Table 1. 16S Ribosomal RNA probes used for quantitative real-time polymerase chain reaction to quantify changes in components of the fecal microbiota during and after treatment with clindamycin.

Bacterial Target Familya	Bacterial Target Genus & Speciesa	Primer Name	Sequence (5′ → 3′)	Standard	Reference
Bacteroidaceae, Prevotellaceae	Bacteroides spp.	Uni331F	TCCTACGGGAGGCAGCAGT	Bacteroides fragilis	[17]
		Bac708R	CAATCGGAGTTCTTCGTG		[18]
Enterobacteriaceae	Enterobacter spp.	Eco1457F	CATTGACGTTACCCGCAGAAGAAGC	Escherichia coli	[19]
		Eco1652R	CTCTACGAGACTCAAGCTTGC		[19]
Ruminococcaceae	Ruminococcus, Faecalibacterium, Ethanoligenes spp. and Clostridiales leptum subgroup	sg-Clept-F	GCACAAGCAGTGGAGT	Clotridium leptum	[20]
		sg-Clept-R	CTTCCTCCGTTTTGTCAA		[20]
Lachnospiraceae	Blautia, Pseudobutyrivibrio, Roseburia spp. and Clostridiales coccoides group	Erec482R	GCTTCTTAGTCARGTACCG	Ruminoccus torques	probeBasepB-00963 [22]
		Eub338F	ACTCCTACGGGAGGCAGC		probeBasepB-00159 [22]
Desulfovibrio-naeceae	Desulfovibro spp.	g-desulf-F	GGTACCTTCAAAGGAAGCAC	Desulfovibrio desulfuricans	[16]
		g-desulf-R	GGGATTTCACCCCTGACTTA		[16]
Enterococcaceae	Enterococcus spp.	g-enter-F	CCCTTATTGTTAGTTGCCATCATT	Enterococcus faecium	[16]
		g-enter-R	ACTCGTTGTACTTCCCATTGT		[16]
Veillonellaceae	Veillonella spp.	g-veill-F	A(C/T)CAACCTGCCCTTCAGA	Veillonella parvula	[16]
		g-veill-R	CGTCCCGATTAACAGAGCTT		[16]
Prevotellaceae	Prevotella spp.	CFB286F	GTAGGGGTTCTGAGAGGA	Prevotella oris	probeBase pB-00045 [22]
		CFB719R	AGCTGCCTTCGCAATCGG		probeBase pB-00047 [22]
Lactobacillaceae, Planococcaceae	Lactobacillus spp.	Uni331F	TCCTACGGGAGGCAGCAGT	Lactobacillus acidophilus	[17]
		Lacto371R	TGGAAGATTCCCTACTGC		probeBase pB-00195 [22]
Bifidobacteriaceae	Bifidobacterium spp.	Bif551F	CGCGTCYGGTGTGAAAG	Bifidobacterium spp	[21]
		Bif794R	CCCCACATCCAGCATCCA		[21]
Eubacteria	Total bacteria	515F	GTGCCAGCAGCCGCGGTAA	B. fragilis &E. coli	[50]
		685R	TCTACGCATTTCACCGCTAC

^aas determined using TestProbe from SILVA-ARB (www.silva-arb.de) [23].