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Inter-species gene flow drives ongoing evolution of Streptococcus pyogenes and Streptococcus dysgalactiae subsp. equisimilis

Author

Listed:
  • Ouli Xie

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity
    Monash Health)

  • Jacqueline M. Morris

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity)

  • Andrew J. Hayes

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity)

  • Rebecca J. Towers

    (Charles Darwin University)

  • Magnus G. Jespersen

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity)

  • John A. Lees

    (European Bioinformatics Institute EMBL-EBI)

  • Nouri L. Ben Zakour

    (The University of Queensland)

  • Olga Berking

    (The University of Queensland)

  • Sarah L. Baines

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity)

  • Glen P. Carter

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity)

  • Gerry Tonkin-Hill

    (University of Oslo)

  • Layla Schrieber

    (The University of Sydney)

  • Liam McIntyre

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity)

  • Jake A. Lacey

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity)

  • Taylah B. James

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity)

  • Kadaba S. Sriprakash

    (QIMR Berghofer Medical Research Institute
    University of New England)

  • Scott A. Beatson

    (The University of Queensland)

  • Tadao Hasegawa

    (Nagoya City University Graduate School of Medical Sciences)

  • Phil Giffard

    (Charles Darwin University)

  • Andrew C. Steer

    (Murdoch Children’s Research Institute)

  • Michael R. Batzloff

    (QIMR Berghofer Medical Research Institute
    Griffith University)

  • Bernard W. Beall

    (Centers for Disease Control and Prevention)

  • Marcos D. Pinho

    (Universidade de Lisboa)

  • Mario Ramirez

    (Universidade de Lisboa)

  • Debra E. Bessen

    (Valhalla)

  • Gordon Dougan

    (Wellcome Sanger Institute)

  • Stephen D. Bentley

    (Wellcome Sanger Institute)

  • Mark J. Walker

    (The University of Queensland
    The University of Queensland)

  • Bart J. Currie

    (Charles Darwin University)

  • Steven Y. C. Tong

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity
    The Royal Melbourne Hospital at the Peter Doherty Institute for Infection and Immunity)

  • David J. McMillan

    (University of the Sunshine Coast)

  • Mark R. Davies

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity)

Abstract

Streptococcus dysgalactiae subsp. equisimilis (SDSE) is an emerging cause of human infection with invasive disease incidence and clinical manifestations comparable to the closely related species, Streptococcus pyogenes. Through systematic genomic analyses of 501 disseminated SDSE strains, we demonstrate extensive overlap between the genomes of SDSE and S. pyogenes. More than 75% of core genes are shared between the two species with one third demonstrating evidence of cross-species recombination. Twenty-five percent of mobile genetic element (MGE) clusters and 16 of 55 SDSE MGE insertion regions were shared across species. Assessing potential cross-protection from leading S. pyogenes vaccine candidates on SDSE, 12/34 preclinical vaccine antigen genes were shown to be present in >99% of isolates of both species. Relevant to possible vaccine evasion, six vaccine candidate genes demonstrated evidence of inter-species recombination. These findings demonstrate previously unappreciated levels of genomic overlap between these closely related pathogens with implications for streptococcal pathobiology, disease surveillance and prevention.

Suggested Citation

  • Ouli Xie & Jacqueline M. Morris & Andrew J. Hayes & Rebecca J. Towers & Magnus G. Jespersen & John A. Lees & Nouri L. Ben Zakour & Olga Berking & Sarah L. Baines & Glen P. Carter & Gerry Tonkin-Hill &, 2024. "Inter-species gene flow drives ongoing evolution of Streptococcus pyogenes and Streptococcus dysgalactiae subsp. equisimilis," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-46530-2
    DOI: 10.1038/s41467-024-46530-2
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    References listed on IDEAS

    as
    1. Mark R. Davies & Nadia Keller & Stephan Brouwer & Magnus G. Jespersen & Amanda J. Cork & Andrew J. Hayes & Miranda E. Pitt & David M. P. Oliveira & Nichaela Harbison-Price & Olivia M. Bertolla & Danie, 2023. "Detection of Streptococcus pyogenes M1UK in Australia and characterization of the mutation driving enhanced expression of superantigen SpeA," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    Full references (including those not matched with items on IDEAS)

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