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Comparison of long-read sequencing technologies in the hybrid assembly of complex bacterial genomes.

De Maio N, Shaw LP, Hubbard A, George S, Sanderson ND, Swann J, Wick R, AbuOun M, Stubberfield E, Hoosdally SJ, Crook DW, Peto TEA, Sheppard AE, Bailey MJ, Read DS, Anjum MF, Walker AS, Stoesser N; Rehab Consortium.

Microb Genom. 2019 Sep 4. doi: 10.1099/mgen.0.000294. [Epub ahead of print]


A sensitive method for the recovery of Escherichia coli serogroup O55 including Shiga toxin-producing variants for potential use in outbreaks.

Kirchner M, Sayers E, Cawthraw S, Duggett N, Gosling R, Jenkins C, Dallman TJ, Mueller-Doblies D, Anjum MF.

J Appl Microbiol. 2019 Sep;127(3):889-896. doi: 10.1111/jam.14345. Epub 2019 Jul 7.


Detection of extended-spectrum β-lactam, AmpC and carbapenem resistance in Enterobacteriaceae in beef cattle in Great Britain in 2015.

Velasova M, Smith RP, Lemma F, Horton RA, Duggett NA, Evans J, Tongue SC, Anjum MF, Randall LP.

J Appl Microbiol. 2019 Apr;126(4):1081-1095. doi: 10.1111/jam.14211. Epub 2019 Feb 27.


Multidrug-Resistant Salmonella enterica Isolated from Food Animal and Foodstuff May Also Be Less Susceptible to Heavy Metals.

Figueiredo R, Card RM, Nunez-Garcia J, Mendonça N, da Silva GJ, Anjum MF.

Foodborne Pathog Dis. 2019 Mar;16(3):166-172. doi: 10.1089/fpd.2017.2418. Epub 2018 Nov 24.


Molecular epidemiology of isolates with multiple mcr plasmids from a pig farm in Great Britain: the effects of colistin withdrawal in the short and long term.

Duggett NA, Randall LP, Horton RA, Lemma F, Kirchner M, Nunez-Garcia J, Brena C, Williamson SM, Teale C, Anjum MF.

J Antimicrob Chemother. 2018 Nov 1;73(11):3025-3033. doi: 10.1093/jac/dky292.


Microevolution of epidemiological highly relevant non-O157 enterohemorrhagic Escherichia coli of serogroups O26 and O111.

Eichhorn I, Semmler T, Mellmann A, Pickard D, Anjum MF, Fruth A, Karch H, Wieler LH.

Int J Med Microbiol. 2018 Dec;308(8):1085-1095. doi: 10.1016/j.ijmm.2018.08.003. Epub 2018 Aug 10.


mcr-1 and mcr-2 (mcr-6.1) variant genes identified in Moraxella species isolated from pigs in Great Britain from 2014 to 2015.

AbuOun M, Stubberfield EJ, Duggett NA, Kirchner M, Dormer L, Nunez-Garcia J, Randall LP, Lemma F, Crook DW, Teale C, Smith RP, Anjum MF.

J Antimicrob Chemother. 2018 Oct 1;73(10):2904. doi: 10.1093/jac/dky272. No abstract available.


Identification of a New Antimicrobial Resistance Gene Provides Fresh Insights Into Pleuromutilin Resistance in Brachyspira hyodysenteriae, Aetiological Agent of Swine Dysentery.

Card RM, Stubberfield E, Rogers J, Nunez-Garcia J, Ellis RJ, AbuOun M, Strugnell B, Teale C, Williamson S, Anjum MF.

Front Microbiol. 2018 Jun 19;9:1183. doi: 10.3389/fmicb.2018.01183. eCollection 2018.


MRSA spa type t899 from food animals in the UK.

Sharma M, AbuOun M, Nunez-Garcia J, Rogers J, Welchman D, Teale C, Anjum MF, Kearns AM, Pichon B, Foster G, Robb A, McMillan M.

Vet Rec. 2018 Jun 16;182(24):697-698. doi: 10.1136/vr.k2576. No abstract available. Erratum in: Vet Rec. 2018 Jun 23;182(25):721.


Longitudinal study on the occurrence in pigs of colistin-resistant Escherichia coli carrying mcr-1 following the cessation of use of colistin.

Randall LP, Horton RA, Lemma F, Martelli F, Duggett NAD, Smith RP, Kirchner MJ, Ellis RJ, Rogers JP, Williamson SM, Simons RRL, Brena CM, Evans SJ, Anjum MF, Teale CJ.

J Appl Microbiol. 2018 Aug;125(2):596-608. doi: 10.1111/jam.13907. Epub 2018 May 23.


Molecular Methods for Detection of Antimicrobial Resistance.

Anjum MF, Zankari E, Hasman H.

