SARS-CoV-2 within-host diversity and transmission-Reference-Cited by-同舟云学术

SARS-CoV-2 within-host diversity and transmission

Published:2021-04-16 Issue:6539 Volume:372 Page:
ISSN:0036-8075
Container-title:Science
language:en
Short-container-title:Science

Author:

Lythgoe Katrina A.¹²^ORCID,Hall Matthew¹^ORCID,Ferretti Luca¹^ORCID,de Cesare Mariateresa¹³^ORCID,MacIntyre-Cockett George¹³,Trebes Amy³^ORCID,Andersson Monique⁴⁵^ORCID,Otecko Newton¹,Wise Emma L.⁶⁷^ORCID,Moore Nathan⁶^ORCID,Lynch Jessica⁶^ORCID,Kidd Stephen⁶^ORCID,Cortes Nicholas⁶⁸,Mori Matilde⁹^ORCID,Williams Rebecca⁶^ORCID,Vernet Gabrielle⁶^ORCID,Justice Anita⁴,Green Angie³^ORCID,Nicholls Samuel M.¹⁰^ORCID,Ansari M. Azim¹¹^ORCID,Abeler-Dörner Lucie¹^ORCID,Moore Catrin E.¹^ORCID,Peto Timothy E. A.⁴¹²^ORCID,Eyre David W.⁴¹³,Shaw Robert⁴^ORCID,Simmonds Peter¹¹,Buck David³,Todd John A.³^ORCID,Connor Thomas R.¹⁴¹⁵^ORCID,Ashraf Shirin¹⁶^ORCID,da Silva Filipe Ana¹⁶^ORCID,Shepherd James¹⁶^ORCID,Thomson Emma C.¹⁶^ORCID,Bonsall David¹³⁴^ORCID,Fraser Christophe¹³¹⁷^ORCID,Golubchik Tanya¹²^ORCID, ,

Affiliation:

1. Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK.

2. Department of Zoology, University of Oxford, Oxford OX1 3SZ, UK.

3. Wellcome Centre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centre, University of Oxford, Old Road Campus, Oxford OX3 7BN, UK.

4. Oxford University Hospitals NHS Foundation Trust, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK.

5. Division of Medical Virology, Stellenbosch University, Stellenbosch, South Africa.

6. Hampshire Hospitals NHS Foundation Trust, Basingstoke and North Hampshire Hospital, Basingstoke RG24 9NA, UK.

7. School of Biosciences and Medicine, University of Surrey, Guildford GU2 7XH, UK.

8. Gibraltar Health Authority, Gibraltar, UK.

9. School of Medicine, University of Southampton, Southampton SO17 1BJ, UK.

10. Institute of Microbiology and Infection, University of Birmingham, Birmingham B15 2TT, UK.

11. Peter Medawar Building for Pathogen Research, University of Oxford, Oxford OX1 3SY, UK.

12. Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK.

13. Big Data Institute, Nuffield Department of Public Health, University of Oxford, Old Road Campus, Oxford OX3 7FL, UK.

14. Pathogen Genomics Unit, Public Health Wales Microbiology, Cardiff CF10 4BZ, UK.

15. Cardiff University School of Biosciences, Cardiff University, Cardiff CF10 3AX, UK.

16. MRC-University of Glasgow Centre for Virus Research, Glasgow G61 1QH, UK.

17. Wellcome Sanger Institute, Cambridge CB10 1SA, UK.

Abstract

Patterns and bottlenecks A year into the severe acute respiratory syndrome coronavirus 2 pandemic, we are experiencing waves of new variants emerging. Some of these variants have worrying functional implications, such as increased transmissibility or antibody treatment escape. Lythgoe et al. have undertaken in-depth sequencing of more than 1000 hospital patients' isolates to find out how the virus is mutating within individuals. Overall, there seem to be consistent and reproducible patterns of within-host virus diversity. The authors observed only one or two variants in most samples, but a few carried many variants. Although the evidence indicates strong purifying selection, including in the spike protein responsible for viral entry, the authors also saw evidence for transmission clusters associated with households and other possible superspreader events. After transmission, most variants fizzled out, but occasionally some initiated ongoing transmission and wider dissemination. Science , this issue p. eabg0821

Funder

Bill and Melinda Gates Foundation

Wellcome

Publisher

American Association for the Advancement of Science (AAAS)

Subject

Multidisciplinary

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