ArticleGenome medicine2014
Genomic epidemiology of a protracted hospital outbreak caused by multidrug-resistant Acinetobacter baumannii in Birmingham, England.
Article in Genome medicine, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed.
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- High-accuracy SNV calling for bacterial isolates using deep learning with AccuSNV.bioRxiv : the preprint server for biology · 2025Article
- Multidrug-ResistantAntibiotics (Basel, Switzerland) · 2023Review
- Single Nucleotide Polymorphism-Based Real-Time PCR Screening Assay for Rapid Tracking of Bacterial Infection Clusters To Complement Whole-Genome Sequencing Efforts during Outbreak Investigations.Microbiology spectrum · 2022Article
- Genomic landscape of prominent XDR Acinetobacter clonal complexes from Dhaka, Bangladesh.BMC genomics · 2022Article
- The microbial ecology of Escherichia coli in the vertebrate gut.FEMS microbiology reviews · 2022Review
- Genomic Epidemiology Links Burkholderia pseudomallei from Individual Human Cases to B. pseudomallei from Targeted Environmental Sampling in Northern Australia.Journal of clinical microbiology · 2022Article
- Whole Genome Multi-Locus Sequence Typing and Genomic Single Nucleotide Polymorphism Analysis for Epidemiological Typing ofFrontiers in microbiology · 2022Article
- Risk Factors for and Clinical Outcomes of PolymicrobialBioMed research international · 2022Observational
- Whole-genome analysis of carbapenem-resistantComputational and structural biotechnology journal · 2022Article
- Pan-Resistome Characterization of UropathogenicAntibiotics (Basel, Switzerland) · 2021Article
- Whole-Genome Sequencing Elucidates the Epidemiology of Multidrug-ResistantFrontiers in microbiology · 2021Article
- Genomic biosurveillance of forest invasive alien enemies: A story written in code.Evolutionary applications · 2020Review
- Article
- An epidemiological and molecular study regarding the spread of vancomycin-resistant Enterococcus faecium in a teaching hospital in Bogotá, Colombia 2016.BMC infectious diseases · 2019Article
- Genomic epidemiology of multidrug-resistant Gram-negative organisms.Annals of the New York Academy of Sciences · 2019Review
- A step-by-step beginner's protocol for whole genome sequencing of human bacterial pathogens.Journal of biological methods · 2019Article
- De Novo Mutations Resolve Disease Transmission Pathways in Clonal Malaria.Molecular biology and evolution · 2018Article
- Comparative genomic analysis of Acinetobacter spp. plasmids originating from clinical settings and environmental habitats.Scientific reports · 2018Article
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Authors and funding
8 authors.
Funding
Abstract
backgroundMultidrug-resistant Acinetobacter baumannii commonly causes hospital outbreaks. However, within an outbreak, it can be difficult to identify the routes of cross-infection rapidly and accurately enough to inform infection control. Here, we describe a protracted hospital outbreak of multidrug-resistant A. baumannii, in which whole-genome sequencing (WGS) was used to obtain a high-resolution view of the relationships between isolates.
methodsTo delineate and investigate the outbreak, we attempted to genome-sequence 114 isolates that had been assigned to the A. baumannii complex by the Vitek2 system and obtained informative draft genome sequences from 102 of them. Genomes were mapped against an outbreak reference sequence to identify single nucleotide variants (SNVs).
resultsWe found that the pulsotype 27 outbreak strain was distinct from all other genome-sequenced strains. Seventy-four isolates from 49 patients could be assigned to the pulsotype 27 outbreak on the basis of genomic similarity, while WGS allowed 18 isolates to be ruled out of the outbreak. Among the pulsotype 27 outbreak isolates, we identified 31 SNVs and seven major genotypic clusters. In two patients, we documented within-host diversity, including mixtures of unrelated strains and within-strain clouds of SNV diversity. By combining WGS and epidemiological data, we reconstructed potential transmission events that linked all but 10 of the patients and confirmed links between clinical and environmental isolates. Identification of a contaminated bed and a burns theatre as sources of transmission led to enhanced environmental decontamination procedures.
conclusionsWGS is now poised to make an impact on hospital infection prevention and control, delivering cost-effective identification of routes of infection within a clinically relevant timeframe and allowing infection control teams to track, and even prevent, the spread of drug-resistant hospital pathogens.
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