Profiling SARS-CoV-2 HLA-I peptidome reveals T cell epitopes from out-of-frame ORFs

• Published in: Cell Vol. 184; no. 15; pp. 3962 - 3980.e17
• Main Authors: Weingarten-Gabbay, Shira, Klaeger, Susan, Sarkizova, Siranush, Pearlman, Leah R., Chen, Da-Yuan, Gallagher, Kathleen M.E., Bauer, Matthew R., Taylor, Hannah B., Dunn, W. Augustine, Tarr, Christina, Sidney, John, Rachimi, Suzanna, Conway, Hasahn L., Katsis, Katelin, Wang, Yuntong, Leistritz-Edwards, Del, Durkin, Melissa R., Tomkins-Tinch, Christopher H., Finkel, Yaara, Nachshon, Aharon, Gentili, Matteo, Rivera, Keith D., Carulli, Isabel P., Chea, Vipheaviny A., Chandrashekar, Abishek, Bozkus, Cansu Cimen, Carrington, Mary, Lavin-Parsons, Kendall, Parry, Blair, Lilley, Brendan, Lodenstein, Carl, McKaig, Brenna, Charland, Nicole, Khanna, Hargun, Margolin, Justin, Gonye, Anna, Gushterova, Irena, Lasalle, Tom, Sharma, Nihaarika, Russo, Brian C., Rojas-Lopez, Maricarmen, Sade-Feldman, Moshe, Manakongtreecheep, Kasidet, Tantivit, Jessica, Fisher Thomas, Molly, Bhardwaj, Nina, Barouch, Dan H., Sette, Alessandro, Maus, Marcela V., Rice, Charles M., Clauser, Karl R., Keskin, Derin B., Pregibon, Daniel C., Hacohen, Nir, Carr, Steven A., Abelin, Jennifer G., Saeed, Mohsan, Sabeti, Pardis C.
• Format: Journal Article
• Language: English
• Published: United States Elsevier Inc 22.07.2021; The Authors. Published by Elsevier Inc
• Subjects: A549 Cells; Alleles; Amino Acid Sequence; animal models; Animals; Antigen Presentation - immunology; cell-mediated immunity; coronavirus; COVID-19 - immunology; COVID-19 - virology; COVID-19 infection; epitopes; Epitopes, T-Lymphocyte - immunology; Female; HEK293 Cells; Histocompatibility Antigens Class I - immunology; HLA antigens; HLA Class I; Humans; immunogenicity; Kinetics; Male; mass spectrometry; Mice; nucleocapsid; Open Reading Frames - genetics; out-of-frame ORF immunopeptidomics; peptides; Peptides - chemistry; Peptides - immunology; Proteome - immunology; SARS-CoV-2; SARS-CoV-2 - immunology; Severe acute respiratory syndrome coronavirus 2; T Cell response; T-lymphocytes; T-Lymphocytes - immunology; vaccine development; viral infection; HLA Class I; SARS-CoV-2; out-of-frame ORF immunopeptidomics; viral infection; T Cell response; coronavirus; immunogenicity

T cell-mediated immunity plays an important role in controlling SARS-CoV-2 infection, but the repertoire of naturally processed and presented viral epitopes on class I human leukocyte antigen (HLA-I) remains uncharacterized. Here, we report the first HLA-I immunopeptidome of SARS-CoV-2 in two cell l...