Table 3: Primers and TaqMan®-Probes targeting 16rRNA coding regions of bacteria.

Target organismPrimer/probeSequence (5′-3′)Size (bp)Conc. [pmol/µL]Reference

All bacteriaFwd primerACT CCT ACG GGA GGC AG46810 [15]
Rev primerGAC TAC CAG GGT ATC TAA TCC10
Probe(6-FAM)-TGC CAG CAG CCG CGG TAA TAC-(BHQ-1)2

Clostridium cluster IV (Ruminococcaceae)Fwd primerGCA CAA GCA GTG GAG T 2394 [16]
Rev primerCTT CCT CCG TTT TGT CAA4
Probe(6-FAM)-AGG GTT GCG CTC GTT-(BHQ-1)2

Cluster XIVa (Lachnospiraceae)Fwd primerGCA GTG GGG AAT ATT GCA 4775 [16]
Rev primerCTT TGA GTT TCA TTC TTG CGA A5
Probe(6-FAM)-AAA TGA CGG TAC CTG ACT AA-(BHQ-1)1,5

BacteroidetesFwd primerGAG AGG AAG GTC CCC CAC 1063 [17]
Rev primerCGC TAC TTG GCT GGT TCA G3
Probe(6-FAM)-CCA TTG ACC AAT ATT CCT CAC TGC TGC CT-(BHQ-1)1

Bifidobacterium spp.Fwd primerGCG TGC TTA ACA CAT GCA AGT C 1253 [18]
Rev primerCAC CCG TTT CCA GGA GCT ATT3
Probe(6-FAM)-TCA CGC ATT ACT CAC CCG TTC GCC-(BHQ-1)1.5