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Items: 31

1.

A Candida auris Outbreak and Its Control in an Intensive Care Setting.

Eyre DW, Sheppard AE, Madder H, Moir I, Moroney R, Quan TP, Griffiths D, George S, Butcher L, Morgan M, Newnham R, Sunderland M, Clarke T, Foster D, Hoffman P, Borman AM, Johnson EM, Moore G, Brown CS, Walker AS, Peto TEA, Crook DW, Jeffery KJM.

N Engl J Med. 2018 Oct 4;379(14):1322-1331. doi: 10.1056/NEJMoa1714373.

PMID:
30281988
2.

Severe infections emerge from commensal bacteria by adaptive evolution.

Young BC, Wu CH, Gordon NC, Cole K, Price JR, Liu E, Sheppard AE, Perera S, Charlesworth J, Golubchik T, Iqbal Z, Bowden R, Massey RC, Paul J, Crook DW, Peto TE, Walker AS, Llewelyn MJ, Wyllie DH, Wilson DJ.

Elife. 2017 Dec 19;6. pii: e30637. doi: 10.7554/eLife.30637.

3.

High Rates of Human Fecal Carriage of mcr-1-Positive Multidrug-Resistant Enterobacteriaceae Emerge in China in Association With Successful Plasmid Families.

Zhong LL, Phan HTT, Shen C, Vihta KD, Sheppard AE, Huang X, Zeng KJ, Li HY, Zhang XF, Patil S, Crook DW, Walker AS, Xing Y, Lin JL, Feng LQ, Doi Y, Xia Y, Stoesser N, Tian GB.

Clin Infect Dis. 2018 Feb 10;66(5):676-685. doi: 10.1093/cid/cix885.

PMID:
29040419
4.

Resolving plasmid structures in Enterobacteriaceae using the MinION nanopore sequencer: assessment of MinION and MinION/Illumina hybrid data assembly approaches.

George S, Pankhurst L, Hubbard A, Votintseva A, Stoesser N, Sheppard AE, Mathers A, Norris R, Navickaite I, Eaton C, Iqbal Z, Crook DW, Phan HTT.

Microb Genom. 2017 Jun 9;3(8):e000118. doi: 10.1099/mgen.0.000118. eCollection 2017 Aug.

5.

Complete genome sequence of the nematicidal Bacillus thuringiensis MYBT18247.

Hollensteiner J, Poehlein A, Spröer C, Bunk B, Sheppard AE, Rosenstiel P, Schulenburg H, Liesegang H.

J Biotechnol. 2017 Oct 20;260:48-52. doi: 10.1016/j.jbiotec.2017.09.003. Epub 2017 Sep 9.

6.

Complete Genome sequence of the nematicidal Bacillus thuringiensis MYBT18246.

Hollensteiner J, Poehlein A, Spröer C, Bunk B, Sheppard AE, Rosentstiel P, Schulenburg H, Liesegang H.

Stand Genomic Sci. 2017 Aug 24;12:48. doi: 10.1186/s40793-017-0259-x. eCollection 2017.

7.

Genomic epidemiology of global Klebsiella pneumoniae carbapenemase (KPC)-producing Escherichia coli.

Stoesser N, Sheppard AE, Peirano G, Anson LW, Pankhurst L, Sebra R, Phan HTT, Kasarskis A, Mathers AJ, Peto TEA, Bradford P, Motyl MR, Walker AS, Crook DW, Pitout JD.

Sci Rep. 2017 Jul 19;7(1):5917. doi: 10.1038/s41598-017-06256-2.

8.

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.

9.

Enhanced Klebsiella pneumoniae Carbapenemase Expression from a Novel Tn4401 Deletion.

Cheruvanky A, Stoesser N, Sheppard AE, Crook DW, Hoffman PS, Weddle E, Carroll J, Sifri CD, Chai W, Barry K, Ramakrishnan G, Mathers AJ.

Antimicrob Agents Chemother. 2017 May 24;61(6). pii: e00025-17. doi: 10.1128/AAC.00025-17. Print 2017 Jun.

10.

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.

11.

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.

12.

Chromosomal Integration of the Klebsiella pneumoniae Carbapenemase Gene, blaKPC, in Klebsiella Species Is Elusive but Not Rare.

Mathers AJ, Stoesser N, Chai W, Carroll J, Barry K, Cherunvanky A, Sebra R, Kasarskis A, Peto TE, Walker AS, Sifri CD, Crook DW, Sheppard AE.

Antimicrob Agents Chemother. 2017 Feb 23;61(3). pii: e01823-16. doi: 10.1128/AAC.01823-16. Print 2017 Mar.

13.

