TABLE 1.
Organisms used in dot blot specificity studies and results of FISH specificity tests
| Straina | Origin | Dot blotb and FISHc results with indicated probe
|
|||||
|---|---|---|---|---|---|---|---|
| Bfra602 | Bdis656 | Erec482 | Chis150 | Clit135 | Strc493 | ||
| Bacteroides fragilis | DSM 2151 | +, P | −, N | −, N | −, N | −, N | −, N |
| Bacteroides vulgatus | DSM 1447 | +, P | −, N | −, N | −, N | −, N | −, N |
| Bacteroides eggerthii | DSM 20697 | +, P | −, N | −, N | −, N | −, N | −, N |
| Bacteroides sp. (B. fragilis) | MMB | +, P | −, N | − | − | − | − |
| Bacteroides sp. (B. thetaiotaomicron) | MMB | +, P | −, N | − | − | − | − |
| Bacteroides sp. (B. vulgatus) | MMB | +, P | −, N | − | − | − | − |
| Bacteroides sp. (B. eggerthii) | MMB | + | − | − | − | − | − |
| Bacteroides sp. (B. uniformis) | MMB | + | − | − | − | − | − |
| Cytophaga xylanolytica | DSM 6779 | +/−, P | −, N | −, N | −, N | −, N | −, N |
| Bacteroides distasonis | DSM 20701 | −, N | +, P | −, N | −, N | −, N | −, N |
| Bacteroides sp. (B. distasonis) | MMB | −, N | +, P | − | − | − | − |
| Clostridium oroticum | DSM 1287 | −, N | −, N | +, P | −, N | −, N | −, N |
| Clostridium sp. (C. nexile) | MMB | − | − | +, P | − | − | − |
| Ruminococcus hansenii | DSM 20583 | − | − | +, P | − | − | − |
| Ruminococcus productus | DSM 2950 | − | − | +, P | − | − | − |
| Eubacterium ventriosum | DSM 3988 | − | − | + | − | − | − |
| Clostridium sp. (C. clostridiiforme) | MMB | − | − | + | − | − | − |
| Clostridium histolyticum | DSM 2158 | −, N | −, N | −, N | +, P | −, N | −, N |
| Clostridium sp. (C. beijerinckii) | MMB | − | − | − | + | − | − |
| Clostridium sp. (C. butyricum) | MMB | − | − | − | +, P | −, N | − |
| Clostridium sp. (C. perfringens) | MMB | − | − | − | +, P | −, N | − |
| Clostridium putrificum | DSM 1734 | − | − | − | +, P | − | − |
| Clostridium sp. (C. cadaveris) | MMB | − | − | − | +, P/N | − | − |
| Clostridium difficile | ATCC 9688 | −, N | −, N | −, N | −, N | +, P/N | −, N |
| Eubacterium tenue | DSM 20695 | − | − | − | −, N | +, P | −, N |
| Clostridium bifermentans | NIZO B529 | − | − | − | −, N | +, P | −, N |
| Clostridium sp. (C. sordellii) | MMB | − | − | − | − | + | − |
| Peptostreptococcus (P. anaerobius) | MMB | − | − | − | −, N | −, N | − |
| Fusobacterium nucleatumd | DSM 20482 | −, N | −, N | −, N | −, N | −, N | −, N |
| Eubacterium plautii | DSM 4000 | −, N | −, N | −, N | −, N | −, N | −, N |
| Eubacterium sp. (E. cylindroides) | MMB | − | − | − | − | − | − |
| Streptococcus sanguis | DSM 20567 | −, N | −, N | −, N | −, N | −, N | +, P |
| Streptococcus oralis | DSM 20627 | −, N | −, N | −, N | −, N | −, N | +, P |
| Streptococcus intermedius | DSM 20573 | − | − | − | − | − | +, P |
| Lactococcus lactis subsp. cremoris | DSM 20069 | −, N | −, N | −, N | −, N | −, N | +, P |
| Streptococcus sp. (S. mitis) | MMB | −, N | −, N | −, N | −, N | −, N | +, P |
| Leuconostoc lactis | NIZO B630 | − | − | − | − | − | +, P |
| Streptococcus sp. (S. bovis) | MMB | − | − | − | − | − | +, P |
| Streptococcus sp. (S. equi subsp. equi) | MMB | − | − | − | − | − | + |
| Streptococcus mutans | DSM 20523 | − | − | − | − | − | + |
| Streptococcus sp. (S. sanguis) | MMB | − | − | − | − | − | + |
| Streptococcus sp. (S. salivarius) | MMB | − | − | − | − | − | + |
| Streptococcus sp. (S. equinus) | MMB | − | − | − | − | − | + |
| Streptococcus sp. (S. pyogenes) | MMB | − | − | − | − | − | + |
| Enterococcus faecalis | DSM 20478 | −, N | −, N | −, N | −, N | −, N | −, N |
| Enterococcus gallinarum | DSM 20628 | − | − | − | − | − | − |
| Lactobacillus acidophilus | NIZO B228 | − | − | − | − | − | −, N |
| Weissella kandleri | DSM 20593 | N | |||||
| Lactobacillus fermentum | DSM 20052 | − | − | − | − | − | − |
| Vagococcus fluvialis | DSM 5731 | −, N | −, N | −, N | −, N | −, N | −, N |
| Bifidobacterium infantis | ATCC 15697 | −, N | −, N | −, N | −, N | −, N | −, N |
| Bifidobacterium dentium | ATCC 27678 | − | − | − | − | − | − |
| Bifidobacterium sp. (B. longum) | MMB | −, N | −, N | − | − | − | − |
| Bifidobacterium adolescentis | NIZO B659 | − | − | − | − | − | − |
| Bifidobacterium pseudolongum | NIZO B669 | − | − | − | − | − | − |
| Escherichia coli | DSM 25922 | −, N | −, N | −, N | −, N | −, N | −, N |
| Carnobacterium divergens | DSM 20623 | −, N | −, N | −, N | −, N | −, N | −, N |
| Lactobacillus maltaromicus | DSM 20342 | − | − | − | − | − | − |
| Salmonella sp. (S. typhi) | MMB | − | − | − | − | − | − |
| Enterobacter sp. (E. aerogenes) | MMB | − | − | − | − | − | − |
| Serratia sp. (S. marcescens) | MMB | − | − | − | − | − | − |
| Proteus sp. (P. vulgaris) | MMB | − | − | − | − | − | − |
| Klebsiella sp. (K. pneumoniae) | MMB | − | − | − | − | − | − |
a
All strains with species name in parentheses are clinical and human fecal isolates identified as indicated.
b
For dot blot analysis, the symbols +, −, and +/− indicate that the strains gave positive, negative, and ambiguous signals, respectively.
c
The letters indicate that these strains were used in FISH tests and hybridized positively (P), negatively (N), or ambiguously (P/N) with the corresponding probes.
d
Fusobacterium nucleatum subsp. polymorphum.