David Eyre

Graduate Research Prize Winners 2013

David Eyre

I studied medicine at the University of Cambridge and then in Oxford, and am currently a specialist registrar in infectious diseases and medical microbiology. My DPhil involved use of bacterial whole genome sequencing and large epidemiological databases to investigate transmission of Clostridium difficile. By sequencing of over 1200 sequential Oxfordshire C. difficile isolates over a 3.6 year period, I was able to show that only a minority of infections are acquired from other cases and most infections arise from a genetically diverse reservoir. This challenged the previous assumption that most cases arise from secondary spread in hospitals, and therefore has implications for the control and prevention of C. difficile infection in future. 

I will shortly be taking up an Academic Clinical Lecturer post with the Nuffield Department of Medicine. My research interests are focused on quantitative epidemiological studies of infectious diseases, that answer questions of broad relevance to the health of populations in the UK, and globally. I am particularly interested in understanding factors that drive the spread of infections, and understanding and optimizing intervention strategies. The ultimate outcome of such work is to guide effective control of infection at the level of individual patients, within institutions, and at a public health policy level. 


Eyre DW, Griffiths D, Vaughan A, Golubchik T, Acharya M, O’Connor L, Crook DW, Walker AS, Peto TEA. 2013. Asymptomatic Clostridium difficile colonisation and onward transmission. PLOS One [In Press]

Eyre DW, Babakhani D, Griffiths D, Seddon J, Del Ojo Elias C, Gorbach SL, Peto TEA, Crook DW, Walker AS. 2013. Whole Genome Sequencing Demonstrates Fidaxomicin is Superior to Vancomycin for Prevention of Clostridium difficile Relapse and Reinfection. J Infect Dis [In Press].

Eyre DW, Fawley WN, Best EL, Griffiths D, Stoesser NE, Crook DW, Peto TEA, Walker AS, Wilcox MH. 2013. Comparison of multilocus variable number tandem repeat analysis and whole genome sequencing for investigation of Clostridium difficile transmission. J Clin Microbiol [In Press].

Eyre DW, Walker AS. 2013. Clostridium difficile surveillance: harnessing new technologies to control transmission. Expert Rev Anti Infect Ther [In Press].

Eyre DW, Cule ML, Wilson DJ, Griffiths D, Vaughan A, O’Connor L, Ip CLC, Golubchik T, Batty EM, Finney JM, Wyllie DH, Didelot X, Piazza P, Bowden R, Dingle KE, Harding RM, Crook DW, Wilcox MH, Peto TEA, Walker AS. 2013. Diverse Sources of C. difficile infection on Whole Genome Sequencing. N Eng J Med 369:1195-1205.

Stoesser NE, Batty EM, Eyre DW, Morgan M, Wyllie DH, Del Ojo Elias C, Johnson JR, Walker AS, Peto TEA, Crook DW. 2013. Predicting antimicrobial susceptibilities for Escherichia coli and Klebsiella pneumoniae isolates using whole genome sequence data. J Antimicrob Chemother 68:2234-2244.

Walker AS, Eyre DW, Crook DW, Peto TEA, Wilcox MH. 2013. Reply to Walk et al. Clin Infect Dis 57: 626-627.

Eyre DW, Walker AS, Freeman J, Baines SD, Fawley WN, Chilton CH, Griffiths D, Vaughan A, Crook DW, Peto TEA, Wilcox MH. 2013. Short-term genome stability of serial Clostridium difficile ribotype 027 isolates in an experimental gut model and recurrent human disease. PLOS One 8:e63540.

Eyre DW, Cule ML, Griffiths D, Crook DW, Peto TEA, AS Walker, DJ Wilson. 2013. Detection of mixed infection from bacterial whole genome sequence data allows assessment of its role in Clostridium difficile transmission. PLOS Comput Biol 9:e1003059.

