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A thousand-genome panel retraces the global spread and adaptation of a major fungal crop pathogen

Author

Listed:
  • Alice Feurtey

    (University of Neuchâtel
    Plant Pathology, D-USYS, ETH Zurich
    Max Planck Institute for Evolutionary Biology)

  • Cécile Lorrain

    (Plant Pathology, D-USYS, ETH Zurich)

  • Megan C. McDonald

    (The Australian National University
    University of Birmingham)

  • Andrew Milgate

    (Wagga Wagga Agricultural Institute)

  • Peter S. Solomon

    (The Australian National University)

  • Rachael Warren

    (The New Zealand Institute for Plant and Food Research Limited)

  • Guido Puccetti

    (University of Neuchâtel
    Syngenta Crop Protection AG)

  • Gabriel Scalliet

    (Syngenta Crop Protection AG)

  • Stefano F. F. Torriani

    (Syngenta Crop Protection AG)

  • Lilian Gout

    (Université Paris Saclay, INRAE, UR BIOGER)

  • Thierry C. Marcel

    (Université Paris Saclay, INRAE, UR BIOGER)

  • Frédéric Suffert

    (Université Paris Saclay, INRAE, UR BIOGER)

  • Julien Alassimone

    (Plant Pathology, D-USYS, ETH Zurich)

  • Anna Lipzen

    (Lawrence Berkeley National Laboratory)

  • Yuko Yoshinaga

    (Lawrence Berkeley National Laboratory)

  • Christopher Daum

    (Lawrence Berkeley National Laboratory)

  • Kerrie Barry

    (Lawrence Berkeley National Laboratory)

  • Igor V. Grigoriev

    (Lawrence Berkeley National Laboratory
    University of California Berkeley)

  • Stephen B. Goodwin

    (USDA-Agricultural Research Service)

  • Anne Genissel

    (Université Paris Saclay, INRAE, UR BIOGER)

  • Michael F. Seidl

    (Laboratory of Phytopathology
    Utrecht University, Theoretical Biology and Bioinformatics)

  • Eva H. Stukenbrock

    (Max Planck Institute for Evolutionary Biology
    Christian-Albrechts University of Kiel)

  • Marc-Henri Lebrun

    (Université Paris Saclay, INRAE, UR BIOGER)

  • Gert H. J. Kema

    (Laboratory of Phytopathology)

  • Bruce A. McDonald

    (Plant Pathology, D-USYS, ETH Zurich)

  • Daniel Croll

    (University of Neuchâtel)

Abstract

Human activity impacts the evolutionary trajectories of many species worldwide. Global trade of agricultural goods contributes to the dispersal of pathogens reshaping their genetic makeup and providing opportunities for virulence gains. Understanding how pathogens surmount control strategies and cope with new climates is crucial to predicting the future impact of crop pathogens. Here, we address this by assembling a global thousand-genome panel of Zymoseptoria tritici, a major fungal pathogen of wheat reported in all production areas worldwide. We identify the global invasion routes and ongoing genetic exchange of the pathogen among wheat-growing regions. We find that the global expansion was accompanied by increased activity of transposable elements and weakened genomic defenses. Finally, we find significant standing variation for adaptation to new climates encountered during the global spread. Our work shows how large population genomic panels enable deep insights into the evolutionary trajectory of a major crop pathogen.

Suggested Citation

  • Alice Feurtey & Cécile Lorrain & Megan C. McDonald & Andrew Milgate & Peter S. Solomon & Rachael Warren & Guido Puccetti & Gabriel Scalliet & Stefano F. F. Torriani & Lilian Gout & Thierry C. Marcel &, 2023. "A thousand-genome panel retraces the global spread and adaptation of a major fungal crop pathogen," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
  • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-36674-y
    DOI: 10.1038/s41467-023-36674-y
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    References listed on IDEAS

    as
    1. Daniel P. Bebber & Mark A. T. Ramotowski & Sarah J. Gurr, 2013. "Crop pests and pathogens move polewards in a warming world," Nature Climate Change, Nature, vol. 3(11), pages 985-988, November.
    2. Alexandros G. Sotiropoulos & Epifanía Arango-Isaza & Tomohiro Ban & Chiara Barbieri & Salim Bourras & Christina Cowger & Paweł C. Czembor & Roi Ben-David & Amos Dinoor & Simon R. Ellwood & Johannes Gr, 2022. "Global genomic analyses of wheat powdery mildew reveal association of pathogen spread with historical human migration and trade," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    3. Joseph K Pickrell & Jonathan K Pritchard, 2012. "Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data," PLOS Genetics, Public Library of Science, vol. 8(11), pages 1-17, November.
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    Cited by:

    1. Sabina Moser Tralamazza & Emile Gluck-Thaler & Alice Feurtey & Daniel Croll, 2024. "Copy number variation introduced by a massive mobile element facilitates global thermal adaptation in a fungal wheat pathogen," Nature Communications, Nature, vol. 15(1), pages 1-18, December.

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