tetano
Editor, Senior Moderator
Comput Biol Med
. 2020 Aug 13;124:103967.
doi: 10.1016/j.compbiomed.2020.103967. Online ahead of print.
Immunoinformatics-guided design of an epitope-based vaccine against severe acute respiratory syndrome coronavirus 2 spike glycoprotein
Ahmed Rakib[SUP] 1 [/SUP], Saad Ahmed Sami[SUP] 1 [/SUP], Nusrat Jahan Mimi[SUP] 1 [/SUP], Md Mustafiz Chowdhury[SUP] 1 [/SUP], Taslima Akter Eva[SUP] 1 [/SUP], Firzan Nainu[SUP] 2 [/SUP], Arkajyoti Paul[SUP] 3 [/SUP], Asif Shahriar[SUP] 4 [/SUP], Abu Montakim Tareq[SUP] 5 [/SUP], Nazim Uddin Emon[SUP] 5 [/SUP], Sajal Chakraborty[SUP] 6 [/SUP], Sagar Shil[SUP] 6 [/SUP], Sabrina Jahan Mily[SUP] 7 [/SUP], Taibi Ben Hadda[SUP] 8 [/SUP], Faisal A Almalki[SUP] 9 [/SUP], Talha Bin Emran[SUP] 10 [/SUP]
Affiliations
Abstract
Aims: With a large number of fatalities, coronavirus disease-2019 (COVID-19) has greatly affected human health worldwide. Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the virus that causes COVID-19. The World Health Organization has declared a global pandemic of this contagious disease. Researchers across the world are collaborating in a quest for remedies to combat this deadly virus. It has recently been demonstrated that the spike glycoprotein (SGP) of SARS-CoV-2 is the mediator by which the virus enters host cells.
Main methods: Our group comprehensibly analyzed the SGP of SARS-CoV-2 through multiple sequence analysis and a phylogenetic analysis. We predicted the strongest immunogenic epitopes of the SGP for both B cells and T cells.
Key findings: We focused on predicting peptides that would bind major histocompatibility complex class I. Two optimal epitopes were identified, WTAGAAAYY and GAAAYYVGY. They interact with the HLA-B*15:01 allele, which was further validated by molecular docking simulation. This study also found that the selected epitopes are able to be recognized in a large percentage of the world's population. Furthermore, we predicted CD4[SUP]+[/SUP] T-cell epitopes and B-cell epitopes.
Significance: Our study provides a strong basis for designing vaccine candidates against SARS-CoV-2. However, laboratory work is required to validate our theoretical results, which would lay the foundation for the appropriate vaccine manufacturing and testing processes.
Keywords: COVID-19; Epitope; Immunoinformatics; SARS-CoV-2; Spike glycoprotein.
. 2020 Aug 13;124:103967.
doi: 10.1016/j.compbiomed.2020.103967. Online ahead of print.
Immunoinformatics-guided design of an epitope-based vaccine against severe acute respiratory syndrome coronavirus 2 spike glycoprotein
Ahmed Rakib[SUP] 1 [/SUP], Saad Ahmed Sami[SUP] 1 [/SUP], Nusrat Jahan Mimi[SUP] 1 [/SUP], Md Mustafiz Chowdhury[SUP] 1 [/SUP], Taslima Akter Eva[SUP] 1 [/SUP], Firzan Nainu[SUP] 2 [/SUP], Arkajyoti Paul[SUP] 3 [/SUP], Asif Shahriar[SUP] 4 [/SUP], Abu Montakim Tareq[SUP] 5 [/SUP], Nazim Uddin Emon[SUP] 5 [/SUP], Sajal Chakraborty[SUP] 6 [/SUP], Sagar Shil[SUP] 6 [/SUP], Sabrina Jahan Mily[SUP] 7 [/SUP], Taibi Ben Hadda[SUP] 8 [/SUP], Faisal A Almalki[SUP] 9 [/SUP], Talha Bin Emran[SUP] 10 [/SUP]
Affiliations
- PMID: 32828069
- DOI: 10.1016/j.compbiomed.2020.103967
Abstract
Aims: With a large number of fatalities, coronavirus disease-2019 (COVID-19) has greatly affected human health worldwide. Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the virus that causes COVID-19. The World Health Organization has declared a global pandemic of this contagious disease. Researchers across the world are collaborating in a quest for remedies to combat this deadly virus. It has recently been demonstrated that the spike glycoprotein (SGP) of SARS-CoV-2 is the mediator by which the virus enters host cells.
Main methods: Our group comprehensibly analyzed the SGP of SARS-CoV-2 through multiple sequence analysis and a phylogenetic analysis. We predicted the strongest immunogenic epitopes of the SGP for both B cells and T cells.
Key findings: We focused on predicting peptides that would bind major histocompatibility complex class I. Two optimal epitopes were identified, WTAGAAAYY and GAAAYYVGY. They interact with the HLA-B*15:01 allele, which was further validated by molecular docking simulation. This study also found that the selected epitopes are able to be recognized in a large percentage of the world's population. Furthermore, we predicted CD4[SUP]+[/SUP] T-cell epitopes and B-cell epitopes.
Significance: Our study provides a strong basis for designing vaccine candidates against SARS-CoV-2. However, laboratory work is required to validate our theoretical results, which would lay the foundation for the appropriate vaccine manufacturing and testing processes.
Keywords: COVID-19; Epitope; Immunoinformatics; SARS-CoV-2; Spike glycoprotein.