Prediction and analysis of promiscuous T cell-epitopes derived from the vaccine candidate antigens of Leishmania donovani binding to MHC class-II alleles using in silico approach

Kashyap, Manju; Jaiswal, Varun; Farooq, Umar

doi:10.1016/j.meegid.2017.05.022

Cited by 16 publications

(7 citation statements)

References 51 publications

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“…The experimental study showed that splenocytes from VLP-vaccinated mice secreted IL-4 and IFN-γ which is stimulated by the RVFV-specific antigen, consistent with both humoral and cellular immune responses (Chung et al, 2008;Kortekaas et al, 2012;. An in silico approach has been used for the identification of IL-4 and IFN-γ induced promiscuous epitopes from Leishmania donovani antigen (Kashyap et al, 2017). Therefore, only those CD4 + T-cell epitopes of G and N protein were selected which were found to be IL-4 and IFN-γ inducers in in silico analysis ( Table 4).…”

Section: Discussionmentioning

confidence: 92%

Overlapping CD8 + and CD4 + T-cell epitopes identification for the progression of epitope-based peptide vaccine from nucleocapsid and glycoprotein of emerging Rift Valley fever virus using immunoinformatics approach

Adhikari

Rahman

2017

Infection, Genetics and Evolution

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Rift Valley fever virus (RVFV) is an emergent arthropod-borne zoonotic infectious viral pathogen which causes fatal diseases in the humans and ruminants. Currently, no effective and licensed vaccine is available for the prevention of RVFV infection in endemic as well as in non-endemic regions. So, an immunoinformatics-driven genome-wide screening approach was performed for the identification of overlapping CD8+ and CD4+ T-cell epitopes and also linear B-cell epitopes from the conserved sequences of the nucleocapsid (N) and glycoprotein (G) of RVFV. We identified overlapping 99.39% conserved 1 CD8+ T-cell epitope (MMHPSFAGM) from N protein and 100% conserved 7 epitopes (AVFALAPVV, LAVFALAPV, FALAPVVFA, VFALAPVVF, IAMTVLPAL, FFDWFSGLM, and FLLIYLGRT) from G protein and also identified IL-4 and IFN-γ induced (99.39% conserved) 1 N protein CD4+ T-cell epitope (HMMHPSFAGMVDPSL) and 100% conserved 5 G protein CD4+ T-cell epitopes (LPALAVFALAPVVFA, PALAVFALAPVVFAE, GIAMTVLPALAVFAL, GSWNFFDWFSGLMSW, and FFLLIYLGRTGLSKM). The overlapping CD8+ and CD4+ T-cell epitopes were bound with most conserved HLA-C*12:03 and HLA-DRB1*01:01, respectively with the high binding affinity (kcal/mol). The combined population coverage analysis revealed that the allele frequencies of these epitopes are high in endemic and non-endemic regions. Besides, we found 100% conserved and non-allergenic 2 decamer B-cell epitopes, GVCEVGVQAL and RVFNCIDWVH of G protein had the sequence similarity with the nonamer CD8+ T-cell epitopes, VCEVGVQAL and RVFNCIDWV, respectively. Consequently, these epitopes may be used for the development of epitope-based peptide vaccine against emerging RVFV. However, in vivo and in vitro experiments are required for their efficient use as a vaccine.

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Section: Discussionmentioning

confidence: 92%

Overlapping CD8 + and CD4 + T-cell epitopes identification for the progression of epitope-based peptide vaccine from nucleocapsid and glycoprotein of emerging Rift Valley fever virus using immunoinformatics approach

Adhikari

Rahman

2017

Infection, Genetics and Evolution

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“…Linear T-cell epitopes binds to HLA molecules and activate the adaptive immunity against pathogen. The immune response elicited against the epitopes may be genetically restricted or epitopes may be recognized by one individual but not by other 65 . Hence, a vaccine construct against A. baumannii should have a potential to induce immune response against the number of epitopes, which can be recognized in the context of different HLA allele’s proteins.…”

Section: Resultsmentioning

confidence: 99%

Subtractive proteomics to identify novel drug targets and reverse vaccinology for the development of chimeric vaccine against Acinetobacter baumannii

