Projects per year
Personal profile
Biography
I am a Research Group Leader and Deputy Director of the Centre to Impact AMR at Monash University, Australia. I co-lead the Monash University Department of Infectious Diseases, Infectious Diseases Genomics research stream and hold an Honorary Associate Professor position at London School of Hygiene and Tropical Medicine, UK. I am a Monash University Research Talent Accelerator Fellow 2024, former NHMRC (Australia) Emerging Leadership Fellow and recipient of multiple research funding awards, including from the Australian Research Council and the Gates Foundation. In 2024 and 2025 I was named as a Clarivate Highly Cited Researcher, and in 2025 awarded the Australian Society of Microbiology's prestigious Frank Fenner Award.
I use comparative genomics techniques and metabolic modelling to investigate the diversity of baceterial pathogens, with a major focus on the global priority pathogen, Klebsiella pneumoniae. I am particularly interested in diversity of surface antigens (targets for novel anti-Klebsiella vaccines and phage therapies), as well as the features and evolution of closely related groups of K. pneumoniae, called ‘clones,’ that seem to be associated with distinct behaviours and clinical risks (e.g. some are particularly good at becoming drug-resistant while others are particularly virulent).
My team are the developers of Kaptive and Kaptive Web (tools for identification of Klebsiella surface polysaccharide loci in whole genome sequence data), which are used by research and public health labs globally. We also recently developed Bactabolize, a tool for rapid generation of strain-specific metabolic models and growth phenotype predictions from genome assemblies, which we are applying to understand how K. pneumoniae metabolic diversity is associated with ecology and clinical risk.
My team are also major contributors to the KlebNET-GSP project (Klebsiella genomic surveillance platform), which aims to implement accessible and harmonised tools that support global genomic surveillance for K. pneumoniae and closely related species. As part of this work, I coordinate the KlebNET-GSP Epidemiology Consortium, comprising colleagues from around the globe working to build an open source repository of K. pneumoniae genome metadata and a genomically-informed K. pneumoniae clone risk framework.
My prior experience includes 2 ½ years as a Staff Researcher at IBM Research – Australia where I was a founding member of the IBM Research – Australia Genomics Team and later became the Team Lead. My team was interested in exploring the use of computing for clinical and public health genomics. We collaborated with colleagues around the world and contributed to a number of applied and pure research projects, including an evolutionary exploration of drug-resistant Mycobacterium tuberculosis, the bacterium that causes TB.
Before moving to Australia and joining IBM I completed my Bachelor’s and Doctoral degrees at the University of Oxford, UK. During my doctoral degree, I studied the genomic evolution of another important disease-causing bacterium, Streptococcus pneumoniae. I focused on the evolution of penicillin resistance and capsule switching, which is important for vaccine design.
Education/Academic qualification
Zoology, DPhil, Genome evolution of Streptococcus pneumoniae, University of Oxford
Jan 2009 → Sept 2012
Award Date: 8 Mar 2014
BA (Hons) Oxon Biological Sciences, University of Oxford
Oct 2004 → Jun 2007
Award Date: 15 Sept 2007
External positions
Honorary Associate Professor, London School of Hygiene & Tropical Medicine
1 Jul 2025 → …
Post-Doctoral Research Fellow, University of Melbourne
Sept 2015 → Dec 2018
Staff Researcher & Genomics Team Lead, IBM Research (Australia)
Jan 2015 → Sept 2015
Staff Researcher, IBM Research (Australia)
Feb 2013 → Dec 2014
DPhil Candidate, University of Oxford
Jan 2009 → Sept 2012
Laboratory Technician, University of Oxford
Oct 2007 → Dec 2008
Research area keywords
- Comparative genomics
- Metabolic modelling
- Microbial genomics
- Kelbsiella pneumoniae
- Clinical genomics
- Public health genomics
- antimicrobial drug resistance
- Vaccine design
Expertise related to UN Sustainable Development Goals
In 2015, UN member states agreed to 17 global Sustainable Development Goals (SDGs) to end poverty, protect the planet and ensure prosperity for all. This person’s work contributes towards the following SDG(s):
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SDG 3 Good Health and Well-being
Collaborations and top research areas from the last five years
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Support for K. pneumoniae seroepidemiology and strain selection
Wyres, K. (Primary Chief Investigator (PCI))
23/09/26 → 31/07/28
Project: Research
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Metabolic and competitive diversity of an omnipresent bacterium
