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Research Article
Manoj Jena
Lovely Professional University, Punjab, India
Corresponding Author
License:
This work is licensed under a CC BY 4.0 License. Read Full License
The novel severe acute respiratory syndrome related corona virus-2 (SARS-CoV-2) belongs to the “Coronaviridae” family and order “Nidovirales” cause coronavirus disease (COVID19). The SARS-CoV-2 has been spread in more than a hundred countries, and more than a million have lost their lives. Recently COVID-19 has been declared as pandemic worldwide. Vaccination and immunization could only be an effective strategy to combat this fatal COVID-19. For identification of the effective vaccine candidate against COVID-19, various immunoinformatics online tools and software were used to predict the epitopes. The cytotoxic T cell epitopes, Helper T cell epitopes, and B cell epitopes from three structural polyproteins ( Spike, Membrane, and Nucleocapsid (SMN) ) based on the binding affinity towards MHC , antigenicity, non-allergenicity, and non-toxicity were identified for vaccine development. The multiepitope based vaccine was constructed linking two additional adjuvants human betadefensin-3 and human beta-defensin-2 at N and C terminal, respectively. Constructed vaccine sequence was found to be a good antigen and non-allergen for the human body. The constructed vaccine was docked with the TLR-3 receptor. And the docked complex then further taken for Molecular dynamics simulations and RMSD was calculated, which showed stable binding of the complex. The codon adaptation index (CAI) of 0.92 and GC content of 55.5% for E.coli (k12) strain suggested the efficient expression of the predicted vaccine. The current study can be helpful in the reduction of time and cost for further experimental validations and could give a valuable contribution against this pandemic.
Keywords
SARS-CoV-2, COVID-19, Immunoinformatics, multi-epitope, docking, MD simulations
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This is a preprint, a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Research Article
Manoj Jena
Lovely Professional University, Punjab, India
Corresponding Author
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
History
CURRENT STATUS: Posted
View the published article at F1000Research.
Version 1
Posted 27 May, 2020
No community comments so far
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
View the published article at F1000Research.
The novel severe acute respiratory syndrome related corona virus-2 (SARS-CoV-2) belongs to the “Coronaviridae” family and order “Nidovirales” cause coronavirus disease (COVID19). The SARS-CoV-2 has been spread in more than a hundred countries, and more than a million have lost their lives. Recently COVID-19 has been declared as pandemic worldwide. Vaccination and immunization could only be an effective strategy to combat this fatal COVID-19. For identification of the effective vaccine candidate against COVID-19, various immunoinformatics online tools and software were used to predict the epitopes. The cytotoxic T cell epitopes, Helper T cell epitopes, and B cell epitopes from three structural polyproteins ( Spike, Membrane, and Nucleocapsid (SMN) ) based on the binding affinity towards MHC , antigenicity, non-allergenicity, and non-toxicity were identified for vaccine development. The multiepitope based vaccine was constructed linking two additional adjuvants human betadefensin-3 and human beta-defensin-2 at N and C terminal, respectively. Constructed vaccine sequence was found to be a good antigen and non-allergen for the human body. The constructed vaccine was docked with the TLR-3 receptor. And the docked complex then further taken for Molecular dynamics simulations and RMSD was calculated, which showed stable binding of the complex. The codon adaptation index (CAI) of 0.92 and GC content of 55.5% for E.coli (k12) strain suggested the efficient expression of the predicted vaccine. The current study can be helpful in the reduction of time and cost for further experimental validations and could give a valuable contribution against this pandemic.
Figure 1
Figure 2
Figure 3
This is a list of supplementary files associated with this preprint. Click to download.
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