Whole-genome sequencing of bacterial pathogens: The future of nosocomial outbreak analysis

Clinical Microbiology Reviews

Volumn 30, Issue 4, 2017, Pages 1015-1063

  Quainoo, Scott ^a   Coolen, Jordy P M ^b   van Hijum, Sacha A F T ^b,c   Huynen, Martijn A ^b   Melchers, Willem J G ^b   van Schaik, Willem ^d   Wertheim, Heiman F L ^b  

^a RADBOUD UNIVERSITY NIJMEGEN   (Netherlands)

^b RADBOUD UNIVERSITY MEDICAL CENTER   (Netherlands)

^c NIZO FOOD RESEARCH   (Netherlands)

^d UNIVERSITY OF BIRMINGHAM   (United Kingdom)

Author keywords

Bioinformatics; Intensive care units; Next generation sequencing; Nosocomial infections; Outbreak analysis; Outbreak management; Pathogen surveillance; Point of care; Whole genome sequencing

Indexed keywords

CONTIG;

ACINETOBACTER; ANTIBIOTIC RESISTANCE; ARTIFICIAL VENTILATION; BACTERIAL INFECTION; BACTERIAL PATHOGEN; BACTERIAL VIRULENCE; BIOINFORMATICS; BLOODSTREAM INFECTION; COMPARATIVE GENOMICS; DISEASE TRANSMISSION; DNA SEQUENCE; DRAIN; DRUG SENSITIVITY; FRANCISELLA TULARENSIS; GASTROINTESTINAL INFECTION; GENETIC ALGORITHM; GENOME CHARACTERIZATION; GENOTYPE; HEALTH CARE PERSONNEL; HOSPITAL INFECTION; HOSPITAL MORTALITY; HUMAN; INFECTIOUS AGENT; INTENSIVE CARE UNIT; INTRATRACHEAL TUBE; INTRAVASCULAR CATHETER; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MICROBIAL GENOME; MOLECULAR DIAGNOSIS; MULTIDRUG RESISTANCE; MULTILOCUS SEQUENCE TYPING; NEXT GENERATION SEQUENCING; NONHUMAN; OUTBREAK MANAGEMENT; PANGENOME; PHYLOGENY; PNEUMONIA; POINT OF CARE TESTING; POLYMERASE CHAIN REACTION; PULSED FIELD GEL ELECTROPHORESIS; REAL TIME SEQUENCING; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; REVIEW; SALMONELLA ENTERICA SEROVAR TYPHIMURIUM; SINGLE NUCLEOTIDE POLYMORPHISM; STAPHYLOCOCCUS; STREPTOCOCCUS PNEUMONIA; VARIABLE NUMBER OF TANDEM REPEAT; VIRULENCE GENE TYPING; WHOLE GENOME SEQUENCING; BACTERIAL GENOME; BACTERIAL INFECTIONS; CROSS INFECTION; GENETICS; MICROBIOLOGY; TRANSMISSION;

BACTERIAL INFECTIONS; CROSS INFECTION; GENOME, BACTERIAL; GENOTYPE; HUMANS; SEQUENCE ANALYSIS, DNA;

EID: 85028621580     PISSN: 08938512     EISSN: 10986618     Source Type: Journal    
DOI: 10.1128/CMR.00016-17     Document Type: Review

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