Solanki

Tiwari

2018

Sci Rep

222

158

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The emergence of drug-resistant Acinetobacter baumannii is the global health problem associated with high mortality and morbidity. Therefore it is high time to find a suitable therapeutics for this pathogen. In the present study, subtractive proteomics along with reverse vaccinology approaches were used to predict suitable therapeutics against A. baumannii. Using subtractive proteomics, we have identified promiscuous antigenic membrane proteins that contain the virulence factors, resistance factors and essentiality factor for this pathogenic bacteria. Selected promiscuous targeted membrane proteins were used for the design of chimeric-subunit vaccine with the help of reverse vaccinology. Available best tools and servers were used for the identification of MHC class I, II and B cell epitopes. All selected epitopes were further shortlisted computationally to know their immunogenicity, antigenicity, allergenicity, conservancy and toxicity potentials. Immunogenic predicted promiscuous peptides used for the development of chimeric subunit vaccine with immune-modulating adjuvants, linkers, and PADRE (Pan HLA-DR epitopes) amino acid sequence. Designed vaccine construct V4 also interact with the MHC, and TLR4/MD2 complex as confirm by docking and molecular dynamics simulation studies. Therefore designed vaccine construct V4 can be developed to control the host-pathogen interaction or infection caused by A. baumannii.

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“…Levels of IgM and IgG were significantly decreased in MHC class II and HTL deficient mouse after a certain period and prolonged the viral persistence [ 127 ]. Only IFN-γ inducing immunogenic HTL epitopes (Capsid C 52-66 : AFFRFTAIAPTRAVL, PrM 129–143 : LRNPGYALVAAVIGW, E 356-370 : VTVNPFVSVATANAK, NS2A 85-99 : IQPVFMVASFLKARW, NS2B 103-117 : VCLAISAYTPWAILP, NS3 544-558 : PVWLAYKVAAAGVSY, NS4A 68-82 : FFLLMQRKGIGKIGL, NS4B 34-48 : LDLRPATAWSLYAVT, NS5 475-489 : AIWFMWLGARFLEFE) were used in vaccine construct since IFN-γ induces MHC class II expression and activation of macrophages [ 128 ]. It is well known that γδ T cells also play an important role in WNV infection by releasing IFN-γ molecule in a MHC independent restriction manner [ 118 ].…”

Section: Discussionmentioning

confidence: 99%

Immunoinformatics and molecular dynamics approaches: Next generation vaccine design against West Nile virus

et al. 2021

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West Nile Virus (WNV) is a life threatening flavivirus that causes significant morbidity and mortality worldwide. No preventive therapeutics including vaccines against WNV are available for human use. In this study, immunoinformatics approach was performed to design a multi epitope-based subunit vaccine against this deadly pathogen. Human (HLA) and Mice (H-2) allele specific potential T-cell and B-cell epitopes were shortlisted through a stringent procedure. Molecular docking showed selected epitopes that have stronger binding affinity with human TLR-4. Molecular dynamics simulation confirmed the stable nature of the docked complex. Furthermore, in silico cloning analysis ensures efficient expression of desired gene in the microbial system. Interestingly, previous studies showed that two of our selected epitopes have strong immune response against WNV. Therefore, selected epitopes could be strong vaccine candidates to prevent WNV infections in human. However, further in vitro and in vivo investigations could be strengthening the validation of the vaccine candidate against WNV.

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Prediction and analysis of promiscuous T cell-epitopes derived from the vaccine candidate antigens of Leishmania donovani binding to MHC class-II alleles using in silico approach

Cited by 16 publications

References 51 publications

Overlapping CD8 + and CD4 + T-cell epitopes identification for the progression of epitope-based peptide vaccine from nucleocapsid and glycoprotein of emerging Rift Valley fever virus using immunoinformatics approach

Overlapping CD8 + and CD4 + T-cell epitopes identification for the progression of epitope-based peptide vaccine from nucleocapsid and glycoprotein of emerging Rift Valley fever virus using immunoinformatics approach

Subtractive proteomics to identify novel drug targets and reverse vaccinology for the development of chimeric vaccine against Acinetobacter baumannii

Immunoinformatics and molecular dynamics approaches: Next generation vaccine design against West Nile virus

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