PMID- 32986250 OWN - NLM STAT- MEDLINE DCOM- 20210305 LR - 20220716 IS - 1096-9071 (Electronic) IS - 0146-6615 (Print) IS - 0146-6615 (Linking) VI - 93 IP - 4 DP - 2021 Apr TI - A bioinformatic prediction of antigen presentation from SARS-CoV-2 spike protein revealed a theoretical correlation of HLA-DRB1*01 with COVID-19 fatality in Mexican population: An ecological approach. PG - 2029-2038 LID - 10.1002/jmv.26561 [doi] AB - SARS-CoV-2 infection is causing a pandemic disease that is reflected in challenging public health problems worldwide. Human leukocyte antigen (HLA)-based epitope prediction and its association with disease outcomes provide an important base for treatment design. A bioinformatic prediction of T cell epitopes and their restricted HLA Class I and II alleles was performed to obtain immunogenic epitopes and HLA alleles from the spike protein of the severe acute respiratory syndrome coronavirus 2 virus. Also, a correlation with the predicted fatality rate of hospitalized patients in 28 states of Mexico was done. Here, we describe a set of 10 highly immunogenic epitopes, together with different HLA alleles that can efficiently present these epitopes to T cells. Most of these epitopes are located within the S1 subunit of the spike protein, suggesting that this area is highly immunogenic. A statistical negative correlation was found between the frequency of HLA-DRB1*01 and the fatality rate in hospitalized patients in Mexico. CI - (c) 2020 Wiley Periodicals LLC. FAU - Romero-Lopez, Jose Pablo AU - Romero-Lopez JP AUID- ORCID: 0000-0002-0140-7676 AD - Carrera de Medico Cirujano, Facultad de Estudios Superiores Iztacala, UNAM, Avenida de los Barrios 1, Tlalnepantla de Baz, Estado de Mexico, Mexico. AD - Laboratorio de Inmunoquimica 1, Posgrado en Ciencias Quimicobiologicas, Escuela Nacional de Ciencias Biologicas, Instituto Politecnico Nacional, Carpio y Plan de Ayala SN, Mexico City, Mexico. FAU - Carnalla-Cortes, Martha AU - Carnalla-Cortes M AUID- ORCID: 0000-0003-1427-2915 AD - Centro de Investigacion en Salud Poblacional, Instituto Nacional de Salud Publica, Cuernavaca, Mexico. FAU - Pacheco-Olvera, Diana L AU - Pacheco-Olvera DL AD - Laboratorio de Inmunoquimica 1, Posgrado en Ciencias Quimicobiologicas, Escuela Nacional de Ciencias Biologicas, Instituto Politecnico Nacional, Carpio y Plan de Ayala SN, Mexico City, Mexico. AD - Unidad Medica de Investigacion en Inmunoquimica, Hospital de Especialidades, Centro Medico Nacional Siglo XXI, IMSS, Mexico City, Mexico. FAU - Ocampo-Godinez, Juan Moises AU - Ocampo-Godinez JM AUID- ORCID: 0000-0001-5666-4672 AD - Carrera de Medico Cirujano, Facultad de Estudios Superiores Iztacala, UNAM, Avenida de los Barrios 1, Tlalnepantla de Baz, Estado de Mexico, Mexico. AD - Laboratorio de Inmunoquimica 1, Posgrado en Ciencias Quimicobiologicas, Escuela Nacional de Ciencias Biologicas, Instituto Politecnico Nacional, Carpio y Plan de Ayala SN, Mexico City, Mexico. AD - Laboratorio de Ingenieria de Tejidos, Posgrado de la Facultad de Odontologia, UNAM, Mexico City, Mexico. FAU - Oliva-Ramirez, Jacqueline AU - Oliva-Ramirez J AUID- ORCID: 0000-0001-9334-2066 AD - Escuela de Ingenieria y Ciencias, Tecnologico de