Author | Oliveira, Laís Albuquerque de | |
Author | Rezende, Izabela Mauricio de | |
Author | Navarini, Vinicius João | |
Author | Marchioro, Silvana Beutinger | |
Author | Torres, Alex José Leite | |
Author | Croda, Julio | |
Author | Croda, Mariana Garcia | |
Author | Gonçalves, Crhistinne Cavalheiro Maymone | |
Author | Xavier, Joilson | |
Author | Castro, Emerson de | |
Author | Lima, Mauricio | |
Author | Iani, Felipe | |
Author | Adelino, Talita | |
Author | Aburjaile, Flávia | |
Author | Demarchi, Luiz Henrique Ferraz | |
Author | Taira, Deborah Ledesma | |
Author | Zardin, Marina Castilhos Souza Umaki | |
Author | Fonseca, Vagner | |
Author | Giovanetti, Marta | |
Author | Andrews, Jason | |
Author | Alcantara, Luiz Carlos Junior | |
Author | Simionatto, Simone | |
Access date | 2024-01-18T12:43:49Z | |
Available date | 2024-01-18T12:43:49Z | |
Document date | 2023 | |
Citation | OLIVEIRA, Laís Albuquerque de et al. Genomic characterization of SARS-CoV-2 from an indigenous reserve in Mato Grosso do Sul, Brazil. Front Public Health, v. 11, 1195779, 2023. doi: 10.3389/fpubh.2023.1195779 | en_US |
ISSN | 2296-2565 | en_US |
URI | https://www.arca.fiocruz.br/handle/icict/62281 | |
Language | eng | en_US |
Publisher | Frontiers Editorial Office | en_US |
Rights | open access | en_US |
Title | Genomic characterization of SARS-CoV-2 from an indigenous reserve in Mato Grosso do Sul, Brazil. | en_US |
Type | Article | en_US |
Abstract | Background: The COVID-19 pandemic had a major impact on indigenous populations. Understanding the viral dynamics within this population is essential to create targeted protection measures.
Methods: A total of 204 SARS-CoV-2 positive samples collected between May 2020 and November 2021 from an indigenous area in Mato Grosso do Sul (MS), Midwestern Brazil, were screened. Samples were submitted to whole genome sequencing using the Nanopore sequencing platform. Clinical, demographic, and phylogenetic data were analyzed.
Results; We found the co-circulation of six main SARS-CoV-2 lineages in the indigenous population, with the Zeta lineage being the most prevalent (27.66%), followed by B.1.1 (an ancestral strain) (20.21%), Gamma (14.36%) and Delta (13.83%). Other lineages represent 45.74% of the total. Our phylogenetic reconstruction indicates that multiple introduction events of different SARS-CoV-2 lineages occurred in the indigenous villages in MS. The estimated indigenous population mortality rate was 1.47%. Regarding the ethnicity of our cohort, 64.82% belong to the Guarani ethnicity, while 33.16% belong to the Terena ethnicity, with a slightly higher prevalence of males (53.43%) among females. Other ethnicities represent 2.01%. We also observed that almost all patients (89.55%) presented signs and symptoms related to COVID-19, being the most prevalent cough, fever, sore throat, and headache.
Discussion: Our results revealed that multiple independent SARS-CoV-2 introduction events had occurred through time, probably due to indigenous mobility, since the villages studied here are close to urban areas in MS. The mortality rate was slightly below of the estimation for the state in the period studied, which we believe could be related to the small number of samples evaluated, the underreporting of cases and deaths among this population, and the inconsistency of secondary data available for this study.
Conclusion: In this study, we showed the circulation of multiple SARS-CoV-2 variants in this population, which should be isolated and protected as they belong to the most fragile group due to their socioeconomic and cultural disparities. We reinforce the need for constant genomic surveillance to monitor and prevent the spread of new emerging viruses and to better understand the viral dynamics in these populations, making it possible to direct specific actions | en_US |
Affilliation | Health Sciences Research Laboratory. Federal University of Grande Dourados. Dourados, MS, Brazil | en_US |
Affilliation | Stanford Pandemic Preparedness Hub. Department of Medicine. Division of Infectious Diseases and Geographic Medicine. Stanford University School of Medicine. Stanford, CA, United States | en_US |
Affilliation | Health Sciences Research Laboratory. Federal University of Grande Dourados. Dourados, MS, Brazil | en_US |
Affilliation | Laboratory of Immunology and Molecular Biology. Institute of Health Sciences. Federal University of Bahia. Salvador, BA, Brazil | en_US |
Affilliation | Laboratory of Immunology and Molecular Biology. Institute of Health Sciences. Federal University of Bahia. Salvador, BA, Brazil | en_US |
Affilliation | Oswaldo Cruz Foundation. Campo Grande, MS, Brazil/Faculdade de Medicina. Universidade Federal do Mato Grosso do Sul. Campo Grande, MS, Brazil | en_US |
Affilliation | Universidade Federal do Mato Grosso do Sul. Faculdade de Medicina. Campo Grande, MS, Brazil | en_US |
Affilliation | School of Medicine. Federal University of Mato Grosso do Sul. Campo Grande, MS, Brazil/ State Secretariat of Health of Mato Grosso do Sul. Campo Grande. MS, Brazil | en_US |
Affilliation | Federal University of Minas Gerais. Belo Horizonte, MG, Brazil | en_US |
Affilliation | Ezequiel Dias Foundation. Belo Horizonte, MG, Brazil | en_US |
Affilliation | Ezequiel Dias Foundation. Belo Horizonte, MG, Brazil | en_US |
Affilliation | Ezequiel Dias Foundation. Belo Horizonte, MG, Brazil | en_US |
Affilliation | Ezequiel Dias Foundation. Belo Horizonte, MG, Brazil | en_US |
Affilliation | Preventive Veterinary Medicine Departament. Veterinary School. Universidade Federal de Minas Gerais. Belo Horizonte, MG, Brazil | en_US |
Affilliation | Central Public Health Laboratory. Campo Grande, MS, Brazil | en_US |
Affilliation | Central Public Health Laboratory. Campo Grande, MS, Brazil | en_US |
Affilliation | Central Public Health Laboratory. Campo Grande, MS, Brazil | en_US |
Affilliation | Pan American Health Organization. Brasília, DF, Brazil | en_US |
Affilliation | Fundação Oswaldo Cruz. Rene Rachou. Belo Horizonte, MG, Brazil/Sciences and Technologies for Sustainable Development and One Health. Università Campus Bio-Medico di Roma. Rome, Italy/Climate-Amplified Diseases and Epidemics. Rio de Janeiro, RJ, Brazil | en_US |
Affilliation | Stanford Pandemic Preparedness Hub. Department of Medicine. Division of Infectious Diseases and Geographic Medicine. Stanford University School of Medicine. Stanford, CA, United States | en_US |
Affilliation | Fundação Oswaldo Cruz. Rene Rachou. Belo Horizonte, MG, Brazil/Climate-Amplified Diseases and Epidemics. Rio de Janeiro, RJ, Brazil | en_US |
Affilliation | Health Sciences Research Laboratory. Federal University of Grande Dourados. Dourados, MS, Brazil | en_US |
Subject | SARS-CoV-2 | en_US |
Subject | COVID-19 | en_US |
Subject | indigenous population | en_US |
Subject | VoI | en_US |
Subject | VOC | en_US |
Subject | pandemic | en_US |