Table 2

Similarity of percentages (SIMPER) analysis of microbial community dissimilarity (Bray–Curtis) between core species groups for (A) CD and siblings, (B) healthy controls and siblings and (C) CD and healthy cohorts

NameMean abundance in the CD cohortMean abundance in the siblings cohort% ContributionCumulative %
Faecalibacterium prausnitzii22.424.220.720.7
Escherichia fergusonii21.49.715.936.6
Shigella flexneri13.67.210.747.3
Ruminococcus gnavus13.15.28.956.2
Bacteroides vulgatus13.27.67.864.0
Eubacterium rectale9.86.46.670.6
Oscillospira guilliermondii08.05.976.5
Escherichia coli6.504.581.0
Sutterella wadsworthensis06.04.585.5
Bacteroides dorei05.74.289.6
Roseburia faecis04.02.992.6
NameMean abundance in the healthy cohortMean abundance in the siblings cohort% ContributionCumulative %
Faecalibacterium prausnitzii30.924.218.918.9
Escherichia fergusonii4.19.710.629.5
Sutterella wadsworthensis8.76.09.438.9
Shigella flexneri3.67.28.447.3
Bacteroides vulgatus8.07.68.455.7
Eubacterium rectale9.
Oscillospira guilliermondii8.
Bacteroides dorei05.75.475.2
Ruminococcus gnavus4.
Bacteroides uniformis2.
Roseburia faecis2.
Coprococcus eutactus2.302.287.7
Shigella dysenteriae2.102.189.8
Blautia producta2.01.81.891.6
NameMean abundance in the CD cohortMean abundance in the healthy cohort% ContributionCumulative %
Faecalibacterium prausnitzii22.430.922.422.4
Escherichia fergusonii21.44.114.436.7
Shigella flexneri13.63.69.346.0
Ruminococcus gnavus13.14.18.654.6
Bacteroides vulgatus13.
Eubacterium rectale9.89.97.470.1
Sutterella wadsworthensis08.76.476.5
Oscillospira guilliermondii08.56.282.8
Escherichia coli6.504.487.2
Bacteroides uniformis02.92.189.3
Roseburia faecis02.41.891.1
  • Given is mean per cent abundance of sequences for core species only across the samples each was observed to occupy and the average dissimilarity between samples (overall mean (A)=73.4% and (B)=55.0%, (C)=73.0%). Percentage contribution is the mean contribution divided by mean dissimilarity across samples. The list of species is not exhaustive, so cumulative per cent value does not sum to 100%. Species level identities of detected taxa are reported here. However, given the length of the ribosomal sequences analysed, these identities should be considered putative.

  • CD, Crohn's disease.