Imperial College London


Faculty of MedicineDepartment of Infectious Disease

Senior Lecturer



+44 (0)20 7594 2074thomas.clarke




5.40DFlowers buildingSouth Kensington Campus





Environmentally exposed surfaces in humans are colonized by a vast number of foreign microbes (the commensal microbiota) and these organisms play a key role in regulating mucosal and systemic immune function. Disruption of this relationship is linked to a wide variety of diseases and immune dysfunctions, including chronic inflammatory conditions at the mucosa, autoimmunity and increased susceptibility to infection by bacteria, viruses and parasites. There remains, however, a major gap in understanding the mechanistic basis for the influence of the commensal microbiota on immune function, especially systemic immunity. The broad theme of my research, therefore, is to understand how programming of innate immunity by the microbiota influences host responses to bacterial infection and vaccination, and how changes to the composition of the microbiota disrupts these responses.



Singanayagam A, Footitt J, Marczynski M, et al., 2022, Airway mucins promote immunopathology in virus-exacerbated chronic obstructive pulmonary disease., Journal of Clinical Investigation, Vol:132, ISSN:0021-9738, Pages:1-16

Panwar RB, Sequeira RP, Clarke TB, 2021, Microbiota-mediated protection against antibiotic-resistant pathogens, Genes and Immunity, Vol:22, ISSN:1466-4879, Pages:255-267

Sabnis A, Haggard K, Kloeckner A, et al., 2021, Colistin kills bacteria by targeting lipopolysaccharide in the cytoplasmic membrane, Elife, Vol:10, ISSN:2050-084X, Pages:1-26

Brown RL, Larkinson MLY, Clarke TB, 2021, Immunological design of commensal communities to treat intestinal infection and inflammation, Plos Pathogens, Vol:17, ISSN:1553-7366

Ha KP, Clarke RS, Kim G-L, et al., 2020, Staphylococcal DNA repair Is required for infection, Mbio, Vol:11, ISSN:2150-7511

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