SARS-CoV-2 within-host diversity and transmission
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 indivi...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Journal article |
| Language: | English |
| Published: |
American Association for the Advancement of Science
2021
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| _version_ | 1797098022763495424 |
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| author | Lythgoe, KA Hall, M Ferretti, L de Cesare, M MacIntyre-Cockett, G Trebes, A Andersson, M Otecko, N Wise, EL Moore, N Lynch, J Kidd, S Cortes, N Mori, M Williams, R Vernet, G Justice, A Green, A Nicholls, SM Ansari, MA Abeler-Dörner, L Moore, CE Peto, TEA Eyre, DW Shaw, R Simmonds, P Buck, D Todd, JA Oxford Virus Sequencing Analysis Group (OVSG) Connor, TR Ashraf, S da Silva Filipe, A Shepherd, J Thomson, EC COVID-19 Genomics UK (COG-UK) Consortium Bonsall, D Fraser, C Golubchik, T |
| author_facet | Lythgoe, KA Hall, M Ferretti, L de Cesare, M MacIntyre-Cockett, G Trebes, A Andersson, M Otecko, N Wise, EL Moore, N Lynch, J Kidd, S Cortes, N Mori, M Williams, R Vernet, G Justice, A Green, A Nicholls, SM Ansari, MA Abeler-Dörner, L Moore, CE Peto, TEA Eyre, DW Shaw, R Simmonds, P Buck, D Todd, JA Oxford Virus Sequencing Analysis Group (OVSG) Connor, TR Ashraf, S da Silva Filipe, A Shepherd, J Thomson, EC COVID-19 Genomics UK (COG-UK) Consortium Bonsall, D Fraser, C Golubchik, T |
| author_sort | Lythgoe, KA |
| collection | OXFORD |
| description | 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. |
| first_indexed | 2024-03-07T05:03:43Z |
| format | Journal article |
| id | oxford-uuid:d9344639-727a-4827-9659-b4add220b8dd |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T05:03:43Z |
| publishDate | 2021 |
| publisher | American Association for the Advancement of Science |
| record_format | dspace |
| spelling | oxford-uuid:d9344639-727a-4827-9659-b4add220b8dd2022-03-27T08:54:14ZSARS-CoV-2 within-host diversity and transmissionJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:d9344639-727a-4827-9659-b4add220b8ddEnglishSymplectic ElementsAmerican Association for the Advancement of Science2021Lythgoe, KAHall, MFerretti, Lde Cesare, MMacIntyre-Cockett, GTrebes, AAndersson, MOtecko, NWise, ELMoore, NLynch, JKidd, SCortes, NMori, MWilliams, RVernet, GJustice, AGreen, ANicholls, SMAnsari, MAAbeler-Dörner, LMoore, CEPeto, TEAEyre, DWShaw, RSimmonds, PBuck, DTodd, JAOxford Virus Sequencing Analysis Group (OVSG)Connor, TRAshraf, Sda Silva Filipe, AShepherd, JThomson, ECCOVID-19 Genomics UK (COG-UK) ConsortiumBonsall, DFraser, CGolubchik, TExtensive 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. |
| spellingShingle | Lythgoe, KA Hall, M Ferretti, L de Cesare, M MacIntyre-Cockett, G Trebes, A Andersson, M Otecko, N Wise, EL Moore, N Lynch, J Kidd, S Cortes, N Mori, M Williams, R Vernet, G Justice, A Green, A Nicholls, SM Ansari, MA Abeler-Dörner, L Moore, CE Peto, TEA Eyre, DW Shaw, R Simmonds, P Buck, D Todd, JA Oxford Virus Sequencing Analysis Group (OVSG) Connor, TR Ashraf, S da Silva Filipe, A Shepherd, J Thomson, EC COVID-19 Genomics UK (COG-UK) Consortium Bonsall, D Fraser, C Golubchik, T SARS-CoV-2 within-host diversity and transmission |
| title | SARS-CoV-2 within-host diversity and transmission |
| title_full | SARS-CoV-2 within-host diversity and transmission |
| title_fullStr | SARS-CoV-2 within-host diversity and transmission |
| title_full_unstemmed | SARS-CoV-2 within-host diversity and transmission |
| title_short | SARS-CoV-2 within-host diversity and transmission |
| title_sort | sars cov 2 within host diversity and transmission |
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