SARS-CoV-2 within-host diversity and transmission.

Autor:	Lythgoe KA; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK. Tanya.Golubchik@bdi.ox.ac.uk Katrina.Lythgoe@bdi.ox.ac.uk Matthew.Hall@bdi.ox.ac.uk.; Department of Zoology, University of Oxford, Oxford OX1 3SZ, UK., Hall M; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK. Tanya.Golubchik@bdi.ox.ac.uk Katrina.Lythgoe@bdi.ox.ac.uk Matthew.Hall@bdi.ox.ac.uk., Ferretti L; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK., de Cesare M; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK.; Wellcome Centre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centre, University of Oxford, Old Road Campus, Oxford OX3 7BN, UK., MacIntyre-Cockett G; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK.; Wellcome Centre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centre, University of Oxford, Old Road Campus, Oxford OX3 7BN, UK., Trebes A; Wellcome Centre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centre, University of Oxford, Old Road Campus, Oxford OX3 7BN, UK., Andersson M; Oxford University Hospitals NHS Foundation Trust, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK.; Division of Medical Virology, Stellenbosch University, Stellenbosch, South Africa., Otecko N; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK., Wise EL; Hampshire Hospitals NHS Foundation Trust, Basingstoke and North Hampshire Hospital, Basingstoke RG24 9NA, UK.; School of Biosciences and Medicine, University of Surrey, Guildford GU2 7XH, UK., Moore N; Hampshire Hospitals NHS Foundation Trust, Basingstoke and North Hampshire Hospital, Basingstoke RG24 9NA, UK., Lynch J; Hampshire Hospitals NHS Foundation Trust, Basingstoke and North Hampshire Hospital, Basingstoke RG24 9NA, UK., Kidd S; Hampshire Hospitals NHS Foundation Trust, Basingstoke and North Hampshire Hospital, Basingstoke RG24 9NA, UK., Cortes N; Hampshire Hospitals NHS Foundation Trust, Basingstoke and North Hampshire Hospital, Basingstoke RG24 9NA, UK.; Gibraltar Health Authority, Gibraltar, UK., Mori M; School of Medicine, University of Southampton, Southampton SO17 1BJ, UK., Williams R; Hampshire Hospitals NHS Foundation Trust, Basingstoke and North Hampshire Hospital, Basingstoke RG24 9NA, UK., Vernet G; Hampshire Hospitals NHS Foundation Trust, Basingstoke and North Hampshire Hospital, Basingstoke RG24 9NA, UK., Justice A; Oxford University Hospitals NHS Foundation Trust, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK., Green A; Wellcome Centre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centre, University of Oxford, Old Road Campus, Oxford OX3 7BN, UK., Nicholls SM; Institute of Microbiology and Infection, University of Birmingham, Birmingham B15 2TT, UK., Ansari MA; Peter Medawar Building for Pathogen Research, University of Oxford, Oxford OX1 3SY, UK., Abeler-Dörner L; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK., Moore CE; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK., Peto TEA; Oxford University Hospitals NHS Foundation Trust, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK.; Nuffield Department of Medicine, University of Oxford, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK., Eyre DW; Oxford University Hospitals NHS Foundation Trust, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK.; Big Data Institute, Nuffield Department of Public Health, University of Oxford, Old Road Campus, Oxford OX3 7FL, UK., Shaw R; Oxford University Hospitals NHS Foundation Trust, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK., Simmonds P; Peter Medawar Building for Pathogen Research, University of Oxford, Oxford OX1 3SY, UK., Buck D; Wellcome Centre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centre, University of Oxford, Old Road Campus, Oxford OX3 7BN, UK., Todd JA; Wellcome Centre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centre, University of Oxford, Old Road Campus, Oxford OX3 7BN, UK., Connor TR; Pathogen Genomics Unit, Public Health Wales Microbiology, Cardiff CF10 4BZ, UK.; Cardiff University School of Biosciences, Cardiff University, Cardiff CF10 3AX, UK., Ashraf S; MRC-University of Glasgow Centre for Virus Research, Glasgow G61 1QH, UK., da Silva Filipe A; MRC-University of Glasgow Centre for Virus Research, Glasgow G61 1QH, UK., Shepherd J; MRC-University of Glasgow Centre for Virus Research, Glasgow G61 1QH, UK., Thomson EC; MRC-University of Glasgow Centre for Virus Research, Glasgow G61 1QH, UK., Bonsall D; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK.; Wellcome Centre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centre, University of Oxford, Old Road Campus, Oxford OX3 7BN, UK.; Oxford University Hospitals NHS Foundation Trust, John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK., Fraser C; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK.; Wellcome Centre for Human Genetics, Nuffield Department of Medicine, NIHR Biomedical Research Centre, University of Oxford, Old Road Campus, Oxford OX3 7BN, UK.; Wellcome Sanger Institute, Cambridge CB10 1SA, UK., Golubchik T; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Old Road Campus, Oxford OX3 7LF, UK. Tanya.Golubchik@bdi.ox.ac.uk Katrina.Lythgoe@bdi.ox.ac.uk Matthew.Hall@bdi.ox.ac.uk.; Department of Zoology, University of Oxford, Oxford OX1 3SZ, UK.
Jazyk:	angličtina
Zdroj:	Science (New York, N.Y.) [Science] 2021 Apr 16; Vol. 372 (6539). Date of Electronic Publication: 2021 Mar 09.
DOI:	10.1126/science.abg0821
Abstrakt:	Extensive global sampling and sequencing of the pandemic virus severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) have enabled researchers to monitor its spread and to identify concerning new variants. Two important determinants of variant spread are how frequently they arise within individuals and how likely they are to be transmitted. To characterize within-host diversity and transmission, we deep-sequenced 1313 clinical samples from the United Kingdom. SARS-CoV-2 infections are characterized by low levels of within-host diversity when viral loads are high and by a narrow bottleneck at transmission. Most variants are either lost or occasionally fixed at the point of transmission, with minimal persistence of shared diversity, patterns that are readily observable on the phylogenetic tree. Our results suggest that transmission-enhancing and/or immune-escape SARS-CoV-2 variants are likely to arise infrequently but could spread rapidly if successfully transmitted. (Copyright © 2021 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.)
Databáze:	MEDLINE
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