African Journal of Biotechnology

The AJOL site is currently undergoing a major upgrade, and there will temporarily be some restrictions to the available functionality.
-- Users will not be able to register or log in during this period.
-- Full text (PDF) downloads of Open Access journal articles will be available as always.
-- Full text (PDF) downloads of subscription based journal articles will NOT be available
We apologise for any inconvenience caused. Please check back soon, as we will revert to usual policy as soon as possible.

Sequence comparison and phylogenetic analysis of core gene of hepatitis C virus from Pakistani population

Y Waheed, S Tahir, T Ahmad, I Qadri


In Pakistan, more than 10 million people are living with hepatitis C virus (HCV) with high morbidity and mortality. The aims of the present study are to report HCV core gene sequences from Pakistani population and perform their sequence comparison/phylogenetic analysis. The core gene of HCV has been cloned from six different patients and sequences submitted at the National Center of Biotechnology Information (NCBI). Nucleotides and deduced amino acid sequence comparison of six isolates was performed with each other and with two HCV genotype 3a type examples reported from Japan. Phylogenetic tree of HCV core sequences was constructed using CLC software. Nucleotides sequence comparison showed that our sequences have 94 to 96% homology with NZL1 strain and 90 to 93%
homology with HCV-K3A/650 strain. Deduced amino acid sequence comparison showed that our sequences have 92 to 98% homology with NZL1 strain and 88 to 94% homology with HCV-K3A/650 strain.
Phylogenetic analysis suggests that our sequences are clustered with sequences reported from Japan. This is the first phylogenetic analysis of HCV core gene from Pakistani population. Our sequences and sequences from Japan are grouped into same cluster in the phylogenetic tree. Sequence comparison and phylogenetic analysis showed that our isolates have high homology with Japanese isolates.

AJOL African Journals Online