دورية أكاديمية
أعرض في EDS

Combining genomic data and infection estimates to characterize the complex dynamics of SARS-CoV-2 Omicron variants in the US.

التفاصيل البيبلوغرافية
العنوان: Combining genomic data and infection estimates to characterize the complex dynamics of SARS-CoV-2 Omicron variants in the US.
المؤلفون: Lopes R; Department of Epidemiology of Microbial Diseases and Public Health Modeling Unit, Yale School of Public Health, New Haven, CT, USA. Electronic address: rafael.lopes@yale.edu., Pham K; Department of Epidemiology of Microbial Diseases and Public Health Modeling Unit, Yale School of Public Health, New Haven, CT, USA., Klaassen F; Department of Global Health and Population, Harvard T. H. Chan School of Public Health, Boston, MA, USA., Chitwood MH; Department of Epidemiology of Microbial Diseases and Public Health Modeling Unit, Yale School of Public Health, New Haven, CT, USA., Hahn AM; Department of Epidemiology of Microbial Diseases and Public Health Modeling Unit, Yale School of Public Health, New Haven, CT, USA., Redmond S; Department of Epidemiology of Microbial Diseases and Public Health Modeling Unit, Yale School of Public Health, New Haven, CT, USA., Swartwood NA; Department of Global Health and Population, Harvard T. H. Chan School of Public Health, Boston, MA, USA., Salomon JA; Department of Health Policy, Stanford University School of Medicine, Stanford, CA, USA., Menzies NA; Department of Global Health and Population, Harvard T. H. Chan School of Public Health, Boston, MA, USA., Cohen T; Department of Epidemiology of Microbial Diseases and Public Health Modeling Unit, Yale School of Public Health, New Haven, CT, USA. Electronic address: theodore.cohen@yale.edu., Grubaugh ND; Department of Epidemiology of Microbial Diseases and Public Health Modeling Unit, Yale School of Public Health, New Haven, CT, USA; Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT, USA. Electronic address: nathan.grubaugh@yale.edu.
المصدر: Cell reports [Cell Rep] 2024 Jul 23; Vol. 43 (7), pp. 114451. Date of Electronic Publication: 2024 Jul 05.
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: Cell Press Country of Publication: United States NLM ID: 101573691 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2211-1247 (Electronic) NLM ISO Abbreviation: Cell Rep Subsets: MEDLINE
أسماء مطبوعة: Original Publication: [Cambridge, MA] : Cell Press, c 2012-
مواضيع طبية MeSH: SARS-CoV-2*/genetics , SARS-CoV-2*/isolation & purification , COVID-19*/virology , COVID-19*/epidemiology, Humans ; United States/epidemiology ; Genome, Viral ; Genomics/methods
مستخلص: Omicron surged as a variant of concern in late 2021. Several distinct Omicron variants appeared and overtook each other. We combined variant frequencies and infection estimates from a nowcasting model for each US state to estimate variant-specific infections, attack rates, and effective reproduction numbers (R t ). BA.1 rapidly emerged, and we estimate that it infected 47.7% of the US population before it was replaced by BA.2. We estimate that BA.5 infected 35.7% of the US population, persisting in circulation for nearly 6 months. Other variants-BA.2, BA.4, and XBB-together infected 30.7% of the US population. We found a positive correlation between the state-level BA.1 attack rate and social vulnerability and a negative correlation between the BA.1 and BA.2 attack rates. Our findings illustrate the complex interplay between viral evolution, population susceptibility, and social factors during the Omicron emergence in the US.
Competing Interests: Declaration of interests N.D.G. is a paid consultant for BioNTech.
(Copyright © 2024 The Author(s). Published by Elsevier Inc. All rights reserved.)
فهرسة مساهمة: Keywords: CP: Microbiology
SCR Organism: SARS-CoV-2 variants
تواريخ الأحداث: Date Created: 20240706 Date Completed: 20240728 Latest Revision: 20240728
رمز التحديث: 20240728
DOI: 10.1016/j.celrep.2024.114451
PMID: 38970788
قاعدة البيانات: MEDLINE
الوصف
تدمد:2211-1247
DOI:10.1016/j.celrep.2024.114451