TABLE 2.

Characteristics of molecular probes used in this study

Groupa	Positionsb	Tm (°C)	Sequence	Source or reference	Detection limit	Dye
All bacteria	321-337	66.4	ACTGAGACACGGTCCA	35	100	VIC
Echerichia, Salmonella	836-849	65.8	GTGCCCTTGAGGC	35	101	FAM
Bacteroides fragilis, B. uniformis, B. thetaiotaomicron, B. ovatus, B. eggerthii, B. acidifaciens	1159-1176	66.0	TCACATCTTACGACGGC	ARB	101	FAM
Bacteroides, Porphyromonas, Prevotella	1081-1097	66.8	CACTTAGCCGACACCT	ARB	101	FAM
Clostridium difficile	208-223	64.4	ATCCTGTACTGGCTC	ARB	101	FAM
Clostridium xylanolyticum et rel. (C. sphenoides, C. celerecrescens, C. metoxy-benzovorans, C. aerotolerans, C. xylanolyticum, C. guttoideum, C. desulfotomaculum)	992-1008	69.2	CGGTCATTCCGATGTC	ARB	101	FAM
Clostridium symbiosum et rel. (C. clostridiiformes, C. symbiosum)	646-662	67.3	CCGACACTCTAGCAAA	ARB	101	FAM
Enterococcaceae	1258-1274	67.2	CTTAGCCTCGCGACTT	ARB	101	FAM
Enterobacteriaceae	1418-1432	63.2	CTTTTGCAACCCACT	ARB	101	FAM
Eubacterium lentum	194-207	67.7	AGCCCAGACGGCA	ARB	103	FAM
Fusobacterium	746-763	67.3	CTTTAGCGTCAGTATCT	ARB	101	FAM
Lactobacillales	455-471	66.0	AGGCCAGTTACTACCT	ARB	101	FAM
Lactococcaceae	1252-1267	66.3	ACTGTCTCGCGACTC	ARB	103	FAM
Helicobacter pylori	665-682	66.1	CCAAGAATTCCACCTAC	ARB	103	FAM
Megasphera elsdenii (equivalent to Acidaminococcaceae)	206-221	65.6	AGCGAAAGCTCCGAA	ARB	101	FAM
Peptostreptococcaceae (P. productus, equivalent to Ruminococcus productus, P. anaerobicus, P. octavius, P. hereii, P. iviricus, etc.)	597-615	66.4	TAGCCTTTAACCACCGAC	ARB	101	FAM
Ruminococcus albus	82-100	66.9	CTAGCTAGAGAGTGCAAG	ARB	101	FAM
Ruminococcus gnavus et rel.	85-99	66.2	CCAAGGCTTCAATC	ARB	101	FAM
Ruminococcus hansenii et rel. (R. hansenii, R. obeum et al.)	601-616	64.9	CCAGCCTTTCACATC	ARB	101	FAM
Staphylococcaceae	1117-1203	66.9	AGCGCAACCCTTAA	ARB	103	FAM
Streptococcaceae	656-671	64.8	CCTTCTGCACTCAA	ARB	103	FAM

^aNomenclature according to Bergey's Manual of Determinative Bacteriology (13a).

^bEscherichia coli reference strain numbering.