Fig. 3

Heatmap of transcriptomic profiles of sorted KUL01⁺ caecal cells from non-infected and 7 days infected conventional and GF chickens. NI and 7 DPI represent non-infected and 7 days pi chickens, respectively. Conventional chickens are indicated in blue, GF chickens in red and GF chickens that received a conventional microbiota in green. Delta Ct gene expression was normalized using a Z-score for each gene. Gradient color from blue to yellow indicated low level and high-level expression respectively. A hierarchical clustering was performed following Z-score for each gene and clusters are indicated in the left of the heatmap (n ≥ 8 chickens / group)