Table 3

Results obtained for diabetic foot ulcer sample using pyrosequencing (PRAPS).

Genus

Seq

%

Gram

Aerotolerance

Shape


Staphylococcus spp.

10874

29.72

+

Facultative anaerobe

Cocci

Peptoniphilus spp.

2555

6.98

+

Anaerobic

Cocci

RhodoPseudomonas spp.

2541

6.94

-

Facultative anaerobe

Rod

Enterococcus spp.

2341

6.40

+

Facultative anaerobe

Cocci

Veillonella spp.

1978

5.41

-

Anaerobic

Cocci

Clostridium spp.

1975

5.40

+

Anaerobic

Rod

Finegoldia magna

1953

5.34

+

Anaerobic

Cocci

Haemophilus spp.

1701

4.65

-

Facultative anaerobe

Rod

Acinetobacter spp.

1301

3.56

-

Aerobic

Rod

Morganella spp.

1240

3.39

-

Facultative anaerobe

Rod

Serratia spp.

1125

3.07

-

Facultative anaerobe

Rod

Proteus spp.

1072

2.93

-

Facultative anaerobe

Rod

Dialister spp.

1029

2.81

-

Anaerobic

Rod

Streptococcus spp.

751

2.05

+

Facultative anaerobe

Cocci

Stenotrophomonas spp.

669

1.83

+

Aerobe

Rod

Peptococcus niger

588

1.61

+

Anaerobic

Cocci

UWB

342

0.93

unk

Unk

Unk

Klebsiella spp.

326

0.89

-

Facultative anaerobe

Rod

Actinomyces spp.

307

0.84

+

Facultative anaerobe

Rod

Gordonia spp.

302

0.83

+

Aerobic

Rod

Delftia spp.

251

0.69

-

Aerobic

Rod

Gemella spp.

168

0.46

+

Anaerobic

Cocci

Corynebacterium spp.

157

0.43

+

Facultative anaerobe

Rod

UWB

143

0.39

unk

Unk

Unk

UWB

107

0.29

unk

Unk

Unk

Salmonella enterica

102

0.28

-

Facultative anaerobe

Rod

Fusobacterium spp.

99

0.27

-

Anaerobic

Rod

Varibaculum cambriense

54

0.15

+

Anaerobic

Rod

Enterobacter spp.

52

0.14

-

Facultative anaerobe

Rod

Bacillus spp.

51

0.14

+

aerobic

Rod

Eikenella spp.

42

0.11

-

facultative anaerobe

Rod

Anaerococcus spp.

42

0.11

+

anaerobic

Cocci

Hydrogenophaga spp.

40

0.11

-

aerobic

Rod

Alcaligenes faecalis

36

0.10

-

aerobic

Rod

E coli

32

0.09

-

facultative anaerobe

Rod

Sphingomonas spp.

26

0.07

-

aerobic

Rod

Acidovorax spp.

26

0.07

-

aerobic

Rod

Prevotella spp.

22

0.06

-

anaerobic

Rod

UWB

20

0.05

unk

unk

Unk

Eubacterium spp.

20

0.05

+

anaerobic

Rod

Bacteroides spp.

20

0.05

-

anaerobic

Rod

UWB

17

0.05

unk

unk

Unk

UWB

16

0.04

unk

unk

Unk

Selenomonadaceae spp.

16

0.04

-

anaerobic

Rod

Brevibacterium spp.

14

0.04

+

aerobic

Rod

Riemerella spp.

13

0.04

-

aerobic

Rod

UWB

11

0.03

unk

unk

Unk

Bradyrhizobium spp.

11

0.03

-

aerobic

Rod

Pantoea agglomerans

10

0.03

-

facultative anaerobe

Rod


This table provides the identified genus of the bacteria found using pyrosequencing (PRAPS) in the D 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 diabetic foot ulcer pool (D sample). Bacteria that were cultured and were not found using PRAPS include Citrobacter and Pseudomonas. % represents the percentage of the total sequences analyzed within the sample.

Dowd et al. BMC Microbiology 2008 8:43   doi:10.1186/1471-2180-8-43

Open Data