Cargando…

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

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...

Descripción completa

Detalles Bibliográficos
Autores principales: Lindsey, Benjamin B., Villabona-Arenas, Ch. Julián, Campbell, Finlay, Keeley, Alexander J., Parker, Matthew D., Shah, Dhruv R., Parsons, Helena, Zhang, Peijun, Kakkar, Nishchay, Gallis, Marta, Foulkes, Benjamin H., Wolverson, Paige, Louka, Stavroula F., Christou, Stella, State, Amy, Johnson, Katie, Raza, Mohammad, Hsu, Sharon, Jombart, Thibaut, Cori, Anne, Evans, Cariad M., Partridge, David G., Atkins, Katherine E., Hué, Stéphane, de Silva, Thushan I.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8814040/
https://www.ncbi.nlm.nih.gov/pubmed/35115517
http://dx.doi.org/10.1038/s41467-022-28291-y
_version_ 1784644990747541504
author Lindsey, Benjamin B.
Villabona-Arenas, Ch. Julián
Campbell, Finlay
Keeley, Alexander J.
Parker, Matthew D.
Shah, Dhruv R.
Parsons, Helena
Zhang, Peijun
Kakkar, Nishchay
Gallis, Marta
Foulkes, Benjamin H.
Wolverson, Paige
Louka, Stavroula F.
Christou, Stella
State, Amy
Johnson, Katie
Raza, Mohammad
Hsu, Sharon
Jombart, Thibaut
Cori, Anne
Evans, Cariad M.
Partridge, David G.
Atkins, Katherine E.
Hué, Stéphane
de Silva, Thushan I.
author_facet Lindsey, Benjamin B.
Villabona-Arenas, Ch. Julián
Campbell, Finlay
Keeley, Alexander J.
Parker, Matthew D.
Shah, Dhruv R.
Parsons, Helena
Zhang, Peijun
Kakkar, Nishchay
Gallis, Marta
Foulkes, Benjamin H.
Wolverson, Paige
Louka, Stavroula F.
Christou, Stella
State, Amy
Johnson, Katie
Raza, Mohammad
Hsu, Sharon
Jombart, Thibaut
Cori, Anne
Evans, Cariad M.
Partridge, David G.
Atkins, Katherine E.
Hué, Stéphane
de Silva, Thushan I.
author_sort Lindsey, Benjamin B.
collection PubMed
description 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 July 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.
format Online
Article
Text
id pubmed-8814040
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Nature Publishing Group UK
record_format MEDLINE/PubMed
spelling pubmed-88140402022-02-16 Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves Lindsey, Benjamin B. Villabona-Arenas, Ch. Julián Campbell, Finlay Keeley, Alexander J. Parker, Matthew D. Shah, Dhruv R. Parsons, Helena Zhang, Peijun Kakkar, Nishchay Gallis, Marta Foulkes, Benjamin H. Wolverson, Paige Louka, Stavroula F. Christou, Stella State, Amy Johnson, Katie Raza, Mohammad Hsu, Sharon Jombart, Thibaut Cori, Anne Evans, Cariad M. Partridge, David G. Atkins, Katherine E. Hué, Stéphane de Silva, Thushan I. Nat Commun Article 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 July 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. Nature Publishing Group UK 2022-02-03 /pmc/articles/PMC8814040/ /pubmed/35115517 http://dx.doi.org/10.1038/s41467-022-28291-y Text en © The Author(s) 2022, corrected publication 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Lindsey, Benjamin B.
Villabona-Arenas, Ch. Julián
Campbell, Finlay
Keeley, Alexander J.
Parker, Matthew D.
Shah, Dhruv R.
Parsons, Helena
Zhang, Peijun
Kakkar, Nishchay
Gallis, Marta
Foulkes, Benjamin H.
Wolverson, Paige
Louka, Stavroula F.
Christou, Stella
State, Amy
Johnson, Katie
Raza, Mohammad
Hsu, Sharon
Jombart, Thibaut
Cori, Anne
Evans, Cariad M.
Partridge, David G.
Atkins, Katherine E.
Hué, Stéphane
de Silva, Thushan I.
Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves
title Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves
title_full Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves
title_fullStr Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves
title_full_unstemmed Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves
title_short Characterising within-hospital SARS-CoV-2 transmission events using epidemiological and viral genomic data across two pandemic waves
title_sort characterising within-hospital sars-cov-2 transmission events using epidemiological and viral genomic data across two pandemic waves
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8814040/
https://www.ncbi.nlm.nih.gov/pubmed/35115517
http://dx.doi.org/10.1038/s41467-022-28291-y
work_keys_str_mv AT lindseybenjaminb characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT villabonaarenaschjulian characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT campbellfinlay characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT keeleyalexanderj characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT parkermatthewd characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT shahdhruvr characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT parsonshelena characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT zhangpeijun characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT kakkarnishchay characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT gallismarta characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT foulkesbenjaminh characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT wolversonpaige characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT loukastavroulaf characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT christoustella characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT stateamy characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT johnsonkatie characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT razamohammad characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT hsusharon characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT jombartthibaut characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT corianne characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT evanscariadm characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT partridgedavidg characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT atkinskatherinee characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT huestephane characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves
AT desilvathushani characterisingwithinhospitalsarscov2transmissioneventsusingepidemiologicalandviralgenomicdataacrosstwopandemicwaves