Monterrey, Mexico City, Mexico. FAU - Moreno-Manjon, Julia AU - Moreno-Manjon J AD - Laboratorio de Infectologia, Microbiologia e Inmunologia Clinicas, Unidad de Investigacion en Medicina Experimental, Facultad de Medicina, UNAM, Mexico City, Mexico. AD - Laboratorio de Bacteriologia Medica, Posgrado en Ciencias Quimicobiologicas, Escuela Nacional de Ciencias Biologicas, Instituto Politecnico Nacional, Carpio y Plan de Ayala SN, Mexico City, Mexico. FAU - Bernal-Alferes, Brian AU - Bernal-Alferes B AD - Laboratorio de Inmunoquimica 1, Posgrado en Ciencias Quimicobiologicas, Escuela Nacional de Ciencias Biologicas, Instituto Politecnico Nacional, Carpio y Plan de Ayala SN, Mexico City, Mexico. AD - Escuela Superior de Medicina, Instituto Politecnico Nacional, Mexico City, Mexico. FAU - Lopez-Olmedo, Nancy AU - Lopez-Olmedo N AUID- ORCID: 0000-0002-7528-0954 AD - Centro de Investigacion en Salud Poblacional, Instituto Nacional de Salud Publica, Cuernavaca, Mexico. FAU - Garcia-Latorre, Ethel AU - Garcia-Latorre E AUID- ORCID: 0000-0002-0223-4033 AD - Laboratorio de Inmunoquimica 1, Posgrado en Ciencias Quimicobiologicas, Escuela Nacional de Ciencias Biologicas, Instituto Politecnico Nacional, Carpio y Plan de Ayala SN, Mexico City, Mexico. FAU - Dominguez-Lopez, Maria Lilia AU - Dominguez-Lopez ML AUID- ORCID: 0000-0002-2533-1215 AD - Laboratorio de Inmunoquimica 1, Posgrado en Ciencias Quimicobiologicas, Escuela Nacional de Ciencias Biologicas, Instituto Politecnico Nacional, Carpio y Plan de Ayala SN, Mexico City, Mexico. FAU - Reyes-Sandoval, Arturo AU - Reyes-Sandoval A AUID- ORCID: 0000-0002-2648-1696 AD - Nuffield Department of Medicine, The Jenner Institute, The Henry Welcome Building for Molecular Physiology, University of Oxford, Oxford, UK. FAU - Jimenez-Zamudio, Luis AU - Jimenez-Zamudio L AUID- ORCID: 0000-0001-8007-9027 AD - Laboratorio de Inmunologia Clinica 1, Posgrado en Ciencias Quimicobiologicas, Escuela Nacional de Ciencias Biologicas, Instituto Politecnico Nacional, Mexico City, Mexico. LA - eng PT - Journal Article DEP - 20201010 PL - United States TA - J Med Virol JT - Journal of medical virology JID - 7705876 RN - 0 (Epitopes, T-Lymphocyte) RN - 0 (HLA-DRB1 Chains) RN - 0 (HLA-DRB1*01 antigen) RN - 0 (Spike Glycoprotein, Coronavirus) RN - 0 (spike protein, SARS-CoV-2) SB - IM MH - *Antigen Presentation MH - *COVID-19/immunology/mortality MH - Computational Biology MH - Epitopes, T-Lymphocyte/immunology MH - Genetic Variation MH - HLA-DRB1 Chains/*immunology MH - Hospitalization MH - Humans MH - Mexico MH - Protein Structure, Tertiary MH - SARS-CoV-2/immunology MH - Spike Glycoprotein, Coronavirus/*immunology PMC - PMC7537233 COIS- All authors declare not to have any conflict of interests. EDAT- 2020/09/29 06:00 MHDA- 2021/03/06 06:00 PMCR- 2020/10/10 CRDT- 2020/09/28 12:58 PHST- 2020/06/12 00:00 [received] PHST- 2020/08/31 00:00 [revised] PHST- 2020/09/25 00:00 [accepted] PHST- 2020/09/29 06:00 [pubmed] PHST- 2021/03/06 06:00 [medline] PHST- 2020/09/28 12:58 [entrez] PHST- 2020/10/10 00:00 [pmc-release] AID - JMV26561 [pii] AID - 10.1002/jmv.26561 [doi] PST - ppublish SO - J Med Virol. 2021 Apr;93(4):2029-2038. doi: 10.1002/jmv.26561. Epub 2020 Oct 10.