Fig. 4

Individual microbiota composition at the genus level at the first and last month of fattening. Relative abundance of the five most abundant taxa at the genus level for all calves for the (a) first sampling (day 7), (b) second sampling (day 21), and (c) last sampling (day 161 for farms A and B and day 147 for farm C). Other detected taxa are depicted in white. Calf IDs are given at the top of the panels and are ordered according to farm. The color scale of the dots beneath the bar graphs represents the distribution of the Shannon index values. Grey dots indicate samples for which no index was computed because the number of sequences was lower than the rarefaction threshold. The color key refers to the phylum of each taxa and each palette was built to maximize the distinctiveness between shades