{"database":"ENA","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Fastqsanger.gz":["ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/083/SRR31233483/SRR31233483_1.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/082/SRR31233482/SRR31233482_1.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/087/SRR31233487/SRR31233487_2.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/086/SRR31233486/SRR31233486_1.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/086/SRR31233486/SRR31233486_2.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/085/SRR31233485/SRR31233485_1.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/084/SRR31233484/SRR31233484_2.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/083/SRR31233483/SRR31233483_2.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/087/SRR31233487/SRR31233487_1.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/084/SRR31233484/SRR31233484_1.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/082/SRR31233482/SRR31233482_2.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR312/085/SRR31233485/SRR31233485_2.fastq.gz"]},"type":"primary"},"statusCodeValue":200,"statusCode":"OK"}],"scores":null,"additional":{"omics_type":["Genomics"],"center_name":["Rudd lab, 305 Polyclinique, Département of Médecine, Université de Montréal"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA1182358"],"scientific_name":["Homo sapiens"],"long_description":["Severe COVID-19 is characterized by a cytokine-mediated acute respiratory distress syndrome resembling toxic shock syndrome. We identified a SARS-CoV-2 S1 spike peptide (P3) with sequence homology to bacterial super-antigens. Computational modelling revealed P3 binding to MHC class I/II and TCR regions that partially overlap with staphylococcal enterotoxin B (SEB) and enterotoxin H (SEH) binding sites. In vitro, P3 potently activated 25-40% of human CD4 and CD8 T cells, accompanied by the increased expression of effector molecules IFNg and granzyme B. In vivo, P3 peptide administration to mice induced an inflammatory response characterized by elevated levels of proinflammatory cytokines, IL1b, IL6 and TNFa. Further, the P3 peptide promoted a more robust in vitro immune response of T-cells from COVID-19 patients with severe disease, as evidenced by increased CD69 and IFNg expression. Consistent with its super-antigenic properties, P3 preferentially also expanded T cells bearing restricted TCR Vα and Vβ chain repertoires in vitro. Overall, the homology of the P3 peptide to several endogenous mammalian proteins suggests the potential for the future discovery of related peptides that may contribute to inflammation and autoimmune disorders in humans. Overall design: To study the effect of in vitro P3 peptide stimulation on human CD8 TCR clonality with CD8 T cells isolated from healthy donor PBMC."],"tag":["xref:PubMed:39762551"],"repository":["ENA"],"description_synonyms":["mtSerRS, SerRSmt, Thymus-Dependent Lymphocytes, SARS coronavirus caused disease or disorder, protein complex, Proteins, SARS-CoV infection, Gene, SARS-associated coronavirus, protein, T-Lymphocyte, SARS ASSOC CORONAVIRUS, protein-containing complex, Peptide, Cell, polypeptide, peptide, Polypeptides, protein polypeptide chains, Strs, serRS, native protein, peptido, SARS, natural protein, polypeptide chain, T Lymphocyte, T-Cell, SYS, SARSM, Protein, Severe acute respiratory syndrome (disorder), Gene Products, Antigen, SERRS, SERS, protein aggregate, Severe Acute, SerRS, Thymus-Dependent Lymphocyte., peptides, SARS coronavirus infectious disease, T-Cells, severe acute respiratory syndrome, Thymus-Dependent, T, Lymphocytes, proteins, Sars1, Protein Gene Products, SARS coronavirus disease or disorder, Gene Proteins, T Cells, Acute, acute respiratory coronavirus infection, Cells, Peptid, peptidos, T Cell, Polypeptide, T Lymphocytes, Respiratory Syndrome, Thymus Dependent Lymphocytes, Severe, Lymphocyte"],"name_synonyms":["mtSerRS, SerRSmt, Thymus-Dependent Lymphocytes, SARS coronavirus caused disease or disorder, protein complex, Proteins, SARS-CoV infection, Gene, SARS-associated coronavirus, protein, T-Lymphocyte, SARS ASSOC CORONAVIRUS, protein-containing complex, Peptide, Cell, polypeptide, peptide, Polypeptides, protein polypeptide chains, Strs, serRS, native protein, peptido, SARS, natural protein, polypeptide chain, T Lymphocyte, T-Cell, SYS, SARSM, Protein, Severe acute respiratory syndrome (disorder), Gene Products, Antigen, SERRS, SERS, protein aggregate, Severe Acute, SerRS, Thymus-Dependent Lymphocyte., peptides, SARS coronavirus infectious disease, T-Cells, severe acute respiratory syndrome, Thymus-Dependent, T, Lymphocytes, proteins, Sars1, Protein Gene Products, SARS coronavirus disease or disorder, Gene Proteins, T Cells, Acute, acute respiratory coronavirus infection, Cells, Peptid, peptidos, T Cell, Polypeptide, T Lymphocytes, Respiratory Syndrome, Thymus Dependent Lymphocytes, Severe, Lymphocyte"],"additional_accession":[]},"is_claimable":false,"name":"The identification of a SARs-CoV2 S1 protein derived peptide with super-antigen-like stimulatory properties on T-cells","description":"The identification of a SARs-CoV2 S1 protein derived peptide with super-antigen-like stimulatory properties on T-cells","dates":{"last_updated":"2025-09-24","first_public":"2024-11-14"},"accession":"PRJNA1182358","cross_references":{"GEO":["GSE281135"],"taxon":["9606"],"PubMed":["39762551"]}}