Table 2.

Sequences of primers and probes used for group-specific quantitative PCR.

Bacterial group/species		Sequences of primers and probes (5′to 3′)	References
Total bacteria	Forward	CGG TGA ATA CGT TCC CGG	Fleury et al., 2016
	Reverse	TAC GGC TAC CTT GTT ACG ACT T
	Probe	(6FAM)CTTGTACACACCGCCCGTC(BHQ1)
Bacteroides	Forward	CCT WCG ATG GAT AGG GGT T	Fleury et al., 2016
	Reverse	CAC GCT ACT TGG CTG GTT CAG
	Probe	(6FAM)AAGGTCCCCCACATTG(BHQ1)
Bifidobacterium	Forward	CGG GTG AGT AAT GCG TGA CC	Fleury et al., 2016
	Reverse	TGA TAG GAC GCG ACC CCA
	Probe	(6FAM)CTCCTGGAAACGGGTG(BHQ1)
Escherichia coli	Forward	CAT GCC GCG TGT ATG AAG AA	Fleury et al., 2016
	Reverse	CGG GTA ACG TCA ATG AGC AAA
	Probe	(6FAM)TATTAACTTTACTCCCTTCCTCCCCGCTGA(BHQ1)
Lactobacillus	Forward	AGC AGT AGG GAA TCT TCCA	Fleury et al., 2016
	Reverse	CGC CAC TGG TGT TCY TCC ATA TA
Firmicutes	Forward	GTCAGCTCGTGTCGTGA	Kong et al., 2014
	Reverse	CCATTGTATACGTGTGT
Clostridium leptum subgroup	Forward	GCACAAGCAGTGGAGT	Kong et al., 2014
	Reverse	CTTCCTCCGTTTTGTCAA
Clostridium coccoides	Forward	CGGTACCTGACTAAGAAGC	Kong et al., 2014
	Reverse	AGTTTTATTCTTGCGAACG