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Emergence of diversity in carbapenemase-producing Escherichia coli ST131, England, January 2014 to June 2016.

Ellaby N, Doumith M, Hopkins KL, Woodford N, Ellington MJ.

Euro Surveill. 2019 Sep;24(37). doi: 10.2807/1560-7917.ES.2019.24.37.1800627.


S. Enteritidis and S. Typhimurium Harboring SPI-1 and SPI-2 Are the Predominant Serotypes Associated With Human Salmonellosis in Saudi Arabia.

Alghoribi MF, Doumith M, Alrodayyan M, Al Zayer M, Köster WL, Muhanna A, Aljohani SM, Balkhy HH, Desin TS.

Front Cell Infect Microbiol. 2019 May 31;9:187. doi: 10.3389/fcimb.2019.00187. eCollection 2019.


Complete Genome Sequence of a Colistin-Resistant Uropathogenic Escherichia coli Sequence Type 131 fimH22 Strain Harboring mcr-1 on an IncHI2 Plasmid, Isolated in Riyadh, Saudi Arabia.

Alghoribi MF, Doumith M, Upton M, Al Johani SM, Alzayer M, Woodford N, Ellington MJ, Balkhy HH.

Microbiol Resour Announc. 2019 May 2;8(18). pii: e00104-19. doi: 10.1128/MRA.00104-19.


Clonal expansion of community-associated meticillin-resistant Staphylococcus aureus (MRSA) in people who inject drugs (PWID): prevalence, risk factors and molecular epidemiology, Bristol, United Kingdom, 2012 to 2017.

Packer S, Pichon B, Thompson S, Neale J, Njoroge J, Kwiatkowska RM, Oliver I, Telfer M, Doumith M, Buunaaisie C, Heinsbroek E, Hopewell-Kelly N, Desai M, Hope V, Williams OM, Kearns A, Hickman M, Gobin M.

Euro Surveill. 2019 Mar;24(13). doi: 10.2807/1560-7917.ES.2019.24.13.1800124.


OXA-1 β-lactamase and non-susceptibility to penicillin/β-lactamase inhibitor combinations among ESBL-producing Escherichia coli.

Livermore DM, Day M, Cleary P, Hopkins KL, Toleman MA, Wareham DW, Wiuff C, Doumith M, Woodford N.

J Antimicrob Chemother. 2019 Feb 1;74(2):326-333. doi: 10.1093/jac/dky453.


Selection of mutants with resistance or diminished susceptibility to ceftazidime/avibactam from ESBL- and AmpC-producing Enterobacteriaceae.

Livermore DM, Mushtaq S, Doumith M, Jamrozy D, Nichols WW, Woodford N.

J Antimicrob Chemother. 2018 Dec 1;73(12):3336-3345. doi: 10.1093/jac/dky363.


Accuracy of Different Bioinformatics Methods in Detecting Antibiotic Resistance and Virulence Factors from Staphylococcus aureus Whole-Genome Sequences.

Mason A, Foster D, Bradley P, Golubchik T, Doumith M, Gordon NC, Pichon B, Iqbal Z, Staves P, Crook D, Walker AS, Kearns A, Peto T.

J Clin Microbiol. 2018 Aug 27;56(9). pii: e01815-17. doi: 10.1128/JCM.01815-17. Print 2018 Sep.


Activity of RX-04 Pyrrolocytosine Protein Synthesis Inhibitors against Multidrug-Resistant Gram-Negative Bacteria.

Vickers A, Mushtaq S, Woodford N, Doumith M, Livermore DM.

Antimicrob Agents Chemother. 2018 Jul 27;62(8). pii: e00689-18. doi: 10.1128/AAC.00689-18. Print 2018 Aug.


Prediction of Phenotypic Antimicrobial Resistance Profiles From Whole Genome Sequences of Non-typhoidal Salmonella enterica.

Neuert S, Nair S, Day MR, Doumith M, Ashton PM, Mellor KC, Jenkins C, Hopkins KL, Woodford N, de Pinna E, Godbole G, Dallman TJ.

Front Microbiol. 2018 Mar 27;9:592. doi: 10.3389/fmicb.2018.00592. eCollection 2018.


Cysteamine, an Endogenous Aminothiol, and Cystamine, the Disulfide Product of Oxidation, Increase Pseudomonas aeruginosa Sensitivity to Reactive Oxygen and Nitrogen Species and Potentiate Therapeutic Antibiotics against Bacterial Infection.

