Fig 1.
Campylobacter caecal counts in chickens at 35 days of age.
No Campylobacter could be detected for the Campy- groups; each point represents the caecal content of a single chicken; horizontal bars illustrate the mean for each group; insufficient caecal matter was recovered from some chicken to allow the enumeration of C. jejuni; ** indicates p<0.01.
Fig 2.
Bifidobacterium 16S copies in caecal content at 35 days of age across all chicken groups; * indicates p<0.05.
Each point represents the caecal content of a single chicken; horizontal bars illustrate the mean for each group.
Table 1.
Comparison of alpha-diversity indexes across chicken groups and according to C. jejuni colonization or to feed additive use.
Fig 3.
NMDS plot illustrating the chicken microbiome beta-diversity according to C. jejuni status.
Each point represents a single chicken caecal microbiome; based on a subsample of 898 OTU.
Fig 4.
NMDS plot illustrating the chicken microbiome beta-diversity according to feed additive use.
Each point represents a single chicken caecal microbiome; based on a subsample of 898 OTU.
Table 2.
Beta-diversity analysis across chicken groups and according to C. jejuni colonization or feed additive use.
Table 3.
Changes in the relative abundance of the caecal microbiome phylum induced by C. jejuni colonization.