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Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa
The SARS-CoV-2 epidemic in southern Africa has been characterized by three distinct waves. The first was associated with a mix of SARS-CoV-2 lineages, while the second and third waves were driven by the Beta (B.1.351) and Delta (B.1.617.2) variants, respectively(1–3). In November 2021, genomic surve...
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| Formato: | Online Artículo Texto |
| Lenguaje: | English |
| Publicado: |
Nature Publishing Group UK
2022
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| Materias: | |
| Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8942855/ https://www.ncbi.nlm.nih.gov/pubmed/35042229 http://dx.doi.org/10.1038/s41586-022-04411-y |
| _version_ | 1784673398069133312 |
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| author | Viana, Raquel Moyo, Sikhulile Amoako, Daniel G. Tegally, Houriiyah Scheepers, Cathrine Althaus, Christian L. Anyaneji, Ugochukwu J. Bester, Phillip A. Boni, Maciej F. Chand, Mohammed Choga, Wonderful T. Colquhoun, Rachel Davids, Michaela Deforche, Koen Doolabh, Deelan du Plessis, Louis Engelbrecht, Susan Everatt, Josie Giandhari, Jennifer Giovanetti, Marta Hardie, Diana Hill, Verity Hsiao, Nei-Yuan Iranzadeh, Arash Ismail, Arshad Joseph, Charity Joseph, Rageema Koopile, Legodile Kosakovsky Pond, Sergei L. Kraemer, Moritz U. G. Kuate-Lere, Lesego Laguda-Akingba, Oluwakemi Lesetedi-Mafoko, Onalethatha Lessells, Richard J. Lockman, Shahin Lucaci, Alexander G. Maharaj, Arisha Mahlangu, Boitshoko Maponga, Tongai Mahlakwane, Kamela Makatini, Zinhle Marais, Gert Maruapula, Dorcas Masupu, Kereng Matshaba, Mogomotsi Mayaphi, Simnikiwe Mbhele, Nokuzola Mbulawa, Mpaphi B. Mendes, Adriano Mlisana, Koleka Mnguni, Anele Mohale, Thabo Moir, Monika Moruisi, Kgomotso Mosepele, Mosepele Motsatsi, Gerald Motswaledi, Modisa S. Mphoyakgosi, Thongbotho Msomi, Nokukhanya Mwangi, Peter N. Naidoo, Yeshnee Ntuli, Noxolo Nyaga, Martin Olubayo, Lucier Pillay, Sureshnee Radibe, Botshelo Ramphal, Yajna Ramphal, Upasana San, James E. Scott, Lesley Shapiro, Roger Singh, Lavanya Smith-Lawrence, Pamela Stevens, Wendy Strydom, Amy Subramoney, Kathleen Tebeila, Naume Tshiabuila, Derek Tsui, Joseph van Wyk, Stephanie Weaver, Steven Wibmer, Constantinos K. Wilkinson, Eduan Wolter, Nicole Zarebski, Alexander E. Zuze, Boitumelo Goedhals, Dominique Preiser, Wolfgang Treurnicht, Florette Venter, Marietje Williamson, Carolyn Pybus, Oliver G. Bhiman, Jinal Glass, Allison Martin, Darren P. Rambaut, Andrew Gaseitsiwe, Simani von Gottberg, Anne de Oliveira, Tulio |
| author_facet | Viana, Raquel Moyo, Sikhulile Amoako, Daniel G. Tegally, Houriiyah Scheepers, Cathrine Althaus, Christian L. Anyaneji, Ugochukwu J. Bester, Phillip A. Boni, Maciej F. Chand, Mohammed Choga, Wonderful T. Colquhoun, Rachel Davids, Michaela Deforche, Koen Doolabh, Deelan du Plessis, Louis Engelbrecht, Susan Everatt, Josie Giandhari, Jennifer Giovanetti, Marta Hardie, Diana Hill, Verity Hsiao, Nei-Yuan Iranzadeh, Arash Ismail, Arshad Joseph, Charity Joseph, Rageema Koopile, Legodile Kosakovsky Pond, Sergei L. Kraemer, Moritz U. G. Kuate-Lere, Lesego Laguda-Akingba, Oluwakemi Lesetedi-Mafoko, Onalethatha Lessells, Richard J. Lockman, Shahin Lucaci, Alexander G. Maharaj, Arisha Mahlangu, Boitshoko Maponga, Tongai Mahlakwane, Kamela Makatini, Zinhle Marais, Gert Maruapula, Dorcas Masupu, Kereng Matshaba, Mogomotsi Mayaphi, Simnikiwe Mbhele, Nokuzola Mbulawa, Mpaphi B. Mendes, Adriano Mlisana, Koleka Mnguni, Anele Mohale, Thabo Moir, Monika Moruisi, Kgomotso Mosepele, Mosepele Motsatsi, Gerald Motswaledi, Modisa S. Mphoyakgosi, Thongbotho Msomi, Nokukhanya Mwangi, Peter N. Naidoo, Yeshnee