Bacterial biota in reflux esophagitis and Barrett’s esophagus

Table 2 Analysis of 48 bacterial 16S rDNA sequences detected in the esophageal biopsies from 24 patients

		Number of sequences detected
Best matched bacterial	% Identity1	Normal esophagus	Esophageal disease		All
16S rDNA			Esophagitis	Barrett’s	patients
		(n = 9)2	(n = 12)	(n = 3)	(n = 24)
Cultivation-defined species3 (n = 14)
Prevotella veroralis	98.2	4	1		5
Streptococcal species	100	1	2		3
Pseudomonas species	100		2	1	3
Helicobacter pylori	100, 99.3, 98.6		3		3
Prevotella pallens	100	1		1	2
Streptococcus salivarius	100, 99.4	1		1	2
Actinobacillus pleuropneumoniae	99.4, 98.8	1	1		2
Acinetobacter sp. OM-E81	100			1	1
Citrobacter amalonaticus	100		1		1
Haemophilus influenzae	100		1		1
Haemophilus parainfluenzae	99.4		1		1
Veillonella atypica	99.4	1			1
Campylobacter fetus	97.9	1			1
Prevotella oulora	97		1		1
Subtotal		10	13	4	27
Unidentified species4 (n = 5)
Oral bacterium SH66	100, 99.4, 98.8	6	3	2	11
Oral bacterium RP55-18	100, 99.4		2		2
Oral bacterium SH13	100	1			1
Oral bacterium SH64	99.4	1			1
Oral bacterium AP60-12	98.3		1		1
Subtotal		8	6	2	16
Unknown5 (n = 5)
(Bacterium CEC2)	96.5		1		1
(Veillonella ratti)	93		1		1
(Cytophagales)	92.1		1		1
(Marine bacterium SS1)	89.9		1		1
(Rumen bacterium RFN91)	89.2		1		1
Subtotal			5		5

¹Multiple numbers indicate that sequences were obtained from more than one clone, and that the identity to the specified best matching bacteria varied between clones.

²n indicates number of patients in each group.

³Cultivation-defined species: 16S rDNA sequence with equal or greater than 97% identity with 16S rDNA of cultivation-defined bacterial species[24].

⁴Unidentified species: 16S rDNA sequence with equal or greater than 97% identity with PCR-derived 16S rDNA sequence[24].

⁵Unknown: 16S rDNA sequence with <97% identity with any known 16S rDNA sequences.