3/8/2023 0 Comments Repertoire immune medicinesV., Frazier A., Baric R., Peters B., Greenbaum J., Ollmann Saphire E., Smith D. J., Longitudinal observation and decline of neutralizing antibody responses in the three months following SARS-CoV-2 infection in humans. I., O’Connell L., O’Hara G., MacMahon E., Douthwaite S., Nebbia G., Batra R., Martinez-Nunez R., Shankar-Hari M., Edgeworth J. B., Bisnauthsing K., Moore A., Green A., Martinez L., Stokes B., Honey J., Izquierdo-Barras A., Arbane G., Patel A., Tan M. W., Winstone H., Kerridge C., Huettner I., Jimenez-Guardeño J. A., Hemmings O., O’Byrne A., Kouphou N., Galao R. Seow J., Graham C., Merrick B., Acors S., Pickering S., Steel K. J., Memory T cell responses targeting the SARS coronavirus persist up to 11 years post-infection. Sette A., Crotty S., Adaptive immunity to SARS-CoV-2 and COVID-19. Huang C., Wang Y., Li X., Ren L., Zhao J., Hu Y., Zhang L., Fan G., Xu J., Gu X., Cheng Z., Yu T., Xia J., Wei Y., Wu W., Xie X., Yin W., Li H., Liu M., Xiao Y., Gao H., Guo L., Xie J., Wang G., Jiang R., Gao Z., Jin Q., Wang J., Cao B., Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China. Green arrows indicate sequences where anchor and all internal residues are conserved between SARS-CoV-2 and HCoV species. Mismatches are represented in red and HLA anchor residues with a grey background. (C) Sequence alignment between select SARS-CoV-2 epitopes and related common cold coronaviruses (HCoV) epitopes. Sequences of select epitopes from each HLA are annotated. Dot sizes represent the mean combined estimated frequency of an epitope specificity across convalescent and unexposed subjects. (B) Prevalence of T cell specificity observed in unexposed versus convalescent cohorts represented as percentage of cohort with any detectable frequency of T cell specificity against each epitope. Heat maps show mean frequency of epitope specificity calculated for the top five epitopes (x-axis, ranked by cumulative frequency in convalescent patients) by subject (y-axis) across each cohort. (A) Estimated frequency of T cell response in parent CD8 + T cell samples by subject and cohort. QYI-A24, PTD-A01, and LLY-A02 correspond to QYIKWPWYI in A*24:02, PTDNYITTY in A*01:01, and LLYDANYFL in A*02:01, respectively. (C) Single-cell transcriptomic analysis showing global uniform manifold approximation and projection (UMAP) clustering, scoring by functional gene set, and projections onto the transcriptomic UMAP for T cells with specificity toward select epitopes in convalescent individuals (n=33 samples). Amino acid sequences of epitopes recognized by the largest number of T cell clonotypes are shown next to the corresponding bar. A scheme of the viral ORF structure is shown at the top. (B) Clonotype specificity detected by HLA allele and epitope across the SARS-CoV-2 proteome in COVID-19 patient samples (n=61). Using this approach, TCR sequence, peptide/HLA specificity and transcriptomic features are simultaneously acquired for each cell (right). (A) Schematic of the method where encoded tetramer libraries, designed independently for each HLA allele to span the entire SARS-CoV-2-proteome, are used to stain enriched CD8 + cells from subject PBMCs, which are then sorted and subjected to single-cell sequencing (left).
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