Figure 1: Venn diagram of differentially expressed genes according to age effect (A) and the 3 contrasts analysis (B)
Venn diagram of differentially expressed genes (A) according to age effect and the 3 contrasts analysis; (B) for up- and down regulated DE genes between 35 and 49 days of age in NF group, where ingestion of hard faeces was prevented, in the FF and FFab groups where pups had access in the nest to fecesfaeces excreted by foreign females receiving either no antibiotic or medicated with tiamulin and tetracycline.
Visualize the immune DE gene (with HUGO name) according to age and treatment from the list of 188 genes unique to FF35-49d
Figure 2: GO analysis of annotated upregulated differentially expressed genes adj<0.025)
GO analysis of annotated upregulated differentially expressed genes in the FF group in the two weeks after weaning where pups had access in the nest to feces excreted by unrelated does .
A. The significantly changed terms enriched by GO for the Molecular Function (MF) Cellular Component (CC) and Biological Process (BP)
B. Percentage of enriched genes for the 25 first Biological Process (p adj<0.025)
Figure 3: Type I interferon signaling pathway in the ileum after weaning
type I interferon signaling pathway in the ileum after weaning in the NF group, ingestion of hard feces was prevented, in the FF and FFab groups where pups had access in the nest to feces excreted by unrelated does that were either not treated with antibiotics or treated with tiamulin and tetracycline. Heatmap representing the expression level of genes involved in type I interferon signaling pathway (rows) in individual samples (columns). The colors represent the Z-scores (row-scaled expression) from low (blue) to high values (red). Genes (rows) were clustered by the ward.D method.
Figure 4: Immune responses in the ileum after weaning
Immune responses in the ileum after weaning in the NF group, ingestion of hard feces was prevented, in the FF and FFab groups where pups had access in the nest to faeces excreted by un related does that were either not treated or treated with tiamulin and tetracycline. Heatmap representing the expression level of genes involved in immune responses (rows) in individual samples (columns). The colors represent the Z-scores (row-scaled expression) from low (blue) to high values (red). Genes (rows) were clustered by the ward.D method
