Analysis of the complete genome of HBV genotypes F and H found in Brazil and Mexico using the next generation sequencing method

Annals of Hepatology

João Renato Rebello Pinho¹  Alexis José-Abrego²  Pedro Sebe²  Arturo Panduro³  Sonia Roman⁴  Ana Paula Moreira Salles⁴  Patrícia Oliveira Gionda⁵  Rodrigo dos Santos Francisco⁵  Michele Gomes-Gouvea⁵  Fernanda de Mello Malta⁵ 

[1]Health Sciences Center, University of Guadalajara, Guadalajara, Mexico

[2]Hospital Israelita Albert Einstein, São Paulo, Brazil

[3]Department of Molecular Biology in Medicine, Civil Hospital of Guadalajara, “Fray Antonio Alcalde,” Guadalajara, Mexico

[4]Hospital Israelita Albert Einstein, São Paulo, Brazil

[5]LIM-07, Institute of Tropical Medicine, Department of Gastroenterology, University of São Paulo School of Medicine, São Paulo, Brazil

关键词: Hepatitis B;    Sequencing;    Next-generation;    Latin America;    Genotype;   

DOI  :  

来源: DOAJ

【 摘 要 】

Introduction and Objectives: Hepatitis B Virus is classified into ten different genotypes (A- J). Genotypes F and H cluster apart from others in phylogenetic trees and is particularly frequent in the Americas. The aim of this study was to sequence complete genomes of samples of HBV genotypes F and H from Brazil and Mexico using next generation sequencing (NGS) and to study relevant characteristics for the disease associated with this virus. Materials and methods: Ninety plasma samples with detectable HBV DNA belonging to the F (n=59) and H (n=31) genotypes were submitted to amplification of the complete HBV genome by three different methologies. Data analysis was developed using bioinformatics tools for quality assurance and comprehensive coverage of the genome. Sequences were aligned with reference sequences for subgenotyping and detecting variants in relevant positions. A phylogenetical tree was constructed using Bayesian methods. Results: HBV genome of 31 samples were amplified and 18 of them were sequenced (HBV/F=16 and HBV/H=2). One genotype F sample was co-infected with the F1b and F3 subgenotypes, while the other samples were all F2a subgenotype. Two genotype H samples clustered with other Mexican sequences. The main variants observed were found in preS and S genes (7/18) and mutations in the precore/core region (11/18). Conclusions: A NGS methodology was applied to F and H genotypes samples from Mexico and Brazil to fully characterize their sequences. This methodology will be relevant for clinical and epidemiological studies of hepatitis B in Latin America

【 授权许可】

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