Defining nosocomial transmission of Escherichia coli and antimicrobial resistance genes: a genomic surveillance study

[1]  J. Parkhill,et al.  Quantifying acquisition and transmission of Enterococcus faecium using genomic surveillance , 2020, Nature microbiology.

[2]  N. Woodford,et al.  Extended-spectrum β-lactamase-producing Escherichia coli in human-derived and foodchain-derived samples from England, Wales, and Scotland: an epidemiological surveillance and typing study. , 2019, The Lancet. Infectious diseases.

[3]  J. Parkhill,et al.  A One Health Study of the Genetic Relatedness of Klebsiella pneumoniae and Their Mobile Elements in the East of England , 2019, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.

[4]  M. Steinbakk,et al.  Transfer of a blaCTX-M-1-carrying plasmid between different Escherichia coli strains within the human gut explored by whole genome sequencing analyses , 2018, Scientific Reports.

[5]  J. Parkhill,et al.  Longitudinal genomic surveillance of multidrug-resistant Escherichia coli carriage in a long-term care facility in the United Kingdom , 2017, Genome Medicine.

[6]  Jukka Corander,et al.  Systematic longitudinal survey of invasive Escherichia coli in England demonstrates a stable population structure only transiently disturbed by the emergence of ST131 , 2017, Genome research.

[7]  Sergio Arredondo-Alonso,et al.  On the (im)possibility of reconstructing plasmids from whole-genome short-read sequencing data , 2017, bioRxiv.

[8]  Julian Parkhill,et al.  ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads , 2017, bioRxiv.

[9]  N. Woodford,et al.  Trends in ExPEC serogroups in the UK and their significance , 2016, European Journal of Clinical Microbiology & Infectious Diseases.

[10]  Andrew J. Page,et al.  Roary: rapid large-scale prokaryote pan genome analysis , 2015, bioRxiv.

[11]  J. R. Johnson,et al.  Extensive Within-Host Diversity in Fecally Carried Extended-Spectrum-Beta-Lactamase-Producing Escherichia coli Isolates: Implications for Transmission Analyses , 2015, Journal of Clinical Microbiology.

[12]  F. Scheutz,et al.  Prevalence and Characteristics of the Epidemic Multiresistant Escherichia coli ST131 Clonal Group among Extended-Spectrum Beta-Lactamase-Producing E. coli Isolates in Copenhagen, Denmark , 2013, Journal of Clinical Microbiology.

[13]  Maliha Aziz,et al.  Abrupt emergence of a single dominant multidrug-resistant strain of Escherichia coli. , 2013, The Journal of infectious diseases.

[14]  M. Bonten,et al.  Effects of confounders and intermediates on the association of bacteraemia caused by extended-spectrum β-lactamase-producing Enterobacteriaceae and patient outcome: a meta-analysis. , 2012, The Journal of antimicrobial chemotherapy.

[15]  Julian Parkhill,et al.  Evolution of MRSA During Hospital Transmission and Intercontinental Spread , 2010, Science.

[16]  E. Domann,et al.  Conjugative IncFI plasmids carrying CTX-M-15 among Escherichia coli ESBL producing isolates at a University hospital in Germany , 2009, BMC infectious diseases.

[17]  Y. Carmeli,et al.  Mortality and delay in effective therapy associated with extended-spectrum beta-lactamase production in Enterobacteriaceae bacteraemia: a systematic review and meta-analysis. , 2007, The Journal of antimicrobial chemotherapy.

[18]  I. Petersen,et al.  Mortality following bacteraemic infection caused by extended spectrum beta-lactamase (ESBL) producing E. coli compared to non-ESBL producing E. coli. , 2007, The Journal of infection.

[19]  G. Fadda,et al.  Predictors of Mortality in Patients with Bloodstream Infections Caused by Extended-Spectrum-β-Lactamase-Producing Enterobacteriaceae: Importance of Inadequate Initial Antimicrobial Treatment , 2007, Antimicrobial Agents and Chemotherapy.

[20]  A. Carattoli,et al.  Identification of plasmids by PCR-based replicon typing. , 2005, Journal of microbiological methods.

[21]  D. Hughes,et al.  Mutation Rate and Evolution of Fluoroquinolone Resistance in Escherichia coli Isolates from Patients with Urinary Tract Infections , 2003, Antimicrobial Agents and Chemotherapy.

[22]  Daniel J Sexton,et al.  Health CareAssociated Bloodstream Infections in Adults: A Reason To Change the Accepted Definition of Community-Acquired Infections , 2002, Annals of Internal Medicine.

[23]  C. Mcnulty,et al.  English surveillance programme for antimicrobial utilisation and resistance (ESPAUR) 2010 to 2014: report 2015 , 2015 .