Dr Oliver Charity

Postdoctoral Research Scientist

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Gut viruses & viromics


I am a postdoctoral research scientist with a background in pathogen genomics, genomic data science and molecular biology.

I obtained a Batchelor of Science degree from the University of Leicester in microbiology before gaining industrial experience while working as a microbiologist for one of the UK’s largest food companies. I was awarded my doctorate from the UKRI BBSRC NBI doctoral training partnership programme (DTP) by the University of East Anglia in 2021 where I investigated the genome evolution of Salmonella enterica serovar Typhimurium.

Subsequently I worked at Imperial College London where I investigated genome evolution of emergent and persistent nosicomial pathogen Streptoccocus pyogenes and contributed to the pilot phase of a UKRI NERC study investigating antimicrobial resistance gene (ARG) development and ARG environmental penetration from effluent of antimicrobial manufacturing plants in India, in collaboration with Pondicherry University.

I am at the Quadram as a viromics research scientist in the Gut Microbes and Health programme where my principle role is understanding the human virome in health and disease focussing on two longitudinal human studies, one investigating the microbiome in pregnancy and early life (PEARL) and the other investigating the microbiome in diseases associated with aging and cognitive impairment (MOTION).

Key Publications



Seethalashmi PS, Charity OJ, Giakoumis T, Seghal Kiran G, Sriskandan S, Voulvoulis N, Selvin . (2021)

Delineating the impact of COVID-19 on antimicrobial resistance: An Indian perspective

Science of the Total Environment

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Kingsley R,Tassinari E,Bawn M,Thilliez G,Charity O,Acton L,Kirkwood M,Petrovska L,Dallman T,Burgess C,Hall N,Duffy G. (2020)

Whole-genome epidemiology links phage-mediated acquisition of a virulence gene to the clonal expansion of a pandemic Salmonella Typhimurium clone

Microbial Genomics

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Branchu P., Charity O. J., Bawn M., Thilliez G., Dallman T. J., Petrovska L., Kingsley R.. (2019)

SGI-4 in Monophasic Salmonella Typhimurium ST34 Is a Novel ICE That Enhances Resistance to Copper.

Frontiers in microbiology, 10, 1118

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