In silico prediction of monovalent and chimeric tetravalent vaccines for prevention and treatment of dengue fever
Vijayakumar Subramaniyan, Ramesh Venkatachalam, Prabhu Srinivasan, Manogar Palani
In silico prediction of monovalent and chimeric tetravalent vaccines for prevention and treatment of dengue fever
Reverse vaccinology method was used to predict the monovalent peptide vaccine candidate to produce antibodies for therapeutic purpose and to predict tetravalent vaccine candidate to act as a common vaccine to cover all the dengue virus serotypes. Envelope (E)-proteins of DENV-1-4 serotypes were used for vaccine prediction using NCBI, Uniprot/Swissprot, Swiss-prot viewer, VaxiJen V2.0, TMHMM, BCPREDS, Propred-1, Propred and MHC Pred. E-proteins of DENV-1-4 serotypes were identified as antigen from which T cell epitopes, through B cell epitopes, were predicted to act as peptide vaccine candidates. Each selected T cell epitope of E-protein was confirmed to act as vaccine and to induce complementary antibody against particular serotype of dengue virus. Chimeric tetravalent vaccine was formed by the conjugation of four vaccines, each from four dengue serotypes to act as a common vaccine candidate for all the four dengue serotypes. It can be justifiably concluded that the monovalent 9-mer T cell epitope for each DENV serotype can be used to produce specific antibody against dengue virus and a chimeric common tetravalent vaccine candidate to yield a comparative vaccine to cover any of the four dengue virus serotype. This vaccine is expected to be highly immunogenic against dengue fever.
dengue serotypes / dengue virus / vaccine / E-proteins / MHC I and II
[1] |
Ramesh V, Vijayakumar S. Homology and conservation of amino acids in E- protein sequences of dengue serotypes[J]. A Pac J Tro Dis, 2004; 4: 670–674.
|
[2] |
Abd Kadir SL, Yaakob H, Mohamed Zulkifli R. Potential anti-dengue medicinal plants: a review[J]. J Nat Med, 2013, 67(4): 677–689
CrossRef
Pubmed
Google scholar
|
[3] |
Dengue Fever. Health Protection Agency[EB/OL]. Natural Travel Health Network and Centre (NaTHNaC)[2017-12-18]. https://travelhealthpro.org.uk/pdfs/generate/factsheets.php?new=13.
|
[4] |
Ustafa M, EM. Illzam, Jeffree MS,
|
[5] |
Stiasny K, Kössl C, Lepault J,
CrossRef
Pubmed
Google scholar
|
[6] |
Hidari KI, Suzuki T. Dengue virus receptor[J]. Trop Med Health, 2011, 39(4 Suppl): S37–S43.
CrossRef
Pubmed
Google scholar
|
[7] |
Goel A, Patel DN, Lakhani KK,
|
[8] |
Muhamad M, Kee LY, Rahman NA,
CrossRef
Pubmed
Google scholar
|
[9] |
Peeling RW, Artsob H, Pelegrino JL,
CrossRef
Pubmed
Google scholar
|
[10] |
Rees CR, Costin JM, Fink RC,
CrossRef
Pubmed
Google scholar
|
[11] |
Brewoo JN, Kinney RM, Powell TD,
CrossRef
Pubmed
Google scholar
|
[12] |
Ambuel Y, Young G, Brewoo JN,
CrossRef
Pubmed
Google scholar
|
[13] |
McArthur MA, Sztein MB, Edelman R. Dengue vaccines: recent developments, ongoing challenges and current candidates[J]. Expert Rev Vacc, 2013, 12(8): 933–953.
CrossRef
Pubmed
Google scholar
|
[14] |
SIB Swiss Institute of Bioinformatics. UniProtKB/Swiss-Prot [EB/OL]. [2017-01-17]. http://us.expasy.org/sprot.
|
[15] |
Doytchinova IA, Flower DA. VaxiJen: a server for prediction of protective antigens, tumour antigens and subunit vaccines[J]. BMC Bioinformatics, 2007, 8: 4.
CrossRef
Google scholar
|
[16] |
Krogh A, Larsson B, von Heijne G,
CrossRef
Pubmed
Google scholar
|
[17] |
Nazarian S, Mousavi Gargari SL, Rasooli I,
|
[18] |
EL-Manzalawy Y, Dobbs D, Honavar V. On evaluating MHC-II binding peptide prediction methods[J]. PLoS One, 2008, 3(9): e3268
CrossRef
Pubmed
Google scholar
|
[19] |
Singh H, Raghava GP. ProPred1: prediction of promiscuous MHC Class-I binding sites[J]. Bioinformatics, 2003, 19(8): 1009–1014
CrossRef
Pubmed
Google scholar
|
[20] |
Singh H, Raghava GP. ProPred: prediction of HLA-DR binding sites[J]. Bioinformatics, 2001, 17(12): 1236–1237.
CrossRef
Pubmed
Google scholar
|
[21] |
Sturniolo T, Bono E, Ding J,
CrossRef
Pubmed
Google scholar
|
[22] |
Guan P, Doytchinova IA, Flower DR. HLA-A3 supermotif defined by quantitative structure-activity relationship analysis[J]. Protein Eng, 2003, 16(1): 11–18
CrossRef
Pubmed
Google scholar
|
[23] |
Biomedical Informatics Network. T-EPITOPE designer[EB/OL]. [2009-10-16]. http://www.bioinformation.net/ted/.
|
[24] |
Kangueane P, Sakharkar MK, Rajaseger G,
CrossRef
Pubmed
Google scholar
|
[25] |
Rodriguez-Roche R, Gould EA. Understanding the Dengue Viruses and Progress towards Their Control[J]. Biomed Res Int, 2013,13: 690835.
|
[26] |
Mayrose I, Penn O, Erez E,
CrossRef
Pubmed
Google scholar
|
[27] |
Wahala WM, Silva AM. The human antibody response to dengue virus infection[J]. Viruses, 2011, 3(12): 2374–2395.
