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. 2022 Sep 29;13:5730. doi: 10.1038/s41467-022-33326-5

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© The Author(s) 2022

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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 2 — a–c Expression profiling by bulk RNAseq of distal whole colonic tissue of C. rodentium infected Irf1^–/– and Irf1^+/+ mice (9 dpi). d–f Colonic tissue of C. rodentium infected mice (9 dpi) was removed and the epithelial and immune cell compartment was enriched as described in the methods section. Total RNA was isolated and used for expression profiling by bulk RNAseq analysis. e, f Genes showing log2 fold-changes in expression of >2 or –2 and false discovery rates (FDR) < 0.05 as determined by the Deseq2 algorithm were colored in red.