Microbiol Spectr. 2017 Dec;5(6). doi: 10.1128/microbiolspec.ARBA-0011-2017. Review.


mcr-1 and mcr-2 variant genes identified in Moraxella species isolated from pigs in Great Britain from 2014 to 2015.

AbuOun M, Stubberfield EJ, Duggett NA, Kirchner M, Dormer L, Nunez-Garcia J, Randall LP, Lemma F, Crook DW, Teale C, Smith RP, Anjum MF.

J Antimicrob Chemother. 2017 Oct 1;72(10):2745-2749. doi: 10.1093/jac/dkx286. Erratum in: J Antimicrob Chemother. 2018 Oct 1;73(10):2904.


Real-time PCR for the detection of Leptospira species in lungworm preparations.

Sharma M, Kirchner M, Fearnley C, Giles M, Smith L, Brown D, Anjum MF.

Vet Rec. 2017 Aug 19;181(8):197. doi: 10.1136/vr.104063. Epub 2017 Aug 1. No abstract available.


An In Vitro Chicken Gut Model Demonstrates Transfer of a Multidrug Resistance Plasmid from Salmonella to Commensal Escherichia coli.

Card RM, Cawthraw SA, Nunez-Garcia J, Ellis RJ, Kay G, Pallen MJ, Woodward MJ, Anjum MF.

MBio. 2017 Jul 18;8(4). pii: e00777-17. doi: 10.1128/mBio.00777-17.


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.


Loop-mediated isothermal amplification for extended spectrum β-lactamase gene detection in poultry carcase.

Kirchner M, Lemma F, Randall L, Anjum MF.

Vet Rec. 2017 Jul 29;181(5):119. doi: 10.1136/vr.104150. Epub 2017 May 16. 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.


Efflux in the Oral Metagenome: The Discovery of a Novel Tetracycline and Tigecycline ABC Transporter.

Reynolds LJ, Roberts AP, Anjum MF.

Front Microbiol. 2016 Dec 6;7:1923. doi: 10.3389/fmicb.2016.01923. eCollection 2016.


Occurrence and characterization of mcr-1-harbouring Escherichia coli isolated from pigs in Great Britain from 2013 to 2015.

Duggett NA, Sayers E, AbuOun M, Ellis RJ, Nunez-Garcia J, Randall L, Horton R, Rogers J, Martelli F, Smith RP, Brena C, Williamson S, Kirchner M, Davies R, Crook D, Evans S, Teale C, Anjum MF.

J Antimicrob Chemother. 2017 Mar 1;72(3):691-695. doi: 10.1093/jac/dkw477.


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.


Detection of an mcr-1-encoding plasmid mediating colistin resistance in Salmonella enterica from retail meat in Portugal.

Figueiredo R, Card RM, Nunez J, Pomba C, Mendonça N, Anjum MF, Da Silva GJ.

J Antimicrob Chemother. 2016 Aug;71(8):2338-40. doi: 10.1093/jac/dkw240. Epub 2016 Jun 20. No abstract available.


Virulence Characterisation of Salmonella enterica Isolates of Differing Antimicrobial Resistance Recovered from UK Livestock and Imported Meat Samples.

Card R, Vaughan K, Bagnall M, Spiropoulos J, Cooley W, Strickland T, Davies R, Anjum MF.

Front Microbiol. 2016 May 2;7:640. doi: 10.3389/fmicb.2016.00640. eCollection 2016.


Colistin resistance in Salmonella and Escherichia coli isolates from a pig farm in Great Britain.

Anjum MF, Duggett NA, AbuOun M, Randall L, Nunez-Garcia J, Ellis RJ, Rogers J, Horton R, Brena C, Williamson S, Martelli F, Davies R, Teale C.

J Antimicrob Chemother. 2016 Aug;71(8):2306-13. doi: 10.1093/jac/dkw149. Epub 2016 May 4.


Microarray Evaluation of Antimicrobial Resistance and Virulence of Escherichia coli Isolates from Portuguese Poultry.

Mendonça N, Figueiredo R, Mendes C, Card RM, Anjum MF, da Silva GJ.

Antibiotics (Basel). 2016 Jan 13;5(1). pii: E4. doi: 10.3390/antibiotics5010004.


Virulence Characterization of Salmonella enterica by a New Microarray: Detection and Evaluation of the Cytolethal Distending Toxin Gene Activity in the Unusual Host S. Typhimurium.

Figueiredo R, Card R, Nunes C, AbuOun M, Bagnall MC, Nunez J, Mendonça N, Anjum MF, da Silva GJ.

PLoS One. 2015 Aug 5;10(8):e0135010. doi: 10.1371/journal.pone.0135010. eCollection 2015.


Highly Virulent Non-O157 Enterohemorrhagic Escherichia coli (EHEC) Serotypes Reflect Similar Phylogenetic Lineages, Providing New Insights into the Evolution of EHEC.

