color in maize Palaisa et al, 2004;Wilson et al, 2004); developmental and floweringrelated traits in Arabidopsis (Atwell et al, 2010); multiple agronomic traits in sugar beet (Würschum et al, 2011); quality traits in potato (D′Hoop et al, 2008); disease resistance in sugarcane (Wei et al, 2006); wood property traits in Pinus taeda (González-Martínez et al, 2007); disease resistance in barley (Massman et al, 2011); and flowering time in ryegrass (Skøt et al, 2007).…”

Section: Introductionmentioning

confidence: 99%

Population structure and linkage disequilibrium in elite barley breeding germplasm from the United States

Zhou

Muehlbauer

Steffenson

2012

J. Zhejiang Univ. Sci. B

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Cultivated barley is known to have a complex population structure and extensive linkage disequilibrium (LD). To conduct robust association mapping (AM) studies of economically important traits in US barley breeding germplasm, population structure and LD decay were examined in a complete panel of US barley breeding germplasm (3 840 lines) genotyped with 3 072 single nucleotide polymorphisms (SNPs). Nine subpopulations (sp1-sp9) were identified by the program STRUCTURE and subsequently confirmed by principle component analysis (PCA). Out of the nine subpopulations, seven were very similar to the respective subpopulations identified by Hamblin et al. (2010) which were based on half of the germplasm and half of the SNP markers, but two subpopulations were found to be new. One subpopulation was dominated by six-rowed spring lines from Utah State University (UT) and the other was composed of six-rowed spring lines from multiple breeding programs (USDA-ARS Aberdeen (AB), Busch Agricultural Resources Inc. (BA), UT, and Washington State University (WA)). LD was found to decay across a range from 4.0 to 19.8 cM. This result indicates that the germplasm genotyped with 3 072 SNPs would be robust for mapping and possibly identifying the causal polymorphisms contributing to disease resistance and perhaps other traits.

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Section: Introductionmentioning

confidence: 99%

Population structure and linkage disequilibrium in elite barley breeding germplasm from the United States

Zhou

Muehlbauer

Steffenson

2012

J. Zhejiang Univ. Sci. B

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“…In addition, DON content and Fusarium-damaged kernels (FDK) are also used in Canadian barley grading system (Clear et al 1996;Tekauz et al 2000), corresponding to Type III and Type IV resistance in wheat, respectively (Mesterhazy et al 2005). Agronomic and morphological traits have been found to be associated with FHB resistance in barley, which has been elucidated by genetic studies to be derived from either pleiotropic effects or tight linkages (de la Pena et al 1999;Zhu et al 1999;Massman et al 2011). Generally, high stature, late heading, two-row, lack of laterals, lax and nodding spike, hulless, and lodging resistance are often associated with FHB resistance (Steffenson et al 2003;Choo 2006).…”

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confidence: 99%

Evaluation of Canadian barley breeding lines for Fusarium head blight resistance

et al. 2015

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Evaluation of Canadian barley breeding lines for Fusarium head blight resistance. Can. J. Plant Sci. 95: 923Á929. Fusarium head blight (FHB) is a major challenge to the successful production of barley in Canada, as well as for end-users such as the malting and brewing industries. Due to the quantitative inheritance of FHB resistance, continuous effort is required to identify breeding lines with improved FHB resistance and incorporate them into crossing schemes to enhance FHB resistance. In the present study, 402 advanced breeding lines from Alberta, Canada, were evaluated in the FHB screening nursery at CIMMYT, Mexico. In 2011 and 2012, FHB incidence was measured on a scale of 1 to 4 to eliminate the most susceptible lines. In 2013 and 2014, 181 lines with the lowest disease scores in the previous 2 yr were tested in replicated experiments for field FHB index, Fusariumdamaged kernels, and deoxynivalenol content. Agronomic and morphological traits, specifically days to heading, plant height, and row and hull types were also evaluated in relations to FHB parameters. Correlation coefficients among the three FHB parameters in both 2013 and 2014 were all significant at PB0.0001, ranging from 0.36 to 0.63. Additional correlation analysis showed that late-maturing, tall, and two-row lines tended to have lower disease, whereas hull type did not show a significant correlation with FHB. Several lines with high and stable FHB resistance similar to that of the resistant checks were identified. These could be used in breeding programs as resistance sources or be registered as new cultivars if their overall attributes meet commercial standards.

