Designing of epitope-based vaccine from the conserved region of spike glycoprotein of SARS-CoV-2
This article has been Reviewed by the following groups
Listed in
- Evaluated articles (ScreenIT)
Abstract
The emergence of COVID-19 as a pandemic with a high morbidity rate is posing serious global concern. There is an urgent need to design a suitable therapy or vaccine that could fight against SARS-CoV-2 infection. As spike glycoprotein of SARS-CoV-2 plays a crucial role in receptor binding and membrane fusion inside the host, it could be a suitable target for designing of an epitope-based vaccine. SARS-CoV-2 is an RNA virus and thus has a property to mutate. So, a conserved peptide region of spike glycoprotein was used for predicting suitable B cell and T cell epitopes. 4 T cell epitopes were selected based on stability, antigenicity, allergenicity and toxicity. Further, MHC-I were found from the immune database that could best interact with the selected epitopes. Population coverage analysis was also done to check the presence of identified MHC-I, in the human population of the affected countries. The T cell epitope that binds with the respective MHC-I with highest affinity was chosen. Molecular dynamic simulation results show that the epitope is well selected. This is an in-silico based study that predicts a novel T cell epitope from the conserved spike glycoprotein that could act as a target for designing of the epitope-based vaccine. Further, B cell epitopes have also been found but the main work focuses on T cell epitope as the immunity generated by it is long lasting as compared to B cell epitope.
Article activity feed
-
SciScore for 10.1101/2020.08.27.269456: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Experimental Models: Organisms/Strains Sentences Resources T-cell epitope prediction: NetCTL1.2 found T-cell epitopes from the conserved S glycoprotein sequence of SARS-CoV-2, which have the potency to elicit an immune response. NetCTL1.2suggested: NoneSoftware and Algorithms Sentences Resources Multiple sequence alignment (MSA): MSA predicted the conserved region between different S glycoprotein sequences of SARS-CoV-2 that were available on PDB RCSB databank, using ClustalW. 2.3. ClustalWsuggested: (ClustalW, RRID:SCR_017277)Results from OddPub: We did not detect open data. We also did not detect open code. Researchers are encouraged …
SciScore for 10.1101/2020.08.27.269456: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Experimental Models: Organisms/Strains Sentences Resources T-cell epitope prediction: NetCTL1.2 found T-cell epitopes from the conserved S glycoprotein sequence of SARS-CoV-2, which have the potency to elicit an immune response. NetCTL1.2suggested: NoneSoftware and Algorithms Sentences Resources Multiple sequence alignment (MSA): MSA predicted the conserved region between different S glycoprotein sequences of SARS-CoV-2 that were available on PDB RCSB databank, using ClustalW. 2.3. ClustalWsuggested: (ClustalW, RRID:SCR_017277)Results from OddPub: We did not detect open data. We also did not detect open code. Researchers are encouraged to share open data when possible (see Nature blog).
Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.Results from TrialIdentifier: No clinical trial numbers were referenced.
Results from Barzooka: We did not find any issues relating to the usage of bar graphs.
Results from JetFighter: We did not find any issues relating to colormaps.
Results from rtransparent:- Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
- No funding statement was detected.
- No protocol registration statement was detected.
-
