Genetic epidemiology of SARS-CoV-2 transmission in renal dialysis units - a high risk community-hospital interface

Li, K. K. et al. (2021) Genetic epidemiology of SARS-CoV-2 transmission in renal dialysis units - a high risk community-hospital interface. Journal of Infection, 83(1), pp. 96-103. (doi: 10.1016/j.jinf.2021.04.020) (PMID:33895226) (PMCID:PMC8061788)

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Objectives: Patients requiring haemodialysis are at increased risk of serious illness with SARS-CoV-2 infection. To improve the understanding of transmission risks in six Scottish renal dialysis units, we utilised the rapid whole-genome sequencing data generated by the COG-UK consortium. Methods: We combined geographical, temporal and genomic sequence data from the community and hospital to estimate the probability of infection originating from within the dialysis unit, the hospital or the community using Bayesian statistical modelling and compared these results to the details of epidemiological investigations. Results: Of 671 patients, 60 (8.9%) became infected with SARS-CoV-2, of whom 16 (27%) died. Within-unit and community transmission were both evident and an instance of transmission from the wider hospital setting was also demonstrated. Conclusions: Near-real-time SARS-CoV-2 sequencing data can facilitate tailored infection prevention and control measures, which can be targeted at reducing risk in these settings.

Item Type:Articles
Additional Information:COG-UK is supported by funding from the Medical Research Council (MRC) part of UK Research & Innovation (UKRI), the National Institute of Health Research (NIHR) and Genome Research Limited, operating as the Wellcome Sanger Institute. Also MRC (MC UU 1201412), UKRI/Wellcome (COG-UK), Wellcome Trust Collaborator Award (206298/Z/17/Z – ARTIC Network; TCW Wellcome Trust Award 204802/Z/16/Z.
Glasgow Author(s) Enlighten ID:Shah, Dr Rajiv and Li, Dr Kathy and Aranday-Cortes, Dr Elihu and Robertson, Professor David and Singer, Dr Josh and Asamaphan, Dr Patawee and Tong, Dr Lily and Mair, Mr Daniel and Jesudason, Dr Natasha and Gunson, Dr Rory and Lees, Jennifer and Shepherd, Dr James and Da Silva Filipe, Dr Ana and Thomson, Dr Peter and Hughes, Dr Joseph and McDonald, Dr Sarah and Mark, Professor Patrick and Vattipally, Dr Sreenu and Nichols, Mrs Jenna and Carmichael, Dr Stephen and Traynor, Dr Jamie and Nomikou, Dr Kyriaki and Ho, Dr Antonia and Thomson, Professor Emma and Brunker, Dr Kirstyn and Taggart, Ms Aislynn and Parr, Dr Yasmin and Woo, Dr Mun and Johnson, Miss Natasha and Morris, Dr Scott and Geddes, Dr Colin and Smollett, Dr Katherine and Niebel, Dr Marc
Authors: Li, K. K., Woo, Y. M., Stirrup, O., Hughes, J., Ho, A., Da Silva Filipe, A., Johnson, N., Smollett, K., Mair, D., Carmichael, S., Tong, L., Nichols, J., Aranday-Cortes, E., Brunker, K., Parr, Y. A., Nomikou, K., McDonald, S. E., Niebel, M., Asamaphan, P., Sreenu, V. B., Robertson, D. L., Taggart, A., Jesudason, N., Shah, R., Shepherd, J., Singer, J., Taylor, A. H.M., Cousland, Z., Price, J., Lees, J. S., Jones, T. P.W., Lopez, C. V., MacLean, A., Starinskij, I., Gunson, R., Morris, S. T.M., Thomson, P., Geddes, C., Traynor, J., Breuer, J., Thomson, E. C., and Mark, P. B.
College/School:College of Medical Veterinary and Life Sciences > School of Cardiovascular & Metabolic Health
College of Medical Veterinary and Life Sciences > School of Infection & Immunity
College of Medical Veterinary and Life Sciences > School of Infection & Immunity > Centre for Virus Research
College of Medical Veterinary and Life Sciences > School of Biodiversity, One Health & Veterinary Medicine
Journal Name:Journal of Infection
ISSN (Online):1532-2742
Published Online:22 April 2021
Copyright Holders:Copyright © 2021 The Authors
First Published:First published in Journal of Infection 83(1): 96-103
Publisher Policy:Reproduced under a Creative Commons License

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Project CodeAward NoProject NamePrincipal InvestigatorFunder's NameFunder RefLead Dept
Viral Genomics and BioinformaticsAndrew DavisonMedical Research Council (MRC)MC_UU_12014/12III-MRC-GU Centre for Virus Research