Fraser-Pitt DJ, Mercer DK, Smith D, Kowalczuk A, Robertson J, Lovie E, Perenyi P, Cole M, Doumith M, Hill RLR, Hopkins KL, Woodford N, O'Neil DA.

Infect Immun. 2018 May 22;86(6). pii: e00947-17. doi: 10.1128/IAI.00947-17. Print 2018 Jun.


Activity of ceftazidime/avibactam against problem Enterobacteriaceae and Pseudomonas aeruginosa in the UK, 2015-16.

Livermore DM, Meunier D, Hopkins KL, Doumith M, Hill R, Pike R, Staves P, Woodford N.

J Antimicrob Chemother. 2018 Mar 1;73(3):648-657. doi: 10.1093/jac/dkx438.


Comparison of phenotypic and WGS-derived antimicrobial resistance profiles of Salmonella enterica serovars Typhi and Paratyphi.

Day MR, Doumith M, Do Nascimento V, Nair S, Ashton PM, Jenkins C, Dallman TJ, Stevens FJ, Freedman J, Hopkins KL, Woodford N, De Pinna EM, Godbole G.

J Antimicrob Chemother. 2018 Feb 1;73(2):365-372. doi: 10.1093/jac/dkx379.


Virulence genes in isolates of Klebsiella pneumoniae from the UK during 2016, including among carbapenemase gene-positive hypervirulent K1-ST23 and 'non-hypervirulent' types ST147, ST15 and ST383.

Turton JF, Payne Z, Coward A, Hopkins KL, Turton JA, Doumith M, Woodford N.

J Med Microbiol. 2018 Jan;67(1):118-128. doi: 10.1099/jmm.0.000653. Epub 2017 Dec 5.


Molecular and epidemiological characterization of carbapenemase-producing Enterobacteriaceae in Norway, 2007 to 2014.

Samuelsen Ø, Overballe-Petersen S, Bjørnholt JV, Brisse S, Doumith M, Woodford N, Hopkins KL, Aasnæs B, Haldorsen B, Sundsfjord A; Norwegian Study Group on CPE.

PLoS One. 2017 Nov 15;12(11):e0187832. doi: 10.1371/journal.pone.0187832. eCollection 2017.


Genomic sequences of Streptococcus agalactiae with high-level gentamicin resistance, collected in the BSAC bacteraemia surveillance.

Doumith M, Mushtaq S, Martin V, Chaudhry A, Adkin R, Coelho J, Chalker V, MacGowan A, Woodford N, Livermore DM; BSAC Resistance Surveillance Standing Committee.

J Antimicrob Chemother. 2017 Oct 1;72(10):2704-2707. doi: 10.1093/jac/dkx207.


Emergence and clonal spread of colistin resistance due to multiple mutational mechanisms in carbapenemase-producing Klebsiella pneumoniae in London.

Otter JA, Doumith M, Davies F, Mookerjee S, Dyakova E, Gilchrist M, Brannigan ET, Bamford K, Galletly T, Donaldson H, Aanensen DM, Ellington MJ, Hill R, Turton JF, Hopkins KL, Woodford N, Holmes A.

Sci Rep. 2017 Oct 5;7(1):12711. doi: 10.1038/s41598-017-12637-4.


Comparison of phenotypic and WGS-derived antimicrobial resistance profiles of enteroaggregative Escherichia coli isolated from cases of diarrhoeal disease in England, 2015-16.

Do Nascimento V, Day MR, Doumith M, Hopkins KL, Woodford N, Godbole G, Jenkins C.

J Antimicrob Chemother. 2017 Dec 1;72(12):3288-3297. doi: 10.1093/jac/dkx301.


Diversity, virulence, and antimicrobial resistance of the KPC-producing Klebsiella pneumoniae ST307 clone.

Villa L, Feudi C, Fortini D, Brisse S, Passet V, Bonura C, Endimiani A, Mammina C, Ocampo AM, Jimenez JN, Doumith M, Woodford N, Hopkins K, Carattoli A.

Microb Genom. 2017 Apr 26;3(4):e000110. doi: 10.1099/mgen.0.000110. eCollection 2017 Apr.


Methicillin-resistant Staphylococcus aureus emerged long before the introduction of methicillin into clinical practice.

Harkins CP, Pichon B, Doumith M, Parkhill J, Westh H, Tomasz A, de Lencastre H, Bentley SD, Kearns AM, Holden MTG.

Genome Biol. 2017 Jul 20;18(1):130. doi: 10.1186/s13059-017-1252-9.


