Table 2.
Bacterial-specific primer sets for detection of fecal microbiota by qPCR.
| PCR specificity | Primer | Sequence (5′→3′) | Annealing temperature (°C) | Amplicon size (bp) |
|---|---|---|---|---|
| Total bacteria | Uni331F | TCCTACGGGAGGCAGCAGT | 58 | 466 |
| Uni797R | GGACTACCAGGGTATCTATCCTGTT | |||
| Bacteroides-Prevotella group | Bac303F | GAAGGTCCCCCACATTG | 56 | 418 |
| Bac708R | CAATCGGAGTTCTTCG | |||
| Lactobacillus spp. | Lac-F | AGCAGTAGGGAATCTTCCA | 58 | 341 |
| Lac-R | CACCGCTACACATGGAG | |||
| Bifidobacterium spp. | Bifid-F | CTCCTGGAAACGGGTGG | 55 | 550 |
| Bifid-R | GGTGTTCTTCCCGATATCTACA | |||
| Clostridium cluster I | CG1-F | TACCHRAGGAGGAAGCCAC | 63 | 700 |
| CG1-R | GTTCTTCCTAATCTCTACGCAT | |||
| Clostridium cluster XI | CG2-F | ACGCTACTTGAGGAGGA | 58 | 141 |
| CG2-R | GAGCCGTAGCCTTTCACT | |||
| Clostridium cluster XIVab | CG3-F | GAWGAAGTATYTCGGTATGT | 52 | 152 |
| CG3-R | CTACGCWCCCTTTACAC | |||
| Faecalibacterium prausnitzii | Fpra-F | GATGGCCTCGCGTCCGATTAG | 58 | 199 |
| Fpra-R | CCGAAGACCTTCTTCCTCC | |||
| Fusobacterium nucleatum | Fn-F | CAACCATTACTTTAACTCTACCATGTTCA | 60 | 112 |
| Fn-R | GTTGACTTTACAGAAGGAGATTATGTAAAAATC | |||
| Enterobacteriaceae | Eco-F | CATTGACGTTACCCGCGAGAAGAAGC | 63 | 195 |
| Eco-R | CTCTACGAGCTCAAGCTTGC | |||
| Enterococcus spp. | ENco-F | CCCTTATTGTTAGTTGCCATCATT | 61 | 144 |
| ENco-R | ACTCGTTGTACTTCCCATTGT |