Modern clinical microbiology: new challenges and solutions

The gut microbiota of a patient with resistant tuberculosis is more comprehensively studied by culturomics than by metagenomics

(2013) G. Dubourg et al.   EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES

Whole-genome sequences of Chlamydia trachomatis directly from clinical samples without culture

(2013) H. M. B. Seth-Smith et al.   GENOME RESEARCH

Metagenomics, Infectious Disease Diagnostics, and Outbreak Investigations

(2013) David A. Relman   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

A Genomic Day in the Life of a Clinical Microbiology Laboratory

(2013) S. W. Long et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Deciphering Genomic Virulence Traits of a Staphylococcus epidermidis Strain Causing Native-Valve Endocarditis

(2013) P.-E. Fournier et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Hierarchical clustering as a rapid tool for surveillance of emerging antibiotic-resistance phenotypes in Klebsiella pneumoniae strains

(2013) Meryem Berrazeg et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Molecular Epidemiology of Community-Associated Methicillin-resistant Staphylococcus aureus in the genomic era: a Cross-Sectional Study

(2013) Mattia Prosperi et al.   Scientific Reports

A pilot study of rapid whole-genome sequencing for the investigation of aLegionellaoutbreak

(2013) Sandra Reuter et al.   BMJ Open

Point-of-Care Laboratory of Pathogen Diagnosis in Rural Senegal

(2013) Cheikh Sokhna et al.   PLoS Neglected Tropical Diseases

Shiga Toxin-Producing Escherichia coli O104:H4: a New Challenge for Microbiology

(2012) Maite Muniesa et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Identification and diversity of multiresistant Corynebacterium striatum clinical isolates by MALDI-TOF mass spectrometry and by a multigene sequencing approach

(2012) Margarita Gomila et al.   BMC MICROBIOLOGY

Evaluation of the Xpert Flu test and comparison with in-house real-time RT-PCR assays for detection of influenza virus from 2008 to 2011 in Marseille, France

(2012) N. Salez et al.   CLINICAL MICROBIOLOGY AND INFECTION

Rapid and Sensitive Detection of Major Uropathogens in a Single-Pot Multiplex PCR Assay

(2012) B. Padmavathy et al.   CURRENT MICROBIOLOGY

Point-of-care testing for sexually transmitted infections

(2012) Joseph D. Tucker et al.   CURRENT OPINION IN INFECTIOUS DISEASES

Clinical and economic impact of rapid reporting of bacterial identification and antimicrobial susceptibility results of the most frequently processed specimen types

(2012) A. Galar et al.   EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES

MALDI-TOF mass spectrometry and microsatellite markers to evaluate Candida parapsilosis transmission in neonatal intensive care units

(2012) G. Pulcrano et al.   EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES

Next-generation and whole-genome sequencing in the diagnostic clinical microbiology laboratory

(2012) W. M. Dunne et al.   EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES

Rapid whole-genome sequencing of bacterial pathogens in the clinical microbiology laboratory--pipe dream or reality?

(2012) M. E. Torok et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Multiplex PCR for Rapid and Improved Diagnosis of Bloodstream Infections in Liver Transplant Recipients

(2012) Peter-Michael Rath et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Identification of Blood Culture Isolates Directly from Positive Blood Cultures by Use of Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry and a Commercial Extraction System: Analysis of Performance, Cost, and Turnaround Time

(2012) P. R. S. Lagace-Wiens et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Detection of NDM-1, VIM-1, KPC, OXA-48, and OXA-162 Carbapenemases by Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry

(2012) J. Hrabak et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Clinical and economic evaluation of the impact of rapid microbiological diagnostic testing

(2012) A. Galar et al.   JOURNAL OF INFECTION

Emergence and global spread of epidemic healthcare-associated Clostridium difficile

(2012) Miao He et al.   NATURE GENETICS

Transforming clinical microbiology with bacterial genome sequencing

(2012) Xavier Didelot et al.   NATURE REVIEWS GENETICS

The human microbiome: ecosystem resilience and health

(2012) David A Relman   NUTRITION REVIEWS

Developmental stage-specific metabolic and transcriptional activity of Chlamydia trachomatis in an axenic medium