First outbreak of colonization by linezolid- and glycopeptide-resistant Enterococcus faecium harbouring the cfr gene in a UK nephrology unit.

Inkster T, Coia J, Meunier D, Doumith M, Martin K, Pike R, Imrie L, Kane H, Hay M, Wiuff C, Wilson J, Deighan C, Hopkins KL, Woodford N, Hill R.

J Hosp Infect. 2017 Dec;97(4):397-402. doi: 10.1016/j.jhin.2017.07.003. Epub 2017 Jul 8.


FRI-2 carbapenemase-producing Enterobacter cloacae complex in the UK.

Meunier D, Findlay J, Doumith M, Godoy D, Perry C, Pike R, Gronthoud F, Shryane T, Poirel L, Welfare W, Woodford N, Hopkins KL.

J Antimicrob Chemother. 2017 Sep 1;72(9):2478-2482. doi: 10.1093/jac/dkx173.


Comparison of phenotypic and WGS-derived antimicrobial resistance profiles of Shigella sonnei isolated from cases of diarrhoeal disease in England and Wales, 2015.

Sadouki Z, Day MR, Doumith M, Chattaway MA, Dallman TJ, Hopkins KL, Elson R, Woodford N, Godbole G, Jenkins C.

J Antimicrob Chemother. 2017 Sep 1;72(9):2496-2502. doi: 10.1093/jac/dkx170.


A curated dataset of complete Enterobacteriaceae plasmids compiled from the NCBI nucleotide database.

Orlek A, Phan H, Sheppard AE, Doumith M, Ellington M, Peto T, Crook D, Walker AS, Woodford N, Anjum MF, Stoesser N.

Data Brief. 2017 Apr 23;12:423-426. doi: 10.1016/j.dib.2017.04.024. eCollection 2017 Jun.


Major role of pKpQIL-like plasmids in the early dissemination of KPC-type carbapenemases in the UK.

Doumith M, Findlay J, Hirani H, Hopkins KL, Livermore DM, Dodgson A, Woodford N.

J Antimicrob Chemother. 2017 Aug 1;72(8):2241-2248. doi: 10.1093/jac/dkx141.


IMI-2 carbapenemase in a clinical Klebsiella variicola isolated in the UK.

Hopkins KL, Findlay J, Doumith M, Mather B, Meunier D, D'Arcy S, Pike R, Mustafa N, Howe R, Wootton M, Woodford N.

J Antimicrob Chemother. 2017 Jul 1;72(7):2129-2131. doi: 10.1093/jac/dkx103. No abstract available.


Ordering the mob: Insights into replicon and MOB typing schemes from analysis of a curated dataset of publicly available plasmids.

Orlek A, Phan H, Sheppard AE, Doumith M, Ellington M, Peto T, Crook D, Walker AS, Woodford N, Anjum MF, Stoesser N.

Plasmid. 2017 May;91:42-52. doi: 10.1016/j.plasmid.2017.03.002. Epub 2017 Mar 9.


Plasmid Classification in an Era of Whole-Genome Sequencing: Application in Studies of Antibiotic Resistance Epidemiology.

Orlek A, Stoesser N, Anjum MF, Doumith M, Ellington MJ, Peto T, Crook D, Woodford N, Walker AS, Phan H, Sheppard AE.

Front Microbiol. 2017 Feb 9;8:182. doi: 10.3389/fmicb.2017.00182. eCollection 2017.


OXA-48-like carbapenemases in the UK: an analysis of isolates and cases from 2007 to 2014.

Findlay J, Hopkins KL, Loy R, Doumith M, Meunier D, Hill R, Pike R, Mustafa N, Livermore DM, Woodford N.

J Antimicrob Chemother. 2017 May 1;72(5):1340-1349. doi: 10.1093/jac/dkx012.


Detection and molecular characterization of Livestock-Associated MRSA in raw meat on retail sale in North West England.

Fox A, Pichon B, Wilkinson H, Doumith M, Hill RL, McLauchlin J, Kearns AM.

Lett Appl Microbiol. 2017 Mar;64(3):239-245. doi: 10.1111/lam.12709. Epub 2017 Jan 28.


Rise of multidrug-resistant non-vaccine serotype 15A Streptococcus pneumoniae in the United Kingdom, 2001 to 2014.

Sheppard C, Fry NK, Mushtaq S, Woodford N, Reynolds R, Janes R, Pike R, Hill R, Kimuli M, Staves P, Doumith M, Harrison T, Livermore DM.

