Related references
Note: Only part of the references are listed.Global burden of bacterial antimicrobial resistance in 2019: a systematic analysis
Christopher J. L. Murray et al.
LANCET (2022)
Tracking Klebsiella pneumoniae carbapenemase gene as an indicator of antimicrobial resistance dissemination from a hospital to surface water via a municipal wastewater treatment plant
Erica M. Loudermilk et al.
WATER RESEARCH (2022)
Genomic dissection of Klebsiella pneumoniae infections in hospital patients reveals insights into an opportunistic pathogen
Claire L. Gorrie et al.
NATURE COMMUNICATIONS (2022)
Genomic Diversity of Hospital-Acquired Infections Revealed through Prospective Whole-Genome Sequencing-Based Surveillance
Mustapha M. Mustapha et al.
MSYSTEMS (2022)
Biofilm characteristics and transcriptomic profiling of Acinetobacter johnsonii defines signatures for planktonic and biofilm cells
Jia Jia et al.
ENVIRONMENTAL RESEARCH (2022)
Antibiotic-resistant organisms establish reservoirs in new hospital built environments and are related to patient blood infection isolates
Kimberley V. Sukhum et al.
COMMUNICATIONS MEDICINE (2022)
Diversity of Carbapenem Resistance Mechanisms in Clinical Gram-Negative Bacteria in Pakistan
Linda Hadjadj et al.
MICROBIAL DRUG RESISTANCE (2021)
inStrain profiles population microdiversity from metagenomic data and sensitively detects shared microbial strains
Matthew R. Olm et al.
NATURE BIOTECHNOLOGY (2021)
Are Sink Drainage Systems a Reservoir for Hospital-Acquired Gammaproteobacteria Colonization and Infection? A Systematic Review
Cheryl Volling et al.
OPEN FORUM INFECTIOUS DISEASES (2021)
Approaches for characterizing and tracking hospital-associated multidrug-resistant bacteria
Kevin S. Blake et al.
CELLULAR AND MOLECULAR LIFE SCIENCES (2021)
Genomic Investigation and Successful Containment of an Intermittent Common Source Outbreak of OXA-48-Producing Enterobacter cloacae Related to Hospital Shower Drains
Dennis Nurjadi et al.
MICROBIOLOGY SPECTRUM (2021)
Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation
Ivica Letunic et al.
NUCLEIC ACIDS RESEARCH (2021)
A relapsed Pseudomonas stutzeri prosthetic valve endocarditis: a case report and review of the literature
Mayyadah Alabdely et al.
JOURNAL OF MEDICAL CASE REPORTS (2021)
Sink drains as reservoirs of VIM-2 metallo-b-lactamase-producing Pseudomonas aeruginosa in a Belgian intensive care unit: relation to patients investigated by whole-genome sequencing
D. De Geyter et al.
JOURNAL OF HOSPITAL INFECTION (2021)
Routine wastewater-based monitoring of antibiotic resistance in two Finnish hospitals: focus on carbapenem resistance genes and genes associated with bacteria causing hospital-acquired infections
J. Majlander et al.
JOURNAL OF HOSPITAL INFECTION (2021)
AMRFinderPlus and the Reference Gene Catalog facilitate examination of the genomic links among antimicrobial resistance, stress response, and virulence
Michael Feldgarden et al.
SCIENTIFIC REPORTS (2021)
Emergence and Genetic Characterization of Plasmid-Encoded VIM-2-Producing Pseudomonas stutzeri with Novel Integron In1998 Isolated from Cerebrospinal Fluid
Shuxiu Liu et al.
INFECTION AND DRUG RESISTANCE (2021)
Outbreak of Pseudomonas aeruginosa producing VIM carbapenemase in an intensive care unit and its termination by implementation of waterless patient care
Gaud Catho et al.
CRITICAL CARE (2021)
GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database
Pierre-Alain Chaumeil et al.
BIOINFORMATICS (2020)
Antimicrobial, anti-biofilm, and anti-proliferative activities of lipopeptide biosurfactant produced by Acinetobacter jleunii B6
Mandana Ohadi et al.
MICROBIAL PATHOGENESIS (2020)
Serratia marcescens in the neonatal intensive care unit: A cluster investigation using molecular methods
Kee T. Yeo et al.
JOURNAL OF INFECTION AND PUBLIC HEALTH (2020)
Systematic detection of horizontal gene transfer across genera among multidrug-resistant bacteria in a single hospital
Daniel R. Evans et al.
ELIFE (2020)
Platon: identification and characterization of bacterial plasmid contigs in short-read draft assemblies exploiting protein sequence-based replicon distribution scores
Oliver Schwengers et al.
MICROBIAL GENOMICS (2020)
Genomic surveillance of Escherichia coli and Klebsiella spp. in hospital sink drains and patients
Bede Constantinides et al.
MICROBIAL GENOMICS (2020)
Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment
Kern Rei Chng et al.
NATURE MEDICINE (2020)
Pathways for horizontal gene transfer in bacteria revealed by a global map of their plasmids
Santiago Redondo-Salvo et al.
