Survey of bacterial diversity in chronic wounds using Pyrosequencing, DGGE, and full ribosome shotgun sequencing

BMC Microbiology

Table 4 Results obtained for the pressure ulcer sample (P) using pyrosequencing (PRAPS).

Genus	Seq	%	Gram	Aerotolerance	Shape
Peptoniphilus spp.	10543	38.38	+	Anaerobe	Cocci
Serratia spp.	5234	19.05	-	facultative anaerobe	Rod
Peptococcus niger.	3042	11.07	+	anaerobe	Cocci
Streptococcus spp.	3016	10.98	+	facultative anaerobe	Cocci
Finegoldia magna	1743	6.34	+	anaerobe	Cocci
Dialister spp.	1374	5.00	-	anaerobe	rod
Pectobacterium spp.	528	1.92	-	facultative anaerobe	rod
Enterobacter spp.	392	1.43	-	facultative anaerobe	rod
Proteus spp.	308	1.12	-	facultative anaerobe	rod
Veillonella spp.	186	0.68	-	anaerobe	cocci
UWB	141	0.51	Unk	unk	unk
UWB	121	0.44	Unk	unk	unk
Clostridium spp.	93	0.34	+	anaerobe	rod
Corynebacterium striatum	73	0.27	+	aerobe	rod
Delftia spp.	65	0.24	-	aerobe	rod
UWB	63	0.23	Unk	unk	unk
Enterococcus spp.	62	0.23	+	facultative anaerobe	cocci
Staphylococcus spp.	56	0.20	+	facultative anaerobe	cocci
Hydrogenophaga spp.	54	0.20	-	aerobe	rod
Eggerthella lenta	33	0.12	+	anaerobe	rod
UWB	31	0.11	Unk	unk	unk
UWB	31	0.11	Unk	unk	unk
Prevotella spp.	31	0.11	-	anaerobe	rod
Varibaculum cambriense	28	0.10	+	anaerobe	rod
Actinomyces europaeus	28	0.10	+	facultative anaerobe	rod
Ferrimonas spp.	27	0.10	-	facultative anaerobe	rod
Bacillus spp.	24	0.09	+	aerobe	rod
UWB	22	0.08	Unk	unk	unk
Fusobacterium spp.	22	0.08	-	anaerobe	rod
Alcaligenes faecalis	20	0.07	-	aerobe	rod
UWB	17	0.06	Unk	unk	unk
Riemerella spp.	15	0.05	-	aerobe	rod
UWB	14	0.05	Unk	unk	unk
Stenotrophomonas spp.	14	0.05	-	aerobe	rod
Shewanella spp.	11	0.04	-	facultative anaerobe	rod
Eubacterium spp.	10	0.04	+	anaerobe	rod

This table provides the identified genus of the bacteria found using pyrosequencing (PRAPS) in the P sample, the number of sequences corresponding to this genus, the known gram staining properties, the aerotolerance (anaerobic, anaerobic, or facultative anaerobic) nature of the genus, and the shape of the genus. UWB refers to unknown wound bacteria or sequences without significant similarity to database sequences. * The asterisk identifies bacteria previously cultured from a single culture result from each subject's medical record from subjects in the P pool. Bacteria that were cultured and were not found using PRAPS include Acinetobacter, Leclercia, Morganella, and Pseudomonas. The % represents the percentage of the total sequences analyzed within the sample.

ISSN: 1471-2180