Ntuli, Noxolo Nyaga, Martin Olubayo, Lucier Pillay, Sureshnee Radibe, Botshelo Ramphal, Yajna Ramphal, Upasana San, James E. Scott, Lesley Shapiro, Roger Singh, Lavanya Smith-Lawrence, Pamela Stevens, Wendy Strydom, Amy Subramoney, Kathleen Tebeila, Naume Tshiabuila, Derek Tsui, Joseph van Wyk, Stephanie Weaver, Steven Wibmer, Constantinos K. Wilkinson, Eduan Wolter, Nicole Zarebski, Alexander E. Zuze, Boitumelo Goedhals, Dominique Preiser, Wolfgang Treurnicht, Florette Venter, Marietje Williamson, Carolyn Pybus, Oliver G. Bhiman, Jinal Glass, Allison Martin, Darren P. Rambaut, Andrew Gaseitsiwe, Simani von Gottberg, Anne de Oliveira, Tulio |
| author_sort | Viana, Raquel |
| collection | PubMed |
| description | The SARS-CoV-2 epidemic in southern Africa has been characterized by three distinct waves. The first was associated with a mix of SARS-CoV-2 lineages, while the second and third waves were driven by the Beta (B.1.351) and Delta (B.1.617.2) variants, respectively(1–3). In November 2021, genomic surveillance teams in South Africa and Botswana detected a new SARS-CoV-2 variant associated with a rapid resurgence of infections in Gauteng province, South Africa. Within three days of the first genome being uploaded, it was designated a variant of concern (Omicron, B.1.1.529) by the World Health Organization and, within three weeks, had been identified in 87 countries. The Omicron variant is exceptional for carrying over 30 mutations in the spike glycoprotein, which are predicted to influence antibody neutralization and spike function(4). Here we describe the genomic profile and early transmission dynamics of Omicron, highlighting the rapid spread in regions with high levels of population immunity. |
| format | Online Article Text |
| id | pubmed-8942855 |
| institution | National Center for Biotechnology Information |
| language | English |
| publishDate | 2022 |
| publisher | Nature Publishing Group UK |
| record_format | MEDLINE/PubMed |
| spelling | pubmed-89428552022-04-07 Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa Viana, Raquel Moyo, Sikhulile Amoako, Daniel G. Tegally, Houriiyah Scheepers, Cathrine Althaus, Christian L. Anyaneji, Ugochukwu J. Bester, Phillip A. Boni, Maciej F. Chand, Mohammed Choga, Wonderful T. Colquhoun, Rachel Davids, Michaela Deforche, Koen Doolabh, Deelan du Plessis, Louis Engelbrecht, Susan Everatt, Josie Giandhari, Jennifer Giovanetti, Marta Hardie, Diana Hill, Verity Hsiao, Nei-Yuan Iranzadeh, Arash Ismail, Arshad Joseph, Charity Joseph, Rageema Koopile, Legodile Kosakovsky Pond, Sergei L. Kraemer, Moritz U. G. Kuate-Lere, Lesego Laguda-Akingba, Oluwakemi Lesetedi-Mafoko, Onalethatha Lessells, Richard J. Lockman, Shahin Lucaci, Alexander G. Maharaj, Arisha Mahlangu, Boitshoko Maponga, Tongai Mahlakwane, Kamela Makatini, Zinhle Marais, Gert Maruapula, Dorcas Masupu, Kereng Matshaba, Mogomotsi Mayaphi, Simnikiwe Mbhele, Nokuzola Mbulawa, Mpaphi B. Mendes, Adriano Mlisana, Koleka Mnguni, Anele Mohale, Thabo Moir, Monika Moruisi, Kgomotso Mosepele, Mosepele Motsatsi, Gerald Motswaledi, Modisa S. Mphoyakgosi, Thongbotho Msomi, Nokukhanya Mwangi, Peter N. Naidoo, Yeshnee Ntuli, Noxolo Nyaga, Martin Olubayo, Lucier Pillay, Sureshnee Radibe, Botshelo Ramphal, Yajna Ramphal, Upasana San, James E. Scott, Lesley Shapiro, Roger Singh, Lavanya Smith-Lawrence, Pamela Stevens, Wendy Strydom, Amy Subramoney, Kathleen Tebeila, Naume Tshiabuila, Derek Tsui, Joseph van Wyk, Stephanie Weaver, Steven Wibmer, Constantinos K. Wilkinson, Eduan Wolter, Nicole Zarebski, Alexander E. Zuze, Boitumelo Goedhals, Dominique Preiser, Wolfgang Treurnicht, Florette Venter, Marietje Williamson, Carolyn Pybus, Oliver G. Bhiman, Jinal Glass, Allison Martin, Darren P. Rambaut, Andrew Gaseitsiwe, Simani