Eichhorn I, Heidemanns K, Semmler T, Kinnemann B, Mellmann A, Harmsen D, Anjum MF, Schmidt H, Fruth A, Valentin-Weigand P, Heesemann J, Suerbaum S, Karch H, Wieler LH.

Appl Environ Microbiol. 2015 Oct;81(20):7041-7. doi: 10.1128/AEM.01921-15. Epub 2015 Jul 31.


Impact of Ciprofloxacin and Clindamycin Administration on Gram-Negative Bacteria Isolated from Healthy Volunteers and Characterization of the Resistance Genes They Harbor.

Card RM, Mafura M, Hunt T, Kirchner M, Weile J, Rashid MU, Weintraub A, Nord CE, Anjum MF.

Antimicrob Agents Chemother. 2015 Aug;59(8):4410-6. doi: 10.1128/AAC.00068-15. Epub 2015 May 18.


Screening methods for the detection of antimicrobial resistance genes present in bacterial isolates and the microbiota.

Anjum MF.

Future Microbiol. 2015;10(3):317-20. doi: 10.2217/fmb.15.2. No abstract available.


Antimicrobial resistance characteristics and fitness of Gram-negative fecal bacteria from volunteers treated with minocycline or amoxicillin.

Kirchner M, Mafura M, Hunt T, Abu-Oun M, Nunez-Garcia J, Hu Y, Weile J, Coates A, Card R, Anjum MF.

Front Microbiol. 2014 Dec 17;5:722. doi: 10.3389/fmicb.2014.00722. eCollection 2014.


Application of microarray and functional-based screening methods for the detection of antimicrobial resistance genes in the microbiomes of healthy humans.

Card RM, Warburton PJ, MacLaren N, Mullany P, Allan E, Anjum MF.

PLoS One. 2014 Jan 22;9(1):e86428. doi: 10.1371/journal.pone.0086428. eCollection 2014.


Cefotaxime resistant Escherichia coli collected from a healthy volunteer; characterisation and the effect of plasmid loss.

Kirchner M, Abuoun M, Mafura M, Bagnall M, Hunt T, Thomas C, Weile J, Anjum MF.

PLoS One. 2013 Dec 27;8(12):e84142. doi: 10.1371/journal.pone.0084142. eCollection 2013.


Isolation and detection of extended spectrum β-lactamase (ESBL)-producing enterobacteriaceae from meat using chromogenic agars and isothermal loop-mediated amplification (LAMP) assays.

Anjum MF, Lemma F, Cork DJ, Meunier D, Murphy N, North SE, Woodford N, Haines J, Randall LP.

J Food Sci. 2013 Dec;78(12):M1892-8. doi: 10.1111/1750-3841.12297.


Antibiotic resistance gene profiling of faecal and oral anaerobes collected during an antibiotic challenge trial.

Kirchner M, Mafura M, Hunt T, Card R, Anjum MF.

Anaerobe. 2013 Oct;23:20-2. doi: 10.1016/j.anaerobe.2013.07.011. Epub 2013 Aug 7.


Use of virulence determinants and seropathotypes to distinguish high- and low-risk Escherichia coli O157 and non-O157 isolates from Europe.

Anjum MF, Jones E, Morrison V, Tozzoli R, Morabito S, Toth I, Nagy B, Smith G, Aspan A, Nielsen EM, Fach P, Herrera-León S, Woodward MJ, LA Ragione RM.

Epidemiol Infect. 2014 May;142(5):1019-28. doi: 10.1017/S0950268813001635. Epub 2013 Jul 18.


Evaluation of an expanded microarray for detecting antibiotic resistance genes in a broad range of gram-negative bacterial pathogens.

Card R, Zhang J, Das P, Cook C, Woodford N, Anjum MF.

Antimicrob Agents Chemother. 2013 Jan;57(1):458-65. doi: 10.1128/AAC.01223-12. Epub 2012 Nov 5.


Study of Staphylococcus aureus collected at slaughter from dairy cows with chronic mastitis.

Piccinini R, Tassi R, Daprà V, Pilla R, Fenner J, Carter B, Anjum MF.

J Dairy Res. 2012 May;79(2):249-55. doi: 10.1017/S002202991200009X. Epub 2012 Feb 28.


Microarray based comparative genotyping of gentamicin resistant Escherichia coli strains from food animals and humans.

Szmolka A, Anjum MF, La Ragione RM, Kaszanyitzky EJ, Nagy B.

Vet Microbiol. 2012 Apr 23;156(1-2):110-8. doi: 10.1016/j.vetmic.2011.09.030. Epub 2011 Oct 2.


Novel inducers of the envelope stress response BaeSR in Salmonella Typhimurium: BaeR is critically required for tungstate waste disposal.

