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DOI: 10.1055/s-0045-1807906
In silico analysis of the genetic variability of the HPV16 E5 oncogene
Introduction: Infections caused by HPV are the main cause of cervical cancer, the third most common cancer in women in Brazil. Among the identified genotypes, HPV16 is one of the most prevalent worldwide, and the study of its genetic variations is essential.
Objective: To identify in silico the polymorphisms of the E5 oncogene of HPV16 (E5HPV16).
Methods: Sequences were collected from the National Center for Biotechnology Information (NCBI) database using the accession numbers provided by BURK et al. 2013. Subsequently, the multiple alignment of the sequences was performed using the CLUSTALW program, part of the Molecular Evolutionary Genetics Analysis 6.0 (MEGA6) software.
Results: The E5HPV16 variants are classified into lineages A, B, C, and D and their sublineages A1 (European, E) – reference, A2 (European, E), A3 (European, E), A4 (Asian, E(As)), B1 (African-1, Afr1a), B2 (African-1, Afr1b), C (African-2, Afr2a), D1 (North American (NA)1), D2 (Asian-American (AA)2), and D3 (Asian-American (AA)1). E5HPV16 contains 252 nucleotides, encoding 83 amino acids. Fourteen polymorphic sites were observed, 7 synonymous and 7 non-synonymous. Considering the complete genome analysis, the polymorphisms were described at positions 3858, 3868, 3967, 3979, 3991, 4017, 4034, 4042, 4043, 4049, 4059, 4077, and 4089. For the E5HPV16 sequence, the polymorphisms were at positions 09, 19, 118, 130, 142, 165, 185, 193, 194, 200, 210, 228, and 240, with 9 amino acid substitutions in the oncoprotein.
Conclusion: The literature suggests an oncogenic risk due to these polymorphisms. However, functional studies are needed to assess the impact of these mutations.
Corresponding author: Giulia Di Credico Paranhos (e-mail: giulia.di@estudante.ufcg.edu.br).
No conflict of interest has been declared by the author(s).
Publication History
Article published online:
06 May 2025
© 2025. The Author(s). This is an open access article published by Thieme under the terms of the Creative Commons Attribution 4.0 International License, permitting copying and reproduction so long as the original work is given appropriate credit (https://creativecommons.org/licenses/by/4.0/)
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Giulia Di Cedico Paranhos, Letícia Bezerra de Almeida, Sarah Mahlmann de Araújo Muniz, Jeison Evangelista Neto, Maria Eduarda Moura Paulino, Fabricio Dantas Oliveira, Maria Beatriz Pitombeira de Azevedo Moreira, Angela Beatriz da Silva, Bright Owusu Ansah, Rayssa Shanaza da Silva Batista, Rodrigo Santana Leite, Tuanny Victória Fernandes Morais, Yasmin Nóbrega e Souza, Ruth Avernias Lopes de Avila, Ryan Marcos Xavier de Oliveira, Gabriel Soares Marques, Felipe Martins de Lima, Rogério Almeida Santos Filho, Anna Lis dos Santos Macedo Costa, Rafaella Barbosa Paiva, Emanuella Maria Batista da Motta Pessoa, Kaline Kezia Piragibe Souto, Sywldson Marllon de Santana Moura, Isadora de Meira Melo, Catarina Ramalho dos Santos, Vicente Castor Brito, Lucas Brito Maracajá. In silico analysis of the genetic variability of the HPV16 E5 oncogene. Brazilian Journal of Oncology 2025; 21.
DOI: 10.1055/s-0045-1807906