A Candidate multi-epitope vaccine against SARS-CoV-2

Ka, Tamalika; Narsaria, Utkarsh; Basak, Srijita; De, Debashrito; Castiglion, Filippo; Mueller, David M.; Srivas, Anurag P.

doi:10.21203/rs.3.rs-28130/v1

Cited by 12 publications

(12 citation statements)

References 84 publications

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“…Further to ensure the higher expression of the designed vaccine construct in prokaryote host, codon optimization and in silico cloning were performed. The CAI (0.97) and GC content (53.73%) were promising and within the acceptable range for high level expression of protein E. coli K12 (Kar et al 2020). Further, the immune simulation study of the designed vaccine construct revealed promising outcomes in terms of both humoral and cellular immune response.…”

Section: Discussionmentioning

confidence: 88%

Designing a next generation multi-epitope based peptide vaccine candidate against SARS-CoV-2 using computational approaches

Saha¹,

Ghosh

Burra³

2021

3 Biotech

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COVID-19 caused by SARS-CoV-2 was declared a global pandemic by WHO (World Health Organization) in March, 2020. Within 6 months, nearly 750,000 deaths are claimed by COVID-19 across the globe. This called for immediate social, scientific, technological, public and community interventions. Considering the severity of infection and the associated mortalities, global efforts are underway to develop preventive measures against SARS-CoV-2. Among the SARS-CoV-2 target proteins, Spike (S) glycoprotein (a.k.a S Protein) is the most studied target known to trigger strong host immune response. A detailed analysis of S protein-based epitopes enabled us to design a novel B-cell-derived T-cell Multi-epitope-based peptide (MEBP) vaccine candidate. This involved a systematic and comprehensive computational protocol consisting of prediction of dual-purpose epitopes and designing an MEBP vaccine construct. This was followed by 3D structure validation, MEBP complex interaction studies, in silico cloning and vaccine dose-based immune response simulation to evaluate the immunogenic potency of the vaccine construct. The dual-purpose epitope prediction protocol was designed such that the same epitope elicits both humoral and cellular immune response unlike the earlier designs. Further, the epitopes predicted were screened against stringent criteria to ensure selection of a potent candidate with maximum antigen coverage and best immune response. The vaccine dose-based immune response simulation studies revealed a rapid antigen clearance through antibody generation and elevated levels of cell-mediated immunity during repeated exposure of the vaccine. The favourable results of the analysis strongly indicate that the vaccine construct is indeed a potent vaccine candidate and ready to proceed to the next steps of experimental validation and efficacy studies.

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Section: Discussionmentioning

confidence: 88%

Designing a next generation multi-epitope based peptide vaccine candidate against SARS-CoV-2 using computational approaches

Saha¹,

Ghosh

Burra³

2021

3 Biotech

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“…Over the last few months, there have been various studies on the identification of immunogenic epitopes from SARS-CoV-2 using computational techniques. But, these studies focus on a particular viral protein [24][25][26] , identifying epitopes from SARS-CoV which shows high sequence similarity along with sequence conservation to SARS-CoV-2 27 or considering viral sequences from diverse geographical regions 28 . Unlike the other studies, our analysis primarily targets the Indian population where an infectious disease could escalate very rapidly.…”

Section: Resultsmentioning

confidence: 99%

Immunoinformatic based identification of cytotoxic T lymphocyte epitopes from the Indian isolate of SARS-CoV-2

Mulpuru

Mishra

2021

Sci Rep

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The Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has turned into a pandemic with about thirty million confirmed cases worldwide as of September 2020. Being an airborne infection, it can be catastrophic to populous countries like India. This study sets to identify potential cytotoxic T lymphocyte (CTL) epitopes in the SARS-CoV-2 Indian isolate which can act as an effective vaccine epitope candidate for the majority of the Indian population. The immunogenicity and the foreignness of the epitopes towards the human body have to be studied to further confirm their candidacy. The top-scoring epitopes were subjected to molecular docking studies to study their interactions with the corresponding human leukocyte antigen (HLA) system. The CTL epitopes were observed to bind at the peptide-binding groove of the corresponding HLA system, indicating their potency as an epitope candidate. The candidacy was further analyzed using sequence conservation studies and molecular dynamics simulation. The identified epitopes can be subjected to further studies for the development of the SARS-CoV-2 vaccine.

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“…In silico methods for vaccine development could be the alternative methods to conventional methods which are complex and time-consuming. Many bioinformatics-based approaches are used to design novel drugs [ 52 , 53 ] and vaccines [ 54 , 55 ] to curb this disease. In silico methods are effective, safe, and less time-consuming.…”

Section: Discussionmentioning

confidence: 99%

An Immunoinformatics Study to Predict Epitopes in the Envelope Protein of SARS-CoV-2

Jakhar

Gakhar

2020

Canadian Journal of Infectious Diseases and Medical Microbiolog

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COVID-19 is a new viral emergent disease caused by a novel strain of coronavirus. This virus has caused a huge problem in the world as millions of people are affected by this disease. We aimed at designing a peptide vaccine for COVID-19 particularly for the envelope protein using computational methods to predict epitopes inducing the immune system. The envelope protein sequence of SARS-CoV-2 has been retrieved from the NCBI database. The bioinformatics analysis was carried out by using the Immune Epitope Database (IEDB) to predict B- and T-cell epitopes. The predicted HTL and CTL epitopes were docked with HLA alleles and binding energies were evaluated. The allergenicity of predicted epitopes was analyzed, the conservancy analysis was performed, and the population coverage was determined throughout the world. Some overlapped CTL, HTL, and B-cell epitopes were suggested to become a universal candidate for peptide-based vaccine against COVID-19. This vaccine peptide could simultaneously elicit humoral and cell-mediated immune responses. We hope to confirm our findings by adding complementary steps of both in vitro and in vivo studies to support this new universal predicted candidate.

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A Candidate multi-epitope vaccine against SARS-CoV-2

Cited by 12 publications

References 84 publications

Designing a next generation multi-epitope based peptide vaccine candidate against SARS-CoV-2 using computational approaches

Designing a next generation multi-epitope based peptide vaccine candidate against SARS-CoV-2 using computational approaches

Immunoinformatic based identification of cytotoxic T lymphocyte epitopes from the Indian isolate of SARS-CoV-2

An Immunoinformatics Study to Predict Epitopes in the Envelope Protein of SARS-CoV-2

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