Latest work supported by Wellcome

MMM: Improving public health through targeted care

Professor Derrick Crook, who leads the Modernising Medical Microbiology(MMM) Research Group, discusses his background, the objectives of our research, and future plans in this article with IMPACT Journal. It is an excellent summary of our work, and how we aim to improve the care of patients with infections using [...]

Public Engagement Roundup April 2018

MMM Scientists have participated in a range of events, from science festivals and museum events, to art/science talks. We attended the Oxford Brookes Science Festival and the Museum of Natural History Super Science Saturday, showcasing the award-winning crowdsourcing Bash The Bug project. Bashing some bugs and learning about resistance mutations [...]

MMM Conference 2018

The MMM Conference will take place on Monday 12 March 2018, at: St Catherine’s College, Manor Road, Oxford, OX1 3UJ. Registration on the day (including tea, coffee and pastries) will commence at 8.20am with an anticipated conference start time of 9.20am. The Conference should finish at 5.30pm and a [...]

Speeding up the DNA analysis of bloodstream infections

When a patient is admitted with a possible bacterial bloodstream infection, blood tests are taken to identify which bacteria is causing the infection, but the results can take days to come. Patients are given strong antibiotics that cover most common infections, but it is vital to rapidly identify the [...]

Whole Genome Sequencing accurately diagnoses tuberculosis and related diseases

DNA analysis of bacteria taken from sick patients has been shown to be 96% accurate for the diagnosis of tuberculosis (TB) and related diseases, and 99% accurate for predicting resistance to the most common antibiotics used for TB treatment, when compared to existing laboratory tests. Tuberculosis is more common [...]

