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PHYLOGENETIC AND MUTATIONAL ANALYSIS OF WHOLE GENOME OF HEPATITIS B VIRUS GENOTYPE/ SUBGENOTYPE A/A1 CIRCULATING IN HBV-INFECTED POPULATION OF HARYANA IN INDIA. Vikas Pahal, Rajesh Kumar, and Jasbir Singh

PHYLOGENETIC AND MUTATIONAL ANALYSIS OF WHOLE GENOME OF HEPATITIS B VIRUS GENOTYPE/ SUBGENOTYPE A/A1 CIRCULATING IN HBV-INFECTED POPULATION OF HARYANA IN INDIA.

Vikas Pahal, Rajesh Kumar, and Jasbir Singh

Abstract

International Journal of Applied Microbiology Science 2014; 3(3):12-21

Genotype A has been observed as the second most common genotype of Hepatitis B virus (HBV) after genotype D in HBV-infected population of north India. Genotype A is divided into many subgenotypes (A1-A6). In our previous study we observed subgenotype A1 as the dominant subgenotype of genotype A in our HBV-infected population. Subgenotype A1 of HBV has been found to possess some characteristic mutations which can influence the clinical outcomes of HBV-related liver disease. In whole genome of subgenotype A1 of HBV there are some regions which have these clinical important mutation and these regions includes enhancer I-X promoter (950-1350), enhancer II-core promoter (1400-1850), encapsidation signal (1846-1908), S1 (2716-2806) and S2 (2999-3219) promoter regions. Our aim was to find out the characteristic mutations of indigenous subgenotypes A1 of HBV in Haryana, a north Indian state. Whole genome of HBV subgenotype A1, from clinically different isolates, was amplified using Pfu polymerase enzyme in a Hot-start PCR. The amplified 3.2 kb genomes from different isolates were sequenced and analyzed using BioEdit, SeqMan and MEGA software’s. Phylogenetic analysis revealed the presence of subgenotype A1 and serotype adw2 strain in all our isolates. Subgenotype A1 from our isolates not only showed the subgenotype A1 specific mutational pattern as described in worldwide studies, but also found to have some other subgenotype like A2/A3 specific mutations at one or two places in the whole genome. One isolate showed subgenotype A6 specific mutational pattern in surface region (nt. 256-796). Further studies are required to completely analyze this isolate and its place on phylogenetic tree. Studies of more number of HBV genomes from India are recommended to redefine the subgenotype specific mutations and the effect of these mutations in HBV-related liver disease progression.

Key words: Genotype, HBeAg, HBsAg, HBV, phylogenetic analysis, subgenotype.
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