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“…While, in the past the qualitative resistance, based on monogenetic inheritance, has been successfully used to elite cultivars to improve resistance, the quantitative resistance, which is presumed to be durable, non-race-specific, and effective against a large bouquet of pathogens, is mainly unknown [10]. However, a huge number of quantitative trait loci (QTLs) associated with qualitative resistance against pathogen-associated molecular patterns (PAMs), found for example in soy beans (Glycine max), and with quantitative resistance, found for blast in barley (Hordeum vulgare), or powdery mildew in wheat have already been identified for biotic stress challenges [10,[48][49][50]. But both, the mechanisms of resistance and the metabolites up-regulated during plant stress controlled by the QTLs are mainly unexplored [48].…”

Section: From Biotic Stress Metabolomics To Metabolic Responsementioning

confidence: 99%

Functional Metabolomics – a Useful Tool to Characterize Stress-Induced Metabolome Alterations Opening New Avenues Towards Tailoring Food Crop Quality

Dawid¹,

Hille²

2018

Preprint

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The breeding of stress-tolerant cultivated plants that would allow for a reduction in harvest losses and undesirable decrease in quality attributes requires a new quality of knowledge on molecular markers associated with relevant agronomic traits, on quantitative metabolic responses of plants on stress challenges, and on the mechanisms controlling the biosynthesis of these molecules. By combining metabolomics with genomics, transcriptomics and proteomics datasets a more comprehensive knowledge of the composition of crop plants used for food or animal feed is possible. In order to optimize crop trait developments, to enhance crop yields and quality, as well as to guarantee nutritional and health factors, that provides the possibility to create functional food or feedstuffs, the knowledge about the plants' metabolome is crucial. Next to classical metabolomics studies, this review focusses on several metabolomics based working techniques, such as sensomics, lipidomics, hormonomics and phytometabolomics, which were used to characterize metabolome alterations during abiotic and biotic stress, to find resistant food crops with a preferred quality or at least to produce functional food crops are highlighted.Keywords: Plant stress, abiotic stress, biotic stress, metabolomics, phytometabolomics, sensomics, phytohormonics, LC-MS/MS, NMR, targeted metabolomics, untargeted metabolomics, functional food. Importance of metabolomics for agricultural researchIn their environment plants are often exposed to an enormous number of biotic and abiotic stress factors, such as pathogen and insect infestation as well as extreme temperatures, drought, salinity, pollutants, heavy metals or nutritional deficiencies, that lead to harvest or quality losses, such as the formation of a pronounced bitter off-flavor, and sometimes causes toxicological problems as well as huge global economic losses [1]. The breeding of stress-tolerant cultivated plants that would allow for a reduction in harvest losses and undesirable decrease in quality attributes requires a new quality of knowledge on molecular markers associated with relevant agronomic traits, on quantitative metabolic responses of plants on stress challenges, and on the mechanisms controlling the biosynthesis of these molecules. Thereby, the knowledge of the biologically active metabolites, especially, secondary metabolites as well as metabolic networks of primary and secondary metabolites that were affected upon plant stress conditions are inalienable. For a long time, primary and also secondary metabolites were simply considered as one of the end-products of gene expression and protein activity. Nowadays, it is increasingly accepted that lowmolecular weight molecules modulate macromolecular processes through, e. g. feedback inhibitionand by signaling phytohormons [8]. Therefore, Dixon et al. [8] conclude that, metabolomic studies are "intended to provide an integrated view of the functional status of an organism".Although for a single plant like Arabidosis thaliana no more than ...

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Genome-wide association mapping of Fusarium head blight resistance in contemporary barley breeding germplasm

Cited by 145 publications

References 46 publications

Population structure and linkage disequilibrium in elite barley breeding germplasm from the United States

Population structure and linkage disequilibrium in elite barley breeding germplasm from the United States

Evaluation of Canadian barley breeding lines for Fusarium head blight resistance

Functional Metabolomics – a Useful Tool to Characterize Stress-Induced Metabolome Alterations Opening New Avenues Towards Tailoring Food Crop Quality

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Genome-wide association mapping of Fusarium head blight resistance in contemporary barley breeding germplasm

Cited by 145 publications

References 46 publications

Population structure and linkage disequilibrium in elite barley breeding germplasm from the United States

Population structure and linkage disequilibrium in elite barley breeding germplasm from the United States

Evaluation of Canadian barley breeding lines for Fusarium head blight resistance

Functional Metabolomics &ndash; a Useful Tool to Characterize Stress-Induced Metabolome Alterations Opening New Avenues Towards Tailoring Food Crop Quality

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Functional Metabolomics – a Useful Tool to Characterize Stress-Induced Metabolome Alterations Opening New Avenues Towards Tailoring Food Crop Quality