Epidemiology of the SARS-CoV-2 Omicron Variant Emergence in the Southeast Brazilian Population

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Autor(es): dc.contributorUniversidade de São Paulo (USP)-
Autor(es): dc.contributorButantan Institute-
Autor(es): dc.contributorUniversidade Estadual Paulista (UNESP)-
Autor(es): dc.contributorKansas State University-
Autor(es): dc.contributorOrganização Pan-Americana da Saúde/Organização Mundial da Saúde-
Autor(es): dc.contributorMedicine School of São José do Rio Preto (FAMERP)-
Autor(es): dc.contributorFundação Oswaldo Cruz-
Autor(es): dc.contributorUniversity of Campus Bio-Medico di Roma-
Autor(es): dc.creatorRodrigues, Evandra Strazza-
Autor(es): dc.creatorSlavov, Svetoslav Nanev-
Autor(es): dc.creatorde La Roque, Debora Glenda Lima-
Autor(es): dc.creatorSantos, Elaine Vieira-
Autor(es): dc.creatorBorges, Josiane Serrano-
Autor(es): dc.creatorEvaristo, Mariane-
Autor(es): dc.creatorda Costa, Péricles Natan Mendes-
Autor(es): dc.creatorde Matos Maçonetto, Juliana-
Autor(es): dc.creatorMarques, Adriana Aparecida-
Autor(es): dc.creatorBaccarin, Anemarie Dinarte-
Autor(es): dc.creatorOliveira, Renata Aparecida Machado-
Autor(es): dc.creatorJunior, Wilson Lau-
Autor(es): dc.creatorBenincasa, Bruno Iglesias-
Autor(es): dc.creatorde Andrade da Cruz, Luana Martins-
Autor(es): dc.creatorLima, Alex Ranieri Jerônimo-
Autor(es): dc.creatorRibeiro, Gabriela-
Autor(es): dc.creatorViala, Vincent Louis-
Autor(es): dc.creatorde Lima, Loyze Paola Oliveira-
Autor(es): dc.creatorMartins, Antonio Jorge-
Autor(es): dc.creatordos Santos Barros, Claudia Renata-
Autor(es): dc.creatorMarqueze, Elaine Cristina-
Autor(es): dc.creatorde Souza Todao Bernardino, Jardelina-
Autor(es): dc.creatorGrotto, Rejane Maria Tommasini-
Autor(es): dc.creatorSouza-Neto, Jayme A.-
Autor(es): dc.creatorFonseca, Vagner-
Autor(es): dc.creatorNogueira, Maurício Lacerda-
Autor(es): dc.creatorFukumasu, Heidge-
Autor(es): dc.creatorCoutinho, Luiz Lehmann-
Autor(es): dc.creatorCalado, Rodrigo Tocantins-
Autor(es): dc.creatorCovas, Dimas Tadeu-
Autor(es): dc.creatorGiovanetti, Marta-
Autor(es): dc.creatorAlcantara, Luiz Carlos Junior-
Autor(es): dc.creatorSampaio, Sandra Coccuzzo-
Autor(es): dc.creatorElias, Maria Carolina-
Autor(es): dc.creatorKashima, Simone-
Data de aceite: dc.date.accessioned2025-08-21T18:28:36Z-
Data de disponibilização: dc.date.available2025-08-21T18:28:36Z-
Data de envio: dc.date.issued2025-04-29-
Data de envio: dc.date.issued2024-03-01-
Fonte completa do material: dc.identifierhttp://dx.doi.org/10.3390/microorganisms12030449-
Fonte completa do material: dc.identifierhttps://hdl.handle.net/11449/307160-
Fonte: dc.identifier.urihttp://educapes.capes.gov.br/handle/11449/307160-
Descrição: dc.descriptionThe aim of this study was to describe epidemiological characteristics and perform SARS-CoV-2 genomic surveillance in the southeastern region of São Paulo State. During the first months of 2022, we compared weekly SARS-CoV-2 infection prevalence considering age, Ct value, and variants’ lineages. An increase in the number of SARS-CoV-2-positive cases until the fourth epidemiological week of 2022 was observed. From the fourth epidemiological week onwards, the number of tests for SARS-CoV-2 diagnosis began to decrease, but the number of positive samples for SARS-CoV-2 remained high, reaching its most expressive level with a rate of 60% of infected individual cases. In this period, we observed a progressive increase in SARS-CoV-2 infection within the 0–10 age group throughout the epidemiological weeks, from 2.8% in the first epidemiological week to 9.2% in the eighth epidemiological week of 2022. We further observed significantly higher Ct values within younger patient samples compared to other older age groups. According to lineage assignment, SARS-CoV-2 (BA.1) was the most prevalent (74.5%) in the younger group, followed by BA.1.1 (23%), BA.2 (1.7%), and Delta (1%). Phylogenetic analysis showed that BA.2 sequences clustered together, indicating sustained transmission of this Omicron VOC sub-lineage by that time. Our results suggest the initial dissemination steps of the Omicron’s sub-linage BA.2 into the younger group, due to specific genomic features of the detected sequences. These data provide interesting results related to the spread, emergence, and evolution of the Omicron variant in the southeast Brazilian population.-
Descrição: dc.descriptionBlood Center of Ribeirão Preto Ribeirão Preto Medical School University of São Paulo, SP-
Descrição: dc.descriptionButantan Institute, SP-
Descrição: dc.descriptionSchool of Agricultural Sciences São Paulo State University (UNESP), SP-
Descrição: dc.descriptionDepartment of Diagnostic Medicine/Pathobiology Kansas State Veterinary Diagnostic Laboratory College of Veterinary Medicine Kansas State University-
Descrição: dc.descriptionOrganização Pan-Americana da Saúde/Organização Mundial da Saúde, DF-
Descrição: dc.descriptionMedicine School of São José do Rio Preto (FAMERP), SP-
Descrição: dc.descriptionDepartment of Veterinary Medicine School of Animal Science and Food Engineering University of São Paulo, SP-
Descrição: dc.descriptionUniversity of São Paulo, SP-
Descrição: dc.descriptionLaboratorio de Flavivirus Fundação Oswaldo Cruz, RJ-
Descrição: dc.descriptionDepartment of Science and Technology for Humans and the Environment University of Campus Bio-Medico di Roma-
Descrição: dc.descriptionSchool of Agricultural Sciences São Paulo State University (UNESP), SP-
Idioma: dc.languageen-
Relação: dc.relationMicroorganisms-
???dc.source???: dc.sourceScopus-
Palavras-chave: dc.subjectBrazilian population-
Palavras-chave: dc.subjectOmicron variant-
Palavras-chave: dc.subjectSARS-CoV-2 genomic surveillance-
Título: dc.titleEpidemiology of the SARS-CoV-2 Omicron Variant Emergence in the Southeast Brazilian Population-
Tipo de arquivo: dc.typelivro digital-
Aparece nas coleções:Repositório Institucional - Unesp

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