Research output per year
Research output per year
Personal profile
Biography
Joe Lewis is a consultant in infectious diseases whose research aims to tackle the problem of antimicrobial resistance.
He studied natural sciences at Clare College, Cambridge, before postgraduate medicine at St George's, University of London and clinical postgraduate training in London and Liverpool. He completed his PhD in 2019, a Wellcome clinical PhD fellowship in Blantyre, Malawi. This explored the causes of severe febrile illnesses in adults and the consequences of antimicrobial exposure in driving antimicrobial resistance in sepsis survivors. He was a National Institute for Health and Care Research funded academic clinical lecturer at the University of Liverpool before taking up a role as senior lecturer at Liverpool School of Tropical Medicine in 2024. He combines his research with clinical duties in the NHS.
Research interests
Joe's research uses epidemiology, genomics and mathematical transmission modelling to understand how and why people acquire and develop drug-resistant infections in different settings worldwide. He has a focus on a group of bacteria called enterobacterales, which includes common disease causing bacteria like E. coli. Ongoing research includes understanding the transmission routes of resistant enterobacterales in care homes and hospitals in Merseyside, Malawi, and Indonesia, developing genomic and computational methods to define within-person diversity of bacteria at scale to unpick who has transmitted to whom, and understanding the determinants of antimicrobial-resistant infection including socioeconomic factors and how and why infection develops from colonisation.
Teaching
Joe supervises MSc and PhD student projects on antimicrobial resistance and lectures on clincial management of infection, HIV, and antimicrobial resistance on Diploma in Tropical Medicine and Hygiene and masters programmes.
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Collaborations and top research areas from the last five years
Recent external collaboration on country/territory level. Dive into details by clicking on the dots or
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A high-resolution genomic and phenotypic analysis of resistance evolution of an Escherichia coli strain from a critically unwell patient treated with piperacillin/tazobactam
Fraser, A. J., Ball, R., Cantillon, D., Brettell, L. E., Graf, F. E., Munnoch, J. T., Hoskisson, P. A., Lewis, J. M., van Aartsen, J. J., Parry, C. M., Heinz, E. & Edwards, T., 19 May 2025, In: Journal of Medical Microbiology. 74, 5, 002018.Research output: Contribution to journal › Article › peer-review
Open AccessFile -
Health system drivers of antimicrobial resistance: a qualitative exploration of implications for infection prevention and control in hospitals and long-term care facilities in Merseyside
Alhassan, Y., Moore, M., Duda, K., Graf, F., Todd, S., Lewis, J., Feasey, N. & Taegtmeyer, M., 21 Oct 2025, In: Journal of Hospital Infection. 166, p. 12-20 9 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile -
Optimized methods for the targeted surveillance of extended-spectrum beta-lactamase-producing Escherichia coli in human stool
Gallichan, S., Forrest, S., Picton-Barlow, E., McKeown, C., Moore, M., Heinz, E., Feasey, N., Lewis, J. & Graf, F., 1 Jan 2025, In: Microbiology spectrum. 13, 1, p. e01058-24Research output: Contribution to journal › Article › peer-review
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A Bayesian approach to identifying the role of hospital structure and staff interactions in nosocomial transmission of SARS-CoV-2
Bridgen, J. R. E., Lewis, J., Todd, S., Taegtmeyer, M., Read, J. M. & Jewell, C. P., 6 Mar 2024, In: Journal of the Royal Society Interface. 21, 212, 20230525.Research output: Contribution to journal › Article › peer-review
Open AccessFile1 Citation (Scopus) -
Four antenatal care visits by four months of pregnancy and four vital tests for pregnant mothers: Impact of a community-facility health systems strengthening intervention in Migori county, Kenya.
Alhassan, Y., Otiso, L., Okoth, L., Murray, L., Hemingway, C., Lewis, J., Oguche, M., Doyle, V., Muturi, N., Ogwang, E., Barsosio, H. & Taegtmeyer, M., 27 Mar 2024, In: BMC Pregnancy and Childbirth. 24, 1, p. e224 224.Research output: Contribution to journal › Article › peer-review
Open AccessFile4 Citations (Scopus)
Datasets
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Dataset for the article: Genomic analysis of extended-spectrum beta-lactamase (ESBL) producing Escherichia coli colonising adults in Blantyre, Malawi reveals previously undescribed diversity
Lewis, J. (Creator), Mphasa, M. (Creator), Banda, R. (Creator), Beala, M. A. (Creator), Mallewa, J. (Creator), Anscombe, C. (Creator), Zuza, A. (Creator), Roberts, A. P. (Creator), Heinz, E. (Creator), Thomson, N. R. (Creator) & Feasey, N. (Creator), tbc, 13 Jun 2023
DOI: 10.6084/m9.figshare.22561738.v1
Dataset
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Data for 'Longitudinal analysis within one hospital in sub-Saharan Africa over 20 years reveals repeated replacements of dominant clones of Klebsiella pneumoniae and stresses the importance to include temporal patterns for vaccine design considerations'
Heinz, E. (Creator), Pearse, O. (Creator), Musicha, P. (Creator), Graf, F. (Creator), Lewis, J. (Creator) & Feasey, N. (Creator), tbc, 9 Oct 2023
Dataset
Thesis
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Causes and consequences of adult sepsis in Blantyre, Malawi
Lewis, J. (Author), Feasey, N. (Supervisor) & Gordon, M. (Supervisor), 2019Student thesis: Doctoral thesis
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Profiles
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Dr Vivien Price
- Clinical Sciences - Wellcome Trust Clinical PhD Fellow
- Faculty of Education
- International Public Health
- MLW Clinical Research Programme
Person: Research only, PhD