Euro Surveill. 2016 Dec 15;21(50). pii: 30423. doi: 10.2807/1560-7917.ES.2016.21.50.30423.


The role of whole genome sequencing in antimicrobial susceptibility testing of bacteria: report from the EUCAST Subcommittee.

Ellington MJ, Ekelund O, Aarestrup FM, Canton R, Doumith M, Giske C, Grundman H, Hasman H, Holden MTG, Hopkins KL, Iredell J, Kahlmeter G, Köser CU, MacGowan A, Mevius D, Mulvey M, Naas T, Peto T, Rolain JM, Samuelsen Ø, Woodford N.

Clin Microbiol Infect. 2017 Jan;23(1):2-22. doi: 10.1016/j.cmi.2016.11.012. Epub 2016 Nov 23. Review.


Livestock-Associated Methicillin Resistant Staphylococcus aureus (LA-MRSA) Clonal Complex (CC) 398 Isolated from UK Animals belong to European Lineages.

Sharma M, Nunez-Garcia J, Kearns AM, Doumith M, Butaye PR, Argudín MA, Lahuerta-Marin A, Pichon B, AbuOun M, Rogers J, Ellis RJ, Teale C, Anjum MF.

Front Microbiol. 2016 Nov 9;7:1741. eCollection 2016.


The differential importance of mutations within AmpD in cephalosporin resistance of Enterobacter aerogenes and Enterobacter cloacae.

Babouee Flury B, Ellington MJ, Hopkins KL, Turton JF, Doumith M, Woodford N.

Int J Antimicrob Agents. 2016 Nov;48(5):555-558. doi: 10.1016/j.ijantimicag.2016.07.021. Epub 2016 Sep 12.


Antimicrobial resistance in Shiga toxin-producing Escherichia coli serogroups O157 and O26 isolated from human cases of diarrhoeal disease in England, 2015.

Day M, Doumith M, Jenkins C, Dallman TJ, Hopkins KL, Elson R, Godbole G, Woodford N.

J Antimicrob Chemother. 2017 Jan;72(1):145-152. Epub 2016 Sep 27.


Identification of bacterial pathogens and antimicrobial resistance directly from clinical urines by nanopore-based metagenomic sequencing.

Schmidt K, Mwaigwisya S, Crossman LC, Doumith M, Munroe D, Pires C, Khan AM, Woodford N, Saunders NJ, Wain J, O'Grady J, Livermore DM.

J Antimicrob Chemother. 2017 Jan;72(1):104-114. Epub 2016 Sep 25.


WGS for surveillance of antimicrobial resistance: a pilot study to detect the prevalence and mechanism of resistance to azithromycin in a UK population of non-typhoidal Salmonella.

Nair S, Ashton P, Doumith M, Connell S, Painset A, Mwaigwisya S, Langridge G, de Pinna E, Godbole G, Day M.

J Antimicrob Chemother. 2016 Dec;71(12):3400-3408. Epub 2016 Sep 1.


New insights into the regulatory pathways associated with the activation of the stringent response in bacterial resistance to the PBP2-targeted antibiotics, mecillinam and OP0595/RG6080.

Doumith M, Mushtaq S, Livermore DM, Woodford N.

J Antimicrob Chemother. 2016 Oct;71(10):2810-4. doi: 10.1093/jac/dkw230. Epub 2016 Jun 20.


Trends in ExPEC serogroups in the UK and their significance.

Ciesielczuk H, Jenkins C, Chattaway M, Doumith M, Hope R, Woodford N, Wareham DW.

Eur J Clin Microbiol Infect Dis. 2016 Oct;35(10):1661-6. doi: 10.1007/s10096-016-2707-8. Epub 2016 Jun 22.


Integration of Genomic and Other Epidemiologic Data to Investigate and Control a Cross-Institutional Outbreak of Streptococcus pyogenes.

Chalker VJ, Smith A, Al-Shahib A, Botchway S, Macdonald E, Daniel R, Phillips S, Platt S, Doumith M, Tewolde R, Coelho J, Jolley KA, Underwood A, McCarthy ND.

Emerg Infect Dis. 2016 Jun;22(6):973-80. doi: 10.3201/eid2206.142050.


Population structure of Escherichia coli causing bacteraemia in the UK and Ireland between 2001 and 2010.

Day MJ, Doumith M, Abernethy J, Hope R, Reynolds R, Wain J, Livermore DM, Woodford N.

