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Rapid detection of NDM and VIM carbapenemase encoding genes by recombinase polymerase amplification and lateral flow–based detection

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Abstract

Carbapenemase-producing organisms (CPOs) pose a serious clinical threat and rapid detection tools are essential to aid in patient management. We developed rapid and simple molecular tests to detect blaNDM-type and blaVIM-type carbapenemase genes using recombinase polymerase amplification (RPA) combined with a lateral flow detection. The tests could provide results in approximately 15 min when using DNA extracts, with limits of detection of 9.2 copies/μl for the blaNDM-type assay and 7.5 copies/μl for blaVIM-type assay, and successfully detected all isolates harbouring the carbapenemase encoding genes in a panel of 57 isolates. These RPA tests may be suitable for use in low-resource settings to tailor rapid implementation of infection control precautions and antibiotic stewardship.

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Acknowledgements

We thank Dr. Nicole Ertl, Dr. Cameron Buckley, Ms. Bushra Alharbi, Ms. Amanda Bordin, Dr. Kym Lowry, and Ms. Carolyn Pardo for their technical support.

Funding

This study was funded by the Children’s Hospital Foundation Innovator grant 50272. JM is the founder and a shareholder of BioCifer Pty Ltd, who was not involved in the study. PNAH has received research grants from MSD, Sandoz and Shionogi, as well as speaker’s fees from Pfizer and has served on an advisory board for Sandoz outside the submitted work. DLP has received research funding from Pfizer, Merck, and Shionogi and funding for advisory boards or speaking engagements from Merck, Pfizer, BioMerieux, Sumitomo, Accelerate, QPex, and Entasis, unrelated to this work. DMW reports research funding from SpeeDx Pty Ltd unrelated to the study. ADI has received research funding and teaching honoraria from Gilead Sciences inc. unrelated to this work. AKSA, ET, CYTW and CH, and HMZ have no competing interests to declare.

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Author notes

  1. Hosam M. Zowawi and Adam D. Irwin contributed equally to this work.

Authors and Affiliations

  1. UQ Centre for Clinical Research, Faculty of Medicine, The University of Queensland, Royal Brisbane and Women’s Hospital Campus, Brisbane, Australia

    Abdulrahman K. S. Ayfan, Patrick N. A. Harris, David L. Paterson, Ella Trembizki, David M. Whiley, Hosam M. Zowawi & Adam D. Irwin

  2. Faculty of Science, Biochemistry Department, King Abdul-Aziz University (KAU), Jeddah, Saudi Arabia

    Abdulrahman K. S. Ayfan

  3. School of Science and Engineering, Genecology Research Centre, University of Sunshine Coast (USC), Sunshine Coast, Australia

    Joanne Macdonald

  4. Department of Microbiology, Pathology Queensland, Brisbane, Australia

    Patrick N. A. Harris, Claire Heney & David M. Whiley

  5. Infection Management and Prevention Service, Queensland Children’s Hospital, Brisbane, Australia

    Claire Y. T. Wang & Adam D. Irwin

  6. College of Medicine, King Saud bin Abdul-Aziz University for Health Science (KSAU-HS), Riyadh, Saudi Arabia

    Hosam M. Zowawi

  7. King Abdullah International Medical Research Centre (KAIMRC), Riyadh, Saudi Arabia

    Hosam M. Zowawi

Authors
  1. Abdulrahman K. S. Ayfan
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  2. Joanne Macdonald
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  3. Patrick N. A. Harris
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  4. Claire Heney
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  7. Claire Y. T. Wang
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  8. David M. Whiley
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  9. Hosam M. Zowawi
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  10. Adam D. Irwin
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Contributions

Conceptualization: HZ, AI, JM, PH, CH, and DW. Methodology: AA, CW, JM, ET, and DW. Data analysis: AA, JM, and DW. Writing—initial draft: AA and DW. Writing—review and editing: DW, PH, AI, JM, HZ, CH, ET, DP.

Corresponding author

Correspondence to Adam D. Irwin.

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Ethical approval for this work has been provided by the human research ethics committee at The University of Queensland HREC, approval 2018000615.

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Ayfan, A.K.S., Macdonald, J., Harris, P.N.A. et al. Rapid detection of NDM and VIM carbapenemase encoding genes by recombinase polymerase amplification and lateral flow–based detection. Eur J Clin Microbiol Infect Dis 40, 2447–2453 (2021). https://doi.org/10.1007/s10096-021-04267-6

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  • DOI: https://doi.org/10.1007/s10096-021-04267-6

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