Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK-Reference-Cited by-同舟云学术

Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK

Published:2021-02-12 Issue:6530 Volume:371 Page:708-712
ISSN:0036-8075
Container-title:Science
language:en
Short-container-title:Science

Author:

du Plessis Louis¹^ORCID,McCrone John T.²^ORCID,Zarebski Alexander E.¹^ORCID,Hill Verity²^ORCID,Ruis Christopher³⁴^ORCID,Gutierrez Bernardo¹⁵^ORCID,Raghwani Jayna¹^ORCID,Ashworth Jordan²^ORCID,Colquhoun Rachel²^ORCID,Connor Thomas R.⁶⁷^ORCID,Faria Nuno R.¹⁸^ORCID,Jackson Ben²^ORCID,Loman Nicholas J.⁹^ORCID,O’Toole Áine²^ORCID,Nicholls Samuel M.⁹^ORCID,Parag Kris V.⁸^ORCID,Scher Emily²^ORCID,Vasylyeva Tetyana I.¹,Volz Erik M.⁸^ORCID,Watts Alexander¹⁰¹¹^ORCID,Bogoch Isaac I.¹²¹³,Khan Kamran¹⁰¹¹¹²^ORCID,Aanensen David M.¹⁴¹⁵^ORCID,Kraemer Moritz U. G.¹^ORCID,Rambaut Andrew²^ORCID,Pybus Oliver G.¹¹⁶^ORCID,

Affiliation:

1. Department of Zoology, University of Oxford, Oxford, UK.

2. Institute of Evolutionary Biology, University of Edinburgh, Edinburgh, UK.

3. Molecular Immunity Unit, Department of Medicine, University of Cambridge, Cambridge, UK.

4. Department of Veterinary Medicine, University of Cambridge, Cambridge, UK.

5. School of Biological and Environmental Sciences, Universidad San Francisco de Quito, Quito, Ecuador.

6. School of Biosciences, Cardiff University, Cardiff, UK.

7. Pathogen Genomics Unit, Public Health Wales NHS Trust, Cardiff, UK.

8. MRC Centre for Global Infectious Disease Analysis, J-IDEA, Imperial College London, London, UK.

9. Institute of Microbiology and Infection, University of Birmingham, Birmingham, UK.

10. Li Ka Shing Knowledge Institute, St. Michael’s Hospital, Toronto, Canada.

11. BlueDot, Toronto, Canada.

12. Department of Medicine, University of Toronto, Toronto, Canada.

13. Divisions of General Internal Medicine and Infectious Diseases, University Health Network, Toronto, Canada.

14. Centre for Genomic Pathogen Surveillance, Wellcome Genome Campus, Hinxton, UK.

15. Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, University of Oxford, Oxford, UK.

16. Department of Pathobiology and Population Sciences, Royal Veterinary College London, London, UK.

Abstract

Lineage dynamics The scale of genome-sequencing efforts for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is unprecedented. The United Kingdom has contributed more than 26,000 sequences to this effort. This volume of data allowed du Plessis et al. to develop a detailed picture of the influxes of virus reaching U.K. shores as the pandemic developed during the first months of 2020 (see the Perspective by Nelson). Before lockdown, high travel volumes and few restrictions on international travel allowed more than 1000 lineages to become established. This accelerated local epidemic growth and exceeded contact tracing capacity. The authors were able to quantify the abundance, size distribution, and spatial range of the lineages that were transmitted. Transmission was highly heterogeneous, favoring some lineages that became widespread and subsequently harder to eliminate. This dire history indicates that rapid or even preemptive responses should have been used as they were elsewhere where containment was successful. Science , this issue p. 708 ; see also p. 680

Funder

Bill and Melinda Gates Foundation

Wellcome

H2020 European Research Council

Canadian Institutes of Health Research

Medical Research Council

Biotechnology and Biological Sciences Research Council

Publisher

American Association for the Advancement of Science (AAAS)

Subject

Multidisciplinary

Reference67 articles.