Table S1.
Identity of 16S rRNA gene sequences subjected to BLAST-based searches for species identification
| Non-IBD | CD1 Colitis | CD2 Colitis | CD3 Ileitis | CD4 Ileocolitis | ||||||
|---|---|---|---|---|---|---|---|---|---|---|
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| Ileum 76 | Colon 74 | Ileum 28 | Colon 40 | Ileum 76 | Colon 75 | Ileum 74 | Colon 30 | Ileum 84 | Colon 63 | |
| Bacteroides acidofaciens | 3 | |||||||||
| B. caccae strain JCM 9498 | 2 | |||||||||
| B. fragilis YCH46 | 6 | 1 | 3 | 1 | 1 | 5 | ||||
| B. fragilis NCTC 9343 | 4 | 1 | 3 | |||||||
| B. fragilis strain JCM 11019 | 1 | |||||||||
| B. fragilis 638R | 1 | |||||||||
| B. ovatus SDG-Mt85-3Cy | 1 | 4 | 1 | |||||||
| B. ovatus JCM5824 | 1 | |||||||||
| B. splanchnicus 92% | 1 | |||||||||
| B. thetaiotaomicron, div. | 1 | |||||||||
| B. thetaiotaomicron 12.4 | 1 | |||||||||
| B. thetaiotaomicron 17.4 | 1 | |||||||||
| B. thetaiotaomicron VPI-5482 95% | 1 | |||||||||
| B. thetaiotaomicron BCRC 10624 | 1 | |||||||||
| B. uniformis | 1 | 2 | 3 | |||||||
| B. uniformis JCM 5826 | 3 | 2 | 2 | |||||||
| B. uniformis JCM 5828 | 1 | |||||||||
| B. vulgatus ATCC 8482 | 30 | 50 | 6 | 14 | 54 | 5 | 39 | 22 | 1 | |
| B. sp. CB53 | 1 | 1 | 1 | |||||||
| B. sp. CO55 | 1 | |||||||||
| B. sp., uncultured | 1 | |||||||||
| B. sp. 30d14311, uncultured | 1 | |||||||||
| B. sp. M7-1, uncultured | 1 | |||||||||
| B. sp. BAC G1 38.T7 043 | 1 | |||||||||
| Parabacteroides johnsonii | 1 | |||||||||
| Parabacteroides distasonis | 2 | |||||||||
| Bacteroidales clone uncultured MS026 A1F01 | 2 | 4 | ||||||||
| Bacteroidetes clone uncultured TOI 383 | 2 | 1 | ||||||||
| Bacteroidetes clone uncultured M0035 077 | 1 | 1 | ||||||||
| Bacteroidetes | 45 | 61 | 15 | 24 | 62 | 12 | 48 | 27 | 1 | 7 |
| Pseudomonas frederiksbergensis strain IMER-B4-8 | 1 | |||||||||
| Citrobacter freundii strain 7 | 37 | |||||||||
| Citrobacter freundii H1 | 11 | |||||||||
| Citrobacter freundii B25 | 2 | |||||||||
| Citrobacter braakii 167 | 6 | |||||||||
| Citrobacter sp. clone 86b 95% | 1 | |||||||||
| Enterobacter hormachei | 2 | |||||||||
| Escherichia sp. clone 2d121161, uncultured | 1 | |||||||||
| Haemophilus parainfluenzae strain CIP 102513 | 1 | |||||||||
| Klebsiella sp. clone 30d3342, uncultured | 1 | 1 | ||||||||
| Parasutterella excrementihominis | 3 | 1 | ||||||||
| Sutterella sp. uncultured clone M4-81 | 2 | |||||||||
| Proteobacteria | 0 | 0 | 4 | 1 | 0 | 58 | 4 | 0 | 0 | 3 |
| Cl. bartletii DSM 16795 | 1 | 1 | ||||||||
| Cl. bartletii WAL 16138 | 1 | |||||||||
| Cl. rectum NCIMB 10651 | 76 | 45 | ||||||||
| Clostridium sp. A4-77 | 1 | |||||||||
| Clostridium sp. clone GI8-sp-J09, uncultured | 1 | |||||||||
| Clostridium sp. clone MS151A1 G12, uncultured | 1 | |||||||||
| Clostridiales bacterium DJF RP51 | 1 | |||||||||
| Clostridiales bacterium Art 12/1 | 1 | |||||||||
| Clostridiales bacterium clone M4-5, uncultured | 1 | |||||||||
| Clostridiales bacterium clone M2-30, uncultured | 1 | |||||||||
| Clostridia bacterium clone Clept10, uncultured | 1 | 2 | ||||||||
| Coprococcus sp. clone M6-3, uncultured | 1 | 1 | ||||||||
