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Epidemiologic and Genomic Analysis of the Severe Acute Respiratory Syndrome Coronavirus 2 Epidemic in the Nebraska Region of the United States, March 2020–2021

COVID-19 emerged at varying intervals in different regions of the United States in 2020. This report details the epidemiologic and genetic evolution of Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) during the first year of the epidemic in the state of Nebraska using data collected fro...

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Autores principales: Siedlik, Jacob A., Watson, Cynthia J., Raine, Morgan A., Cheng, Anne V., Goering, Richard V., Stessman, Holly A. F., Belshan, Michael
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9158493/
https://www.ncbi.nlm.nih.gov/pubmed/35663859
http://dx.doi.org/10.3389/fmicb.2022.878342
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author Siedlik, Jacob A.
Watson, Cynthia J.
Raine, Morgan A.
Cheng, Anne V.
Goering, Richard V.
Stessman, Holly A. F.
Belshan, Michael
author_facet Siedlik, Jacob A.
Watson, Cynthia J.
Raine, Morgan A.
Cheng, Anne V.
Goering, Richard V.
Stessman, Holly A. F.
Belshan, Michael
author_sort Siedlik, Jacob A.
collection PubMed
description COVID-19 emerged at varying intervals in different regions of the United States in 2020. This report details the epidemiologic and genetic evolution of Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) during the first year of the epidemic in the state of Nebraska using data collected from the Creighton Catholic Health Initiatives (CHI) health system. Statistical modelling identified age, gender, and previous history of diabetes and/or stroke as significant risk factors associated with mortality in COVID-19 patients. In parallel, the viral genomes of over 1,000 samples were sequenced. The overall rate of viral variation in the population was 0.07 mutations/day. Genetically, the first 9 months of the outbreak, which include the initial outbreak, a small surge in August and a major outbreak in November 2020 were primarily characterized by B.1. lineage viruses. In early 2021, the United Kingdom variant (B.1.1.7 or alpha) quickly became the dominant variant. Notably, surveillance of non-consensus variants detected B.1.1.7 defining mutations months earlier in Fall 2020. This work provides insights into the regional variance and evolution of SARS-CoV-2 in the Nebraska region during the first year of the pandemic.
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spelling pubmed-91584932022-06-02 Epidemiologic and Genomic Analysis of the Severe Acute Respiratory Syndrome Coronavirus 2 Epidemic in the Nebraska Region of the United States, March 2020–2021 Siedlik, Jacob A. Watson, Cynthia J. Raine, Morgan A. Cheng, Anne V. Goering, Richard V. Stessman, Holly A. F. Belshan, Michael Front Microbiol Microbiology COVID-19 emerged at varying intervals in different regions of the United States in 2020. This report details the epidemiologic and genetic evolution of Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) during the first year of the epidemic in the state of Nebraska using data collected from the Creighton Catholic Health Initiatives (CHI) health system. Statistical modelling identified age, gender, and previous history of diabetes and/or stroke as significant risk factors associated with mortality in COVID-19 patients. In parallel, the viral genomes of over 1,000 samples were sequenced. The overall rate of viral variation in the population was 0.07 mutations/day. Genetically, the first 9 months of the outbreak, which include the initial outbreak, a small surge in August and a major outbreak in November 2020 were primarily characterized by B.1. lineage viruses. In early 2021, the United Kingdom variant (B.1.1.7 or alpha) quickly became the dominant variant. Notably, surveillance of non-consensus variants detected B.1.1.7 defining mutations months earlier in Fall 2020. This work provides insights into the regional variance and evolution of SARS-CoV-2 in the Nebraska region during the first year of the pandemic. Frontiers Media S.A. 2022-05-18 /pmc/articles/PMC9158493/ /pubmed/35663859 http://dx.doi.org/10.3389/fmicb.2022.878342 Text en Copyright © 2022 Siedlik, Watson, Raine, Cheng, Goering, Stessman and Belshan. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Siedlik, Jacob A.
Watson, Cynthia J.
Raine, Morgan A.
Cheng, Anne V.
Goering, Richard V.
Stessman, Holly A. F.
Belshan, Michael
Epidemiologic and Genomic Analysis of the Severe Acute Respiratory Syndrome Coronavirus 2 Epidemic in the Nebraska Region of the United States, March 2020–2021
title Epidemiologic and Genomic Analysis of the Severe Acute Respiratory Syndrome Coronavirus 2 Epidemic in the Nebraska Region of the United States, March 2020–2021
title_full Epidemiologic and Genomic Analysis of the Severe Acute Respiratory Syndrome Coronavirus 2 Epidemic in the Nebraska Region of the United States, March 2020–2021
title_fullStr Epidemiologic and Genomic Analysis of the Severe Acute Respiratory Syndrome Coronavirus 2 Epidemic in the Nebraska Region of the United States, March 2020–2021
title_full_unstemmed Epidemiologic and Genomic Analysis of the Severe Acute Respiratory Syndrome Coronavirus 2 Epidemic in the Nebraska Region of the United States, March 2020–2021
title_short Epidemiologic and Genomic Analysis of the Severe Acute Respiratory Syndrome Coronavirus 2 Epidemic in the Nebraska Region of the United States, March 2020–2021
title_sort epidemiologic and genomic analysis of the severe acute respiratory syndrome coronavirus 2 epidemic in the nebraska region of the united states, march 2020–2021
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9158493/
https://www.ncbi.nlm.nih.gov/pubmed/35663859
http://dx.doi.org/10.3389/fmicb.2022.878342
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