NATURE COMMUNICATIONS (2020)
Tracking of Antibiotic Resistance Transfer and Rapid Plasmid Evolution in a Hospital Setting by Nanopore Sequencing
Silke Peter et al.
MSPHERE (2020)
Universal whole-sequence-based plasmid typing and its utility to prediction of host range and epidemiological surveillance
James Robertson et al.
MICROBIAL GENOMICS (2020)
ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R
Emmanuel Paradis et al.
BIOINFORMATICS (2019)
Horizontal transfer of antibiotic resistance genes in clinical environments
Nicole A. Lerminiaux et al.
CANADIAN JOURNAL OF MICROBIOLOGY (2019)
Outbreak investigation of Pseudomonas aeruginosa infections in a neonatal intensive care unit
Mark K. Weng et al.
AMERICAN JOURNAL OF INFECTION CONTROL (2019)
Multicenter Outbreak of Gram-Negative Bloodstream Infections in Hemodialysis Patients
Shannon A. Novosad et al.
AMERICAN JOURNAL OF KIDNEY DISEASES (2019)
Spatiotemporal dynamics of multidrug resistant bacteria on intensive care unit surfaces
Alaric W. D'Souza et al.
NATURE COMMUNICATIONS (2019)
Attributable deaths and disability-adjusted life-years caused by infections with antibiotic-resistant bacteria in the EU and the European Economic Area in 2015: a population-level modelling analysis
Alessandro Cassini et al.
LANCET INFECTIOUS DISEASES (2019)
Mash Screen: high-throughput sequence containment estimation for genome discovery
Brian D. Ondov et al.
GENOME BIOLOGY (2019)
Competence for Natural Transformation Is Common among Clinical Strains of Resistant Acinetobacter spp.
Sara Domingues et al.
MICROORGANISMS (2019)
A Bundle of Measures to Control an Outbreak of Pseudomonas aeruginosa Associated With P-Trap Contamination
Houssein Gbaguidi-Haore et al.
INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY (2018)
Wastewater drains: epidemiology and interventions in 23 carbapenem-resistant organism outbreaks
Philip C. Carling
INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY (2018)
Diversity among blaKPC-containing plasmids in Escherichia coli and other bacterial species isolated from the same patients
Tracy H. Hazen et al.
SCIENTIFIC REPORTS (2018)
MUMmer4: A fast and versatile genome alignment system
Guillaume Marcais et al.
PLOS COMPUTATIONAL BIOLOGY (2018)
Translating genomics into practice for real-time surveillance and response to carbapenemase-producing Enterobacteriaceae: evidence from a complex multi-institutional KPC outbreak
Jason C. Kwong et al.
PEERJ (2018)
A Large, Refractory Nosocomial Outbreak of Klebsiella pneumoniae Carbapenemase-Producing Escherichia coli Demonstrates Carbapenemase Gene Outbreaks Involving Sink Sites Require Novel Approaches to Infection Control
V. Decraene et al.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY (2018)
Investigation of a Cluster of Sphingomonas koreensis Infections
Ryan C. Johnson et al.
NEW ENGLAND JOURNAL OF MEDICINE (2018)
High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
Chirag Jain et al.
NATURE COMMUNICATIONS (2018)
MOB-suite: software tools for clustering, reconstruction and typing of plasmids from draft assemblies
James Robertson et al.
MICROBIAL GENOMICS (2018)
A Serratia marcescens outbreak in a neonatal intensive care unit was successfully managed by rapid hospital hygiene interventions and screening
Emilia Attman et al.
ACTA PAEDIATRICA (2018)
Pseudomonas aeruginosa Outbreak in a Neonatal Intensive Care Unit Attributed to Hospital Tap Water
Cara Bicking Kinsey et al.
INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY (2017)
dRep: a tool for fast and accurate genomic comparisons that enables improved genome recovery from metagenomes through de-replication
Matthew R. Olm et al.
ISME JOURNAL (2017)
Covert dissemination of carbapenemase-producing Klebsiella pneumoniae (KPC) in a successfully controlled outbreak: long- and short-read whole-genome sequencing demonstrate multiple genetic modes of transmission
Jessica Martin et al.
JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY (2017)
Outbreak of NDM-1-Producing Klebsiella pneumoniae in a Dutch Hospital, with Interspecies Transfer of the Resistance Plasmid and Unexpected Occurrence in Unrelated Health Care Centers
Thijs Bosch et al.
JOURNAL OF CLINICAL MICROBIOLOGY (2017)
Multi-institute analysis of carbapenem resistance reveals remarkable diversity, unexplained mechanisms, and limited clonal outbreaks
Gustavo C. Cerqueira et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2017)
Strain-resolved analysis of hospital rooms and infants reveals overlap between the human and room microbiome
Brandon Brooks et al.
NATURE COMMUNICATIONS (2017)
Hospital-Acquired Infections Current Trends and Prevention
Christine Boev et al.
