Mucosa-associated bacteria in two middle-aged women diagnosed with collagenous colitis

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].

¹Accession number for the type strain;

²Similarity to the closest type strain;

³The total number of clones assigned to the phylotype;

⁴Number of clones found in patient A and B, respectively.