Evidence map›Paper›PMID 33647375›Full record

ArticleThe Journal of hospital infection2021

Investigation of intra-hospital SARS-CoV-2 transmission using nanopore whole-genome sequencing.

A H Løvestad, S B Jørgensen, N Handal, O H Ambur, H V Aamot

Open access · bronzeAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in The Journal of hospital infection, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
28citing papers in PubMed, 1 pooled it
2.4field-weighted citation impact, top 9% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

28 citing papers in PubMed, 1 synthesis or guideline pooled it, 37 citations in OpenAlex.

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  19. The unseen pandemic: treatment delays and loss to follow-up due to fear of COVID.Journal of anesthesia, analgesia and critical care · 2022
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

5 authors at 3 institutions in 1 country.

A H LøvestadFaculty of Health Sciences, Oslo Metropolitan University, Oslo, Norway; Department of Microbiology and Infection Control, Akershus University Hospital, Lørenskog, Norway.
S B JørgensenDepartment of Microbiology and Infection Control, Akershus University Hospital, Lørenskog, Norway.
N HandalDepartment of Microbiology and Infection Control, Akershus University Hospital, Lørenskog, Norway.
O H AmburFaculty of Health Sciences, Oslo Metropolitan University, Oslo, Norway.
H V AamotDepartment of Microbiology and Infection Control, Akershus University Hospital, Lørenskog, Norway; Department of Clinical Molecular Biology (Epigen), Akershus University Hospital and University of Oslo, Lørenskog, Norway. Electronic address: hege.vangstein.aamot@ahus.no.
Akershus University Hospital · NOOsloMet – Oslo Metropolitan University · NOUniversity of Oslo · NO

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundDuring the SARS-CoV-2 pandemic, healthcare workers (HCWs) are being exposed to infection both at work and in their communities. Determining where HCWs might have been infected is challenging based on epidemiological data alone. At Akershus University Hospital, Norway, several clusters of possible intra-hospital SARS-CoV-2 transmission were identified based on routine contact tracing.

aimTo determine whether clusters of suspected intra-hospital SARS-CoV-2 transmission could be resolved by combining whole genome sequencing (WGS) of SARS-CoV-2 with contact tracing data.

methodsEpidemiological data were collected during routine contact tracing of polymerase chain reaction-confirmed SARS-CoV-2-positive HCWs. Possible outbreaks were identified as wards with two or more infected HCWs defined as close contacts who tested positive for SARS-CoV-2 less than three weeks apart. Viral RNA from naso-/oropharyngeal samples underwent nanopore sequencing in direct compliance to the ARTIC Network protocol.

findingsFive outbreaks were suspected from contact tracing. Viral consensus sequences from 24 HCWs, two patients, and seven anonymous samples were analysed. Two outbreaks were confirmed, one refuted, and two remained undetermined. One new potential outbreak was discovered.

conclusionCombined with epidemiological data, nanopore WGS was a useful tool for investigating intra-hospital SARS-CoV-2 transmission. WGS helped to resolve questions about possible outbreaks and to guide local infection prevention and control measures.

Indexed as

Whole Genome SequencingAdultCOVID-19FemaleGenome, ViralHealth PersonnelHumansInfectious Disease Transmission, Patient-to-ProfessionalMaleMiddle AgedNanoporesNorwayOccupational DiseasesSARS-CoV-2COVID-19Healthcare workersHospitalSARS-CoV-2TransmissionWhole-genome sequencing

Identifiers

PMID33647375
PMCPMC7908852
OpenAlexW3134578449

What Socratic holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.