RECOMBINATION AND EVOLUTION OF DENV-1 GENOTYPE V IN BRAZIL

Hugo de Paula Oliveira; Paula Prieto Oliveira; Denis Jacob Machado; Kary Ocana

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Paper Title

RECOMBINATION AND EVOLUTION OF DENV-1 GENOTYPE V IN BRAZIL

Authors

Hugo de Paula Oliveira
Paula Prieto Oliveira
Denis Jacob Machado
Kary Ocana

Modality

Poster

Subject area

Phylogeny and Evolution

Publishing Date

21/11/2024

Country of Publishing

Brazil | Brasil

Language of Publishing

Inglês

Paper Page

https://www.even3.com.br/anais/xmeeting-2024/833409-recombination-and-evolution-of-denv-1-genotype-v-in-brazil

ISBN

978-65-272-0843-3

Keywords

Dengue virus,Recombination,Evolution

Summary

Genome recombination serves as a foundational mechanism in evolutionary genetics, actively shaping genome evolution and phenotypic diversity. Understanding recombination events within nucleotide sequences is essential for elucidating the non-linear dynamics of evolutionary biology across lineages, particularly in light of the heightened prevalence and endemicity of viral pathogens such as dengue. Dengue virus (DENV) stands as the etiological agent of dengue fever, transmitted by mosquitoes of the genus Aedes. Its pervasive presence in tropical and subtropical regions poses significant public health concerns, notably due to the emergence of severe clinical manifestations such as dengue hemorrhagic fever and dengue shock syndrome. DENV genomes, consisting of four serotypes (DENV 1–4), are single-stranded, non-segmented positive-sense RNA sequences approximately 11 Kb in length, further stratified into various genotypes. Previous investigations have identified recombination events in DENV across multiple genes, including C (capsid), prM (precursor membrane), E (envelope), and NS1 (non-structural protein 1). However, the extent and frequency of recombination in DENV remain notably underestimated, presenting challenges to our comprehension of DENV genome evolution. We are undertaking a comprehensive recombination screening of DENV to address this gap. As a preliminary investigation, we conducted a recombination detection analysis focusing on serotype 1 (DENV-1), genotype V, sampled in Brazil. Our initial dataset comprised 38 DENV-1 genomes archived in NCBI's GenBank until December 2023. These sequences were classified as genotype V using GenomeDetective v. 2.77, and subsequent alignment was performed using MAFFT v. 7. Putative recombination events were identified using RDP5 with default parameters. Our analysis identified a recombinant genome, accession number FJ850071.1, originating from a major donor with GenBank accession FJ850077.1. The recombination event was independently corroborated by GENECONV, Bootscan, and ThreeSEQ algorithms, as implemented in RDP5. In this presentation, we will delineate the methodology established in this case study to expand our recombination screens to encompass DENV variants from diverse geographical locales, serotypes, and genotypes. As no previous recombination screens of DENV have been conducted at this scale, we will also employ recombination simulations to inform optimal data partitioning strategies and input file preparation for RDP5. By simulating recombination events and assessing their retrieval efficiency through RDP5, we aim to delineate the performance limits of this tool in terms of efficiency, speed, sensitivity, and specificity. This will ultimately provide insights into optimizing recombination screening protocols for DENV and potentially other viral pathogens.

Title of the Event: 20º Congresso Brasileiro de Bioinformática: X-Meeting 2024
City of the Event: Salvador
Title of the Proceedings of the event: X-Meeting presentations
Name of the Publisher: Even3
Means of Dissemination: Meio Digital

How to cite

OLIVEIRA, Hugo de Paula et al.. RECOMBINATION AND EVOLUTION OF DENV-1 GENOTYPE V IN BRAZIL.. In: X-Meeting presentations. Anais...Salvador(BA) Hotel Deville Prime, 2024. Available in: https//www.even3.com.br/anais/xmeeting-2024/833409-RECOMBINATION-AND-EVOLUTION-OF-DENV-1-GENOTYPE-V-IN-BRAZIL. Access in: 15/12/2025