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Phylogenetic analysis of complete genome sequences of hepatitis B virus from an Afro-Colombian community: presence of HBV F3/A1 recombinant strain

Mónica V Alvarado-Mora1*, Camila M Romano2, Michele S Gomes-Gouvêa1, Maria F Gutierrez3, Flair J Carrilho1 and João R R Pinho1

Author Affiliations

1 Laboratory of Gastroenterology and Hepatology, São Paulo Institute of Tropical Medicine and Department of Gastroenterology, School of Medicine, University of São Paulo, São Paulo, Brazil

2 São Paulo Institute of Tropical Medicine, Department of Infectious and Parasitic Diseases (LIMHC), School of Medicine, University of São Paulo, São Paulo, Brazil

3 Laboratory of Virology, Department of Microbiology, Pontificia Javeriana University, Bogotá, Colombia

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Virology Journal 2012, 9:244  doi:10.1186/1743-422X-9-244

Published: 24 October 2012



Hepatitis B virus (HBV) infection is one of the most prevalent viral infections in humans and represents a serious public health problem. In Colombia, our group reported recently the presence of subgenotypes F3, A2 and genotype G in Bogotá. The aim of this study was to characterize the HBV genotypes circulating in Quibdó, the largest Afro-descendant community in Colombia. Sixty HBsAg-positive samples were studied. A fragment of 1306 bp (S/POL) was amplified by nested PCR. Positive samples to S/POL fragment were submitted to PCR amplification of the HBV complete genome.


The distribution of HBV genotypes was: A1 (52.17%), E (39.13%), D3 (4.3%) and F3/A1 (4.3%). An HBV recombinant strain subgenotype F3/A1 was found for the first time.


This study is the first analysis of complete HBV genome sequences from Afro-Colombian population. It was found an important presence of HBV/A1 and HBV/E genotypes. A new recombinant strain of HBV genotype F3/A1 was reported in this population. This fact may be correlated with the introduction of these genotypes in the times of slavery.

Hepatitis B virus; Subgenotype A1; Genotype E; Subgenotype D3; Bayesian analysis; Recombinant subgenotype F3/A1; Colombia