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.
Themes
- Innovation to Impact: Therapeutics, Diagnostics, Vaccines
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
Fingerprint
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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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Quantifying the bystander effect of antimicrobial use on the gut microbiome and resistome in Malawian adults
Cunningham-Oakes, E., Price, V., Mphasa, M., Mallewa, J., Darby, A. C., Feasey, N. A. & Lewis, J. M., 21 Dec 2025, In: Nature Communications. 17, 1, 954.Research output: Contribution to journal › Article › peer-review
Open AccessFile2 Citations (Scopus) -
Colonisation dynamics of extended spectrum beta-lactamase-producing Enterobacterales in the gut of Malawian adults
Lewis, J., Mphasa, M., Banda, R., Beale, M. A., Heinz, E., Mallewa, J., Jewell, C., Faragher, B., Thomson, N. R. & Feasey, N., 2 Sept 2022, In: Nature Microbiology. 7, 10, p. 1593-1604 12 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile28 Citations (Scopus) -
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 AccessFile2 Citations (Scopus) -
A Longitudinal, Observational Study of Etiology and Long-Term Outcomes of Sepsis in Malawi Revealing the Key Role of Disseminated Tuberculosis
Lewis, J., Mphasa, M., Keyala, L., Banda, R., Smith, E. L., Duggan, J., Brooks, T., Catton, M., Mallewa, J., Katha, G., Gordon, S., Faragher, B., Gordon, M. A., Rylance, J. & Feasey, N., 15 May 2022, In: Clinical Infectious Diseases. 74, 10, p. 1840-1849 10 p.Research output: Contribution to journal › Article › peer-review
Open AccessFile19 Citations (Scopus) -
Aetiology and outcomes of sepsis in adults in sub-Saharan Africa: a systematic review and meta-analysis.
Lewis, J., Feasey, N. & Rylance, J., 11 Jun 2019, In: Critical Care. 23, 1, p. 212 212.Research output: Contribution to journal › Article › peer-review
Open AccessFile72 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
File
Profiles
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Dr Vivien Price
- Clinical Sciences - Wellcome Trust Clinical PhD Fellow
- Faculty of Education
- International Public Health
- Malawi-Liverpool-Wellcome Trust Research Programme (MLW)
Person: Research only, PhD