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. 2023 May 17;617(7962):807–817. doi: 10.1038/s41586-023-06081-w

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© The Author(s) 2023

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

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Extended Data Fig. 5 — a, The source bacterium of bacteria/microbiota-derived peptides that stimulate TCC88 is shown at the phylum and class levels. Source proteins of the peptides were used to check within UniProt databases and taxonomy data was then extracted. b, Heatmap result analyzing all peptides that were stimulatory or non-stimulatory for TCC88 with the aim to examine if amino acid motifs are present in stimulatory peptides (Green, black and red represent higher, average and lower prevalence of distinct amino acids in the positions of the tested 10-mer peptides. IceLogo⁵⁸ utilizes the z-score to calculate amino acid specific p-values at each position via an error function⁵⁸). c, Supernatants were collected from bulk TILs stimulated with bacteria/microbiota-derived peptides after 5 days. IFN-γ secretion of TILs was measured by ELISA (data represents mean value of 5 replicate wells ± SEM). d, Several TIL-derived TCCs were stimulated with bacteria/microbiota-derived peptides and irradiated autologous PBMCs as APCs. Proliferation was measured by ³H-thymidine incorporation after 3 days (data represents mean value of 2 replicate wells). e, Supernatants were collected after stimulation of TCC75 with SIN3A* and HGM27 peptides for 3 days. Cytokine/chemokine secretion of TCC75 was examined for the different antigens and depicted in a heatmap. Specific amount of each cytokine/chemokine (pg/ml) was calculated by subtracting the cytokines in the negative control cultures (no peptide control).

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