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Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission.
Aggarwal, Dinesh; Warne, Ben; Jahun, Aminu S; Hamilton, William L; Fieldman, Thomas; du Plessis, Louis; Hill, Verity; Blane, Beth; Watkins, Emmeline; Wright, Elizabeth; Hall, Grant; Ludden, Catherine; Myers, Richard; Hosmillo, Myra; Chaudhry, Yasmin; Pinckert, Malte L; Georgana, Iliana; Izuagbe, Rhys; Leek, Danielle; Nsonwu, Olisaeloka; Hughes, Gareth J; Packer, Simon; Page, Andrew J; Metaxaki, Marina; Fuller, Stewart; Weale, Gillian; Holgate, Jon; Brown, Christopher A; Howes, Rob; McFarlane, Duncan; Dougan, Gordon; Pybus, Oliver G; Angelis, Daniela De; Maxwell, Patrick H; Peacock, Sharon J; Weekes, Michael P; Illingworth, Chris; Harrison, Ewan M; Matheson, Nicholas J; Goodfellow, Ian G.
  • Aggarwal D; University of Cambridge, Department of Medicine, Cambridge, UK. dinesh.aggarwal@nhs.net.
  • Warne B; Public Health England, 61 Colindale Ave, London, NW9 5EQ, UK. dinesh.aggarwal@nhs.net.
  • Jahun AS; Cambridge University Hospital NHS Foundation Trust, Cambridge, UK. dinesh.aggarwal@nhs.net.
  • Hamilton WL; Wellcome Sanger Institute, Hinxton, Cambridge, UK. dinesh.aggarwal@nhs.net.
  • Fieldman T; University of Cambridge, Department of Medicine, Cambridge, UK.
  • du Plessis L; Cambridge University Hospital NHS Foundation Trust, Cambridge, UK.
  • Hill V; Cambridge Institute for Therapeutic Immunology and Infectious Disease, University of Cambridge, Cambridge, UK.
  • Blane B; University of Cambridge, Department of Pathology, Division of Virology, Cambridge, UK.
  • Watkins E; University of Cambridge, Department of Medicine, Cambridge, UK.
  • Wright E; Cambridge University Hospital NHS Foundation Trust, Cambridge, UK.
  • Hall G; Wellcome Sanger Institute, Hinxton, Cambridge, UK.
  • Ludden C; University of Cambridge, Department of Medicine, Cambridge, UK.
  • Myers R; Cambridge University Hospital NHS Foundation Trust, Cambridge, UK.
  • Hosmillo M; Department of Zoology, University of Oxford, Oxford, UK.
  • Chaudhry Y; Institute of Evolutionary Virology, University of Edinburgh, Edinburgh, UK.
  • Pinckert ML; University of Cambridge, Department of Medicine, Cambridge, UK.
  • Georgana I; Public Health Directorate, Cambridgeshire County Council and Peterborough City Council, Peterborough, UK.
  • Izuagbe R; Public Health Directorate, Cambridgeshire County Council and Peterborough City Council, Peterborough, UK.
  • Leek D; University of Cambridge, Department of Pathology, Division of Virology, Cambridge, UK.
  • Nsonwu O; University of Cambridge, Department of Medicine, Cambridge, UK.
  • Hughes GJ; Public Health England, 61 Colindale Ave, London, NW9 5EQ, UK.
  • Packer S; Public Health England, 61 Colindale Ave, London, NW9 5EQ, UK.
  • Page AJ; Cambridge University Hospital NHS Foundation Trust, Cambridge, UK.
  • Metaxaki M; University of Cambridge, Department of Pathology, Division of Virology, Cambridge, UK.
  • Fuller S; University of Cambridge, Department of Pathology, Division of Virology, Cambridge, UK.
  • Weale G; University of Cambridge, Department of Pathology, Division of Virology, Cambridge, UK.
  • Holgate J; University of Cambridge, Department of Pathology, Division of Virology, Cambridge, UK.
  • Brown CA; University of Cambridge, Department of Pathology, Division of Virology, Cambridge, UK.
  • Howes R; Public Health England, 61 Colindale Ave, London, NW9 5EQ, UK.
  • McFarlane D; Quadram Institute Bioscience, Norwich Research Park, Norwich, NR4 7UQ, UK.
  • Dougan G; University of Cambridge, Department of Medicine, Cambridge, UK.
  • Pybus OG; University of Cambridge, Department of Medicine, Cambridge, UK.
  • Angelis D; Health, Safety & Regulated Facilities Division, University of Cambridge, Cambridge, UK.
  • Maxwell PH; University Information Services, University of Cambridge, Cambridge, UK.
  • Peacock SJ; Cambridge Covid-19 Testing Centre, Discovery Sciences, R&D, AstraZenenca, Cambridge, UK.
  • Weekes MP; Charles River Laboratories, Chesterford Research Park, Saffron Walden, CB10 1XL, UK.
  • Goodfellow IG; Cambridge Covid-19 Testing Centre, Discovery Sciences, R&D, AstraZenenca, Cambridge, UK.
Nat Commun ; 13(1): 751, 2022 02 08.
Article in English | MEDLINE | ID: covidwho-1684022
ABSTRACT
Understanding SARS-CoV-2 transmission in higher education settings is important to limit spread between students, and into at-risk populations. In this study, we sequenced 482 SARS-CoV-2 isolates from the University of Cambridge from 5 October to 6 December 2020. We perform a detailed phylogenetic comparison with 972 isolates from the surrounding community, complemented with epidemiological and contact tracing data, to determine transmission dynamics. We observe limited viral introductions into the university; the majority of student cases were linked to a single genetic cluster, likely following social gatherings at a venue outside the university. We identify considerable onward transmission associated with student accommodation and courses; this was effectively contained using local infection control measures and following a national lockdown. Transmission clusters were largely segregated within the university or the community. Our study highlights key determinants of SARS-CoV-2 transmission and effective interventions in a higher education setting that will inform public health policy during pandemics.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: Universities / SARS-CoV-2 / COVID-19 Type of study: Observational study / Prognostic study / Randomized controlled trials Limits: Humans Country/Region as subject: Europa Language: English Journal: Nat Commun Journal subject: Biology / Science Year: 2022 Document Type: Article Affiliation country: S41467-021-27942-w

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Universities / SARS-CoV-2 / COVID-19 Type of study: Observational study / Prognostic study / Randomized controlled trials Limits: Humans Country/Region as subject: Europa Language: English Journal: Nat Commun Journal subject: Biology / Science Year: 2022 Document Type: Article Affiliation country: S41467-021-27942-w