Journal article
Comprehensive analysis of T cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases
Cell Reports Medicine, Vol.2(2), Art. 100204
2021
Abstract
T cells are involved in control of SARS-CoV-2 infection. To establish the patterns of immunodominance of different SARS-CoV-2 antigens, and precisely measure virus-specific CD4+ and CD8+ T cells, we study epitope-specific T cell responses of 99 convalescent COVID-19 cases. The SARS-CoV-2 proteome is probed using 1,925 peptides spanning the entire genome, ensuring an unbiased coverage of HLA alleles for class II responses. For HLA class I, we study an additional 5,600 predicted binding epitopes for 28 prominent HLA class I alleles, accounting for wide global coverage. We identify several hundred HLA-restricted SARS-CoV-2-derived epitopes. Distinct patterns of immunodominance are observed, which differ for CD4+ T cells, CD8+ T cells, and antibodies. The class I and class II epitopes are combined into epitope megapools to facilitate identification and quantification of SARS-CoV-2-specific CD4+ and CD8+ T cells.
Details
- Title
- Comprehensive analysis of T cell immunodominance and immunoprevalence of SARS-CoV-2 epitopes in COVID-19 cases
- Authors/Creators
- A. Tarke (Author/Creator) - La Jolla Institute for ImmunologyJ. Sidney (Author/Creator) - La Jolla Institute for ImmunologyC.K. Kidd (Author/Creator) - La Jolla Institute for ImmunologyJ.M. Dan (Author/Creator) - La Jolla Institute for ImmunologyS.I. Ramirez (Author/Creator) - La Jolla Institute for ImmunologyE.D. Yu (Author/Creator) - La Jolla Institute for ImmunologyJ. Mateus (Author/Creator) - La Jolla Institute for ImmunologyR. da Silva Antunes (Author/Creator) - La Jolla Institute for ImmunologyE. Moore (Author/Creator) - La Jolla Institute for ImmunologyP. Rubiro (Author/Creator) - La Jolla Institute for ImmunologyN. Methot (Author/Creator) - La Jolla Institute for ImmunologyE. Phillips (Author/Creator) - Murdoch UniversityS. Mallal (Author/Creator) - Murdoch UniversityA. Frazier (Author/Creator) - La Jolla Institute for ImmunologyS.A. Rawlings (Author/Creator) - University of California San DiegoJ.A. Greenbaum (Author/Creator) - La Jolla Institute for ImmunologyB. Peters (Author/Creator) - La Jolla Institute for ImmunologyD.M. Smith (Author/Creator) - University of California San DiegoS. Crotty (Author/Creator) - La Jolla Institute for ImmunologyD. Weiskopf (Author/Creator) - La Jolla Institute for ImmunologyA. Grifoni (Author/Creator) - La Jolla Institute for ImmunologyA. Sette (Author/Creator) - La Jolla Institute for Immunology
- Publication Details
- Cell Reports Medicine, Vol.2(2), Art. 100204
- Publisher
- Elsevier
- Identifiers
- 991005543844007891
- Copyright
- © 2021 The Author(s).
- Murdoch Affiliation
- Institute for Immunology and Infectious Diseases
- Language
- English
- Resource Type
- Journal article
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- Citation topics
- 1 Clinical & Life Sciences
- 1.104 Virology - General
- 1.104.1353 Coronavirus Research
- Web Of Science research areas
- Cell Biology
- Medicine, Research & Experimental
- ESI research areas
- Clinical Medicine