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Wellcome Publications

Year	Publication
2015	De Maio N, Wu CH, O’Reilly KM, Wilson D.New Routes to Phylogeography: A Bayesian Structured Coalescent Approximation. PLoS Genet 2015;11(8):e1005421. doi: 10.1371/journal.pgen.1005421.[PMID: 26267488 PMCID: PMC4534465]
2016	Earle, SG, Wu, C-H, Charlesworth J, Stroesser N, Gordon, NC, Walker TM, Spencer CCA, Iqbal Z, Clifton DA, Smith EG, Ismail N, Llewelyn MJ, Peto TE, Crook DW, McVean G, Walker AS, Wilson DJ. Identifying lineage effects when controlling for population structure improves power in bacterial association studies. Nature Microbiology 2016; ;1:16041. doi: 10.1038/nmicrobiol.2016.41
2016	Pankhurst LJ, DelOjo Elias C, Votintseva AA, Walker TM, Cole K, Davies J, Fermont JM, Gascoyne-Binzi DM, Kohl TA, Kong C, Lemaitre N, Niemann S, Paul J, Rogers TR, Roycroft E, Smith EG, Supply P, Tang P, Wilcox MH, Wordsworth S, Wyllie D, Xu L, Crook DW, COMPASS-TB Study Group. Rapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study. Lancet Respir Med 2016 4(1):49-58.[PMID: 26669893, PMCID PMC4698465]
2016	Senn L, Clerc O, Zanetti G, Basset P, Prodham G, Sheppard AE, Crook DW, James R, Thorpe HA, Feil EJ, Blanc DS. The stealthy superbug: The role of asymptomatic enteric carriage in maintaining a long-term hospital outbreak of ST228 methicillin resistant Staphylococcus aureus. Mbio 2016 19;7 (1):e02039-15.[PMID: 26787833 PMCID PMC4725017]
2016	Stoesser N, Sheppard A, Pankhurst L, de Maio N, Moore CE, Sebra R, Turner P, Anson LW, Kasarskis A, Batty EM, Kos V, Wilson DJ, Phetsouvanh R, Wyllie D, Sokurenko E, Manges AR, Johnson TJ, Price LB, Peto TEA, Johnson JR, Didelot X, Walker AS, Crook DC, Modernising Medical Microbiology Informatics Group. Evolutionary history of the global emergence of the Escherichia coli epidemic clone ST131. MBio 2016;7(2):e02162. doi: 10.1128/mBio.02162-15. [PMID: 27006459 PMCID: PMC4807372]
2016	Leekitcharoenphon P, Hendriksen RS, Le Hello S, Weill F-X, Baggesen DL, Jun S-R, Ussery DW, Lund O, Crook DW, Wilson DJ, Aarestrup FM. Global genomic epidemiology of Salmonella enterica serovar Typhimurium DT104. Appl Environ Microbiol 2016;82(8):2516-26. doi: 10.1128/AEM.03821-15
2016	Stoesser N, Sheppard AE, Peirano G, Sebra R, Lynch T, Anson L, Kasarskis A, Motyl MR, Crook DW, Pitout JD. Complete sequencing of plasmids containing blaOXA-163 and blaOXA-48 in Escherichia coli sequence type 131. Antimicro Agents Chemother 2016;60:6948-6951. doi:10.1128/AAC.01130-16.[PMID: 27600043 PMCID: PMC5075115]
2016	Sheppard AE, Stoesser N, Wilson DJ, Sebra R, Kasarskis A, Anson LW, Geiss L, Pankhurst LJ, Vaughan A, Grim CJ, Cox HL, Yeh AJ, MMM Informatics Group, Sifri CD, Walker AS, Peto TE, Crook DW, Mathers AJ. 2016. Nested Russian Doll-Like Genetic Mobility Drives Rapid Dissemination of Carbapenem Resistance Gene blaKPC. Antimicro Agents Chemother 2016; 60(6): 3767-3778. doi: 10.1128/ACC.00464-16 [PMID: 27067320 PMCID: PMC4879409]
2016	Das S, Lindermann C, Young B, Muller J, Osterreich B, Ternette N, Winkler AC, Paprotka K, Reinhardt R, Forstner KU, Allen E, Flaxman A, Yamaguchi Y, Rollier CS, van Dieman P, Blattner S, Remmele CW, Selle M, Dittrich M, Muller T, Vogel J, Ohlsen K, Crook DW, Massey R, Wilson DJ, Rudel T, Wyllie DH, Fraunholz MJ. 2016. Natural mutations in a Staphylococcus aureus virulence regulator attenuate cytotoxicity but permit bacteremia and abscess formation. PNAS 2016 May 31; 113(22):E3101-3110 doi: 10.107/pnas.1520255113 [PMID: 27185949, PMCID: PMC4896717]
2016	De Maio N, Wu CH, Wilson DJ. SCOTTI: Efficient reconstruction of Transmission within outbreaks with the structured coalescent. Plos Comput Biol. 2016: Sep 28;12(9): e1005130 doi: 10.1371/journal.pcbi1005130 [PMID: 27681228, PMCID: PMC5040440]
2016	Brown T, Didelot X, Wilson DJ, De Maio N. SimBAc: simulation of whole bacterial genomes with homologous recombination. Micro Genom. 2016 Jan 19; 2(1) doi: 1099/mgen.0.000044 [PMID: 27713837, PMCID: PMC5049688]
2017	Price JR, Cole K, Bexley A, Kostiou V, Eyre DW, Golubchik T, Wilson DJ, Crook DW, Walker AS, Peto TEA, Llewelyn MJ, Paul J. Transmission of Staphylococcus aureus between health-care workers, the environment, and patients in an intensive care unit: a longitudinal cohort study based on whole-genome sequencing. Lancet Infect Dis 2017; 2017 Feb;17(2):207-214.DOI: 10.1016/S1473-3099(16)30413-3[PMID: 27863959 PMCID: PMC5266793]
2017	De Maio N, Wilson D. The Bacterial Sequential Markov Coalescent. Genetics 2017 May;206(1):333-343 Pii: genetics116.198796. doi: 10/1534/genetics.116.198796
2017	Stoesser N, Eyre DW, Quan TP, Godwin H, Pill H, Mbuvi E, Vaughan A, Griffiths D, Martin J, Fawley W, Dingle KE, Oakley S, Wanelik K, Finney JM, Kachrimanidou M, Moore CE, Gorbach S, Riley TV, Crook DW, Peto TEA, Wilcox MH, Walker AS and MMMIG. Epidemiology of Clostridium difficile in infants in Oxfordshire, UK: risk factors for colonization and carriage, and genetic overlap with regional C . difficile strains. PlosOne 2017 Aug 16;12(8):e0182307 doi: 10.1371/journal.pone.0182307. [PMID: 28813461]