Core genome MLST as an essential tool in a high cost livestock associated MRSA CC398 hospital outbreak.

[1]  Jennifer L. Fang,et al.  Whole-genome sequencing for methicillin-resistant Staphylococcus aureus (MRSA) outbreak investigation in a neonatal intensive care unit , 2018, Infection Control & Hospital Epidemiology.

[2]  Nabil-Fareed Alikhan,et al.  Comparative analysis of core genome MLST and SNP typing within a European Salmonella serovar Enteritidis outbreak , 2018, International journal of food microbiology.

[3]  A. Petersen,et al.  Staphylococcal aureus Enterotoxin C and Enterotoxin-Like L Associated with Post-partum Mastitis , 2017, Front. Microbiol..

[4]  R. Biassoni,et al.  Whole-genome sequencing as standard practice for the analysis of clonality in outbreaks of meticillin-resistant Staphylococcus aureus in a paediatric setting. , 2016, The Journal of hospital infection.

[5]  L. Schouls,et al.  Changing characteristics of livestock-associated meticillin-resistant Staphylococcus aureus isolated from humans - emergence of a subclade transmitted without livestock exposure, the Netherlands, 2003 to 2014. , 2016, Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin.

[6]  R. Kaas,et al.  Fatal Septicemia Linked to Transmission of MRSA Clonal Complex 398 in Hospital and Nursing Home, Denmark , 2016, Emerging infectious diseases.

[7]  L. Schouls,et al.  Next-Generation Sequencing Confirms Presumed Nosocomial Transmission of Livestock-Associated Methicillin-Resistant Staphylococcus aureus in the Netherlands , 2016, Applied and Environmental Microbiology.

[8]  Marco Salemi,et al.  Whole-Genome Sequencing for Outbreak Investigations of Methicillin-Resistant Staphylococcus aureus in the Neonatal Intensive Care Unit: Time for Routine Practice? , 2015, Infection Control & Hospital Epidemiology.

[9]  P. Worning,et al.  Monitoring meticillin resistant Staphylococcus aureus and its spread in Copenhagen, Denmark, 2013, through routine whole genome sequencing. , 2015, Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin.

[10]  P. Worning,et al.  Comparing Whole-Genome Sequencing with Sanger Sequencing for spa Typing of Methicillin-Resistant Staphylococcus aureus , 2014, Journal of Clinical Microbiology.

[11]  Torsten Seemann,et al.  Prokka: rapid prokaryotic genome annotation , 2014, Bioinform..

[12]  P. Worning,et al.  Variations in the Staphylococcus aureus-specific nuc gene can potentially lead to misidentification of meticillin-susceptible and -resistant S. aureus. , 2014, Journal of medical microbiology.

[13]  L. Schouls,et al.  Livestock-Associated MRSA Carriage in Patients without Direct Contact with Livestock , 2014, PloS one.

[14]  Ole Lund,et al.  In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing , 2014, Antimicrobial Agents and Chemotherapy.

[15]  Ole Lund,et al.  Real-Time Whole-Genome Sequencing for Routine Typing, Surveillance, and Outbreak Detection of Verotoxigenic Escherichia coli , 2014, Journal of Clinical Microbiology.

[16]  Alexandros Stamatakis,et al.  RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies , 2014, Bioinform..

[17]  L. Leibovici,et al.  Cost-benefit of infection control interventions targeting methicillin-resistant Staphylococcus aureus in hospitals: systematic review. , 2013, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[18]  L. Price,et al.  Rapid Differentiation between Livestock-Associated and Livestock-Independent Staphylococcus aureus CC398 Clades , 2013, PloS one.

[19]  Dmitry Antipov,et al.  Assembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products , 2013, J. Comput. Biol..

[20]  A. van der Zee,et al.  Review of a major epidemic of methicillin-resistant Staphylococcus aureus: the costs of screening and consequences of outbreak management. , 2013, American journal of infection control.

[21]  Julian Parkhill,et al.  Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study , 2013, The Lancet. Infectious Diseases.

[22]  B. Diep Use of whole-genome sequencing for outbreak investigations. , 2013, The Lancet. Infectious diseases.

[23]  Michael Kube,et al.  MRSA Transmission on a Neonatal Intensive Care Unit: Epidemiological and Genome-Based Phylogenetic Analyses , 2013, PloS one.

[24]  D. Huson,et al.  Dendroscope 3: an interactive tool for rooted phylogenetic trees and networks. , 2012, Systematic biology.

[25]  S. Rasmussen,et al.  Identification of acquired antimicrobial resistance genes , 2012, The Journal of antimicrobial chemotherapy.

[26]  J. Richardus,et al.  Emergence of MRSA of unknown origin in the Netherlands. , 2012, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[27]  Julian Parkhill,et al.  Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak. , 2012, The New England journal of medicine.

[28]  Daniel J. Wilson,et al.  A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance , 2012, BMJ Open.

[29]  J. Kluytmans,et al.  Outbreak of Methicillin-Resistant Staphylococcus aureus ST398 in a Dutch Nursing Home , 2012, Infection Control & Hospital Epidemiology.

[30]  Maliha Aziz,et al.  Staphylococcus aureus CC398: Host Adaptation and Emergence of Methicillin Resistance in Livestock , 2012, mBio.

[31]  Tara C Smith,et al.  The emergence of Staphylococcus aureus ST398. , 2011, Vector borne and zoonotic diseases.

[32]  J. Reilly,et al.  Costs of healthcare-associated methicillin-resistant Staphylococcus aureus and its control. , 2010, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[33]  B. Spratt,et al.  Geographic Distribution of Staphylococcus aureus Causing Invasive Infections in Europe: A Molecular-Epidemiological Analysis , 2010, PLoS medicine.

[34]  G L French,et al.  Laboratory tools and strategies for methicillin-resistant Staphylococcus aureus screening, surveillance and typing: state of the art and unmet needs. , 2009, Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases.

[35]  E. Birney,et al.  Velvet: algorithms for de novo short read assembly using de Bruijn graphs. , 2008, Genome research.

[36]  A. Voss,et al.  First outbreak of methicillin-resistant Staphylococcus aureus ST398 in a Dutch hospital, June 2007. , 2008, Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin.

[37]  A. Mellmann,et al.  Automated DNA Sequence-Based Early Warning System for the Detection of Methicillin-Resistant Staphylococcus aureus Outbreaks , 2006, PLoS medicine.

[38]  S. Cosgrove,et al.  The Impact of Methicillin Resistance in Staphylococcus aureus Bacteremia on Patient Outcomes: Mortality, Length of Stay, and Hospital Charges , 2005, Infection Control & Hospital Epidemiology.

[39]  P. Francioli,et al.  Epidemiological Validation of Pulsed-Field Gel Electrophoresis Patterns for Methicillin-ResistantStaphylococcus aureus , 2001, Journal of Clinical Microbiology.

[40]  M. Achtman,et al.  Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[41]  Rene S. Hendriksen,et al.  DANMAP 2016 - Use of antimicrobial agents and occurrence of antimicrobial resistance in bacteria from food animals, food and humans in Denmark , 2017 .

[42]  V. Anttila,et al.  Costs of an outbreak of meticillin-resistant Staphylococcus aureus. , 2007, The Journal of hospital infection.

[43]  F. Mooi,et al.  Molecular typing of methicillin-resistantStaphylococcus aureus on the basis of protein A gene polymorphism , 2005, European Journal of Clinical Microbiology and Infectious Diseases.