CRITICAL CARE NURSING CLINICS OF NORTH AMERICA (2017)
Evolution of mobile genetic element composition in an epidemic methicillin-resistant Staphylococcus aureus: temporal changes correlated with frequent loss and gain events
Dorota Jamrozy et al.
BMC GENOMICS (2017)
Gastrointestinal Carriage Is a Major Reservoir of Klebsiella pneumoniae Infection in Intensive Care Patients
Claire L. Gorrie et al.
CLINICAL INFECTIOUS DISEASES (2017)
The Hospital Water Environment as a Reservoir for Carbapenem-Resistant Organisms Causing Hospital-Acquired Infections-A Systematic Review of the Literature
Alice E. Kizny Gordon et al.
CLINICAL INFECTIOUS DISEASES (2017)
Nested Russian Doll-Like Genetic Mobility Drives Rapid Dissemination of the Carbapenem Resistance Gene blaKPC
Anna E. Sheppard et al.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY (2016)
Global epidemiology of urinary tract infections
Zafer Tandogdu et al.
CURRENT OPINION IN INFECTIOUS DISEASES (2016)
Microorganisms in Confined Habitats: Microbial Monitoring and Control of Intensive Care Units, Operating Rooms, Cleanrooms and the International Space Station
Maximilian Mora et al.
FRONTIERS IN MICROBIOLOGY (2016)
Roary: rapid large-scale prokaryote pan genome analysis
Andrew J. Page et al.
BIOINFORMATICS (2015)
Regional Isolation Drives Bacterial Diversification within Cystic Fibrosis Lungs
Peter Jorth et al.
CELL HOST & MICROBE (2015)
Update on ventilator-associated pneumonia
Cristina Vazquez Guillamet et al.
CURRENT OPINION IN CRITICAL CARE (2015)
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
Donovan H. Parks et al.
GENOME RESEARCH (2015)
Intensive care unit environmental surfaces are contaminated by multidrug-resistant bacteria in biofilms: combined results of conventional culture, pyrosequencing, scanning electron microscopy, and confocal laser microscopy
H. Hu et al.
JOURNAL OF HOSPITAL INFECTION (2015)
Hospital-associated microbiota and implications for nosocomial infections
Simon Lax et al.
TRENDS IN MOLECULAR MEDICINE (2015)
Contaminated Handwashing Sinks as the Source of a Clonal Outbreak of KPC-2-Producing Klebsiella oxytoca on a Hematology Ward
Eva Leitner et al.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY (2015)
Inexpensive Multiplexed Library Preparation for Megabase-Sized Genomes
Michael Baym et al.
PLOS ONE (2015)
KPC and NDM-1 Genes in Related Enterobacteriaceae Strains and Plasmids from Pakistan and the United States
Mitchell W. Pesesky et al.
EMERGING INFECTIOUS DISEASES (2015)
Prokka: rapid prokaryotic genome annotation
Torsten Seemann
BIOINFORMATICS (2014)
Trimmomatic: a flexible trimmer for Illumina sequence data
Anthony M. Bolger et al.
BIOINFORMATICS (2014)
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
Alexandros Stamatakis
BIOINFORMATICS (2014)
Evidence that contaminated surfaces contribute to the transmission of hospital pathogens and an overview of strategies to address contaminated surfaces in hospital settings
Jonathan A. Otter et al.
AMERICAN JOURNAL OF INFECTION CONTROL (2013)
QUAST: quality assessment tool for genome assemblies
Alexey Gurevich et al.
BIOINFORMATICS (2013)
Down the drain: carbapenem-resistant bacteria in intensive care unit patients and handwashing sinks
Despina Kotsanas et al.
MEDICAL JOURNAL OF AUSTRALIA (2013)
Genome Analysis of a Transmissible Lineage of Pseudomonas aeruginosa Reveals Pathoadaptive Mutations and Distinct Evolutionary Paths of Hypermutators
Rasmus Lykke Marvig et al.
PLOS GENETICS (2013)
Fast gapped-read alignment with Bowtie 2
Ben Langmead et al.
NATURE METHODS (2012)
The rising problem of antimicrobial resistance in the intensive care unit
Nele Brusselaers et al.
ANNALS OF INTENSIVE CARE (2011)
BEDTools: a flexible suite of utilities for comparing genomic features
Aaron R. Quinlan et al.
BIOINFORMATICS (2010)
Mobility of Plasmids
Chris Smillie et al.
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS (2010)
BLAST plus : architecture and applications
Christiam Camacho et al.
BMC BIOINFORMATICS (2009)
Enhanced biofilm formation and increased resistance to antimicrobial agents and bacterial invasion are caused by synergistic interactions in multispecies biofilms
Mette Burmolle et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2006)
Genetic adaptation by Pseudomonas aeruginosa to the airways of cystic fibrosis patients
Eric E. Smith et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)
Cytoscape: A software environment for integrated models of biomolecular interaction networks
P Shannon et al.
GENOME RESEARCH (2003)
Aerators as a reservoir of Acinetobacter junii: an outbreak of bacteraemia in paediatric oncology patients
I Kappstein et al.
JOURNAL OF HOSPITAL INFECTION (2000)
Share Paper