J Antimicrob Chemother. 2016 Aug;71(8):2139-42. doi: 10.1093/jac/dkw145. Epub 2016 May 5.


Detection of the plasmid-mediated mcr-1 gene conferring colistin resistance in human and food isolates of Salmonella enterica and Escherichia coli in England and Wales.

Doumith M, Godbole G, Ashton P, Larkin L, Dallman T, Day M, Day M, Muller-Pebody B, Ellington MJ, de Pinna E, Johnson AP, Hopkins KL, Woodford N.

J Antimicrob Chemother. 2016 Aug;71(8):2300-5. doi: 10.1093/jac/dkw093. Epub 2016 Apr 18.


Carbapenem resistance mediated by blaOXA-181 in Pseudomonas aeruginosa.

Meunier D, Doumith M, Findlay J, Mustafa N, Mallard K, Anson J, Panagea S, Pike R, Wright L, Woodford N, Hopkins KL.

J Antimicrob Chemother. 2016 Jul;71(7):2056-7. doi: 10.1093/jac/dkw087. Epub 2016 Mar 23. No abstract available.


Clonal expansion of Escherichia coli ST38 carrying a chromosomally integrated OXA-48 carbapenemase gene.

Turton JF, Doumith M, Hopkins KL, Perry C, Meunier D, Woodford N.

J Med Microbiol. 2016 Jun;65(6):538-46. doi: 10.1099/jmm.0.000248. Epub 2016 Mar 16.


Association of Novel Nonsynonymous Single Nucleotide Polymorphisms in ampD with Cephalosporin Resistance and Phylogenetic Variations in ampC, ampR, ompF, and ompC in Enterobacter cloacae Isolates That Are Highly Resistant to Carbapenems.

Babouee Flury B, Ellington MJ, Hopkins KL, Turton JF, Doumith M, Loy R, Staves P, Hinic V, Frei R, Woodford N.

Antimicrob Agents Chemother. 2016 Mar 25;60(4):2383-90. doi: 10.1128/AAC.02835-15. Print 2016 Apr.


KPC enzymes in the UK: an analysis of the first 160 cases outside the North-West region.

Findlay J, Hopkins KL, Doumith M, Meunier D, Wiuff C, Hill R, Pike R, Loy R, Mustafa N, Livermore DM, Woodford N.

J Antimicrob Chemother. 2016 May;71(5):1199-206. doi: 10.1093/jac/dkv476. Epub 2016 Feb 3.


First report of lukM-positive livestock-associated methicillin-resistant Staphylococcus aureus CC30 from fattening pigs in Northern Ireland.

Lahuerta-Marin A, Guelbenzu-Gonzalo M, Pichon B, Allen A, Doumith M, Lavery JF, Watson C, Teale CJ, Kearns AM.

Vet Microbiol. 2016;182:131-4. doi: 10.1016/j.vetmic.2015.11.019. Epub 2015 Nov 18.


Characterization of the extra-intestinal pathogenic Escherichia coli ST131 clone among isolates recovered from urinary and bloodstream infections in the United Kingdom.

Ciesielczuk H, Doumith M, Hope R, Woodford N, Wareham DW.

J Med Microbiol. 2015 Dec;64(12):1496-503. doi: 10.1099/jmm.0.000179. Epub 2015 Oct 6.


Use of nrdA gene sequence clustering to estimate the prevalence of different Achromobacter species among Cystic Fibrosis patients in the UK.

Coward A, Kenna DT, Perry C, Martin K, Doumith M, Turton JF.

J Cyst Fibros. 2016 Jul;15(4):479-85. doi: 10.1016/j.jcf.2015.09.005. Epub 2015 Sep 26.


High-Resolution Analysis by Whole-Genome Sequencing of an International Lineage (Sequence Type 111) of Pseudomonas aeruginosa Associated with Metallo-Carbapenemases in the United Kingdom.

Turton JF, Wright L, Underwood A, Witney AA, Chan YT, Al-Shahib A, Arnold C, Doumith M, Patel B, Planche TD, Green J, Holliman R, Woodford N.

J Clin Microbiol. 2015 Aug;53(8):2622-31. doi: 10.1128/JCM.00505-15. Epub 2015 Jun 3.


Comparative virulence of urinary and bloodstream isolates of extra-intestinal pathogenic Escherichia coli in a Galleria mellonella model.

Ciesielczuk H, Betts J, Phee L, Doumith M, Hope R, Woodford N, Wareham DW.

Virulence. 2015;6(2):145-51. doi: 10.4161/21505594.2014.988095.

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