دورية أكاديمية
أعرض في EDS

The emergence of Omicron VOC and its rapid spread and persistence in the Western Amazon.

التفاصيل البيبلوغرافية
العنوان: The emergence of Omicron VOC and its rapid spread and persistence in the Western Amazon.
المؤلفون: Sgorlon G; Laboratório de Virologia Molecular, Fundação Oswaldo Cruz Rondônia - FIOCRUZ/RO, Porto Velho, RO, Brazil.; Programa de Pós-Graduação em Biologia Experimental, Universidade Federal de Rondônia - UNIR, Porto Velho, RO, Brazil.; Centro de Pesquisa em Medicina Tropical, CEPEM, Porto Velho, RO, Brazil., Roca TP; Laboratório de Virologia Molecular, Fundação Oswaldo Cruz Rondônia - FIOCRUZ/RO, Porto Velho, RO, Brazil.; Centro de Pesquisa em Medicina Tropical, CEPEM, Porto Velho, RO, Brazil.; Laboratório de Hepatites Virais, Instituto Oswaldo Cruz/IOC, FIOCRUZ, Rio de Janeiro, RJ, Brazil., Passos-Silva AM; Laboratório de Virologia Molecular, Fundação Oswaldo Cruz Rondônia - FIOCRUZ/RO, Porto Velho, RO, Brazil.; Programa de Pós-Graduação em Biologia Experimental, Universidade Federal de Rondônia - UNIR, Porto Velho, RO, Brazil.; Centro de Pesquisa em Medicina Tropical, CEPEM, Porto Velho, RO, Brazil., Queiroz JAS; Laboratório de Virologia Molecular, Fundação Oswaldo Cruz Rondônia - FIOCRUZ/RO, Porto Velho, RO, Brazil.; Programa de Pós-Graduação em Biologia Experimental, Universidade Federal de Rondônia - UNIR, Porto Velho, RO, Brazil.; Centro de Pesquisa em Medicina Tropical, CEPEM, Porto Velho, RO, Brazil., Teixeira KS; Laboratório de Virologia Molecular, Fundação Oswaldo Cruz Rondônia - FIOCRUZ/RO, Porto Velho, RO, Brazil.; Centro de Pesquisa em Medicina Tropical, CEPEM, Porto Velho, RO, Brazil., Araújo A; Laboratório de Virologia Molecular, Fundação Oswaldo Cruz Rondônia - FIOCRUZ/RO, Porto Velho, RO, Brazil.; Centro de Pesquisa em Medicina Tropical, CEPEM, Porto Velho, RO, Brazil., Batista FS; Coordenação Estadual do COVID-19, AGEVISA/RO, Porto Velho, RO, Brazil., Souza VR; Instituto de Medicina Tropical da Faculdade de Medicina da USP, São Paulo, SP, Brazil., Oliveira FM; Instituto de Medicina Tropical da Faculdade de Medicina da USP, São Paulo, SP, Brazil., Morello LG; Instituto de Biologia Molecular do Paraná - IBMP, Curitiba, PR, Brazil.; Instituto Carlos Chagas (ICC), FIOCRUZ-PR, Curitiba, Paraná, Brazil., Marchini FK; Instituto de Biologia Molecular do Paraná - IBMP, Curitiba, PR, Brazil.; Instituto Carlos Chagas (ICC), FIOCRUZ-PR, Curitiba, Paraná, Brazil., Salcedo JMV; Laboratório de Virologia Molecular, Fundação Oswaldo Cruz Rondônia - FIOCRUZ/RO, Porto Velho, RO, Brazil.; Programa de Pós-Graduação em Biologia Experimental, Universidade Federal de Rondônia - UNIR, Porto Velho, RO, Brazil.; Centro de Pesquisa em Medicina Tropical, CEPEM, Porto Velho, RO, Brazil., Rampazzo RCP; Instituto de Biologia Molecular do Paraná - IBMP, Curitiba, PR, Brazil., Naveca FG; Laboratório de Virologia do Instituto Leônidas e Maria Deane, FIOCRUZ/AM, Manaus, AM, Brazil., Vieira D; Laboratório de Virologia Molecular, Fundação Oswaldo Cruz Rondônia - FIOCRUZ/RO, Porto Velho, RO, Brazil.; Programa de Pós-Graduação em Biologia Experimental, Universidade Federal de Rondônia - UNIR, Porto Velho, RO, Brazil.; Centro de Pesquisa em Medicina Tropical, CEPEM, Porto Velho, RO, Brazil.
المصدر: PloS one [PLoS One] 2023 Aug 17; Vol. 18 (8), pp. e0285742. Date of Electronic Publication: 2023 Aug 17 (Print Publication: 2023).
نوع المنشور: Journal Article; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet ISSN: 1932-6203 (Electronic) Linking ISSN: 19326203 NLM ISO Abbreviation: PLoS One Subsets: MEDLINE
أسماء مطبوعة: Original Publication: San Francisco, CA : Public Library of Science
مواضيع طبية MeSH: COVID-19*/epidemiology, Humans ; Phylogeny ; SARS-CoV-2/genetics ; RNA
مستخلص: Genomic surveillance represents a strategy to understanding the evolutionary mechanisms, transmission, and infectivity of different SARS-CoV-2 variants. We evaluated 603 individuals positive for SARS-CoV-2 from 34 municipalities of Rondônia between December 2021 to December 2022. Nasopharyngeal samples were collected, RNA was extracted and screened using RT-qPCR for VOCs. RNA of the samples were sequenced and further analyzed for phylogeny, mutations, and lineages, totaling 96.19% of samples positive for Omicron VOC in this cohort. We observed that most individuals had at least two doses, however 18.97% were not vaccinated with any dose. 554 sequences were amenable to analysis for alignment and phylogenetic characterization; this group corresponded to the 27 subvariants of the Omicron VOC; a total of 100 mutations were identified, 48% of which were found in the S gene. In conclusion, the data demonstrated the rapid spread and persistence of Omicron VOC in Rondônia during the 12-month study period. Although high frequency of mutations was found in the analyzed samples, there were no individuals with a severe clinical profile, demonstrating that vaccination had a positive effect in those cases.
Competing Interests: At the time of submission, R.C.P.R, L.G.M and F.K.M were employees at IBMP, which manufactures and commercializes the test described in this study. The other authors declare no potential conflict of interest. This does not alter our adherence to PLOS ONE policies on sharing data and materials
(Copyright: © 2023 Sgorlon et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.)
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المشرفين على المادة: 63231-63-0 (RNA)
SCR Organism: SARS-CoV-2 variants
تواريخ الأحداث: Date Created: 20230817 Date Completed: 20230821 Latest Revision: 20231102
رمز التحديث: 20231215
مُعرف محوري في PubMed: PMC10434903
DOI: 10.1371/journal.pone.0285742
PMID: 37590264
قاعدة البيانات: MEDLINE
الوصف
تدمد:1932-6203
DOI:10.1371/journal.pone.0285742