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Nested association mapping of stem rust resistance in wheat using genotyping by sequencing

Author: Bajgain, P.
Author: Rouse, M.N.
Author: Tsilo, T.J.
Author: Macharia, G.
Author: Bhavani, S.
Author: Yue Jin
Author: Anderson, J.A.
Year: 2016
URI: http://hdl.handle.net/10883/18129
Abstract: We combined the recently developed genotyping by sequencing (GBS) method with joint mapping (also known as nested association mapping) to dissect and understand the genetic architecture controlling stem rust resistance in wheat (Triticum aestivum). Ten stem rust resistant wheat varieties were crossed to the susceptible line LMPG-6 to generate F6 recombinant inbred lines. The recombinant inbred line populations were phenotyped in Kenya, South Africa, and St. Paul, Minnesota, USA. By joint mapping of the 10 populations, we identified 59 minor and medium-effect QTL (explained phenotypic variance range of 1% – 20%) on 20 chromosomes that contributed towards adult plant resistance to North American Pgt races as well as the highly virulent Ug99 race group. Fifteen of the 59 QTL were detected in multiple environments. No epistatic relationship was detected among the QTL. While these numerous small- to medium-effect QTL are shared among the families, the founder parents were found to have different allelic effects for the QTL. Fourteen QTL identified by joint mapping were also detected in single-population mapping. As these QTL were mapped using SNP markers with known locations on the physical chromosomes, the genomic regions identified with QTL could be explored more in depth to discover candidate genes for stem rust resistance. The use of GBS-derived de novo SNPs in mapping resistance to stem rust shown in this study could be used as a model to conduct similar markertrait association studies in other plant species.
Format: PDF
Language: English
Publisher: Public Library of Science
Copyright: CIMMYT manages Intellectual Assets as International Public Goods. The user is free to download, print, store and share this work. In case you want to translate or create any other derivative work and share or distribute such translation/derivative work, please contact CIMMYT-Knowledge-Center@cgiar.org indicating the work you want to use and the kind of use you intend; CIMMYT will contact you with the suitable license for that purpose.
Type: Article
Place of Publication: San Francisco, USA
Pages: 1-22
Issue: 5
Volume: 11
DOI: 10.1371/journal.pone.0155760
Country of Focus: KENYA
Country of Focus: SOUTH AFRICA
Country of Focus: ST. PAUL
Country of Focus: MINNESOTA
Agrovoc: WHEAT
Agrovoc: RUSTS
Agrovoc: DISEASE RESISTANCE
Agrovoc: QUANTITATIVE TRAIT LOCI
Agrovoc: DNA SEQUENCE
Agrovoc: CHROMOSOME MAPPING
Related Datasets: https://figshare.com/articles/dataset/Nested_Association_Mapping_of_Stem_Rust_Resistance_in_Wheat_Using_Genotyping_by_Sequencing/3938211
Elocator: e0155760
Journal: PLoS ONE


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  • Wheat
    Wheat - breeding, phytopathology, physiology, quality, biotech

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