Single-molecule sequencing to track plasmid diversity of hospital-associated carbapenemase-producing Enterobacteriaceae

Health care: Bring microbial sequencing to hospitals

(2014) Sharon Peacock   NATURE

Managing Transmission of Carbapenem-Resistant Enterobacteriaceae in Healthcare Settings: A View From the Trenches

(2013) T. N. Palmore et al.   CLINICAL INFECTIOUS DISEASES

10 x '20 Progress--Development of New Drugs Active Against Gram-Negative Bacilli: An Update From the Infectious Diseases Society of America

(2013) H. W. Boucher et al.   CLINICAL INFECTIOUS DISEASES

Entering the era of bacterial epigenomics with single molecule real time DNA sequencing

(2013) Brigid M Davis et al.   CURRENT OPINION IN MICROBIOLOGY

Reversion to susceptibility of a carbapenem-resistant clinical isolate of Klebsiella pneumoniae producing KPC-3

(2013) L. Villa et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

“Down the drain”: carbapenem-resistant bacteria in intensive care unit patients and handwashing sinks

(2013) Despina Kotsanas et al.   MEDICAL JOURNAL OF AUSTRALIA

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

(2013) Chen-Shan Chin et al.   NATURE METHODS

The Time Is Now for Gene- and Genome-Based Bacterial Diagnostics

(2013) Garth D. Ehrlich et al.   JAMA Internal Medicine

Klebsiella pneumoniae ST258 Producing KPC-3 Identified in Italy Carries Novel Plasmids and OmpK36/OmpK35 Porin Variants

(2012) Aurora García-Fernández et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

A carbapenem-resistant Klebsiella pneumoniae epidemic clone in Jerusalem: sequence type 512 carrying a plasmid encoding aac(6')-Ib

(2012) G. Warburg et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Development of a Clinically Comprehensive Database and a Simple Procedure for Identification of Molds from Solid Media by Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry

(2012) Anna F. Lau et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Pan-PCR, a Computational Method for Designing Bacterium-Typing Assays Based on Whole-Genome Sequence Data

(2012) Joy Y. Yang et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study

(2012) Simon R Harris et al.   LANCET INFECTIOUS DISEASES

Emergence of carbapenem-resistant Enterobacteriaceae as causes of bloodstream infections in patients with hematologic malignancies

(2012) Michael J. Satlin et al.   LEUKEMIA & LYMPHOMA

Transforming clinical microbiology with bacterial genome sequencing

(2012) Xavier Didelot et al.   NATURE REVIEWS GENETICS

Tracking a Hospital Outbreak of Carbapenem-Resistant Klebsiella pneumoniae with Whole-Genome Sequencing

(2012) E. S. Snitkin et al.   Science Translational Medicine

Carbapenem resistance in Enterobacteriaceae: here is the storm!

(2012) Patrice Nordmann et al.   TRENDS IN MOLECULAR MEDICINE

Routine Use of Microbial Whole Genome Sequencing in Diagnostic and Public Health Microbiology

(2012) Claudio U. Köser et al.   PLoS Pathogens

Hawkeye and AMOS: visualizing and assessing the quality of genome assemblies

(2011) M. C. Schatz et al.   BRIEFINGS IN BIOINFORMATICS

Outcome of carbapenem resistant Klebsiella pneumoniae bloodstream infections

(2011) D. Ben-David et al.   CLINICAL MICROBIOLOGY AND INFECTION

Multilocus sequence typing of IncN plasmids

(2011) Aurora García-Fernández et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Evidence for several waves of global transmission in the seventh cholera pandemic

(2011) Ankur Mutreja et al.   NATURE

Origins of theE. coliStrain Causing an Outbreak of Hemolytic–Uremic Syndrome in Germany

(2011) David A. Rasko et al.   NEW ENGLAND JOURNAL OF MEDICINE

Whole-Genome Sequencing and Social-Network Analysis of a Tuberculosis Outbreak

(2011) Jennifer L. Gardy et al.   NEW ENGLAND JOURNAL OF MEDICINE

Genome-wide recombination drives diversification of epidemic strains of Acinetobacter baumannii

(2011) E. S. Snitkin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Complete Nucleotide Sequence of KPC-3-Encoding Plasmid pKpQIL in the Epidemic Klebsiella pneumoniae Sequence Type 258

(2010) A. Leavitt et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Systematic comparison of three genomic enrichment methods for massively parallel DNA sequencing

(2010) J. K. Teer et al.   GENOME RESEARCH

A flexible and efficient template format for circular consensus sequencing and SNP detection

(2010) K. J. Travers et al.   NUCLEIC ACIDS RESEARCH

Evolution of MRSA During Hospital Transmission and Intercontinental Spread

(2010) S. R. Harris et al.   SCIENCE

Genetic Organization of Transposase Regions Surrounding blaKPC Carbapenemase Genes on Plasmids from Klebsiella Strains Isolated in a New York City Hospital

(2009) T. D. Gootz et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Genetic diversity of capsular polysaccharide biosynthesis in Klebsiella pneumoniae clinical isolates

(2009) H.-Y. Shu et al.   MICROBIOLOGY-SGM

Outbreak of Multidrug-Resistant Pseudomonas aeruginosa Colonization and Infection Secondary to Imperfect Intensive Care Unit Room Design

(2008) Susy Hota et al.   INFECTION CONTROL AND HOSPITAL EPIDEMIOLOGY

Rapid Detection of blaKPC Carbapenemase Genes by Real-Time PCR

(2008) M. Hindiyeh et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Real-Time DNA Sequencing from Single Polymerase Molecules

(2008) J. Eid et al.   SCIENCE