Table 3 Comparison of findings by molecular methods
Patient | Sample | Microseq | Sanger sequencing of clone libraries | Ibis T5000 biosensor | 454-pyrosequencing |
|---|---|---|---|---|---|
1 | A | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ |
B | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | |
C | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | |
D | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | |
2 | A | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ |
B | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | Streptococcus pyogenes ✓ | |
3 | A | (Streptococcus pyogenes) | Acinetobacter baumannii ✓ | Acinetobacter baumannii ✓ | Acinetobacter sp.✓ |
4 | A | Streptococcus pyogenes ✓ | Not performed | Streptococcus pyogenes ✓ Streptococcus didelphis ✓ | Streptococcus pyogenes ✓ |
B | Streptococcus pyogenes | Streptococcus pyogenes | Streptococcus pyogenes | Streptococcus pyogenes | |
5 | A | (Streptococcus pyogenes) | Clostridium paraputrificum ✓ Uncultured bacterium | Clostridium paraputrificum ✓ Bacteroides fragilis ✓ (Streptococcus agalactiae) | Clostridium sp. ✓ Bacteroides fragilis ✓ |
6 | A | Streptococcus pyogenes ✓ (Mycoplasma hominis) | Not performed | Streptococcus pyogenes ✓ Escherichia coli ✓ Bacteroides fragilis (Staphylococcus hominis) (Staphylococcus epidermidis) (Cladosporium cladosporioides) | Streptococcus pyogenes ✓ Bacteroides fragilis |
7 | A | Mycoplasma spp. Fusobacterium necrophorum | Not performed | Mycoplasma sp. Fusobacterium necrophorum Candida albicans ✓ | Mycoplasma sp. Fusobacterium necrophorum |
B | Mycoplasma salivarium | Mycoplasma salivarium Fusobacterium necrophorum | Mycoplasma sp. Fusobacterium necrophorum | Mycoplasma sp. Fusobacterium necrophorum | |
8 | A | Streptococcus pneumoniae ✓ | Not performed | Streptococcus pneumoniae ✓ | Streptococcus pneumoniae ✓ |
B | Streptococcus pneumoniae ✓ | Not performed | Streptococcus pneumoniae ✓ | Streptococcus pneumoniae ✓ | |
C | Streptococcus pneumoniae | Not performed | Streptococcus pneumoniae | Streptococcus pneumoniae | |
9 | A | Streptococcus pyogenes | Streptococcus pyogenes | Streptococcus pyogenes | Streptococcus pyogenes |
B | Streptococcus pyogenes | Streptococcus pyogenes | Streptococcus pyogenes | Streptococcus pyogenes | |
10 | A | (Streptococcus pyogenes) | No PCR | (Streptococcus pneumoniae) (Clostridium septicum) | Low read count |
B | (Streptococcus pyogenes) | No PCR | (Staphylococcus capitis/caprae) | Low read count |