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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...

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Autores principales: 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.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
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.
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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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