Evidence map›Paper›PMID 35115517›Full record

ArticleNature communications2022

Characterising within-hospitalSARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves.

Benjamin B Lindsey, Ch Julián Villabona-Arenas, Finlay Campbell, Alexander J Keeley, Matthew D Parker, Dhruv R Shah, Helena Parsons, Peijun Zhang, Nishchay Kakkar, Marta Gallis and 18 more

Erratum issuedAbstract read
In one paragraph

Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 35 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
35citing papers in PubMed, 1 pooled it
–field-weighted citation impact
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

35 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Review
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Review
  20. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

28 authors.

Benjamin B Lindsey *The Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.ORCID http://orcid.org/0000-0003-4227-2592
Ch Julián Villabona-Arenas *Centre for Mathematical Modelling of Infectious Diseases, London School of Hygiene and Tropical Medicine, London, UK.ORCID http://orcid.org/0000-0001-9928-3968
Finlay Campbell *Health Emergencies Programme, World Health Organization, Geneva, Switzerland.
Alexander J KeeleyThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.ORCID http://orcid.org/0000-0001-9386-1157
Matthew D ParkerSheffield Biomedical Research Centre, The University of Sheffield, Sheffield, UK.ORCID http://orcid.org/0000-0003-2999-3870
Dhruv R ShahThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.ORCID http://orcid.org/0000-0002-6198-8273
Helena ParsonsThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.
Peijun ZhangThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.
Nishchay KakkarSheffield Teaching Hospitals NHS Foundation Trust, Sheffield, UK.
Marta GallisThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.
Benjamin H FoulkesThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.ORCID http://orcid.org/0000-0001-8532-3295
Paige WolversonThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.ORCID http://orcid.org/0000-0003-2709-0686
Stavroula F LoukaThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.
Stella ChristouThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.
Amy StateSheffield Teaching Hospitals NHS Foundation Trust, Sheffield, UK.
Katie JohnsonSheffield Teaching Hospitals NHS Foundation Trust, Sheffield, UK.
Mohammad RazaThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.
Sharon HsuThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.ORCID http://orcid.org/0000-0003-2356-9155
Thibaut JombartCentre for Mathematical Modelling of Infectious Diseases, London School of Hygiene and Tropical Medicine, London, UK.
Anne CoriMRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, School of Public Health, Imperial College London, London, UK.
Sheffield COVID-19 Genomics Group
COVID-19 Genomics UK (COG-UK) consortium
CMMID COVID-19 working group
Cariad M EvansThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.
David G PartridgeThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK.ORCID http://orcid.org/0000-0002-0417-2016
Katherine E AtkinsCentre for Mathematical Modelling of Infectious Diseases, London School of Hygiene and Tropical Medicine, London, UK. Katherine.Atkins@ed.ac.uk.ORCID http://orcid.org/0000-0001-5250-0558
Stéphane HuéCentre for Mathematical Modelling of Infectious Diseases, London School of Hygiene and Tropical Medicine, London, UK. Stephane.Hue@lshtm.ac.uk.ORCID http://orcid.org/0000-0002-8580-6905
Thushan I de SilvaThe Florey Institute for Host-Pathogen Interactions & Department of Infection, Immunity and Cardiovascular Disease, Medical School, University of Sheffield, Sheffield, UK. t.desilva@sheffield.ac.uk.ORCID http://orcid.org/0000-0002-6498-9212

Funding

Medical Research Council MC_PC_19012Medical Research Council MC_PC_19027Medical Research Council MR/R015600/1Wellcome TrustWorld Health Organization 001
6 · The paper itself

Abstract

Hospital outbreaks of COVID19 result in considerable mortality and disruption to healthcare services and yet little is known about transmission within this setting. We characterise within hospital transmission by combining viral genomic and epidemiological data using Bayesian modelling amongst 2181 patients and healthcare workers from a large UK NHS Trust. Transmission events were compared between Wave 1 (1st March to 25th J'uly 2020) and Wave 2 (30th November 2020 to 24th January 2021). We show that staff-to-staff transmissions reduced from 31.6% to 12.9% of all infections. Patient-to-patient transmissions increased from 27.1% to 52.1%. 40%-50% of hospital-onset patient cases resulted in onward transmission compared to 4% of community-acquired cases. Control measures introduced during the pandemic likely reduced transmissions between healthcare workers but were insufficient to prevent increasing numbers of patient-to-patient transmissions. As hospital-acquired cases drive most onward transmission, earlier identification of nosocomial cases will be required to break hospital transmission chains.

Indexed as

Genome, ViralMolecular EpidemiologyPandemicsBayes TheoremCohort StudiesCOVID-19Cross InfectionDisease OutbreaksGenomicsHealth PersonnelHospitalsHumansSARS-CoV-2United Kingdom

Identifiers

PMID35115517
PMCPMC8814040

What Socratic holds

Textmetadata
LicenceCC BY
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.