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Table 3 Number of observed species determined by PCR

From: Comparison of an automated DNA extraction and 16S rDNA real time PCR/sequencing diagnostic method using optimized reagents with culture during a 15-month study using specimens from sterile body sites

 

Number

Single species

 Abiotrophia defectiva

1

 Arthrobacter aurescens

1

 Bacillus sp.

1

 Cutibacterium acnesa

6

 Corynebacterium simulans

1

 Cardiobacterium hominis

1

 Clostridium sp.

1

 Corynebacterium sp. (not C. diphtheriae)

2

 Escherichia coli

6

 Enterococcus faecalis

2

 Finegoldia magna

1

 Fusobacterium necrophorum

2

 Klebsiella pneumoniae

1

 Coagulase negative Staphylococcus

10

 Haemophilus parainfluenzae

1

 Mycoabcterium tuberculosis complex

1

 Moraxella sp.

1

 Pseudomonas aeruginosa

1

 Peptoniphilus harei

2

 Proteus sp.

3

 Ruminococcus gnavus

1

 Staphylococcus aureus

43

 Staphylococcus epidermidis

37

 Staphylococcus hominis

1

 Streptococcus dysgalactiae

14

 Streptococcus agalactiae

1

 Streptococcus intermedius

3

 Streptococcus mitis Gruppe

2

 Streptococcus mutans

2

 Streptococcus pneumoniae

1

 Streptococcus pyogenes

1

 Tetragenococcus halophilus

1

 Streptococcus pneumoniae/S. pseudopneumoniae

1

Mixtures

 Anaerococcus sp./Peptoniphilus sp.

2

 Enterobacter sp./E. coli

1

 Morganella morganii/Serratia marcescens

1

 Parvimonas micra/Peptoniphilus sp.

2

 S. aureus/E. cloacae-Komplex

1

 S. aureus/P. harei

6

 S. dysgalactiae/B. fragilis

2

 S. milleri-group/Fusobacterium periodonticum

1

 S. milleri-group/Prevotella denticola

1

  1. Coagulase-negative Staphylococcus was reported only if the culture was negative. In the other cases, the PCR result was adjusted to the culture result identified with MALDI-TOF. Only genus name (e.g., Enterobacter sp.) was reported since the sequence could not be assigned to one specific species
  2. aFormerly known as Propionibacterium acnes