Table 1.
Sequences grouped into phylotypes at 98% similarity
| Phylotype No. | Closest type strain | Acc. No1 | Similarity (%)2 | No. of clones3 | Distribution of clones4 | Assignment of clones |
| 1 | Faecalibacterium prausnitzii | AJ413954 | 98.4-98.5 | 9 | 8 (A); 1 (B) | Ruminococcaceae |
| 2 | Faecalibacterium prausnitzii | AJ413954 | 98.4-99.1 | 4 | 4 (B) | Ruminococcaceae |
| 3 | Subdoligranulum variabile | AJ518869 | 97.0 | 1 | 1 (B) | Ruminococcaceae |
| 4 | Anaerofilum agile | X98011 | 90.6 | 1 | 1 (B) | Ruminococcaceae |
| 5 | Ruminococcus lactaris | L76602 | 94.0 | 1 | 1 (B) | Ruminicoccaceae |
| 6 | Oscillibacter valericigenes | AB238598 | 92.5 | 1 | 1 (B) | Ruminicoccaceae |
| 7 | Ruminococcus lactaris | L76602 | 95.9 | 2 | 2 (A) | Ruminococcaceae |
| 8 | Ruminococcus lactaris | L76602 | 95.1 | 2 | 2 (B) | Ruminococcaceae |
| Clostridium jejuense | AY494606 | 94.7 | Lachnospiraceae | |||
| 9 | Marvinbryantia formatexigens | AJ505973 | 95.7 | 1 | 1 (B) | Lachnospiraceae |
| 10 | Roseburia intestinalis | AJ312385 | 94.1 | 1 | 1 (B) | Lachnospiraceae |
| 11 | Anaerostipes caccae | AJ270487 | 99.2 | 2 | 2 (A) | Lachnospiraceae |
| 12 | Anaerostipes caccae | AJ270487 | 95.8 | 1 | 1 (B) | Lachnospiraceae |
| 13 | Roseburia intestinalis | AJ312385 | 100.0 | 2 | 2 (A) | Lachnospiraceae |
| 14 | Roseburia faecis | AY305310 | 96.9 | 2 | 2 (B) | Lachnospiraceae |
| Roseburia intestinalis | AJ312385 | 97.1 | Lachnospiraceae | |||
| 15 | Pseudobutyrivibrio ruminis | X95893 | 94.2-94.3 | 2 | 2 (A) | Lachnospiraceae |
| 16 | Dorea longicatena | AJ132842 | 94.9-95.2 | 3 | 3 (A) | Lachnospiraceae |
| 17 | Dorea longicatena | AJ132842 | 96.4-97.0 | 5 | 5 (A) | Lachnospiraceae |
| 18 | Dorea longicatena | AJ132842 | 100.0 | 3 | 3 (B) | Lachnospiraceae |
| 19 | Dialister pneumosintes | X82500 | 99.6 | 1 | 1 (A) | Veillonellaceae |
| 20 | Eubacterium plautii | AY724678 | 91.5 | 1 | 1 (B) | Eubacteriaceae |
| 21 | Streptococcus thermophilus | AY188354 | 99.9 | 1 | 1 (B) | Streptococcaceae |
| 22 | Blautia wexlerae | EF036467 | 99.1-99.9 | 23 | 23 (B) | Insertae cedis XIV |
| 23 | Clostridium citroniae | DQ279737 | 95.1-96.2 | 9 | 7 (A); 2 (B) | Unclass Clostridiales |
| Clostridium asparagiforme | AJ582080 | 95.1-95.5 | Unclass Clostridiales | |||
| 24 | Clostridium clostridioforme | M59089 | 95.0-95.2 | 5 | 5 (A) | Unclass Clostridiales |
| Clostridium citroniae | DQ279737 | 95.0 | Unclass Clostridiales | |||
| 25 | Clostridium clostridioforme | M59089 | 99.4-99.7 | 3 | 3 (A) | Unclass Clostridiales |
| 26 | Clostridium aldenense | DQ279736 | 99.1 | 1 | 1 (A) | Unclass Clostridiales |
| 27 | Clostridium asparagiforme | AJ582080 | 95.7 | 1 | 1 (A) | Unclass Clostridiales |
| 28 | Clostridium asparagiforme | AJ582080 | 96.5 | 1 | 1 (B) | Unclass Clostridiales |
| 29 | Clostridium clostridioforme | M59089 | 95.1-95.9 | 5 | 5 (B) | Unclass Clostridiales |
| 30 | Clostridium ramosum | X73440 | 100.0 | 2 | 2 (A) | Unclass firmicutes |
| 31 | Escherichia fergusonii | AF530475 | 99.7-99.9 | 2 | 2 (A) | Gammaproteobacteria |
| 32 | Barnesiella intestinihominis | AB267809 | 99.1-99.3 | 2 | 2 (B) | Porphyrmonadaceae |
| 33 | Barnesiella viscericola | AB267809 | 92.1 | 1 | 1 (B) | Porphyrmonadaceae |
| 34 | Barnesiella viscericola | AB267809 | 90.0 | 1 | 1 (A) | Porphyrmonadaceae |
| 35 | Parabacteroides distasonis | AB238922 | 99.4-100.0 | 4 | 4 (B) | Porphyrmonadaceae |
| 36 | Bacteroides cellulosilyticus | AJ583243 | 97.6-98.9 | 9 | 4 (A); 5 (B) | Bacteroidaceae |
| 37 | Bacteroides caccae | X83951 | 99.4-99.9 | 16 | 2 (A); 14 (B) | Bacteroidaceae |
| 38 | Bacteroides xylanisolvens | AM230650 | 97.7 | 1 | 1 (A) | Bacteroidaceae |
| 39 | Bacteroides thetaiotaomicron | AE015928 | 99.9 | 6 | 4 (A); 2 (B) | Bacteroidaceae |
| 40 | Bacteroides thetaiotaomicron | AE015930 | 99.3 | 1 | 1 (B) | Bacteroidaceae |
| 41 | Bacteroides uniformis | AB050110 | 99.7-100.0 | 6 | 3 (A); 3 (B) | Bacteroidaceae |
| 42 | Bacteroides dorei | AB242142 | 97.3-98.7 | 29 | 26 (A); 3 (B) | Bacteroidaceae |
| 43 | Alistipes putredinis | L16497 | 92.4-92.7 | 2 | 2 (B) | Rikenellaceae |
| 44 | Alistipes onderdonkii | AY974071 | 99.7 | 1 | 1 (B) | Rikenellaceae |
The type strain showing the highest similarity to the sequence is shown. Assignment of the clones to bacterial family level was done using the “sequence match” option in the Ribosomal data base[22].
1
Accession number for the type strain;
2
Similarity to the closest type strain;
3
The total number of clones assigned to the phylotype;
4
Number of clones found in patient A and B, respectively.