| Lachnospira pectinoschiza | 1 | |||||||||
| Lachnospiraceae clone uncultured, div. | 3 | |||||||||
| Lachnospiraceae bacterium clone MS 108A1 C09, uncultured | 1 | |||||||||
| Lachnospiraceae bacterium clone MS 123A1 H01, uncultured | 1 | |||||||||
| Lachnospiraceae bacterium clone MS 195A1 H10, uncultured | 1 | |||||||||
| Ruminococcus gnavus | 1 | |||||||||
| R. gnavus KCTC5921 | 1 | |||||||||
| R. gnavus A2 | 2 | 5 | ||||||||
| R. torques | 1 | 1 | ||||||||
| R. sp. clone M3-9 | 1 | |||||||||
| R. sp. CJ60 | 1 | 1 | ||||||||
| R. sp. CO28 | 1 | 1 | ||||||||
| R. sp. CO41 | 1 | 1 | ||||||||
| R. sp. CO47 | 1 | |||||||||
| R. sp. clone GI8-sp-E14, uncultured | 1 | |||||||||
| Ruminococcus sp. clone M3-45R | 1 | |||||||||
| Ruminococcus sp. clone M4-38, uncultured | 1 | 4 | ||||||||
| Ruminococcus sp. clone M4-43, uncultured | 2 | 1 | ||||||||
| Faecalibacterium prausnitzii clone 1-84 | 1 | |||||||||
| Faecalibacterium sp. clone GI5-003-A10, uncultured | 1 | |||||||||
| Faecalibacterium sp. clone M3-42R, uncultured | 4 | |||||||||
| Faecalibacterium sp. clone M4-59, uncultured | 2 | 1 | ||||||||
| Faecalibacterium sp. clone M4-69, uncultured | 1 | |||||||||
| Faecalibacterium sp. clone M7-59, uncultured | 1 | 2 | ||||||||
| Faecalibacterium sp. clone M4-9, uncultured | 1 | 3 | ||||||||
| Faecalibacterium sp. clone M6-59-F, uncultured | 1 | |||||||||
| Faecalibacterium sp. clone PP071-b29, uncultured | 2 | |||||||||
| Faecalibacterium sp. clone 13a, uncultured | 3 | 10 | 2 | |||||||
| Faecalibacterium sp. clone 11b, uncultured | 1 | |||||||||
| Faecalibacterium sp. clone M4-59, uncultured | 1 | |||||||||
| Roseburia inulinivorans strain L1-83 | 3 | 5 | 5 | |||||||
| Roseburia inulinivorans type strain A2-194T | 1 | |||||||||
| Roseburia intestinalis strain L1-82 | 1 | |||||||||
| Eubacterium halii | 1 | |||||||||
| Firmicutes bacterium clone QEDP3BE06, uncultured | 1 | |||||||||
| Firmicutes bacterium clone NI 217, uncultured | 1 | |||||||||
| Firmicutes bacterium clone EHFS1 S12d, uncultured | 1 | |||||||||
| Firmicutes bacterium clone M0034 014, uncultured | 1 | |||||||||
| Firmicutes bacterium clone M0015 143, uncultured | 1 | |||||||||
| Firmicutes bacterium clone M0033 014, uncultured | 1 | |||||||||
| Firmicutes bacterium clone M0015 080, uncultured | 1 | 1 | ||||||||
| Firmicutes bacterium clone M0015 104, uncultured | 1 | |||||||||
| Firmicutes bacterium clone M0032 093, uncultured | 1 | |||||||||
| Firmicutes | 29 | 13 | 9 | 14 | 14 | 4 | 19 | 2 | 83 | 51 |
| Bacterium clone AP13R.245, uncultured | 1 | |||||||||
| Bacterium clone HF0730, uncultured 92% | 1 | |||||||||
| Bacterium clone RL 305 aal87f07, uncultured | 1 | |||||||||
| Bacterium clone RL 182 aah34h09, uncultured | 1 | |||||||||
| Bacterium clone RL 184 aao67f01, uncultured | 1 | |||||||||
| Bacterium clone RL 243 aai87b02, uncultured | 1 | |||||||||
| Bacterium clone RL308 aal83c03, unculturded | 1 | |||||||||
| Bacterium clone RL 387 aao91d10, uncultured | 1 | |||||||||
| Bacterium clone calf32 2 wks grp 94% | 2 | |||||||||
| Bacterium clone, uncultured | 2 | 0 | 0 | 1 | 0 | 1 | 3 | 1 | 0 | 2 |
Abbreviation: IBD, inflammatory bowel disease.