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Online Journal of Veterinary Research©
Volume 25(4):283-290, 2021.
In Silico prediction for epitopes in Chikungunya virus proteins
J Asnet Mary1(MSc ADBI), S Kavitha1(MSc), V Victoria1(MSc), R Paramasivan2(PhD),
R Shenbagarathai1(PhD), P Selvanayagam1(PhD), T Madhanmohan3(PhD).
1. Bioinformatics Centre, Department of Biotechnology, Lady Doak College, 2. CRME (ICMR), Madurai 3. Department of Biotechnology, New Delhi, India.
Asnet Mary J, Kavitha S, Victoria V, Paramasivan R, Shenbagarathai R, Selvanayagam P, Madhanmohan T., In Silico prediction for epitopes in Chikungunya virus proteins, Onl J Vet Res., 25(4)11:283-290, 2021. Chikungunya fever (CHIKF) is associated with acute fever, pain, asthenia, skin rash, polyarthritis and encephalitis in humans. It is mainly transmitted by Aedes aegypti and Aedes albopictus and to date there are no treatments or vaccines. We describe putative In silico viral epitopes of CHIKV by genome sequence. Putative proteins were predicted by BLASTP Open reading frame (ORF) and structural polyprotein analyzed for B-cell epitopes by accessibility, flexibility, hydrophilicity, β-turn and linearity. Using BCIPEP, examination of 17 B-cell epitopes predicted by BCPRED server, capsid protein of 85–104 amino acid residues was immunogenic. To determine MHC molecules, we scanned B-cell and T-cell epitopes and MHC class I binding sites by PROPREDL finding 25 MHC alleles. We cloned and stabilized nucleotide sequences coding for Chikungunya surface epitope which could amplify enough 84bp DNA or generate recombinant protein in a host bacterium. We find that capsid protein of Chikungunya virus could be used as an antigenic peptide to elicit immune response.
Keywords: Chikungunya, epitope, BCPred, Bcipep, MHC binding, Aedes aegypti.