Appia-Ayme C, Patrick E, Sullivan MJ, Alston MJ, Field SJ, AbuOun M, Anjum MF, Rowley G.

PLoS One. 2011;6(8):e23713. doi: 10.1371/journal.pone.0023713. Epub 2011 Aug 23.


First report on IncN plasmid-mediated quinolone resistance gene qnrS1 in porcine Escherichia coli in Europe.

Szmolka A, Fortini D, Villa L, Carattoli A, Anjum MF, Nagy B.

Microb Drug Resist. 2011 Dec;17(4):567-73. doi: 10.1089/mdr.2011.0068. Epub 2011 Aug 11.


Recombination and population structure in Salmonella enterica.

Didelot X, Bowden R, Street T, Golubchik T, Spencer C, McVean G, Sangal V, Anjum MF, Achtman M, Falush D, Donnelly P.

PLoS Genet. 2011 Jul;7(7):e1002191. doi: 10.1371/journal.pgen.1002191. Epub 2011 Jul 28.


Identifying antimicrobial resistance genes of human clinical relevance within Salmonella isolated from food animals in Great Britain.

Anjum MF, Choudhary S, Morrison V, Snow LC, Mafura M, Slickers P, Ehricht R, Woodward MJ.

J Antimicrob Chemother. 2011 Mar;66(3):550-9. doi: 10.1093/jac/dkq498. Epub 2011 Jan 17.


Genes associated with Escherichia coli isolates from calves with diarrhoea and/or septicaemia.

Wu G, Mafura M, Carter B, Lynch K, Anjum MF, Woodward MJ, Pritchard GC.

Vet Rec. 2010 May 29;166(22):691-2. doi: 10.1136/vr.b4791. No abstract available.


Epidemic multidrug-resistant (MDR-AmpC) Salmonella enterica serovar Newport strains contain three phage regions and a MDR resistance plasmid.

Wu G, Abuoun M, Hackl E, La Ragione RM, Fookes M, Fenner J, Pan Z, Wenzl P, Anjum MF, Woodward MJ.

Environ Microbiol Rep. 2010 Apr;2(2):228-35. doi: 10.1111/j.1758-2229.2009.00095.x. Epub 2009 Nov 24.


Analysis of 16S rDNA sequences from pathogenic Leptospira serovars and use of single nucleotide polymorphisms for rapid speciation by D-HPLC.

Fenner JS, Anjum MF, Randall LP, Pritchard GC, Wu G, Errington J, Dalley CG, Woodward MJ.

Res Vet Sci. 2010 Aug;89(1):48-57. doi: 10.1016/j.rvsc.2009.12.014. Epub 2010 Feb 20.


Phenotype MicroArray in the metabolic characterisation of Salmonella serotypes Agona, Enteritidis, Give, Hvittingfoss, Infantis, Newport and Typhimurium.

Kauko T, Haukka K, Abuoun M, Anjum MF, Woodward MJ, Siitonen A.

Eur J Clin Microbiol Infect Dis. 2010 Mar;29(3):311-7. doi: 10.1007/s10096-009-0859-5. Epub 2010 Jan 22.


Genome scale reconstruction of a Salmonella metabolic model: comparison of similarity and differences with a commensal Escherichia coli strain.

AbuOun M, Suthers PF, Jones GI, Carter BR, Saunders MP, Maranas CD, Woodward MJ, Anjum MF.

J Biol Chem. 2009 Oct 23;284(43):29480-8. doi: 10.1074/jbc.M109.005868. Epub 2009 Aug 18.


Identification of genetic and phenotypic differences associated with prevalent and non-prevalent Salmonella Enteritidis phage types: analysis of variation in amino acid transport.

Pan Z, Carter B, Núñez-García J, Abuoun M, Fookes M, Ivens A, Woodward MJ, Anjum MF.

Microbiology. 2009 Oct;155(Pt 10):3200-13. doi: 10.1099/mic.0.029405-0. Epub 2009 Jul 2.


Characterisation of Escherichia fergusonii isolates from farm animals using an Escherichia coli virulence gene array and tissue culture adherence assays.

Wragg P, La Ragione RM, Best A, Reichel R, Anjum MF, Mafura M, Woodward MJ.

Res Vet Sci. 2009 Feb;86(1):27-35. doi: 10.1016/j.rvsc.2008.05.014. Epub 2008 Jun 27.


Development of a miniaturised microarray-based assay for the rapid identification of antimicrobial resistance genes in Gram-negative bacteria.

Batchelor M, Hopkins KL, Liebana E, Slickers P, Ehricht R, Mafura M, Aarestrup F, Mevius D, Clifton-Hadley FA, Woodward MJ, Davies RH, Threlfall EJ, Anjum MF.

Int J Antimicrob Agents. 2008 May;31(5):440-51. doi: 10.1016/j.ijantimicag.2007.11.017. Epub 2008 Feb 19.


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