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Population genomics of hypervirulent Klebsiella pneumoniae clonal-group 23 reveals early emergence and rapid global dissemination

Author

Listed:
  • Margaret M. C. Lam

    (University of Melbourne)

  • Kelly L. Wyres

    (University of Melbourne)

  • Sebastian Duchêne

    (University of Melbourne)

  • Ryan R. Wick

    (University of Melbourne)

  • Louise M. Judd

    (University of Melbourne)

  • Yunn-Hwen Gan

    (National University of Singapore)

  • Chu-Han Hoh

    (National University of Singapore)

  • Sophia Archuleta

    (National University of Singapore)

  • James S. Molton

    (National University of Singapore)

  • Shirin Kalimuddin

    (Singapore General Hospital)

  • Tse Hsien Koh

    (Singapore General Hospital)

  • Virginie Passet

    (Biodiversity and Epidemiology of Bacterial Pathogens)

  • Sylvain Brisse

    (Biodiversity and Epidemiology of Bacterial Pathogens)

  • Kathryn E. Holt

    (University of Melbourne
    The London School of Hygiene and Tropical Medicine)

Abstract

Severe liver abscess infections caused by hypervirulent clonal-group CG23 Klebsiella pneumoniae have been increasingly reported since the mid-1980s. Strains typically possess several virulence factors including an integrative, conjugative element ICEKp encoding the siderophore yersiniabactin and genotoxin colibactin. Here we investigate CG23’s evolutionary history, showing several deep-branching sublineages associated with distinct ICEKp acquisitions. Over 80% of liver abscess isolates belong to sublineage CG23-I, which emerged in ~1928 following acquisition of ICEKp10 (encoding yersiniabactin and colibactin), and then disseminated globally within the human population. CG23-I’s distinguishing feature is the colibactin synthesis locus, which reportedly promotes gut colonisation and metastatic infection in murine models. These data show circulation of CG23 K. pneumoniae decades before the liver abscess epidemic was first recognised, and provide a framework for future epidemiological and experimental studies of hypervirulent K. pneumoniae. To support such studies we present an open access, completely sequenced CG23-I human liver abscess isolate, SGH10.

Suggested Citation

  • Margaret M. C. Lam & Kelly L. Wyres & Sebastian Duchêne & Ryan R. Wick & Louise M. Judd & Yunn-Hwen Gan & Chu-Han Hoh & Sophia Archuleta & James S. Molton & Shirin Kalimuddin & Tse Hsien Koh & Virgini, 2018. "Population genomics of hypervirulent Klebsiella pneumoniae clonal-group 23 reveals early emergence and rapid global dissemination," Nature Communications, Nature, vol. 9(1), pages 1-10, December.
    • Handle: RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-05114-7
    DOI: 10.1038/s41467-018-05114-7
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