Complete Sequencing of Plasmids Containing blaOXA-163 and blaOXA-48 in Escherichia coli Sequence Type 131.

Stoesser N, Sheppard AE, Peirano G, Sebra R, Lynch T, Anson L, Kasarskis A, Motyl MR, Crook DW, Pitout JD.

Antimicrob Agents Chemother. 2016 Oct 21;60(11):6948-6951. doi: 10.1128/AAC.01130-16. Print 2016 Nov.

14.

Maternal colonization with Streptococcus agalactiae and associated stillbirth and neonatal disease in coastal Kenya.

Seale AC, Koech AC, Sheppard AE, Barsosio HC, Langat J, Anyango E, Mwakio S, Mwarumba S, Morpeth SC, Anampiu K, Vaughan A, Giess A, Mogeni P, Walusuna L, Mwangudzah H, Mwanzui D, Salim M, Kemp B, Jones C, Mturi N, Tsofa B, Mumbo E, Mulewa D, Bandika V, Soita M, Owiti M, Onzere N, Walker AS, Schrag SJ, Kennedy SH, Fegan G, Crook DW, Berkley JA.

Nat Microbiol. 2016 May 23;1(7):16067. doi: 10.1038/nmicrobiol.2016.67.

15.

Horizontal Transfer of Carbapenemase-Encoding Plasmids and Comparison with Hospital Epidemiology Data.

Hardiman CA, Weingarten RA, Conlan S, Khil P, Dekker JP, Mathers AJ, Sheppard AE, Segre JA, Frank KM.

Antimicrob Agents Chemother. 2016 Jul 22;60(8):4910-9. doi: 10.1128/AAC.00014-16. Print 2016 Aug.

16.

First Report of blaIMP-14 on a Plasmid Harboring Multiple Drug Resistance Genes in Escherichia coli Sequence Type 131.

Stoesser N, Sheppard AE, Peirano G, Sebra RP, Lynch T, Anson LW, Kasarskis A, Motyl MR, Crook DW, Pitout JD.

Antimicrob Agents Chemother. 2016 Jul 22;60(8):5068-71. doi: 10.1128/AAC.00840-16. Print 2016 Aug.

17.

Nested Russian Doll-Like Genetic Mobility Drives Rapid Dissemination of the Carbapenem Resistance Gene blaKPC.

Sheppard AE, Stoesser N, Wilson DJ, Sebra R, Kasarskis A, Anson LW, Giess A, Pankhurst LJ, Vaughan A, Grim CJ, Cox HL, Yeh AJ; Modernising Medical Microbiology (MMM) Informatics Group, Sifri CD, Walker AS, Peto TE, Crook DW, Mathers AJ.

Antimicrob Agents Chemother. 2016 May 23;60(6):3767-78. doi: 10.1128/AAC.00464-16. Print 2016 Jun.

18.

Evolutionary History of the Global Emergence of the Escherichia coli Epidemic Clone ST131.

Stoesser N, Sheppard AE, 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 TE, Johnson JR, Didelot X, Walker AS, Crook DW; Modernizing Medical Microbiology Informatics Group (MMMIG).

MBio. 2016 Mar 22;7(2):e02162. doi: 10.1128/mBio.02162-15.

19.

Capsular Typing Method for Streptococcus agalactiae Using Whole-Genome Sequence Data.

Sheppard AE, Vaughan A, Jones N, Turner P, Turner C, Efstratiou A, Patel D; Modernising Medical Microbiology Informatics Group, Walker AS, Berkley JA, Crook DW, Seale AC.

J Clin Microbiol. 2016 May;54(5):1388-90. doi: 10.1128/JCM.03142-15. Epub 2016 Mar 9.

20.

Complete Genome Sequence of KPC-Producing Klebsiella pneumoniae Strain CAV1193.

Sheppard AE, Stoesser N, Sebra R, Kasarskis A, Deikus G, Anson L, Walker AS, Peto TE, Crook DW, Mathers AJ.

Genome Announc. 2016 Jan 28;4(1). pii: e01649-15. doi: 10.1128/genomeA.01649-15.

21.

The Stealthy Superbug: the Role of Asymptomatic Enteric Carriage in Maintaining a Long-Term Hospital Outbreak of ST228 Methicillin-Resistant Staphylococcus aureus.

Senn L, Clerc O, Zanetti G, Basset P, Prod'hom G, Gordon NC, Sheppard AE, Crook DW, James R, Thorpe HA, Feil EJ, Blanc DS.

MBio. 2016 Jan 19;7(1):e02039-15. doi: 10.1128/mBio.02039-15.

22.

High instability of a nematicidal Cry toxin plasmid in Bacillus thuringiensis.

