Fig. 8

Species composition of three representative genes from the “Flagellar Assembly” pathway. A Boxplots showing expression levels of three representative members of the “Flagellar Assembly” pathway. Expression values have been log2 normalized as in Fig. 7. B-D Species contribution to the levels of flgE (B), fliC (C) and motA (D) in the faecal microbiome. Gene counts for each species are expressed as a percentage and only the top 10 species for each gene are represented, whilst the remainder have been collapsed under the “other” category. Empty rows correspond to samples that either had no reads annotated to the gene (motA, 55H and 14H; flgE 4 and 14H) or whose reads were entirely annotated to “k_unassigned” (Kingdom unassigned), (fliC, 14H; motA, 14 and 40). Notably, every sample had a certain proportion of reads annotated to “k_unassigned” and thus lacked a reliable annotation. These reads have been excluded from the dataset prior to plotting of fliC, flgE and motA. The percentage of unassigned reads for each gene, within every sample, is described in Additional Table 3