Immunoinformatic approach to assess SARS-CoV-2 protein S epitopes recognised by the most frequent MHC-I alleles in the Brazilian population.
J Clin Pathol
; 74(8): 528-532, 2021 Aug.
Article
in English
| MEDLINE | ID: covidwho-1318062
ABSTRACT
AIMS:
Brazil is nowadays one of the epicentres of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic and new therapies are needed to face it. In the context of specific immune response against the virus, a correlation between Major Histocompatibility Complex Class I (MHC-I) and the severity of the disease in patients with COVID-19 has been suggested. Aiming at better understanding the biology of the infection and the immune response against the virus in the Brazilian population, we analysed SARS-CoV-2 protein S peptides in order to identify epitopes able to elicit an immune response mediated by the most frequent MHC-I alleles using in silico methods.METHODS:
Our analyses consisted in searching for the most frequent Human Leukocyte Antigen (HLA)-A, HLA-B and HLA-C alleles in the Brazilian population, excluding the genetic isolates; then, we performed molecular modelling for unsolved structures, MHC-I binding affinity and antigenicity prediction, peptide docking and molecular dynamics of the best fitted MHC-I/protein S complexes.RESULTS:
We identified 24 immunogenic epitopes in the SARS-CoV-2 protein S that could interact with 17 different MHC-I alleles (namely, HLA-A*0101; HLA-A*0201; HLA-A*1101; HLA-A*2402; HLA-A*6801; HLA-A*2301; HLA-A*2601; HLA-A*3002; HLA-A*3101; HLA-B*0702; HLA-B*5101; HLA-B*3501; HLA-B*4402; HLA-B*3503; HLA-C*0501; HLA-C*0701 and HLA-C*1502) in the Brazilian population.CONCLUSIONS:
Being aware of the intrinsic limitations of in silico analysis (mainly the differences between the real and the Protein Data Bank (PDB) structure; and accuracy of the methods for simulate proteasome cleavage), we identified 24 epitopes able to interact with 17 MHC-I more frequent alleles in the Brazilian population that could be useful for the development of strategic methods for vaccines against SARS-CoV-2.Keywords
Full text:
Available
Collection:
International databases
Database:
MEDLINE
Main subject:
Histocompatibility Antigens Class I
/
Epitope Mapping
/
Spike Glycoprotein, Coronavirus
/
SARS-CoV-2
/
HLA Antigens
/
Epitopes
Type of study:
Prognostic study
Topics:
Vaccines
Limits:
Humans
Country/Region as subject:
South America
/
Brazil
Language:
English
Journal:
J Clin Pathol
Year:
2021
Document Type:
Article
Affiliation country:
Jclinpath-2020-206946
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