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Insilco Epitope Analysis of Conventional Influenza Vaccine (CIV), Indian Influenza Strain and 2011– 2012 INFLUENZA Vaccine Strain Recommended by WHO

Kaushik R Dave, Dr. Hetal J. Panchal, Vishal V. Kothari

Abstract


Epitopes shared by the influenza vaccine and influenza viruses trigger the protective effect of vaccine immunization against influenza infection. Antigenic relationships among contemporary viruses and vaccine viruses are of prime importance in determining vaccine composition. Epitope predicted done by using T-cell epitopes prediction tools like NetCTL and CTL-Pred of the hemagglutinin (HA) and neuraminidase (NA) protein sequences contained in CIVstrain, Indian influenza strain and 2011- 2012 influenza vaccinestrain. Predicted epitopes are clustered with the help of Epitope Cluster Analysis module of IEDB analysis resource to remove duplication of peptide. Prediction of Binding affinity of peptides toward the TAP transporter was carried out by TAP Pred online service. Epitope analysis of different vaccinestrains (CIV and 2011- 2012 influenza vaccine) and Indian influenza strain by using (1)NetCTL server showed that there is conservation in epitope but it is maximum of 50% in HA of Indian influenzastrain and for NA there is no conservation in epitope with respect to CIV and 2011- 2012 influenza vaccinestrain. (2) CTL-Pred server showed that there is conservation in epitopes but it is maximum of 26.66% in HA of Indian influenzastrain and for NA there is 20% conservation in epitopes with respect to CIV and 2011- 2012 influenza vaccinestrain. This is perhaps the first report describing conservation of epitope in strain taken for analysis and found that there is very low level of conservation in surface protein HA & NA of Indian influenzastrain. Indian epitopes are more conserved in 2011-2012 influenza vaccinestrain compared to CIV thus there is chance of cross reactivity. As per our knowledge present study may facilitate the development of better therapeutics and preventive strategies, as well as impart clues for novel H1N1 diagnostic and vaccine development.

 


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