Genomic and Epidemiological Surveillance of SARS-CoV-2: Data Analysis from the Central Public Health Laboratory of Alagoas and GISAID Database

Résumé fourni par la source

Genomic and epidemiological surveillance play a critical role in understanding the spread and evolution of SARS-CoV-2 at the regional level. In the state of Alagoas, Brazil, continuous monitoring of viral mutations is essential for assessing transmission dynamics and informing public health policies. The GISAID platform is a valuable resource for genomic data, but challenges related to data access and processing necessitate efficient analytical solutions. This study presents an automated pipeline designed to streamline the retrieval, filtering, and analysis of SARS-CoV-2 sequences from GISAID, with a specific focus on genomic surveillance in Alagoas. Using bioinformatics tools, our approach enables the selection of high-quality sequences based on metadata criteria, improving the accuracy of phylogenetic and epidemiological analyses. Our results demonstrate the successful retrieval and processing of over 90 high-quality SARS-CoV-2 sequences from Alagoas, allowing for the identification of region-specific mutations and their association with emerging variants. Phylogenetic analyses revealed distinct viral lineages circulating in the state, contributing to a deeper understanding of local transmission patterns. Additionally, our approach improved data retrieval efficiency by 40% and reduced processing time by 50% compared to manual methods. This study was conducted in collaboration with the Central Public Health Laboratory of the State of Alagoas, reinforcing the importance of integrating automated bioinformatics tools into regional genomic surveillance efforts. Our study provides a scalable and efficient solution for real-time SARS-CoV-2 monitoring and can be adapted for other viral pathogens, enhancing epidemiological preparedness in Alagoas and beyond.