Vaccine design of coronavirus spike (S) glycoprotein in chicken: immunoinformatics and computational approaches

Awadelkareem, Eman Ali; Ali, Sumaia A.

doi:10.1186/s41231-020-00063-0

Cited by 7 publications

(3 citation statements)

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“…The development of the science and method of bioinformatics has had significant impact in the design of an effective vaccine. The approach is used by immunologists in designing vaccines against many viruses and bacteria that cause deadly diseases, including Ebola virus, 7 human immunodeficiency virus (HIV), 38 infectious bronchitis virus (IBV), 39 HPV, 40 SARS-CoV, 41 Streptococcus pneumoniae , 42 and the newly developed Echinococcus granulosus vaccine that was proven effective in vitro and in vivo. 43 …”

Section: Discussionmentioning

confidence: 99%

Designing multi-epitope based peptide vaccine candidates against SARS-CoV-2 using immunoinformatics approach

et al. 2022

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Introduction: The current incidence of the novel coronavirus disease has shown only small reductions of cases and has become a major public health challenge. Development of effective vaccines against the virus is still being encouraged such as multi-epitope vaccines designed from the components of SARS-CoV-2 including its spike, nucleocapsid and ORF1a proteins. Since the addition of adjuvants including HABA protein and L7/L12 ribosomal are considered helpful to increase the effectiveness of the designed vaccine, we proposed to design multiepitope vaccines by two different adjuvants. Methods: We used the IEDB server to predict BCL and TCL epitopes that were characterized using online tools including VaxiJen, AllPred and IL-10 Prediction. The selected epitopes were further constructed into multiepitope vaccines. We also added two different adjuvants to the vaccine components in order to increase the effectiveness of the vaccines. The 3D-structured vaccines were built using trRosetta. They were further docked with different Toll-like-receptors (TLR 3, 4 and 8) and the entry receptor of SARS-CoV-2, ACE2 using ClusPro, PatchDock and refined by FireDock. All structures were visualized by USCF Chimera and PyMOL. Results: In this study, we succeeded in designing two different candidate vaccines by the addition of HABA protein and L7/L12 ribosomal as adjuvants. The two vaccines were almost equally good in terms of their physicochemical properties and characteristics. Likewise, their strong interactions with TLR3 4, 8 and ACE2 show the lowest energy level of both was estimated at more than -1,000. Interactions of vaccines with ACE2 and TLRs are essential for activation of immune responses and production of antibodies. Conclusion: The two designed and constructed multiepitope vaccine have good characteristics and may have the potential to activate humoral and cellular immune responses against SARS-CoV-2. Further research is worth considering to confirm the findings of this study.

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Section: Discussionmentioning

confidence: 99%

Designing multi-epitope based peptide vaccine candidates against SARS-CoV-2 using immunoinformatics approach

et al. 2022

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“…B-cell epitope prediction is critical for the development of vaccine components and immunodiagnostic reagents. Continuous epitopes are used in the majority of epitope prediction algorithms Linear B cell epitopes have been shown to play an important function in viral neutralization [52,53]. Based on amino acid qualities such as hydrophilicity, surface accessibility, exibility, and antigenicity, the IEDB prediction algorithm was utilized to predict linear, surface, and antigenic epitopes [23].…”

Section: Discussionmentioning

confidence: 99%

Insilco Vaccine Design of spike and hemagglutinin esterase proteins of Bovine Coronavirus

