Abstract
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.
Funder
Fundação Amparo e Desenvolvimento da Pesquisa
Publisher
Public Library of Science (PLoS)
Reference45 articles.
1. From delta to Omicron: S1-RBD/S2 mutation/deletion equilibrium in SARS-CoV-2 defined variants;V Papanikolaou;Gene,2022
2. SARS-CoV-2 Variants, Vaccines, and Host Immunity;P Mistry;Front Immunol,2022
3. Tracking SARS-CoV-2 variants. [cited 10 Mar 2022]. Available: https://www.who.int/en/activities/tracking-SARS-CoV-2-variants/
4. Active surveillance and early detection of community transmission of SARS-CoV-2 Mu variant (B.1.621) in the Brazilian Amazon;G Sgorlon Oliveira;J Med Virol,2022
5. A rede–Genomahcov–Fiocruz. [cited 25 Oct 2022]. Available: https://www.genomahcov.fiocruz.br/a-rede/
Cited by
1 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献