Prediction of B and T cell epitope-based peptide vaccines from highly conserved regions in Enterovirus D68 capsid protein VP1: a computational approach

Authors

  • Tahirah Yasmin Tahirah Yasmin*1 Department of Biochemistry and Molecular Biology, University of Dhaka, Dhaka-1000, Bangladesh

Abstract

Objective: Human Enterovirus D-68 (EV-D68) is a historically rarely reported virus linked with respiratory disease. However, in the recent years, a large increase in respiratory disease associated with EV-D68 has been reported, with documented outbreaks in North America, Europe and Asia. This study therefore aims to design specific peptide vaccine(s) against the virus by targeting capsid protein VP1 which plays crucial role in host-pathogen interaction.Material and Methods: Different web-based tools were applied to predict B and T cell epitopes with high accuracy and precision from sequence based analyses of the conserved regions of the capsid protein. Initially MEGA and SWISS-MODEL were used for the sequence and 3D structure analysis respectively. Later, the Immune Epitope Database and Analysis Resource (IEDB-AR), BepiPred and ABCPred servers were used for the identification of T-cell and B-cell epitopes.Results: “INPADT” peptide was found to be the most potential linear B cell epitope which fulfilled all the criteria of accessibility, hydrophilicity, flexibility and beta turn region for becoming an ideal B cell epitope. On the other hand, “YMSIANANY”, “LVSKRSFEY”, “ENFLSRAAL” and “AMFVPTGAL” were found to be most suitable T cell epitopes interacting with a large number of MHC class I and class II alleles. Among them “LVSKRSFEY” and “ENFLSRAAL” had the highest population coverage. All of these epitopes were found non allergen and with 100% conservancy among different strains of EVD-68 worldwide.Conclusion: Based on the present study, it could be concluded that these predicted epitopes may be used to design a vaccine against Enterovirus and thus, can be validated in model hosts to verify their efficacy as vaccine.

           

Keywords:

Epitope, Enterovirus D68, Vaccine, MHC Class I, MHC Class II, T-cell epitopes, B-cell epitopes

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Published

05-10-2015
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How to Cite

Tahirah Yasmin*1 , T. Y. “Prediction of B and T Cell Epitope-Based Peptide Vaccines from Highly Conserved Regions in Enterovirus D68 Capsid Protein VP1: a Computational Approach”. Journal of Innovations in Pharmaceutical and Biological Sciences, vol. 2, no. 4, Oct. 2015, pp. 426-38, https://jipbs.com/index.php/journal/article/view/84.

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Research Article