Genomic and healthcare dynamics of nosocomial SARS-CoV-2 transmission

eLife

Ryan George¹  Jonathan J Edgerley¹  Graeme CM Black¹  John H McDermott²  David Gokhale³  Shazaad Ahmad⁴  William G Newman⁴  Stephen Ball⁴  Jamie M Ellingford⁴  Nicholas Machin⁴ 

[1] Division of Evolution and Genomic Sciences, School of Biological Sciences, University of Manchester, Manchester, United Kingdom;Department of Infection Prevention & Control, Manchester University NHS Foundation Trust, Manchester, United Kingdom;Department of Virology, Manchester Medical Microbiology Partnership, Manchester University NHS Foundation Trust, Manchester Academic Health Sciences Centre, Manchester, United Kingdom;Manchester Centre for Genomic Medicine, St Mary's Hospital, Manchester University NHS Foundation Trust, Manchester, United Kingdom;

关键词: SARS-CoV-2;    genome;    sequencing;    healthcare worker;    healthcare-associated;    nosocomial;   

DOI  :  10.7554/eLife.65453

来源: DOAJ

【 摘 要 】

Understanding the effectiveness of infection control methods in reducing and preventing SARS-CoV-2 transmission in healthcare settings is of high importance. We sequenced SARS-CoV-2 genomes for patients and healthcare workers (HCWs) across multiple geographically distinct UK hospitals, obtaining 173 high-quality SARS-CoV-2 genomes. We integrated patient movement and staff location data into the analysis of viral genome data to understand spatial and temporal dynamics of SARS-CoV-2 transmission. We identified eight patient contact clusters (PCC) with significantly increased similarity in genomic variants compared to non-clustered samples. Incorporation of HCW location further increased the number of individuals within PCCs and identified additional links in SARS-CoV-2 transmission pathways. Patients within PCCs carried viruses more genetically identical to HCWs in the same ward location. SARS-CoV-2 genome sequencing integrated with patient and HCW movement data increases identification of outbreak clusters. This dynamic approach can support infection control management strategies within the healthcare setting.

【 授权许可】

Unknown