Wyres, K. (Primary Chief Investigator (PCI)), Hawkey, J. (Chief Investigator (CI)) & Short, F. (Chief Investigator (CI))
1/01/26 → 31/12/28
Project: Research
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Transforming Patient Care with Pathogen Genomics, Digital Health and Machine Learning
Peleg, A. (Primary Chief Investigator (PCI)), Macesic, N. (Chief Investigator (CI)), Stewardson, A. (Chief Investigator (CI)), Holt, K. (Chief Investigator (CI)), Peel, T. (Chief Investigator (CI)), Stuart, R. (Chief Investigator (CI)), Song, J. (Chief Investigator (CI)), Tyagi, S. (Chief Investigator (CI)), Short, F. (Chief Investigator (CI)), Wyres, K. (Chief Investigator (CI)), Rogers, B. (Chief Investigator (CI)), Hawkey, J. (Chief Investigator (CI)), Ayton, D. (Chief Investigator (CI)), Korman, T. (Chief Investigator (CI)), Davis, M. (Associate Investigator (AI)), Whittaker, A. (Associate Investigator (AI)), Saraf, S. (Associate Investigator (AI)) & Jenney, A. (Associate Investigator (AI))
1/01/26 → 31/12/29
Project: Research
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KlebNET 2: An integrated platform for K. pneumoniae genomic surveillance
Holt, K. (Primary Chief Investigator (PCI)), Wyres, K. (Chief Investigator (CI)), Lam, M. (Chief Investigator (CI)), Stanton, T. (Chief Investigator (CI)), Brisse, S. (Chief Investigator (CI)), Aaenensen, D. (Chief Investigator (CI)), Ott, S. C. (Chief Investigator (CI)), McArthur, A. (Chief Investigator (CI)), Dramowksi, A. (Chief Investigator (CI)), Jolley, K. A. (Chief Investigator (CI)), Brancotte , B. (Chief Investigator (CI)), Raffestin , B. (Chief Investigator (CI)), Dyer, N. (Chief Investigator (CI)) & Tsang, K. (Chief Investigator (CI))
1/01/25 → 31/12/27
Project: Research
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Unlocking the secrets of metabolic variation in a highly diverse bacterium
Wyres, K. (Primary Chief Investigator (PCI)), Holt, K. (Partner Investigator (PI)), Monk, J. (Partner Investigator (PI)) & Brisse, S. (Partner Investigator (PI))
19/10/20 → 10/10/26
Project: Research
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Exploring the IS-capades of Klebsiella pneumoniae: insertion sequences drive metabolic loss in obscure sub-lineages
Vezina, B. (Leading Author), White, C., Cooper, H. B., Holt, K. E., Hawkey, J., Wyres, K. L. & Lam, M. M. C. (Leading Author), Jan 2026, In: Microbial Genomics. 12, 1, 14 p., 001612.Research output: Contribution to journal › Article › Research › peer-review
Open Access -
Genomic and functional analysis of rmp locus variants in Klebsiella pneumoniae
Lam, M. M. C., Salisbury, S. M., Treat, L. P., Wick, R. R., Judd, L. M., Wyres, K. L., Brisse, S., Walker, K. A., Miller, V. L. & Holt, K. E., 9 Apr 2025, In: Genome Medicine. 17, 1, 13 p., 36.Research output: Contribution to journal › Article › Research › peer-review
Open Access18 Link opens in a new tab Citations (Scopus) -
Genomics informed sero-epidemiology of Klebsiella pneumoniae
Wyres, K. L., Nov 2025, In: Microbiology Australia. 46, 4, p. 207-209 3 p.Research output: Contribution to journal › Comment / Debate › Other › peer-review
Open Access -
The characterization of Klebsiella pneumoniae associated with neonatal sepsis in low- and middle-income countries to inform vaccine design
Nonne, F., Molfetta, M., Belciug, G. F., Carducci, M., Cianchi, V., Zakroff, C., Durante, S., Zellmer, C., Baker, S., Stanton, T. D., Holt, K. E., Wyres, K., Ravenscroft, N., Gasperini, G., Rossi, O., Giannelli, C., Berlanda Scorza, F. & Micoli, F., Dec 2025, In: Communications Biology. 8, 1, 12 p., 898.Research output: Contribution to journal › Article › Research › peer-review
Open Access8 Link opens in a new tab Citations (Scopus) -
A validated pangenome-scale metabolic model for the Klebsiella pneumoniae species complex
Cooper, H. B., Vezina, B., Hawkey, J., Passet, V., López-Fernández, S., Monk, J. M., Brisse, S., Holt, K. E. & Wyres, K. L., 20 Feb 2024, In: Microbial Genomics. 10, 2, 16 p., 001206.Research output: Contribution to journal › Article › Research › peer-review
Open Access6 Link opens in a new tab Citations (Scopus)
Prizes
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Australian Society for Microbiology Frank Fenner Award
Wyres, K. (Recipient), Jul 2025
Prize: Prize (including medals and awards)
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Clarivate Highly Cited Researcher
Wyres, K. (Recipient), Nov 2024
Prize: Prize (including medals and awards)
Activities
- 1 Patents
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IBM - International Business Machines Corporation (United States of America) (External organisation)
Conway, T. C. (Member) & Wyres, K. (Member)
10 Oct 2014Activity: Industry, Government and Philanthropy Engagement and Partnerships › Patents › Patent