ArticleThe Journal of hospital infection2023
Lessons learned: use of WGS in real-time investigation of suspected intrahospital SARS-CoV-2 outbreaks.
Article in The Journal of hospital infection, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- Leveraging illumina iSeq100 for whole genome sequencing of Salmonella Typhi for a resource-limited setting.Scientific reports · 2025Article
- Nanopore Sequencing-Driven Mapping of Antimicrobial Resistance Genes in SelectedAntibiotics (Basel, Switzerland) · 2025Article
- Investigation of an international water polo tournament in Czechia as a potential source for early introduction of the SARS-CoV-2 Omicron variant into Belgium, Switzerland and Germany, November 2021.Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2023Article
- Robust epidemiological investigations in hospital-based COVID-19 outbreaks cannot be overlooked-even in the era of whole-genome sequencing.The Journal of hospital infection · 2023Article
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5 authors.
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Abstract
backgroundSevere acute respiratory syndrome coronavirus-2 (SARS-CoV-2) has been a continuing source of hospital-acquired infection and outbreaks. At Akershus University Hospital in Norway, traditional contact tracing has been combined with whole-genome sequencing (WGS) surveillance in real-time to investigate potential hospital outbreaks.
aimTo describe the advantages and challenges encountered when using WGS as a real-time tool in hospital outbreak investigation and surveillance during the SARS-CoV-2 pandemic.
methodsRoutine contact tracing in the hospital was performed for all healthcare workers (HCWs) who tested positive for SARS-CoV-2. Viral RNA from all positive patient and HCW samples was sequenced in real-time using nanopore sequencing and the ARTIC Network protocol. Suspected outbreaks involving five or more individuals with viral sequences were described.
findingsNine outbreaks were suspected based on contact tracing, and one outbreak was suspected based on WGS results. Five outbreaks were confirmed; of these, two outbreaks were supported but could not be confirmed by WGS with high confidence, one outbreak was found to consist of two different lineages, and two outbreaks were refuted.
conclusionsWGS is a valuable tool in hospital outbreak investigations when combined with traditional contact tracing. Inclusion of WGS data improved outbreak demarcation, identified unknown transmission chains, and highlighted weaknesses in existing infection control measures.
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