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A Repeat Pattern of Founder Events for SARS-CoV-2 Variants in Alaska
Alaska is a unique US state because of its large size, geographically disparate population density, and physical distance from the contiguous United States. Here, we describe a pattern of SARS-CoV-2 variant emergence across Alaska reflective of these differences. Using genomic data, we found that in...
Autores principales: | , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9861170/ https://www.ncbi.nlm.nih.gov/pubmed/36680262 http://dx.doi.org/10.3390/v15010222 |
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author | Haan, Tracie J. Smith, Lisa K. DeRonde, Stephanie House, Elva Zidek, Jacob Puhak, Diana Mullen, Logan Redlinger, Matthew Parker, Jayme Barnes, Brian M. Burkhead, Jason L. Knall, Cindy Bortz, Eric Chen, Jack Drown, Devin M. |
author_facet | Haan, Tracie J. Smith, Lisa K. DeRonde, Stephanie House, Elva Zidek, Jacob Puhak, Diana Mullen, Logan Redlinger, Matthew Parker, Jayme Barnes, Brian M. Burkhead, Jason L. Knall, Cindy Bortz, Eric Chen, Jack Drown, Devin M. |
author_sort | Haan, Tracie J. |
collection | PubMed |
description | Alaska is a unique US state because of its large size, geographically disparate population density, and physical distance from the contiguous United States. Here, we describe a pattern of SARS-CoV-2 variant emergence across Alaska reflective of these differences. Using genomic data, we found that in Alaska, the Omicron sublineage BA.2.3 overtook BA.1.1 by the week of 27 February 2022, reaching 48.5% of sequenced cases. On the contrary, in the contiguous United States, BA.1.1 dominated cases for longer, eventually being displaced by BA.2 sublineages other than BA.2.3. BA.2.3 only reached a prevalence of 10.9% in the contiguous United States. Using phylogenetics, we found evidence of potential origins of the two major clades of BA.2.3 in Alaska and with logistic regression estimated how it emerged and spread throughout the state. The combined evidence is suggestive of founder events in Alaska and is reflective of how Alaska’s unique dynamics influence the emergence of SARS-CoV-2 variants. |
format | Online Article Text |
id | pubmed-9861170 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-98611702023-01-22 A Repeat Pattern of Founder Events for SARS-CoV-2 Variants in Alaska Haan, Tracie J. Smith, Lisa K. DeRonde, Stephanie House, Elva Zidek, Jacob Puhak, Diana Mullen, Logan Redlinger, Matthew Parker, Jayme Barnes, Brian M. Burkhead, Jason L. Knall, Cindy Bortz, Eric Chen, Jack Drown, Devin M. Viruses Communication Alaska is a unique US state because of its large size, geographically disparate population density, and physical distance from the contiguous United States. Here, we describe a pattern of SARS-CoV-2 variant emergence across Alaska reflective of these differences. Using genomic data, we found that in Alaska, the Omicron sublineage BA.2.3 overtook BA.1.1 by the week of 27 February 2022, reaching 48.5% of sequenced cases. On the contrary, in the contiguous United States, BA.1.1 dominated cases for longer, eventually being displaced by BA.2 sublineages other than BA.2.3. BA.2.3 only reached a prevalence of 10.9% in the contiguous United States. Using phylogenetics, we found evidence of potential origins of the two major clades of BA.2.3 in Alaska and with logistic regression estimated how it emerged and spread throughout the state. The combined evidence is suggestive of founder events in Alaska and is reflective of how Alaska’s unique dynamics influence the emergence of SARS-CoV-2 variants. MDPI 2023-01-13 /pmc/articles/PMC9861170/ /pubmed/36680262 http://dx.doi.org/10.3390/v15010222 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Communication Haan, Tracie J. Smith, Lisa K. DeRonde, Stephanie House, Elva Zidek, Jacob Puhak, Diana Mullen, Logan Redlinger, Matthew Parker, Jayme Barnes, Brian M. Burkhead, Jason L. Knall, Cindy Bortz, Eric Chen, Jack Drown, Devin M. A Repeat Pattern of Founder Events for SARS-CoV-2 Variants in Alaska |
title | A Repeat Pattern of Founder Events for SARS-CoV-2 Variants in Alaska |
title_full | A Repeat Pattern of Founder Events for SARS-CoV-2 Variants in Alaska |
title_fullStr | A Repeat Pattern of Founder Events for SARS-CoV-2 Variants in Alaska |
title_full_unstemmed | A Repeat Pattern of Founder Events for SARS-CoV-2 Variants in Alaska |
title_short | A Repeat Pattern of Founder Events for SARS-CoV-2 Variants in Alaska |
title_sort | repeat pattern of founder events for sars-cov-2 variants in alaska |
topic | Communication |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9861170/ https://www.ncbi.nlm.nih.gov/pubmed/36680262 http://dx.doi.org/10.3390/v15010222 |
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