(2012) A. Omsland et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

Axenic culture of fastidious and intracellular bacteria

(2012) Sudhir Singh et al.   TRENDS IN MICROBIOLOGY

Rapid Clinical Bacteriology and Its Future Impact

(2012) Alex van Belkum et al.   Annals of Laboratory Medicine

A pilot study of rapid benchtop sequencing ofStaphylococcus aureusandClostridium difficilefor outbreak detection and surveillance

(2012) David W Eyre et al.   BMJ Open

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

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

A Novel Rhabdovirus Associated with Acute Hemorrhagic Fever in Central Africa

(2012) Gilda Grard et al.   PLoS Pathogens

The future of diagnostic bacteriology

(2011) S. Matthews et al.   CLINICAL MICROBIOLOGY AND INFECTION

Comparative detection of enterovirus RNA in cerebrospinal fluid: GeneXpert system vs. real-time RT-PCR assay

(2011) L. Ninove et al.   CLINICAL MICROBIOLOGY AND INFECTION

Automation in clinical bacteriology: what system to choose?

(2011) G. Greub et al.   CLINICAL MICROBIOLOGY AND INFECTION

Raman spectroscopy: lighting up the future of microbial identification

(2011) Lorna Ashton et al.   Future Microbiology

Real-time PCR assay allows detection of the New Delhi metallo-β-lactamase (NDM-1)-encoding gene in France

(2011) Seydina M. Diene et al.   INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Using Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry To Detect Carbapenem Resistance within 1 to 2.5 Hours

(2011) Irene Burckhardt et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Carbapenemase Activity Detection by Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry

(2011) Jaroslav Hrabák et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Characterization of β-Lactamase Enzyme Activity in Bacterial Lysates using MALDI-Mass Spectrometry

(2011) Gero P. Hooff et al.   JOURNAL OF PROTEOME RESEARCH

Open-Source Genomic Analysis of Shiga-Toxin–ProducingE. coliO104:H4

(2011) Holger Rohde 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

Revolutionizing Clinical Microbiology Laboratory Organization in Hospitals with In Situ Point-of-Care

(2011) Stéphan Cohen-Bacrie et al.   PLoS One

Prospective Genomic Characterization of the German Enterohemorrhagic Escherichia coli O104:H4 Outbreak by Rapid Next Generation Sequencing Technology

(2011) Alexander Mellmann et al.   PLoS One

Prospects for the Future Using Genomics and Proteomics in Clinical Microbiology

(2010) Pierre-Edouard Fournier et al.   Annual Review of Microbiology

Multiplex quantitative PCR for detection of lower respiratory tract infection and meningitis caused by Streptococcus pneumoniae, Haemophilus influenzae and Neisseria meningitidis

(2010) Guma MK Abdeldaim et al.   BMC MICROBIOLOGY

Comprehensive Diagnostic Strategy for Blood Culture–Negative Endocarditis: A Prospective Study of 819 New Cases

(2010) Pierre‐Edouard Fournier et al.   CLINICAL INFECTIOUS DISEASES

Routine use of point-of-care tests: usefulness and application in clinical microbiology

(2010) O. Clerc et al.   CLINICAL MICROBIOLOGY AND INFECTION

Detection and accurate identification of new or emerging bacteria in cystic fibrosis patients

(2010) F. Bittar et al.   CLINICAL MICROBIOLOGY AND INFECTION

A novel method for the rapid and prospective identification of Beijing Mycobacterium tuberculosis strains by high-resolution melting analysis

(2010) M. Alonso et al.   CLINICAL MICROBIOLOGY AND INFECTION

Navigating the future of bacterial molecular epidemiology

(2010) Stephen Baker et al.   CURRENT OPINION IN MICROBIOLOGY

Electronic nose analysis of bronchoalveolar lavage fluid

(2010) Lee Humphreys et al.   EUROPEAN JOURNAL OF CLINICAL INVESTIGATION

MALDI-TOF-mass spectrometry applications in clinical microbiology

(2010) Piseth Seng et al.   Future Microbiology

Pulsed field gel electrophoresis: A review of application and interpretation in the molecular epidemiology of infectious disease

