Table 2.
Simplified overview of bacterial operational taxonomic units (OTUs) detected in the study subjects
|
ID
|
Non-IBDa
|
CD1b
|
CD2
|
CD3
|
CD4
|
|||||
|---|---|---|---|---|---|---|---|---|---|---|
| Segment | Ileum | Colon | Ileum | Colon | Ileum | Colon | Ileum | Colon | Ileum | Colon |
| Bacteroidetes clones, uncultured | 2 | 1 | 1 | 1 | ||||||
| Bacteroidales clones, uncultured | 2 | 4 | ||||||||
| Bacteroides fragilis | 7 | 5 | 1 | 1 | 6 | 1 | 1 | 5 | ||
| Bacteroides thetaiotaomicron | 1 | 1 | 1 | 1 | 1 | |||||
| Bacteroides uniformis | 1 | 3 | 3 | 2 | 3 | 2 | ||||
| Bacteroides vulgatus | 30 | 50 | 6 | 14 | 54 | 5 | 40 | 22 | 1 | |
| Bacteroides sp. | 6 | 2 | 1 | 7 | 4 | 3 | 2 | |||
| Parabacteroides sp. | 1 | 2 | ||||||||
| Sum Bacteroidetes | 45 | 61 | 15 | 24 | 62 | 12 | 48 | 27 | 1 | 7 |
| Pseudomonas frederiksbergensis | 1 | |||||||||
| Citrobacter freundii | 51 | |||||||||
| Citrobacter brakii | 6 | |||||||||
| Enterobacter hormachei | 2 | |||||||||
| Eschericia coli | 1 | |||||||||
| Haemophilus parainfluenzae | 1 | |||||||||
| Klebsiella sp. | 1 | 1 | ||||||||
| Parasutterella excrementihominis | 3 | 1 | ||||||||
| Sutterella sp. | 2 | |||||||||
| Sum Proteobacteria | 0 | 0 | 4 | 1 | 0 | 58 | 4 | 0 | 0 | 3 |
| Clostridiales bacterium | 3 | 2 | 1 | 1 | ||||||
| Clostridium sp. | 4 | 1 | 1 | 76 | 45 | |||||
| Coprococcus sp. | 1 | 1 | ||||||||
| Lachnospiraceae clones, unc. | 3 | 1 | 1 | 1 | ||||||
| Lachnospira pectinoschiza | 1 | |||||||||
| Ruminococcus sp. | 2 | 4 | 4 | 2 | 2 | 4 | 6 | 5 | ||
| Faecalibacterium prausnitzii | 1 | 1 | ||||||||
| Faecalibacterium sp. | 4 | 1 | 3 | 10 | 3 | 1 | 13 | |||
| Roseburia sp. | 3 | 5 | 1 | 6 | ||||||
| Eubacterium halii | 1 | |||||||||
| Firmicutes bacterium clones, unc. | 11 | 1 | 1 | |||||||
| Sum Firmicutes | 29 | 13 | 9 | 14 | 14 | 4 | 19 | 2 | 83 | 51 |
| Bacterium clones, uncultured | 2 | 0 | 0 | 1 | 0 | 1 | 3 | 1 | 0 | 2 |
| Total number of clones | 76 | 74 | 28 | 40 | 76 | 75 | 74 | 30 | 84 | 63 |
| 150 | 68 | 151 | 104 | 147 | ||||||
| Total number of OTUs | 42 | 22 | 27 | 30 | 12 | |||||
Notes:
a
Non-IBD control;
b
Crohn’s disease.