Journal of Bioinformatics and Sequence Analysis
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Article Number - 398802849921


Vol.7(1), pp. 1-7 , January 2015
DOI: 10.5897/JBSA2011.021
ISSN: 2141-2464



Full Length Research Paper

Primer designing for PreS region of hepatitis B virus from the most conserved patches of hepatitis B virus genome



Naaz Abbas
  • Naaz Abbas
  • Food and Biotechnology Research Center, PCSIR Laboratories complex Lahore 54600, Pakistan.
  • Google Scholar
Mohammad Ajmal
  • Mohammad Ajmal
  • Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan.
  • Google Scholar
Talat Afroze
  • Talat Afroze
  • Centre of Excellence in Molecular Biology, University of the Punjab, Lahore, Pakistan.
  • Google Scholar







 Received: 21 December 2011  Accepted: 08 May 2014  Published: 30 January 2015

Copyright © 2015 Author(s) retain the copyright of this article.
This article is published under the terms of the Creative Commons Attribution License 4.0


The most conserved regions for 15 hepatitis B virus complete genome of different subtypes were aligned using PCGENE software CLUSTAL to design a new pair of primer that can bind to each subtype of hepatitis B virus (HBV), to amplify PreS region of HBV genome. A pair of primer from these conserved patches was selected using software PRIMER and named as Nhepf1 and Nhepr1. Nhepf1, forward primer bound 2362-2385 nucleotides and Nhepr1, reverse primer bound 260-283 nucleotide amplify 1.12 Kb region of HBV genome that contain PreS sequence. The pair of primer was optimized for PCR. Nhepf1 and Nhepr1 annealed well at 50°C to subtype adw2 (American), adr4 (Japanese) and Pakistanian patient derived HBV DNA without any nonspecific bands. The results were found to be highly reproducible with greater accuracy.
 
Key words: Hepatitis B virus (HBV) genome, HBV conserved region, polymerase chains reaction (PCR) primers, primer designing.

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APA Abbas, N., Ajmal, M., & Afroze, T. (2015). Primer designing for PreS region of hepatitis B virus from the most conserved patches of hepatitis B virus genome. Journal of Bioinformatics and Sequence Analysis, 7(1), 1-7.
Chicago Naaz Abbas, Mohammad Ajmal and Talat Afroze. "Primer designing for PreS region of hepatitis B virus from the most conserved patches of hepatitis B virus genome." Journal of Bioinformatics and Sequence Analysis 7, no. 1 (2015): 1-7.
MLA Naaz Abbas, Mohammad Ajmal and Talat Afroze. "Primer designing for PreS region of hepatitis B virus from the most conserved patches of hepatitis B virus genome." Journal of Bioinformatics and Sequence Analysis 7.1 (2015): 1-7.
   
DOI 10.5897/JBSA2011.021
URL http://academicjournals.org/journal/JBSA/article-abstract/398802849921

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