Fig. 8

Smarcad1-dependent transcription response. Changes of gene expression on DSS-induced colitis in microbiota-enriched animals. a WT/Smarcad1-KO heat map of all differentially expressed genes (DEG) between control and DSS-induced colitis in colon epithelium samples (WT-colitis vs. WT-control, DESeq2, FDR < 0.05, Additional file 13: Table S12). Cluster A (Additional file 14: Table S13) contains genes not upregulated on colitis in Smarcad1-KO colon to the same extent as in WT. b DEG showing a diminished colitis response on Smarcad1 presence. Classified in 4 clusters. A full list of Smarcad1-dependent response genes in the indicated clusters is attached with functional annotations in Additional file 15: Table S14. The enriched genes annotated as extracellular proteases are labeled. c, d Enrichment of selected terms detected by gene ontology analysis. BP, biological process; CC, cellular component; MF, molecular function; KEGG, KEGG biological pathways; REA, reactome. Dashed line indicates significance threshold corrected p = 0.05. Gene number annotated in the cluster with a specific term is indicated next to each bar. c Cluster A (Additional file 14: Table S13) vs. genes upregulated on colitis in WT (Additional file 13: Table S12, marked UP). d Cluster 2 versus genes expressed in the colon (Additional file 16: Table S15) shown in gray and versus genes upregulated on colitis in WT (Additional file 13: Table S12) shown in black. Full gene ontology enrichment analysis is listed in Additional file 17: Table S16 and Additional file 18: Table S17