Genomic epidemiology of COVID-19 in care homes in the east of England

eLife

Gordon Dougan¹  Alex Alderton²  Ben Warne³  Grant Hall⁴  Gerry Tonkin-Hill⁵  Aminu S Jahun⁵  Ian Johnston⁶  William L Hamilton⁶  Myra Hosmillo⁶  Dinesh Aggarwal⁷  Fahad A Khokhar⁸  Sarah L Caddy⁸  Nicholas M Brown⁹  Malte L Pinckert^1,10  Charlotte J Houldcroft^1,10  Martin D Curran^1,11  Sonia Gonçalves^1,11  Laura G Caller^1,11  Colin S Brown^1,11  Iliana Georgana^1,11  Roberto Amato^1,11  Luke W Meredith^1,11  Surendra Parmar^1,11  Yasmin Chaudhry^1,11  Ewan M Harrison^1,11  Anna Yakovleva^1,11  Theresa Feltwell^1,11  Mathew A Beale^1,12  Emily R Smith^1,12  Michael Spencer Chapman^1,12  M Estee Torok^1,12  John Sillitoe^1,12  Dominic P Kwiatowski^1,12  COVID-19 Genomics Consortium UK^1,12  Sharon J Peacock^1,12  Cordelia Langford^1,12  David K Jackson^1,12  Ian G Goodfellow^1,12 

[1] Department of Haematology, Hammersmith Hospital, Imperial College Healthcare NHS Trust, London, United Kingdom;Public Health England Clinical Microbiology and Public Health Laboratory, Cambridge, United Kingdom;Public Health England, Colindale, United Kingdom;The Francis Crick Institute, London, United Kingdom;University of Cambridge, Department of Medicine, Cambridge, United Kingdom;Cambridge University Hospitals NHS Foundation Trust, Departments of Infectious Diseases and Microbiology, Cambridge, United Kingdom;Cambridgeshire County Council, Cambridge, United Kingdom;Public Health England Clinical Microbiology and Public Health Laboratory, Cambridge, United Kingdom;Public Health England, Colindale, United Kingdom;University of Cambridge, Department of Medicine, Cambridge, United Kingdom;University of Cambridge, Department of Pathology, Division of Virology, Cambridge, United Kingdom;Wellcome Sanger Institute, Hinxton, United Kingdom;

关键词: COVID-19;    SARS-CoV-2;    genomics;    epidemiology;   

DOI  :  10.7554/eLife.64618

来源: DOAJ

【 摘 要 】

COVID-19 poses a major challenge to care homes, as SARS-CoV-2 is readily transmitted and causes disproportionately severe disease in older people. Here, 1167 residents from 337 care homes were identified from a dataset of 6600 COVID-19 cases from the East of England. Older age and being a care home resident were associated with increased mortality. SARS-CoV-2 genomes were available for 700 residents from 292 care homes. By integrating genomic and temporal data, 409 viral clusters within the 292 homes were identified, indicating two different patterns – outbreaks among care home residents and independent introductions with limited onward transmission. Approximately 70% of residents in the genomic analysis were admitted to hospital during the study, providing extensive opportunities for transmission between care homes and hospitals. Limiting viral transmission within care homes should be a key target for infection control to reduce COVID-19 mortality in this population.

【 授权许可】

Unknown