{"entity": "publication", "iuid": "dbd47bdc131a45f6866e697cbdbc8196", "timestamp": "2026-04-14T22:02:07.678Z", "links": {"self": {"href": "https://publications.scilifelab.se/publication/dbd47bdc131a45f6866e697cbdbc8196.json"}, "display": {"href": "https://publications.scilifelab.se/publication/dbd47bdc131a45f6866e697cbdbc8196"}}, "title": "Longitudinal single-cell analysis of SARS-CoV-2-reactive B cells uncovers persistence of early-formed, antigen-specific clones.", "authors": [{"family": "Scharf", "given": "Lydia", "initials": "L"}, {"family": "Axelsson", "given": "Hannes", "initials": "H"}, {"family": "Emmanouilidi", "given": "Aikaterini", "initials": "A"}, {"family": "Mathew", "given": "Nimitha R", "initials": "NR"}, {"family": "Sheward", "given": "Daniel J", "initials": "DJ"}, {"family": "Leach", "given": "Susannah", "initials": "S"}, {"family": "Isakson", "given": "Pauline", "initials": "P"}, {"family": "Smirnov", "given": "Ilya V", "initials": "IV"}, {"family": "Marklund", "given": "Emelie", "initials": "E"}, {"family": "Miron", "given": "Nicolae", "initials": "N"}, {"family": "Andersson", "given": "Lars-Magnus", "initials": "LM"}, {"family": "Gissl\u00e9n", "given": "Magnus", "initials": "M"}, {"family": "Murrell", "given": "Ben", "initials": "B"}, {"family": "Lundgren", "given": "Anna", "initials": "A"}, {"family": "Bemark", "given": "Mats", "initials": "M"}, {"family": "Angeletti", "given": "Davide", "initials": "D"}], "type": "journal article", "published": "2023-01-10", "journal": {"title": "JCI Insight", "issn": "2379-3708", "volume": "8", "issue": "1", "issn-l": "2379-3708"}, "abstract": "Understanding persistence and evolution of B cell clones after COVID-19 infection and vaccination is crucial for predicting responses against emerging viral variants and optimizing vaccines. Here, we collected longitudinal samples from patients with severe COVID-19 every third to seventh day during hospitalization and every third month after recovery. We profiled their antigen-specific immune cell dynamics by combining single-cell RNA-Seq, Cellular Indexing of Transcriptomes and Epitopes by Sequencing (CITE-Seq), and B cell receptor-Seq (BCR-Seq) with oligo-tagged antigen baits. While the proportion of Spike receptor binding domain-specific memory B cells (MBC) increased from 3 months after infection, the other Spike- and Nucleocapsid-specific B cells remained constant. All patients showed ongoing class switching and sustained affinity maturation of antigen-specific cells, and affinity maturation was not significantly increased early after vaccine. B cell analysis revealed a polyclonal response with limited clonal expansion; nevertheless, some clones detected during hospitalization, as plasmablasts, persisted for up to 1 year, as MBC. Monoclonal antibodies derived from persistent B cell families increased their binding and neutralization breadth and started recognizing viral variants by 3 months after infection. Overall, our findings provide important insights into the clonal evolution and dynamics of antigen-specific B cell responses in longitudinally sampled patients infected with COVID-19.", "doi": "10.1172/jci.insight.165299", "pmid": "36445762", "labels": {"NGI Short read": "Service", "NGI Uppsala (SNP&SEQ Technology Platform)": "Service", "National Genomics Infrastructure": "Service"}, "xrefs": [{"db": "pmc", "key": "PMC9870078"}, {"db": "pii", "key": "165299"}], "notes": [], "created": "2023-11-29T11:33:16.662Z", "modified": "2023-11-29T11:33:16.666Z"}