Table 1.
Representative dysbiotic microbiota in IBD
| Ulcerative colitis | Pouchitis | Crohn's disease |
|---|---|---|
| Bacterial diversity ↓ | Bacterial diversity ↓↑ | Bacterial diversity ↓ |
| Proteobacteria ↑ | Proteobacteria | Proteobacteria ↑ |
| Enterobacteriaceae | Enterobacteriaceae | Enterobacteriaceae ↑ |
| E. coli ↑ | E. coli ↑ | Adherent-invasive E. coli ↑ |
| K. pneumoniae ↑ | ||
| Pasteurellaceae ↑ | ||
| Haemophilus ↑ | ||
| Neisseriaceae ↑ | ||
| Fusobacteria ↑ | Fusobacteria | Fusobacteria ↑ |
| F. varium ↑ | Fusobacterium ↑ | Fusobacteriaceae ↑ |
| Bacteroidetes ↑↓ | Bacteroidetes | Bacteroidetes |
| Bacteroides ↑ | Bacteroides ↑ | Bacteroiales ↓↑ |
| B. vulgatus ↑ | ||
| Firmicutes ↓ | Firmicutes | Firmicutes ↓ |
| Clostridiales ↓ | Clostridiales ↓ | |
| clusters IV, XIVa, XVIII ↓ | clusters IV, XIVa ↓ | |
| F. prausnitzii ↓ | F. prausnitzii ↓ | |
| E. rectale ↓ | E. rectale ↓ | E. rectale ↓ |
| Ruminococcaceae | Ruminococcaceae | Ruminococcaceae ↓ |
| R. gnavus ↑ | R. gnavus ↑ | R. gnavus ↑ |
| clusters I, II, IX, XI ↑ | ||
| C. perfringens ↑ | C. perfringens ↑ | |
| Peptostreptococci ↑ | Veillonellaceae ↑ | |
| Lachnospiraceae | Lachnospiraceae ↓ | |
| Roseburia hominis ↓ | Erysipelotrichaceae ↓ | |
| Bacilli ↑ | Bacilli | Bacilli ↑ |
| E. faecalis ↑ | Lactobacilli ↓ | Lactobacillus ↓↑ |
| Actinobacteria | Actinobacteria | |
| Bifidobacteria ↓ | Bifidobacteriaceae ↓ | |
| Viral diversity ↑ | Viral diversity ↑ | |
| Caudoviales bacteriopahge ↑ | ||
| Fungal diversity | Fungal diversity | |
| Candida ↑ | Candida ↑ |