Omicron-BA.1 Dispersion Rates in Mexico Varied According to the Regional Epidemic Patterns and the Diversity of Local Delta Subvariants
Purpose: The Omicron subvariant BA.1 of SARS-CoV-2 was first detected in November 2021 and quickly spread worldwide, displacing the Delta variant. In this work, a characterization of the spread of this variant in Mexico is presented. Methods: The time to fixation of BA.1, the diversity of Delta subl...
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| Format: | Article |
| Language: | English |
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MDPI AG
2023-01-01
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| Series: | Viruses |
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| Online Access: | https://www.mdpi.com/1999-4915/15/1/243 |
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| author | Selene Zárate Blanca Taboada Mauricio Rosales-Rivera Rodrigo García-López José Esteban Muñoz-Medina Alejandro Sanchez-Flores Alfredo Herrera-Estrella Bruno Gómez-Gil Nelly Selem Mojica Angel Gustavo Salas-Lais Joel Armando Vazquez-Perez David Alejandro Cabrera-Gaytán Larissa Fernandes-Matano Luis Antonio Uribe-Noguez Juan Bautista Chale-Dzul Brenda Irasema Maldonado Meza Fidencio Mejía-Nepomuceno Rogelio Pérez-Padilla Rosa María Gutiérrez-Ríos Antonio Loza Benjamin Roche Susana López Carlos F. Arias |
| author_facet | Selene Zárate Blanca Taboada Mauricio Rosales-Rivera Rodrigo García-López José Esteban Muñoz-Medina Alejandro Sanchez-Flores Alfredo Herrera-Estrella Bruno Gómez-Gil Nelly Selem Mojica Angel Gustavo Salas-Lais Joel Armando Vazquez-Perez David Alejandro Cabrera-Gaytán Larissa Fernandes-Matano Luis Antonio Uribe-Noguez Juan Bautista Chale-Dzul Brenda Irasema Maldonado Meza Fidencio Mejía-Nepomuceno Rogelio Pérez-Padilla Rosa María Gutiérrez-Ríos Antonio Loza Benjamin Roche Susana López Carlos F. Arias |
| author_sort | Selene Zárate |
| collection | DOAJ |
| description | Purpose: The Omicron subvariant BA.1 of SARS-CoV-2 was first detected in November 2021 and quickly spread worldwide, displacing the Delta variant. In this work, a characterization of the spread of this variant in Mexico is presented. Methods: The time to fixation of BA.1, the diversity of Delta sublineages, the population density, and the level of virus circulation during the inter-wave interval were determined to analyze differences in BA.1 spread. Results: BA.1 began spreading during the first week of December 2021 and became dominant in the next three weeks, causing the fourth COVID-19 epidemiological surge in Mexico. Unlike previous variants, BA.1 did not exhibit a geographically distinct circulation pattern. However, a regional difference in the speed of the replacement of the Delta variant was observed. Conclusions: Viral diversity and the relative abundance of the virus in a particular area around the time of the introduction of a new lineage seem to have influenced the spread dynamics, in addition to population density. Nonetheless, if there is a significant difference in the fitness of the variants, or if the time allowed for the competition is sufficiently long, it seems the fitter virus will eventually become dominant, as observed in the eventual dominance of the BA.1.x variant in Mexico. |
| first_indexed | 2024-03-09T11:01:52Z |
| format | Article |
| id | doaj.art-1aa9872670f94056a52ba92e618d1d6c |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-03-09T11:01:52Z |
| publishDate | 2023-01-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-1aa9872670f94056a52ba92e618d1d6c2023-12-01T01:13:50ZengMDPI AGViruses1999-49152023-01-0115124310.3390/v15010243Omicron-BA.1 Dispersion Rates in Mexico Varied According to the Regional Epidemic Patterns and the Diversity of Local Delta SubvariantsSelene Zárate0Blanca Taboada1Mauricio Rosales-Rivera2Rodrigo García-López3José Esteban Muñoz-Medina4Alejandro Sanchez-Flores5Alfredo Herrera-Estrella6Bruno Gómez-Gil7Nelly Selem Mojica8Angel Gustavo Salas-Lais9Joel Armando Vazquez-Perez10David Alejandro Cabrera-Gaytán11Larissa Fernandes-Matano12Luis Antonio Uribe-Noguez13Juan Bautista Chale-Dzul14Brenda Irasema Maldonado Meza15Fidencio Mejía-Nepomuceno16Rogelio Pérez-Padilla17Rosa María Gutiérrez-Ríos18Antonio Loza19Benjamin Roche20Susana López21Carlos F. Arias22Posgrado en Ciencias Genómicas, Universidad Autónoma de la Ciudad de México, Mexico City 03100, MexicoDepartamento de Genética del Desarrollo y Fisiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, MexicoDepartamento de Genética del Desarrollo y Fisiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, MexicoDepartamento de Genética del Desarrollo y Fisiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, MexicoCoordinación de Calidad de Insumos y Laboratorios Especializados, Instituto Mexicano del Seguro Social, Mexico City 07760, MexicoUnidad Universitaria de Secuenciación Masiva y Bioinformática, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, MexicoLaboratorio Nacional de Genómica Para la Biodiversidad-Unidad de Genómica Avanzada, Centro de Investigación y de Estudios Avanzados del IPN, Irapuato 36821, MexicoCentro de Investigación en Alimentación y Desarrollo AC, Coordinación