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CLINICAL AND EPIDEMIOLOGICAL ASPECTS OF DELTA AND GAMMA SARS-COV-2 VARIANT OF CONCERN FROM THE WESTERN BRAZILIAN AMAZON
Variante de preocupação
Variante gama
Delta
Vigilância genômica
COVID-19
Author
Affilliation
Abstract
BACKGROUND The emergence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants has become a major
concern contributing to increased morbidity and mortality worldwide.
OBJECTIVES Here we describe the replacement of the Gamma variant of concern (VOC) with Delta in the western Brazilian Amazon.
METHODS In this study, we analysed 540 SARS-CoV-2 positive samples determined by qualitative real-time RT-PCR selected in
the state of Rondônia between June and December 2021. The positive cohort was sequenced through next-generation sequencing
(NGS) and each sample was quantified using real-time RT-qPCR, the whole genome sequence was obtained, SARS-CoV-2 lineages
were classified using the system Pango and the maximum likelihood (ML) method was used to conduct phylogenetic analyses.
FINDINGS A total of 540 high-quality genomes were obtained, where the Delta VOC showed the highest prevalence making up
72%, with strain AY.43 being the most abundant, while the Gamma VOC was present in 28%, where the P.1 strain was the most
frequent. In this study population, only 32.96% (178/540) had completed the vaccination schedule.
MAIN CONCLUSIONS This study highlighted the presence of Gamma and Delta variants of SARS-CoV-2 in RO. Furthermore,
we observed the replacement of the Gamma VOC with the Delta VOC and its lineages.
Keywords in Portuguese
SARS CoV-2Variante de preocupação
Variante gama
Delta
Vigilância genômica
COVID-19
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