Bioinformatics analysis of epitope-based vaccine design against the novel SARS-CoV-2

Autor: Ling-Li Tang, Yun-Feng Chang, Jie Zhou, Hong-Zhi Chen, Xin-Ling Yu, Xiang Wu
Rok vydání: 2020
Předmět:
0301 basic medicine
Models
Molecular
Antigenicity
Immunogen
COVID-19 Vaccines
Sequence analysis
Bioinformatics
Pneumonia
Viral
Short Report
Epitopes
T-Lymphocyte
Sequence alignment
Human leukocyte antigen
Computational biology
Biology
Epitope
lcsh:Infectious and parasitic diseases
03 medical and health sciences
Betacoronavirus
0302 clinical medicine
Immunogenicity
Vaccine
Viral Envelope Proteins
MHC class I
Humans
lcsh:RC109-216
Amino Acid Sequence
Peptide sequence
Pandemics
SARS-CoV-2
lcsh:Public aspects of medicine
Public Health
Environmental and Occupational Health
COVID-19
Computational Biology
lcsh:RA1-1270
Viral Vaccines
General Medicine
030104 developmental biology
Infectious Diseases
030220 oncology & carcinogenesis
Drug Design
Spike Glycoprotein
Coronavirus
biology.protein
Epitopes
B-Lymphocyte
Coronavirus Infections
Sequence Alignment
Sequence Analysis
Vaccine
Zdroj: Infectious Diseases of Poverty
Infectious Diseases of Poverty, Vol 9, Iss 1, Pp 1-10 (2020)
DOI: 10.21203/rs.3.rs-24655/v1
Popis: Background An outbreak of infection caused by SARS-CoV-2 recently has brought a great challenge to public health. Rapid identification of immune epitopes would be an efficient way to screen the candidates for vaccine development at the time of pandemic. This study aimed to predict the protective epitopes with bioinformatics methods and resources for vaccine development. Methods The genome sequence and protein sequences of SARS-CoV-2 were retrieved from the National Center for Biotechnology Information (NCBI) database. ABCpred and BepiPred servers were utilized for sequential B-cell epitope analysis. Discontinuous B-cell epitopes were predicted via DiscoTope 2.0 program. IEDB server was utilized for HLA-1 and HLA-2 binding peptides computation. Surface accessibility, antigenicity, and other important features of forecasted epitopes were characterized for immunogen potential evaluation. Results A total of 63 sequential B-cell epitopes on spike protein were predicted and 4 peptides (Spike315–324, Spike333–338, Spike648–663, Spike1064–1079) exhibited high antigenicity score and good surface accessibility. Ten residues within spike protein (Gly496, Glu498, Pro499, Thr500, Leu1141, Gln1142, Pro1143, Glu1144, Leu1145, Asp1146) are forecasted as components of discontinuous B-cell epitopes. The bioinformatics analysis of HLA binding peptides within nucleocapsid protein produced 81 and 64 peptides being able to bind MHC class I and MHC class II molecules respectively. The peptides (Nucleocapsid66–75, Nucleocapsid104–112) were predicted to bind a wide spectrum of both HLA-1 and HLA-2 molecules. Conclusions B-cell epitopes on spike protein and T-cell epitopes within nucleocapsid protein were identified and recommended for developing a protective vaccine against SARS-CoV-2.
Databáze: OpenAIRE
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