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Bacterial and viral co-infections in adult patients hospitalized with COVID-19 throughout the pandemic: A Multinational Cohort Study in the EuCARE Project

Hedberg, Pontus; Serwin, Karol; Francesca Greco, Maria; Pereira, Joana PV; Juozapaite, Dovile; De Benedittis, Sara; Bai, Francesca; ... Nauclér, Pontus; + view all (2025) Bacterial and viral co-infections in adult patients hospitalized with COVID-19 throughout the pandemic: A Multinational Cohort Study in the EuCARE Project. The Journal of Infectious Diseases , Article jiaf167. 10.1093/infdis/jiaf167. Green open access

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Abstract

BACKGROUND: Limited evidence exists on how the occurrence of bacterial and viral co-infections have developed since the SARS-CoV-2 Omicron variant emerged. We investigated whether the occurrence of community-onset co-infections in adult patients hospitalized with COVID-19 differed during the Wild type, Alpha, Delta, and Omicron periods, and whether such co-infections were associated with an increased risk of mortality. METHODS: We conducted a multinational cohort study including COVID-19 hospitalizations until 30 April 2023 in five European countries. The outcome was bacterial and viral co-infections, based on five different test modalities. Variant periods were compared with regards to occurrences of co-infections and risk ratios for co-infections (Omicron versus pre-Omicron), as well as association with in-hospital mortality (Omicron versus pre-Omicron). RESULTS: A total of 29,564 patients were included: 12,601 Wild type, 5,256 Alpha, 2,433 Delta, and 9,274 Omicron. The co-infection rate was 2.6% (327/12,601) for Wild type, 2.0% (105/5,256) for Alpha, 3.2% (77/2,433) for Delta, and 7.9% (737/9,274) for Omicron. Patients with Omicron had a significantly increased risk ratio of co-infection compared with preceding variants (1.88 [95% CI 1.53-2.32], P<0.001). These results were consistent across several subgroup analyses. An increased occurrence (19% [232/1,246] versus 11% [3,042/28,318]) and adjusted risk (1.69 [1.49-1.91], P<0.001) of in-hospital mortality was observed in patients with a verified co-infection compared with patients without a co-infection. CONCLUSIONS: Bacterial and viral co-infections were more prevalent during the Omicron period compared with preceding variants. Such co-infections were associated with an increased risk of in-hospital mortality, calling for sustained monitoring and clinical vigilance.

Type: Article
Title: Bacterial and viral co-infections in adult patients hospitalized with COVID-19 throughout the pandemic: A Multinational Cohort Study in the EuCARE Project
Location: United States
Open access status: An open access version is available from UCL Discovery
DOI: 10.1093/infdis/jiaf167
Publisher version: https://doi.org/10.1093/infdis/jiaf167
Language: English
Additional information: © The Author(s) 2025. Published by Oxford University Press on behalf of Infectious Diseases Society of America. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
Keywords: Antimicrobial stewardship, COVID-19, Co-infection, SARS-CoV-2
UCL classification: UCL
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Population Health Sciences > Institute for Global Health
URI: https://discovery.ucl.ac.uk/id/eprint/10207222
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