Nicole Stoesser
Consultant in Infection (Oxford University Hospitals NHS Foundation Trust), NIHR Oxford Senior Research Fellow, Oxford Martin School Fellow
RESEARCH INTERESTS
I work as a Consultant in infectious diseases and medical microbiology at the John Radcliffe Hospital in Oxford and also run a portfolio of research studies investigating various aspects of: (i) antimicrobial resistance (AMR), particularly in Enterobacterales; (ii) One Health and AMR gene dissemination/pathogen spillover across reservoirs; (iii) rapid diagnostics, including projects on nanoimaging, antigen/antibody tests, and pathogen sequencing, including DNA and RNA sequencing of isolates, and metagenomic sequencing of clinical samples; and (iv) epidemiology of infectious diseases more broadly, including SARS-CoV-2.
I am currently co-supervising four DPhil students and am a member of the Leadership Committee of the Medical Research Foundation's National PhD Training Programme in AMR Research (https://amrtraining.ac.uk/) - a highly interdisciplinary programme specifically designed to incorporate multi-disciplinarity in AMR research.
I am very active in grant and peer review, am on the editorial board of Antimicrobial Agents and Chemotherapy, and support my students in their roles on Microbial Genomics' Early Career Board of Reviewers. I am also strongly supportive of patient and public involvement and engagement (PPIE) in research, having most recently developed a hands-on community programme structured around theatre in educating children and their caregivers about microbes, infections and AMR.
Recent publications
Genomic Epidemiology of Multi-Modal ESBL Gene Transmission among Enterobacterales in a Neonatal Unit
Preprint
Parker MJ. et al, (2026)
Benchmarking strain-level profiling of Escherichia coli in short-read gut metagenomes
Preprint
Galbraith M. et al, (2026)
The role of whole genome sequencing in antimicrobial susceptibility prediction of bacteria: 2025 update from the EUCAST Subcommittee.
Journal article
Samuelsen Ø. et al, (2026), Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases
OxBreaker: species-agnostic pipeline for the analysis of outbreaks using nanopore sequencing
Preprint
Reding C. et al, (2026)
Nanopore long-read-only genome assembly of clinical Enterobacterales isolates is complete and accurate
Journal article
Nagy D. et al, (2026), Microbial Genomics, 12
