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Population genomics of Puccinia graminis f.sp. tritici highlights the role of admixture in the origin of virulent wheat rust races

Author

Listed:
  • Yuanwen Guo

    (Kansas State University)

  • Bliss Betzen

    (Kansas State University
    Kansas State University)

  • Andres Salcedo

    (Kansas State University
    North Carolina State University)

  • Fei He

    (Kansas State University
    Chinese Academy of Sciences)

  • Robert L. Bowden

    (USDA-ARS, Hard Winter Wheat Genetics Research Unit)

  • John P. Fellers

    (USDA-ARS, Hard Winter Wheat Genetics Research Unit)

  • Katherine W. Jordan

    (Kansas State University
    USDA-ARS, Hard Winter Wheat Genetics Research Unit)

  • Alina Akhunova

    (Kansas State University
    Kansas State University)

  • Mathew N. Rouse

    (University of Minnesota & USDA-ARS, Cereal Disease Lab)

  • Les J. Szabo

    (University of Minnesota & USDA-ARS, Cereal Disease Lab)

  • Eduard Akhunov

    (Kansas State University
    Kansas State University)

Abstract

Puccinia graminis f.sp. tritici (Pgt) causes stem rust disease in wheat that can result in severe yield losses. The factors driving the evolution of its virulence and adaptation remain poorly characterized. We utilize long-read sequencing to develop a haplotype-resolved genome assembly of a U.S. isolate of Pgt. Using Pgt haplotypes as a reference, we characterize the structural variants (SVs) and single nucleotide polymorphisms in a diverse panel of isolates. SVs impact the repertoire of predicted effectors, secreted proteins involved in host-pathogen interaction, and show evidence of purifying selection. By analyzing global and local genomic ancestry we demonstrate that the origin of 8 out of 12 Pgt clades is linked with either somatic hybridization or sexual recombination between the diverged donor populations. Our study shows that SVs and admixture events appear to play an important role in broadening Pgt virulence and the origin of highly virulent races, creating a resource for studying the evolution of Pgt virulence and preventing future epidemic outbreaks.

Suggested Citation

  • Yuanwen Guo & Bliss Betzen & Andres Salcedo & Fei He & Robert L. Bowden & John P. Fellers & Katherine W. Jordan & Alina Akhunova & Mathew N. Rouse & Les J. Szabo & Eduard Akhunov, 2022. "Population genomics of Puccinia graminis f.sp. tritici highlights the role of admixture in the origin of virulent wheat rust races," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-34050-w
    DOI: 10.1038/s41467-022-34050-w
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    References listed on IDEAS

    as
    1. Feng Li & Narayana M. Upadhyaya & Jana Sperschneider & Oadi Matny & Hoa Nguyen-Phuc & Rohit Mago & Castle Raley & Marisa E. Miller & Kevin A. T. Silverstein & Eva Henningsen & Cory D. Hirsch & Botma V, 2019. "Emergence of the Ug99 lineage of the wheat stem rust pathogen through somatic hybridisation," Nature Communications, Nature, vol. 10(1), pages 1-15, December.
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