Sheppard AE, Nakad R, Saebelfeld M, Masche AC, Dierking K, Schulenburg H.

J Invertebr Pathol. 2016 Jan;133:34-40. doi: 10.1016/j.jip.2015.11.009. Epub 2015 Nov 22.

PMID:
26592941
23.

Host-Pathogen Coevolution: The Selective Advantage of Bacillus thuringiensis Virulence and Its Cry Toxin Genes.

Masri L, Branca A, Sheppard AE, Papkou A, Laehnemann D, Guenther PS, Prahl S, Saebelfeld M, Hollensteiner J, Liesegang H, Brzuszkiewicz E, Daniel R, Michiels NK, Schulte RD, Kurtz J, Rosenstiel P, Telschow A, Bornberg-Bauer E, Schulenburg H.

PLoS Biol. 2015 Jun 4;13(6):e1002169. doi: 10.1371/journal.pbio.1002169. eCollection 2015 Jun.

24.

Extensive Within-Host Diversity in Fecally Carried Extended-Spectrum-Beta-Lactamase-Producing Escherichia coli Isolates: Implications for Transmission Analyses.

Stoesser N, Sheppard AE, Moore CE, Golubchik T, Parry CM, Nget P, Saroeun M, Day NP, Giess A, Johnson JR, Peto TE, Crook DW, Walker AS; Modernizing Medical Microbiology Informatics Group.

J Clin Microbiol. 2015 Jul;53(7):2122-31. doi: 10.1128/JCM.00378-15. Epub 2015 Apr 22.

25.

Klebsiella pneumoniae carbapenemase (KPC)-producing K. pneumoniae at a single institution: insights into endemicity from whole-genome sequencing.

Mathers AJ, Stoesser N, Sheppard AE, Pankhurst L, Giess A, Yeh AJ, Didelot X, Turner SD, Sebra R, Kasarskis A, Peto T, Crook D, Sifri CD.

Antimicrob Agents Chemother. 2015 Mar;59(3):1656-63. doi: 10.1128/AAC.04292-14. Epub 2015 Jan 5.

26.

Dynamics of MDR Enterobacter cloacae outbreaks in a neonatal unit in Nepal: insights using wider sampling frames and next-generation sequencing.

Stoesser N, Sheppard AE, Shakya M, Sthapit B, Thorson S, Giess A, Kelly D, Pollard AJ, Peto TE, Walker AS, Crook DW.

J Antimicrob Chemother. 2015 Apr;70(4):1008-15. doi: 10.1093/jac/dku521. Epub 2015 Jan 3.

27.

Genome sequencing of an extended series of NDM-producing Klebsiella pneumoniae isolates from neonatal infections in a Nepali hospital characterizes the extent of community- versus hospital-associated transmission in an endemic setting.

Stoesser N, Giess A, Batty EM, Sheppard AE, Walker AS, Wilson DJ, Didelot X, Bashir A, Sebra R, Kasarskis A, Sthapit B, Shakya M, Kelly D, Pollard AJ, Peto TE, Crook DW, Donnelly P, Thorson S, Amatya P, Joshi S.

Antimicrob Agents Chemother. 2014 Dec;58(12):7347-57. doi: 10.1128/AAC.03900-14. Epub 2014 Sep 29.

28.

Complete Genome Sequence of Bacillus thuringiensis Strain 407 Cry-.

Sheppard AE, Poehlein A, Rosenstiel P, Liesegang H, Schulenburg H.

Genome Announc. 2013 Jan;1(1). pii: e00158-12. doi: 10.1128/genomeA.00158-12. Epub 2013 Jan 31.

29.

Introducing an RNA editing requirement into a plastid-localised transgene reduces but does not eliminate functional gene transfer to the nucleus.

Sheppard AE, Madesis P, Lloyd AH, Day A, Ayliffe MA, Timmis JN.

Plant Mol Biol. 2011 Jul;76(3-5):299-309. doi: 10.1007/s11103-011-9764-2. Epub 2011 Mar 15.

PMID:
21404088
30.

Instability of plastid DNA in the nuclear genome.

Sheppard AE, Timmis JN.

PLoS Genet. 2009 Jan;5(1):e1000323. doi: 10.1371/journal.pgen.1000323. Epub 2009 Jan 2.

31.

Transfer of plastid DNA to the nucleus is elevated during male gametogenesis in tobacco.

Sheppard AE, Ayliffe MA, Blatch L, Day A, Delaney SK, Khairul-Fahmy N, Li Y, Madesis P, Pryor AJ, Timmis JN.

Plant Physiol. 2008 Sep;148(1):328-36. doi: 10.1104/pp.108.119107. Epub 2008 Jul 25.

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