(2010) Richard V. Goering   INFECTION GENETICS AND EVOLUTION

Tentative Characterization of New Environmental Giant Viruses by MALDI-TOF Mass Spectrometry

(2010) Bernard La Scola et al.   INTERVIROLOGY

Direct Identification of Urinary Tract Pathogens from Urine Samples by Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry

(2010) L. Ferreira et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Real-Time Identification of Bacteria and Candida Species in Positive Blood Culture Broths by Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry

(2010) A. Ferroni et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Performance of Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry for Identification of Bacterial Strains Routinely Isolated in a Clinical Microbiology Laboratory

(2010) A. Bizzini et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Strange World of Emergency Medicine

(2010) Didier Raoult   JOURNAL OF EMERGENCY MEDICINE

High-throughput whole-genome sequencing to dissect the epidemiology of Acinetobacter baumannii isolates from a hospital outbreak

(2010) T. Lewis et al.   JOURNAL OF HOSPITAL INFECTION

The Origin of the Haitian Cholera Outbreak Strain

(2010) Chen-Shan Chin et al.   NEW ENGLAND JOURNAL OF MEDICINE

Comparative Genome Analysis Provides Insights into the Evolution and Adaptation of Pseudomonas syringae pv. aesculi on Aesculus hippocastanum

(2010) Sarah Green et al.   PLoS One

Molecular complexity of successive bacterial epidemics deconvoluted by comparative pathogenomics

(2010) S. B. Beres et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ongoing Revolution in Bacteriology: Routine Identification of Bacteria by Matrix‐Assisted Laser Desorption Ionization Time‐of‐Flight Mass Spectrometry

(2009) Piseth Seng et al.   CLINICAL INFECTIOUS DISEASES

Diagnosis of Coxiella burnetii pericarditis by using a systematic prescription kit in cases of pericardial effusion: an 8-year experience

(2009) P.Y. Levy et al.   CLINICAL MICROBIOLOGY AND INFECTION

Genome sequencing of linezolid-resistant Streptococcus pneumoniae mutants reveals novel mechanisms of resistance

(2009) J. Feng et al.   GENOME RESEARCH

Filamentous fungal characterizations by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry

(2009) C. Santos et al.   JOURNAL OF APPLIED MICROBIOLOGY

High Prevalence of Fastidious Bacteria in 1520 Cases of Uveitis of Unknown Etiology

(2009) Michel Drancourt et al.   MEDICINE

Detection of Mycobacterium tuberculosis complex organisms in the stools of patients with pulmonary tuberculosis

(2009) A. El Khechine et al.   MICROBIOLOGY-SGM

Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic

(2009) Gavin J. D. Smith et al.   NATURE

A High Speed Detection Platform Based on Surface-Enhanced Raman Scattering for Monitoring Antibiotic-Induced Chemical Changes in Bacteria Cell Wall

(2009) Ting-Ting Liu et al.   PLoS One

Direct Identification of Bacteria in Positive Blood Culture Bottles by Matrix-Assisted Laser Desorption Ionisation Time-of-Flight Mass Spectrometry

(2009) Bernard La Scola et al.   PLoS One

Host cell-free growth of the Q fever bacterium Coxiella burnetii

(2009) A. Omsland et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genetic Detection and Characterization of Lujo Virus, a New Hemorrhagic Fever–Associated Arenavirus from Southern Africa

(2009) Thomas Briese et al.   PLoS Pathogens

Global trends in emerging infectious diseases

(2008) Kate E. Jones et al.   NATURE

Ibis T5000: a universal biosensor approach for microbiology

(2008) David J. Ecker et al.   NATURE REVIEWS MICROBIOLOGY

A New Arenavirus in a Cluster of Fatal Transplant-Associated Diseases

(2008) Gustavo Palacios et al.   NEW ENGLAND JOURNAL OF MEDICINE