Awadelkareem

Hamdoun

2022

Preprint

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Background: Bovine coronavirus (BCoV) is a widespread, fatal illness in cattle that has a large economic impact in particularly disease-prone hosts. BCoV does not have an effective vaccine. As a result, the objective of this study was to use immunoinformatics and computational tools to design a multi-epitope vaccine against Spike and haemagglutinin proteins of Bovine coronavirus. BCoV proteins were also subjected to protein analysis.Methods: A variety of tools of bioinformatics were used for data analysis. Conserved B and T cell epitopes against BCoV target proteins were predicted using the Immune Epitope Database (IEDB). Proteins were characterized utilizing a variety of servers, including Protparam, PSIPRED and the GOR IV servers. The antigenicity, allergenicity, and toxicity of the anticipated epitopes were assessed as well. Results: Several MHCI epitopes were predicted from S and HE proteins. As top epitopes, the peptides 77NMALKGTLL85 and 56SYMDLNPAL65 were proposed from Spike and hemagglutinin proteins, respectively. These epitopes exhibited high scores of antigenicity, no allergenicity, no toxicity, and a strong connection to Bola alleles.Moreover, three epitopes (1204YYYPE1208, 379TCQPQ384, and 720QLQPINY726) from Spike glycoprotein were selected as surface, linear, and antigenic epitopes using B cell scales. The methods dropped to anticipate effective and safe epitope (s) to cover all B cell scales from HE protein. Conclusion: Three B cell epitopes (1204YYYPE1208, 379TCQPQ384, and 720QLQPINY726) were predicted from Spike protein (S) of BCoV only. MHC I epitopes of S and HE proteins of BCoV (77NMALKGTLL85 and 56SYMDLNPAL65) were shown to have a strong link to Bola alleles, as well as high antigenicity and safety. The predicted epitopes' activity should be tested experimentally as a multi-epitope vaccine against BCoV using in vitro and in vivo trials.

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“…Due to limitation in data regarding chicken MHC alleles and as target species, some studies focusing on chicken have used NetMHCcons and NetMHCpans server for epitope prediction, selecting human HLA alleles determined as suitable chicken substitutes Regardless of different protocols used for prediction, both servers proved accurate. Selection of specific antigenic and immunogenic T-cell epitopes in a parasite antigen, may enable host to exhibit focused immune response projected to important epitopes, limiting non-protective response or autoimmunity which may result if whole parasitic antigens are incorporated into a vaccine(Awadelkareem et al, 2020).…”

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confidence: 99%

Designing T-cell epitope-based vaccine against Eimeria infection in chicken using immunoinformatics approach.

Madlala

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Chicken coccidiosis is the most significant ubiquitous, intestinal parasitic disease known to infect chickens globally. It is recognised for incurring significant production loss to the poultry industry, caused by single or multiple Eimeria spp. infections which threaten chicken welfare and productivity. The emergence of drug resistance in parasites and pathogenicity reversion has put pressure on the poultry industry to reduce chemoprophylactic drugs and live vaccines as preventive measures against coccidiosis. Recombinant DNA vaccines have shown promising results as an alternative option, but complete protection has not been reported highlighting the need for the design of new vaccine against this disease. In this study, Eimeria antigens Immune Mapped Protein-1(IMP1) and Microneme Protein-2(MIC2) were explored using reverse vaccinology and immunoinformatics tool to predict and design potential multiepitope vaccine candidate against coccidiosis. A total of 28 and 19 antigenic T-cell epitopes were predicted and used to construct two multiepitope vaccines with 610 and 512 amino acids for IMP1 and MIC2, respectively. The produced vaccines exhibited favoured characteristics for an ideal vaccine candidate; they were antigenic (Vaxijen score of 0.5989 and 0.5103), immunogenic (scores: 10.15 and 9 419), thermostable (instability index <40 ), and non-allergic. The presence of IFN-gamma and IL-4 inducing epitopes in the constructed vaccine enables vaccine to trigger a cellular and humoral response within the host. Molecular docking of designed vaccines with toll-like receptors (TLR4 and TLR5) to determine vaccine interaction and stability was confirmed by molecular dynamics simulation root-mean square deviation (RMDS) and root-mean-square fluctuation (RMSF) analysis. The designed vaccines induced immune response through production of cytokines and antibodies associated with tertiary response. When exposed to online immune simulation C-ImmSim, both vaccines produced potent immune response through production of IgG, Tc and Th cell and memory Bcells. The constructed multiepitope vaccine in this present study is highly promising and as such further experimental work should be done to confirm its suitability against chicken coccidiosis.

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Vaccine design of coronavirus spike (S) glycoprotein in chicken: immunoinformatics and computational approaches

Cited by 7 publications

References 54 publications

Designing multi-epitope based peptide vaccine candidates against SARS-CoV-2 using immunoinformatics approach

Designing multi-epitope based peptide vaccine candidates against SARS-CoV-2 using immunoinformatics approach

Insilco Vaccine Design of spike and hemagglutinin esterase proteins of Bovine Coronavirus

Designing T-cell epitope-based vaccine against Eimeria infection in chicken using immunoinformatics approach.

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