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Single-cell epigenomic landscape of peripheral immune cells reveals establishment of trained immunity in individuals convalescing from COVID-19.
You, Maojun; Chen, Liang; Zhang, Dawei; Zhao, Peng; Chen, Zhu; Qin, En-Qiang; Gao, Yanan; Davis, Mark M; Yang, Pengyuan.
  • You M; Key Laboratory of Infection and Immunity of CAS, CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, University of Chinese Academy of Sciences, Beijing, China.
  • Chen L; Chongqing International Institute for Immunology, Chongqing, China.
  • Zhang D; Department of Immunology and Microbiology, Stanford University, Stanford, CA, USA. lchen12@stanford.edu.
  • Zhao P; Institute for Immunity, Transplantation and Infection, Stanford University, Stanford, CA, USA. lchen12@stanford.edu.
  • Chen Z; Howard Hughes Medical Institute, Stanford University, Stanford, CA, USA. lchen12@stanford.edu.
  • Qin EQ; School of Medicine, Shanghai University, Shanghai, China. lchen12@stanford.edu.
  • Gao Y; The Fifth Medical Center, Chinese PLA General Hospital, Beijing, China.
  • Davis MM; The Fifth Medical Center, Chinese PLA General Hospital, Beijing, China.
  • Yang P; The Fifth Medical Center, Chinese PLA General Hospital, Beijing, China.
Nat Cell Biol ; 23(6): 620-630, 2021 06.
Article in English | MEDLINE | ID: covidwho-1263492
ABSTRACT
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection often causes severe complications and even death. However, asymptomatic infection has also been reported, highlighting the difference in immune responses among individuals. Here we performed single-cell chromatin accessibility and T cell-receptor analyses of peripheral blood mononuclear cells collected from individuals convalescing from COVID-19 and healthy donors. Chromatin remodelling was observed in both innate and adaptive immune cells in the individuals convalescing from COVID-19. Compared with healthy donors, recovered individuals contained abundant TBET-enriched CD16+ and IRF1-enriched CD14+ monocytes with sequential trained and activated epigenomic states. The B-cell lineage in recovered individuals exhibited an accelerated developmental programme from immature B cells to antibody-producing plasma cells. Finally, an integrated analysis of single-cell T cell-receptor clonality with the chromatin accessibility landscape revealed the expansion of putative SARS-CoV-2-specific CD8+ T cells with epigenomic profiles that promote the differentiation of effector or memory cells. Overall, our data suggest that immune cells of individuals convalescing from COVID-19 exhibit global remodelling of the chromatin accessibility landscape, indicative of the establishment of immunological memory.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: Monocytes / Lymphocyte Subsets / Genes, T-Cell Receptor / Epigenesis, Genetic / Single-Cell Analysis / Epigenomics / SARS-CoV-2 / COVID-19 / Immunologic Memory Type of study: Observational study Limits: Adolescent / Adult / Aged / Female / Humans / Male / Middle aged / Young adult Language: English Journal: Nat Cell Biol Year: 2021 Document Type: Article Affiliation country: S41556-021-00690-1

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Full text: Available Collection: International databases Database: MEDLINE Main subject: Monocytes / Lymphocyte Subsets / Genes, T-Cell Receptor / Epigenesis, Genetic / Single-Cell Analysis / Epigenomics / SARS-CoV-2 / COVID-19 / Immunologic Memory Type of study: Observational study Limits: Adolescent / Adult / Aged / Female / Humans / Male / Middle aged / Young adult Language: English Journal: Nat Cell Biol Year: 2021 Document Type: Article Affiliation country: S41556-021-00690-1