Regional Mazatlán, Acuicultura y Manejo Ambiental, Mazatlan 82100, MexicoCentro de Ciencias Matemáticas, Universidad Nacional Autónoma de México, Morelia 58089, MexicoCoordinación de Calidad de Insumos y Laboratorios Especializados, Instituto Mexicano del Seguro Social, Mexico City 07760, MexicoDepartamento de Investigación en Tabaquismo y EPOC, Instituto Nacional de Enfermedades Respiratorias Ismael Cosío Villegas, México City 14080, MexicoCoordinación de Calidad de Insumos y Laboratorios Especializados, Instituto Mexicano del Seguro Social, Mexico City 07760, MexicoCoordinación de Calidad de Insumos y Laboratorios Especializados, Instituto Mexicano del Seguro Social, Mexico City 07760, MexicoLaboratorio Central de Epidemiología, Instituto Mexicano del Seguro Social, Mexico City, 02990, MexicoUnidad de Investigación Médica Yucatán, Instituto Mexicano del Seguro Social, Merida 97150, MexicoCentro de Investigación Biomédica del Noreste, Instituto Mexicano del Seguro Social, Monterrey 64720, MexicoDepartamento de Investigación en Tabaquismo y EPOC, Instituto Nacional de Enfermedades Respiratorias Ismael Cosío Villegas, México City 14080, MexicoDepartamento de Investigación en Tabaquismo y EPOC, Instituto Nacional de Enfermedades Respiratorias Ismael Cosío Villegas, México City 14080, MexicoDepartamento de Microbiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, MexicoDepartamento de Genética del Desarrollo y Fisiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, MexicoInfectious Diseases: Vector, Control, Genetic, Ecology and Evolution (MIVEGEC) Université de Montpellier, IRD, CNRS, 34090 Montpellier, FranceDepartamento de Genética del Desarrollo y Fisiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, MexicoDepartamento de Genética del Desarrollo y Fisiología Molecular, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca 62210, MexicoPurpose: The Omicron subvariant BA.1 of SARS-CoV-2 was first detected in November 2021 and quickly spread worldwide, displacing the Delta variant. In this work, a characterization of the spread of this variant in Mexico is presented. Methods: The time to fixation of BA.1, the diversity of Delta sublineages, the population density, and the level of virus circulation during the inter-wave interval were determined to analyze differences in BA.1 spread. Results: BA.1 began spreading during the first week of December 2021 and became dominant in the next three weeks, causing the fourth COVID-19 epidemiological surge in Mexico. Unlike previous variants, BA.1 did not exhibit a geographically distinct circulation pattern. However, a regional difference in the speed of the replacement of the Delta variant was observed. Conclusions: Viral diversity and the relative abundance of the virus in a particular area around the time of the introduction of a new lineage seem to have influenced the spread dynamics, in addition to population density. Nonetheless, if there is a significant difference in the fitness of the variants, or if the time allowed for the competition is sufficiently long, it seems the fitter virus will eventually become dominant, as observed in the eventual dominance of the BA.1.x variant in Mexico.https://www.mdpi.com/1999-4915/15/1/243genomic epidemiologySARS-CoV-2Omicron variantDelta variantviral dynamicsdiversity |
| spellingShingle | Selene Zárate Blanca Taboada Mauricio Rosales-Rivera Rodrigo García-López José Esteban Muñoz-Medina Alejandro Sanchez-Flores Alfredo Herrera-Estrella Bruno Gómez-Gil Nelly Selem Mojica Angel Gustavo Salas-Lais Joel Armando Vazquez-Perez David Alejandro Cabrera-Gaytán Larissa Fernandes-Matano Luis Antonio Uribe-Noguez Juan Bautista Chale-Dzul Brenda Irasema Maldonado Meza Fidencio Mejía-Nepomuceno Rogelio Pérez-Padilla Rosa María Gutiérrez-Ríos Antonio Loza Benjamin Roche Susana López Carlos F. Arias Omicron-BA.1 Dispersion Rates in Mexico Varied According to the Regional Epidemic Patterns and the Diversity of Local Delta Subvariants Viruses genomic epidemiology SARS-CoV-2 Omicron variant Delta variant viral dynamics diversity |
| title | Omicron-BA.1 Dispersion Rates in Mexico Varied According to the Regional Epidemic Patterns and the Diversity of Local Delta Subvariants |
| title_full | Omicron-BA.1 Dispersion Rates in Mexico Varied According to the Regional Epidemic Patterns and the Diversity of Local Delta Subvariants |
| title_fullStr | Omicron-BA.1 Dispersion Rates in Mexico Varied According to the Regional Epidemic Patterns and the Diversity of Local Delta Subvariants |
| title_full_unstemmed | Omicron-BA.1 Dispersion Rates in Mexico Varied According to the Regional Epidemic Patterns and the Diversity of Local Delta Subvariants |
| title_short | Omicron-BA.1 Dispersion Rates in Mexico Varied According to the Regional Epidemic Patterns and the Diversity of Local Delta Subvariants |
| title_sort | omicron ba 1 dispersion rates in mexico varied according to the regional epidemic patterns and the diversity of local delta subvariants |
| topic | genomic epidemiology SARS-CoV-2 Omicron variant Delta variant viral dynamics diversity |
| url | https://www.mdpi.com/1999-4915/15/1/243 |
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