CrossRef
Pubmed
Google scholar
|
[28] |
Racloz V, Ramsey R, Tong S,
CrossRef
Pubmed
Google scholar
|
[29] |
Ilyas M, Rahman Z, Shamas S,
|
[30] |
Nielsen M, Lund O, Buus S,
CrossRef
Pubmed
Google scholar
|
[31] |
Gao J, Kurgan L. Computational prediction of B cell epitopes from antigen sequences[J]. Methods Mol Biol, 2014, 1184: 197–215
CrossRef
Pubmed
Google scholar
|
[32] |
Sayeed U, Wadhwa G, Khan MK,
CrossRef
Pubmed
Google scholar
|
[33] |
Sollner J, Grohmann R, Rapberger R,
CrossRef
Pubmed
Google scholar
|
[34] |
Neema M, Karunasagar I, Karunsagar I. In silico identification and characterization of novel drug targets and outer membrane proteins in the fish pathogen Edwardsillatarda[J]. Bioinformatics, 2011, 3: 37–42.
|
[35] |
Taiwo AA, Falilat AJ, Ezemuel YS. Computational design of peptide vaccine against Acinetobacter baumannii infection using comparative genomic approach[J]. Compu Bio Bioinform, 2014, 2(1): 13–18.
CrossRef
Google scholar
|
[36] |
Liu J, Zhang W. Databases for B-cell epitopes[J]. Methods Mol Biol, 2014, 1184: 135–148
CrossRef
Pubmed
Google scholar
|
[37] |
Barh D, Misra AN. In silico Identification of membrane associated candidate drug targets in Neisseria gonorrheae[J]. Int J Integr Biol, 2009, 6: 65–67.
|
[38] |
Barh D, Misra AN, Kumar A,
CrossRef
Pubmed
Google scholar
|
[39] |
Somvanshi P, Seth PK. Prediction of T cell epitopes for the utility of vaccine development from structural proteins of dengue virus variants using in silico methods[J]. Ind J Biotechnol, 2009, 8: 193–198.
|
[40] |
Dowd KA, Pierson TC. Antibody-mediated neutralization of flaviviruses: a reductionist view[J]. Virology, 2011, 411(2): 306–315
CrossRef
Pubmed
Google scholar
|
[41] |
Heinz FX, Stiasny K. Flaviviruses and flavivirus vaccines[J]. Vaccine, 2012, 30(29): 4301–4306.
CrossRef
Pubmed
Google scholar
|
[42] |
Bhatt S, Gething PW, Brady OJ,
CrossRef
Pubmed
Google scholar
|
[43] |
Barh D, Kumar A. In silico identification of candidate drug and vaccine targets from various pathways in Neisseria gonorrhoeae[J]. In Silico Biol, 2009, 9(4): 225–231
Pubmed
|
[44] |
Eapen M, Rubinstein P, Zhang MJ,
CrossRef
Pubmed
Google scholar
|
[45] |
Sakib MS, Islam MR, Hasan AK,
CrossRef
Pubmed
Google scholar
|
[46] |
Meydan C, Otu HH, Sezerman OU. Prediction of peptides binding to MHC class I and II alleles by temporal motif mining[J]. BMC Bioinformatics, 2013, 14(Suppl 2): S13
CrossRef
Pubmed
Google scholar
|
[47] |
Robert DB, Homan J. Bioinformatic processes for determination of peptide binding: EP, EP2771349A2, WO2013040142A-3[P/OL]. [2014-09-03]. http://www.google.com/patents/EP2771349A2?cl=en.
|
[48] |
Upadhyay RK. Japanese encephalitis virus generated neurovirulence, antigenicity, and host immune responses[J]. ISRN Virology, 2013, 2013: 830396.
|
[49] |
Terry FE, Moise L, Martin RF,
|
[50] |
Simmons M, Mora NT, Putnak R. Advances in the development of vaccines for dengue fever[J]. Vaccine (Auckl), 2014, 2: 1–14.
|
[51] |
Wan SW, Lin CF, Wang S,
CrossRef
Pubmed
Google scholar
|
[52] |
Ross TM, Tang XC, Lu HR, et al
|
[53] |
Durbin AP, Kirkpatrick BD, Pierce KK,
CrossRef
Pubmed
Google scholar
|
[54] |
Ansari S, Taylor-Robinson AW. Strategic approaches to multivalent vaccine development against Dengue virus infection[J]. Ann Vacci Immuni, 2014, 1: 1005–1012.
|
[55] |
Raviprakash K, Wang D, Ewing D,
CrossRef
Pubmed
Google scholar
|
[56] |
Wilsona WW, DeLucasb LJ. Applications of the second virial coefficient: protein crystallization and solubility[J]. Acta Crystallogr F Struct Biol Commun, 2014, 70(5): 543–554.
|
[57] |
Pei-Yong SH. Molecular virology and control of flaviviruses[M]//Scott B. Halstead. Flavivirus Vaccines. Norfork, UK: Caister Academic Press, 2012: 185.
|
/
〈 | 〉 |