Walker AS, Eyre DW, Wyllie DH, Dingle KE, Griffiths D, Shine B, Oakley S, O'Connor L, Finney J, Vaughan A, Crook DW, Wilcox MH, Peto TEA, on behalf of the Infections in Oxfordshire Research Database (IORD). 2013. Relationship Between Bacterial Strain Type, Host Biomarkers and Mortality in Clostridium difficile Infection. Clin Infect Dis 56:1589-1600.

Stoesser NE, Martin J, Mawer D, Eyre DW, Walker AS, Peto TEA, Crook DW, Wilcox MH. 2013. Risk Factors for Clostridium difficile Acquisition in Infants: Importance of Study Design. Clin Infect Dis 56:1680-1681.

Walker AS, Eyre DW, Crook DW, Wilcox MH, Peto TEA. 2013. Regarding “Clostridium difficile ribotype does not predict severe infection.”. Clin Infect Dis 56: 1845-1846.

Eyre DW, Mankia K, Sutherland R, Turner G, Conlon C. 2013. HIV-associated late seminal vesicle “BCGosis” following intravesical bacille Calmette-Guerin therapy. J Clin Urol 6:20–21.

Walker TM, Ip CL, Harrell RH, Evans JT, Kapatai G, Dedicoat MJ, Eyre DW, Wilson DJ, Hawkey PM, Crook DW, Parkhill J, Harris D, Walker AS, Bowden R, Monk P, Smith EG, Peto TE. 2013. Whole-genome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study. Lancet Infect Dis 13:137–146.

Dingle KE, Didelot X, Ansari MA, Eyre DW, Vaughan A, Griffiths D, Ip CLC, Batty EM, Bowden R, Jolley KA, Hood DW, Fawley WN, Walker AS, Peto TEA, Wilcox MH, Crook DW, 2013, Recombinational switching of the Clostridium difficile S-layer and a novel glycosylation gene cluster revealed by large scale whole genome sequencing. J Infect Dis 207:675-686.

Didelot X, Eyre DW, Cule M, Ip CLC, Ansari MA, Griffiths D, Vaughan A, O’Connor L, Golubchik T, Batty EM, Piazza P, Wilson DJ, Bowden R, Donnelly PJ,  Dingle KE, Wilcox MH, Walker AS, Crook DW, Peto TEA, Harding RM, 2012. Microevolutionary analysis of Clostridium difficile genomes to investigate transmission. Genome Biol 13:R118.

Eyre DW, Golubchik T, Gordon NC, Bowden R, Piazza P, Batty EM, Ip CLC, Wilson DJ, Didelot X, O’Connor L, Lay R, Buck D, Kearns AM, Shaw A, Paul J, Wilcox MH,  Donnelly PJ, Peto TEA, Walker AS, Crook DW. 2012. A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance. BMJ Open 2:e001124.

EyreDW, Walker AS, Wyllie DH, Dingle KE, Griffiths D, Finney J, O’Connor L, Vaughan A, Crook DW, Wilcox MH, PetoTEA, 2012. Predictors of recurrent C. difficile infection: implications for initial management. Clin Inf Dis 55 (supplement 2):S77-S87.

Walker AS*, Eyre DW*, Wyllie DH, Dingle KE, Harding RM, Griffiths D, Vaughan A, Finney J, Wilcox MH, Crook DW, Peto TEA, 2012. Characterisation of Clostridium difficile hospital ward-based transmission using extensive epidemiological data and molecular typing. PLoS Med 9:e1001172. *Equal contributors.

Eyre DW, Walker AS, Griffiths D, Wilcox MH, Wyllie DH, Dingle KE, Crook DW, Peto TEA. 2012. Clostridium difficile mixed infection and re-infection. J Clin Microbiol 50:142-4.

Eyre DW, Kenkre JS, Bowler IC, McBride SJ, 2010. Streptococcus equi subspecies zooepidemicus meningitis - a case report and review of the literature. Eur J Clin Microbiol Infect Dis 29:1459-63.