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Genome-wide association mapping reveals a rich genetic architecture of stripe rust resistance loci in emmer wheat (Triticum turgidum ssp. dicoccum).
Theor Appl Genet. 2017 Nov; 130(11):2249-2270.TA

Abstract

KEY MESSAGE

SNP-based genome scanning in worldwide domesticated emmer germplasm showed high genetic diversity, rapid linkage disequilibrium decay and 51 loci for stripe rust resistance, a large proportion of which were novel. Cultivated emmer wheat (Triticum turgidum ssp. dicoccum), one of the oldest domesticated crops in the world, is a potentially rich reservoir of variation for improvement of resistance/tolerance to biotic and abiotic stresses in wheat. Resistance to stripe rust (Puccinia striiformis f. sp. tritici) in emmer wheat has been under-investigated. Here, we employed genome-wide association (GWAS) mapping with a mixed linear model to dissect effective stripe rust resistance loci in a worldwide collection of 176 cultivated emmer wheat accessions. Adult plants were tested in six environments and seedlings were evaluated with five races from the United States and one from Italy under greenhouse conditions. Five accessions were resistant across all experiments. The panel was genotyped with the wheat 90,000 Illumina iSelect single nucleotide polymorphism (SNP) array and 5106 polymorphic SNP markers with mapped positions were obtained. A high level of genetic diversity and fast linkage disequilibrium decay were observed. In total, we identified 14 loci associated with field resistance in multiple environments. Thirty-seven loci were significantly associated with all-stage (seedling) resistance and six of them were effective against multiple races. Of the 51 total loci, 29 were mapped distantly from previously reported stripe rust resistance genes or quantitative trait loci and represent newly discovered resistance loci. Our results suggest that GWAS is an effective method for characterizing genes in cultivated emmer wheat and confirm that emmer wheat is a rich source of stripe rust resistance loci that can be used for wheat improvement.

Authors+Show Affiliations

Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164-6420, USA.Department of Agricultural Sciences, University of Bologna, 40127, Bologna, Italy.Wheat Health, Genetics, and Quality Research Unit, USDA-ARS, Pullman, WA, 99164-6430, USA. Department of Plant Pathology, Washington State University, Pullman, WA, 99164-6430, USA.CNR-Institute of Biosciences and Bioresources, 072006, Bari, Italy.CNR-Institute of Biosciences and Bioresources, 072006, Bari, Italy.Department of Crop and Soil Sciences, Washington State University, Pullman, WA, 99164-6420, USA. m.pumphrey@wsu.edu.Department of Agricultural Sciences, University of Bologna, 40127, Bologna, Italy.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

28770301

Citation

Liu, Weizhen, et al. "Genome-wide Association Mapping Reveals a Rich Genetic Architecture of Stripe Rust Resistance Loci in Emmer Wheat (Triticum Turgidum Ssp. Dicoccum)." TAG. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik, vol. 130, no. 11, 2017, pp. 2249-2270.
Liu W, Maccaferri M, Chen X, et al. Genome-wide association mapping reveals a rich genetic architecture of stripe rust resistance loci in emmer wheat (Triticum turgidum ssp. dicoccum). Theor Appl Genet. 2017;130(11):2249-2270.
Liu, W., Maccaferri, M., Chen, X., Laghetti, G., Pignone, D., Pumphrey, M., & Tuberosa, R. (2017). Genome-wide association mapping reveals a rich genetic architecture of stripe rust resistance loci in emmer wheat (Triticum turgidum ssp. dicoccum). TAG. Theoretical and Applied Genetics. Theoretische Und Angewandte Genetik, 130(11), 2249-2270. https://doi.org/10.1007/s00122-017-2957-6
Liu W, et al. Genome-wide Association Mapping Reveals a Rich Genetic Architecture of Stripe Rust Resistance Loci in Emmer Wheat (Triticum Turgidum Ssp. Dicoccum). Theor Appl Genet. 2017;130(11):2249-2270. PubMed PMID: 28770301.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genome-wide association mapping reveals a rich genetic architecture of stripe rust resistance loci in emmer wheat (Triticum turgidum ssp. dicoccum). AU - Liu,Weizhen, AU - Maccaferri,Marco, AU - Chen,Xianming, AU - Laghetti,Gaetano, AU - Pignone,Domenico, AU - Pumphrey,Michael, AU - Tuberosa,Roberto, Y1 - 2017/08/02/ PY - 2017/03/15/received PY - 2017/07/26/accepted PY - 2017/8/5/pubmed PY - 2017/10/19/medline PY - 2017/8/4/entrez SP - 2249 EP - 2270 JF - TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik JO - Theor Appl Genet VL - 130 IS - 11 N2 - KEY MESSAGE: SNP-based genome scanning in worldwide domesticated emmer germplasm showed high genetic diversity, rapid linkage disequilibrium decay and 51 loci for stripe rust resistance, a large proportion of which were novel. Cultivated emmer wheat (Triticum turgidum ssp. dicoccum), one of the oldest domesticated crops in the world, is a potentially rich reservoir of variation for improvement of resistance/tolerance to biotic and abiotic stresses in wheat. Resistance to stripe rust (Puccinia striiformis f. sp. tritici) in emmer wheat has been under-investigated. Here, we employed genome-wide association (GWAS) mapping with a mixed linear model to dissect effective stripe rust resistance loci in a worldwide collection of 176 cultivated emmer wheat accessions. Adult plants were tested in six environments and seedlings were evaluated with five races from the United States and one from Italy under greenhouse conditions. Five accessions were resistant across all experiments. The panel was genotyped with the wheat 90,000 Illumina iSelect single nucleotide polymorphism (SNP) array and 5106 polymorphic SNP markers with mapped positions were obtained. A high level of genetic diversity and fast linkage disequilibrium decay were observed. In total, we identified 14 loci associated with field resistance in multiple environments. Thirty-seven loci were significantly associated with all-stage (seedling) resistance and six of them were effective against multiple races. Of the 51 total loci, 29 were mapped distantly from previously reported stripe rust resistance genes or quantitative trait loci and represent newly discovered resistance loci. Our results suggest that GWAS is an effective method for characterizing genes in cultivated emmer wheat and confirm that emmer wheat is a rich source of stripe rust resistance loci that can be used for wheat improvement. SN - 1432-2242 UR - https://www.unboundmedicine.com/medline/citation/28770301/Genome_wide_association_mapping_reveals_a_rich_genetic_architecture_of_stripe_rust_resistance_loci_in_emmer_wheat__Triticum_turgidum_ssp__dicoccum__ L2 - https://dx.doi.org/10.1007/s00122-017-2957-6 DB - PRIME DP - Unbound Medicine ER -