BIOINFORMATICS ANALYSES OF SURFACE PROTEIN GENE OF HBV GENOME OCCURRED IN BLOOD SAMPLES FROM DIFFERENT REGIONS OF KSA

Abstract

The major surface antigen (MSA) genes of hepatitis B virus (HBV) were PCR-amplified from different DNA templates of HBV-infected blood samples. On determination of nucleotide sequences these genes were subjected to some bioinformatics analyses at the levels of DNA, amino acids and putative domains. The lengths of partial nucleotide sequences and deduced amino acids in open reading frames (ORFs) of the HBV strains under investigation were 752 & 217, 838 & 257, 893 & 231, 665 & 148 and 840 & 183 nts for HBV strains LC152750.1, LC152754.1, LC152755.1, LC152756.1 and LC152758.1, with percent identities ranged from 94-99% & 86-99%, respectively, compared to HBV overseas related strains in GenBank. The ORFs and their amino acids of the partial sequences of HBV strains confirmed the dependence of these genes to MSA. Presences of general primers of MSA genes, and primers of each of PCR, sequencing and mutagenic were detected in the PCR-amplified sequences of HBV strains. The putative conserved domains of the five HBV strains of MSA genes were belonging to vMSA (Accession ≠: pfam00695) domain which described as major surface antigen from hepadnavirus of the superfamily cl02933. Phylogenetic tree of the HBV P, S genes, partial sequence, and strains of this study confirmed that these genes were belonging to the MSA from hepadnavirus compared to the most related genes. Bioinformatics comparisons between the five HBV strains showed that they were closely related to each other, with 90-94%, nucleotides similarity.