von Gottberg, Anne de Oliveira, Tulio Nature Article The SARS-CoV-2 epidemic in southern Africa has been characterized by three distinct waves. The first was associated with a mix of SARS-CoV-2 lineages, while the second and third waves were driven by the Beta (B.1.351) and Delta (B.1.617.2) variants, respectively(1–3). In November 2021, genomic surveillance teams in South Africa and Botswana detected a new SARS-CoV-2 variant associated with a rapid resurgence of infections in Gauteng province, South Africa. Within three days of the first genome being uploaded, it was designated a variant of concern (Omicron, B.1.1.529) by the World Health Organization and, within three weeks, had been identified in 87 countries. The Omicron variant is exceptional for carrying over 30 mutations in the spike glycoprotein, which are predicted to influence antibody neutralization and spike function(4). Here we describe the genomic profile and early transmission dynamics of Omicron, highlighting the rapid spread in regions with high levels of population immunity. Nature Publishing Group UK 2022-01-07 2022 /pmc/articles/PMC8942855/ /pubmed/35042229 http://dx.doi.org/10.1038/s41586-022-04411-y Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
| spellingShingle | Article Viana, Raquel Moyo, Sikhulile Amoako, Daniel G. Tegally, Houriiyah Scheepers, Cathrine Althaus, Christian L. Anyaneji, Ugochukwu J. Bester, Phillip A. Boni, Maciej F. Chand, Mohammed Choga, Wonderful T. Colquhoun, Rachel Davids, Michaela Deforche, Koen Doolabh, Deelan du Plessis, Louis Engelbrecht, Susan Everatt, Josie Giandhari, Jennifer Giovanetti, Marta Hardie, Diana Hill, Verity Hsiao, Nei-Yuan Iranzadeh, Arash Ismail, Arshad Joseph, Charity Joseph, Rageema Koopile, Legodile Kosakovsky Pond, Sergei L. Kraemer, Moritz U. G. Kuate-Lere, Lesego Laguda-Akingba, Oluwakemi Lesetedi-Mafoko, Onalethatha Lessells, Richard J. Lockman, Shahin Lucaci, Alexander G. Maharaj, Arisha Mahlangu, Boitshoko Maponga, Tongai Mahlakwane, Kamela Makatini, Zinhle Marais, Gert Maruapula, Dorcas Masupu, Kereng Matshaba, Mogomotsi Mayaphi, Simnikiwe Mbhele, Nokuzola Mbulawa, Mpaphi B. Mendes, Adriano Mlisana, Koleka Mnguni, Anele Mohale, Thabo Moir, Monika Moruisi, Kgomotso Mosepele, Mosepele Motsatsi, Gerald Motswaledi, Modisa S. Mphoyakgosi, Thongbotho Msomi, Nokukhanya Mwangi, Peter N. Naidoo, Yeshnee Ntuli, Noxolo Nyaga, Martin Olubayo, Lucier Pillay, Sureshnee Radibe, Botshelo Ramphal, Yajna Ramphal, Upasana San, James E. Scott, Lesley Shapiro, Roger Singh, Lavanya Smith-Lawrence, Pamela Stevens, Wendy Strydom, Amy Subramoney, Kathleen Tebeila, Naume Tshiabuila, Derek Tsui, Joseph van Wyk, Stephanie Weaver, Steven Wibmer, Constantinos K. Wilkinson, Eduan Wolter, Nicole Zarebski, Alexander E. Zuze, Boitumelo Goedhals, Dominique Preiser, Wolfgang Treurnicht, Florette Venter, Marietje Williamson, Carolyn Pybus, Oliver G. Bhiman, Jinal Glass, Allison Martin, Darren P. Rambaut, Andrew Gaseitsiwe, Simani von Gottberg, Anne de Oliveira, Tulio Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa |
| title | Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa |
| title_full | Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa |
| title_fullStr | Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa |
| title_full_unstemmed | Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa |
| title_short | Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa |
| title_sort | rapid epidemic expansion of the sars-cov-2 omicron variant in southern africa |
| topic | Article |
| url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8942855/ https://www.ncbi.nlm.nih.gov/pubmed/35042229 http://dx.doi.org/10.1038/s41586-022-04411-y |
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