Omicron Sub-Lineages (BA.1.1.529 + BA.*) Current Status in Ecuador
The Omicron variant of SARS-CoV-2 is the latest pandemic lineage causing COVID-19. Despite having a vaccination rate ≥85%, Ecuador recorded a high incidence of Omicron from December 2021 to March 2022. Since Omicron emerged, it has evolved into multiple sub-lineages with distinct prevalence in diffe...
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| Format: | Article |
| Language: | English |
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MDPI AG
2022-05-01
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| Series: | Viruses |
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| Online Access: | https://www.mdpi.com/1999-4915/14/6/1177 |
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| author | Andrés Carrazco-Montalvo Andrés Herrera-Yela Damaris Alarcón-Vallejo Diana Gutiérrez-Pallo Isaac Armendáriz-Castillo Derly Andrade-Molina Karen Muñoz-Mawyin Juan Carlos Fernández-Cadena Gabriel Morey-León USFQ-COVID-19 Consortium CRN Influenza y OVR—INSPI Leandro Patiño |
| author_facet | Andrés Carrazco-Montalvo Andrés Herrera-Yela Damaris Alarcón-Vallejo Diana Gutiérrez-Pallo Isaac Armendáriz-Castillo Derly Andrade-Molina Karen Muñoz-Mawyin Juan Carlos Fernández-Cadena Gabriel Morey-León USFQ-COVID-19 Consortium CRN Influenza y OVR—INSPI Leandro Patiño |
| author_sort | Andrés Carrazco-Montalvo |
| collection | DOAJ |
| description | The Omicron variant of SARS-CoV-2 is the latest pandemic lineage causing COVID-19. Despite having a vaccination rate ≥85%, Ecuador recorded a high incidence of Omicron from December 2021 to March 2022. Since Omicron emerged, it has evolved into multiple sub-lineages with distinct prevalence in different regions. In this work, we use all Omicron sequences from Ecuador available at GISAID until March 2022 and the software Nextclade and Pangolin to identify which lineages circulate in this country. We detected 12 different sub-lineages (BA.1, BA.1.1, BA.1.1.1, BA.1.1.14, BA.1.1.2, BA.1.14, BA.1.15, BA.1.16, BA.1.17, BA.1.6, BA.2, BA.2.3), which have been reported in Africa, America, Europe, and Asia, suggesting multiple introduction events. Sub-lineages BA.1 and BA.1.1 were the most prevalent. Genomic surveillance must continue to evaluate the dynamics of current sub-lineages, the early introduction of new ones and vaccine efficacy against evolving SARS-CoV-2. |
| first_indexed | 2024-03-09T22:15:09Z |
| format | Article |
| id | doaj.art-3e4a37dd035749bbbf7d50fa59b53001 |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-03-09T22:15:09Z |
| publishDate | 2022-05-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-3e4a37dd035749bbbf7d50fa59b530012023-11-23T19:24:55ZengMDPI AGViruses1999-49152022-05-01146117710.3390/v14061177Omicron Sub-Lineages (BA.1.1.529 + BA.*) Current Status in EcuadorAndrés Carrazco-Montalvo0Andrés Herrera-Yela1Damaris Alarcón-Vallejo2Diana Gutiérrez-Pallo3Isaac Armendáriz-Castillo4Derly Andrade-Molina5Karen Muñoz-Mawyin6Juan Carlos Fernández-Cadena7Gabriel Morey-León8USFQ-COVID-19 ConsortiumCRN Influenza y OVR—INSPILeandro Patiño9Instituto Nacional de Investigación en Salud Pública “Leopoldo Izquieta Pérez”, Centro de Referencia Nacional de Genómica, Secuenciación y Bioinformática, Quito 170136, EcuadorInstituto Nacional de Investigación en Salud Pública “Leopoldo Izquieta Pérez”, Centro de Referencia Nacional de Genómica, Secuenciación y Bioinformática, Quito 170136, EcuadorInstituto Nacional de Investigación en Salud Pública “Leopoldo Izquieta Pérez”, Centro de Referencia Nacional de Genómica, Secuenciación y Bioinformática, Quito 170136, EcuadorInstituto Nacional de Investigación en Salud Pública “Leopoldo Izquieta Pérez”, Centro de Referencia Nacional de Genómica, Secuenciación y Bioinformática, Quito 170136, EcuadorInstituto Nacional de Investigación en Salud Pública “Leopoldo Izquieta Pérez”, Coordinación Zonal 9, Quito 170136, EcuadorOmics Sciences Laboratory, Faculty of Medical Sciences, Universidad Espíritu Santo, Samborondón 092301, EcuadorOmics Sciences Laboratory, Faculty of Medical Sciences, Universidad Espíritu Santo, Samborondón 092301, EcuadorINTERLAB, Guayaquil 090512, EcuadorFacultad de Ciencias Medicas, Universidad de Guayaquil, Guayaquil 090514, EcuadorInstituto Nacional de Investigación en Salud Pública “Leopoldo Izquieta Pérez”—Dirección Técnica de Investigación, Desarrollo e Innovación, Guayaquil 170403, EcuadorThe Omicron variant of SARS-CoV-2 is the latest pandemic lineage causing COVID-19. Despite having a vaccination rate ≥85%, Ecuador recorded a high incidence of Omicron from December 2021 to March 2022. Since Omicron emerged, it has evolved into multiple sub-lineages with distinct prevalence in different regions. In this work, we use all Omicron sequences from Ecuador available at GISAID until March 2022 and the software Nextclade and Pangolin to identify which lineages circulate in this country. We detected 12 different sub-lineages (BA.1, BA.1.1, BA.1.1.1, BA.1.1.14, BA.1.1.2, BA.1.14, BA.1.15, BA.1.16, BA.1.17, BA.1.6, BA.2, BA.2.3), which have been reported in Africa, America, Europe, and Asia, suggesting multiple introduction events. Sub-lineages BA.1 and BA.1.1 were the most prevalent. Genomic surveillance must continue to evaluate the dynamics of current sub-lineages, the early introduction of new ones and vaccine efficacy against evolving SARS-CoV-2.https://www.mdpi.com/1999-4915/14/6/1177COVID-19Omicronsub-lineagesEcuador |
| spellingShingle | Andrés Carrazco-Montalvo Andrés Herrera-Yela Damaris Alarcón-Vallejo Diana Gutiérrez-Pallo Isaac Armendáriz-Castillo Derly Andrade-Molina Karen Muñoz-Mawyin Juan Carlos Fernández-Cadena Gabriel Morey-León USFQ-COVID-19 Consortium CRN Influenza y OVR—INSPI Leandro Patiño Omicron Sub-Lineages (BA.1.1.529 + BA.*) Current Status in Ecuador Viruses COVID-19 Omicron sub-lineages Ecuador |
| title | Omicron Sub-Lineages (BA.1.1.529 + BA.*) Current Status in Ecuador |
| title_full | Omicron Sub-Lineages (BA.1.1.529 + BA.*) Current Status in Ecuador |
| title_fullStr | Omicron Sub-Lineages (BA.1.1.529 + BA.*) Current Status in Ecuador |
| title_full_unstemmed | Omicron Sub-Lineages (BA.1.1.529 + BA.*) Current Status in Ecuador |
| title_short | Omicron Sub-Lineages (BA.1.1.529 + BA.*) Current Status in Ecuador |
| title_sort | omicron sub lineages ba 1 1 529 ba current status in ecuador |
| topic | COVID-19 Omicron sub-lineages Ecuador |
| url | https://www.mdpi.com/1999-4915/14/6/1177 |
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