Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil
Cases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in Manaus, Brazil, resurged in late 2020 despite previously high levels of infection. Genome sequencing of viruses sampled in Manaus between November 2020 and January 2021 revealed the emergence and circulation of a nove...
| 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_ | 1797098106478657536 |
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| author | Faria, NR Mellan, TA Whittaker, C da S Candido, D Hulswit, RJG Kraemer, MUG Schnekenberg, RP Bowden, TA Dye, C Pybus, OG |
| author_facet | Faria, NR Mellan, TA Whittaker, C da S Candido, D Hulswit, RJG Kraemer, MUG Schnekenberg, RP Bowden, TA Dye, C Pybus, OG |
| author_sort | Faria, NR |
| collection | OXFORD |
| description | Cases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in Manaus, Brazil, resurged in late 2020 despite previously high levels of infection. Genome sequencing of viruses sampled in Manaus between November 2020 and January 2021 revealed the emergence and circulation of a novel SARS-CoV-2 variant of concern. Lineage P.1 acquired 17 mutations, including a trio in the spike protein (K417T, E484K, and N501Y) associated with increased binding to the human ACE2 (angiotensin-converting enzyme 2) receptor. Molecular clock analysis shows that P.1 emergence occurred around mid-November 2020 and was preceded by a period of faster molecular evolution. Using a two-category dynamical model that integrates genomic and mortality data, we estimate that P.1 may be 1.7- to 2.4-fold more transmissible and that previous (non-P.1) infection provides 54 to 79% of the protection against infection with P.1 that it provides against non-P.1 lineages. Enhanced global genomic surveillance of variants of concern, which may exhibit increased transmissibility and/or immune evasion, is critical to accelerate pandemic responsiveness. |
| first_indexed | 2024-03-07T05:04:54Z |
| format | Journal article |
| id | oxford-uuid:d998030a-3041-44eb-80ed-f7e1d0792fe5 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T05:04:54Z |
| publishDate | 2021 |
| publisher | American Association for the Advancement of Science |
| record_format | dspace |
| spelling | oxford-uuid:d998030a-3041-44eb-80ed-f7e1d0792fe52022-03-27T08:57:04ZGenomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, BrazilJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:d998030a-3041-44eb-80ed-f7e1d0792fe5EnglishSymplectic ElementsAmerican Association for the Advancement of Science2021Faria, NRMellan, TAWhittaker, Cda S Candido, DHulswit, RJGKraemer, MUGSchnekenberg, RPBowden, TADye, CPybus, OGCases of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in Manaus, Brazil, resurged in late 2020 despite previously high levels of infection. Genome sequencing of viruses sampled in Manaus between November 2020 and January 2021 revealed the emergence and circulation of a novel SARS-CoV-2 variant of concern. Lineage P.1 acquired 17 mutations, including a trio in the spike protein (K417T, E484K, and N501Y) associated with increased binding to the human ACE2 (angiotensin-converting enzyme 2) receptor. Molecular clock analysis shows that P.1 emergence occurred around mid-November 2020 and was preceded by a period of faster molecular evolution. Using a two-category dynamical model that integrates genomic and mortality data, we estimate that P.1 may be 1.7- to 2.4-fold more transmissible and that previous (non-P.1) infection provides 54 to 79% of the protection against infection with P.1 that it provides against non-P.1 lineages. Enhanced global genomic surveillance of variants of concern, which may exhibit increased transmissibility and/or immune evasion, is critical to accelerate pandemic responsiveness. |
| spellingShingle | Faria, NR Mellan, TA Whittaker, C da S Candido, D Hulswit, RJG Kraemer, MUG Schnekenberg, RP Bowden, TA Dye, C Pybus, OG Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil |
| title | Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil |
| title_full | Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil |
| title_fullStr | Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil |
| title_full_unstemmed | Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil |
| title_short | Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil |
| title_sort | genomics and epidemiology of the p 1 sars cov 2 lineage in manaus brazil |
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