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Longitudinal genomic analysis of Neisseria gonorrhoeae transmission dynamics in Australia

Author

Listed:
  • Mona L. Taouk

    (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)

  • George Taiaroa

    (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)

  • Sebastian Duchene

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

  • Soo Jen Low

    (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)

  • Charlie K. Higgs

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

  • Darren Y. J. Lee

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

  • Shivani Pasricha

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

  • Nasra Higgins

    (Victorian Department of Health)

  • Danielle J. Ingle

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

  • Benjamin P. Howden

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

  • Marcus Y. Chen

    (Alfred Health
    Monash University)

  • Christopher K. Fairley

    (Alfred Health
    Monash University)

  • Eric P. F. Chow

    (Alfred Health
    Monash University
    The University of Melbourne)

  • Deborah A. Williamson

    (The University of Melbourne at the Peter Doherty Institute for Infection and Immunity
    University of St Andrews
    MRC-University of Glasgow Centre for Virus Research)

Abstract

N. gonorrhoeae, which causes the sexually transmissible infection gonorrhoea, remains a significant public health threat globally, with challenges posed by increasing transmission and antimicrobial resistance (AMR). The COVID-19 pandemic introduced exceptional circumstances into communicable disease control, impacting the transmission of gonorrhoea and other infectious diseases. Through phylogenomic and phylodynamic analysis of 5881 N. gonorrhoeae genomes from Australia, we investigated N. gonorrhoeae transmission over five years, including a time period during the COVID-19 pandemic. Using a novel cgMLST-based genetic threshold, we demonstrate persistence of large N. gonorrhoeae genomic clusters over several years, with some persistent clusters associated with heterosexual transmission. We observed a decline in both N. gonorrhoeae transmission and genomic diversity during the COVID-19 pandemic, suggestive of an evolutionary bottleneck. The longitudinal, occult transmission of N. gonorrhoeae over many years further highlights the urgent need for improved diagnostic, treatment, and prevention strategies for gonorrhoea.

Suggested Citation

  • Mona L. Taouk & George Taiaroa & Sebastian Duchene & Soo Jen Low & Charlie K. Higgs & Darren Y. J. Lee & Shivani Pasricha & Nasra Higgins & Danielle J. Ingle & Benjamin P. Howden & Marcus Y. Chen & Ch, 2024. "Longitudinal genomic analysis of Neisseria gonorrhoeae transmission dynamics in Australia," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-52343-0
    DOI: 10.1038/s41467-024-52343-0
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    References listed on IDEAS

    as
    1. Kevin C. Ma & Tatum D. Mortimer & Allison L. Hicks & Nicole E. Wheeler & Leonor Sánchez-Busó & Daniel Golparian & George Taiaroa & Daniel H. F. Rubin & Yi Wang & Deborah A. Williamson & Magnus Unemo &, 2020. "Adaptation to the cervical environment is associated with increased antibiotic susceptibility in Neisseria gonorrhoeae," Nature Communications, Nature, vol. 11(1), pages 1-11, December.
    2. Deborah A. Williamson & Eric P. F. Chow & Claire L. Gorrie & Torsten Seemann & Danielle J. Ingle & Nasra Higgins & Marion Easton & George Taiaroa & Yonatan H. Grad & Jason C. Kwong & Christopher K. Fa, 2019. "Bridging of Neisseria gonorrhoeae lineages across sexual networks in the HIV pre-exposure prophylaxis era," Nature Communications, Nature, vol. 10(1), pages 1-10, December.
    3. Q. Sue Huang & Tim Wood & Lauren Jelley & Tineke Jennings & Sarah Jefferies & Karen Daniells & Annette Nesdale & Tony Dowell & Nikki Turner & Priscilla Campbell-Stokes & Michelle Balm & Hazel C. Dobin, 2021. "Impact of the COVID-19 nonpharmaceutical interventions on influenza and other respiratory viral infections in New Zealand," Nature Communications, Nature, vol. 12(1), pages 1-7, December.
    4. Valero-Mora, Pedro M., 2010. "ggplot2: Elegant Graphics for Data Analysis," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 35(b01).
    5. Charlie Higgs & Norelle L. Sherry & Torsten Seemann & Kristy Horan & Hasini Walpola & Paul Kinsella & Katherine Bond & Deborah A. Williamson & Caroline Marshall & Jason C. Kwong & M. Lindsay Grayson &, 2022. "Optimising genomic approaches for identifying vancomycin-resistant Enterococcus faecium transmission in healthcare settings," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
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