Table 2.
Oligonucleotide primers used for real-time PCR.
| Targeted Bacterial Group (Amplicon Size) | Item | Sequence (5′ → 3′) | Annealing Temperature (°C) | Primer Concentration (nM) | qPCR Efficiency (%) | Coefficient of Determination R2 | Reference |
|---|---|---|---|---|---|---|---|
| Total bacteria (147 bp) | F | GTGSTGCAYGGYYGTCGTCA | 52 | 600 | 82.6 | 0.981 | Maeda et al. [28] a |
| R | ACGTCRTCCMCNCCTTCCTC | ||||||
| Roseburia spp. (353 bp) | F | AGGCGGTACGGCAAGTCT | 59 | 400 | 97.7 | 0.994 | Veiga et al. [29] |
| R | AGTTTYATTCTTGCGAACG | Rinttilä et al. [30] | |||||
| Bacteroides-Prevotella-Porphyromonas (140 bp) | F | GGTGTCGGCTTAAGTGCCAT | 59 | 600 | 97.2 | 0.992 | Rinttilä et al. [30] |
| R | CGGAYGTAAGGGCCGTGC | ||||||
| Lactobacillus spp. (391 bp) | F | AGAGGTAGTAACTGGCCTTTA | 59 | 200 | 89.0 | 0.986 | Malinen et al. [31] |
| R | GCGGAAACCTCCCAACA | ||||||
| Enterobacteriaceae (385 bp) | F | ATGGCTGTCGTCAGCTCGT | 59 | 600 | 87.3 | 0.999 | Leser et al. [32] b |
| R | CCTACTTCTTTTGCAACCCACTC | Sghir et al. [33] b | |||||
| Clostridium leptum subgroup (239 bp) | F | GCACAAGCAGTGGAGT | 63.3 | 600 | 91.6 | 0.997 | Matsuki et al. [34] |
| R | CTTCCTCCGTTTTGTCAA | ||||||
| Clostridium cluster XIVab (150 bp) | F | GAWGAAGTATYTCGGTATGT | 57 | 600 | 102.7 | 0.996 | Song et al. [35] |
| R | CTACGCWCCCTTTACAC | ||||||
| Genus Prevotella (121 bp) | F | GGTTCTGAGAGGAAGGTCCCC | 59 | 600 | 101.8 | 0.996 | Stevenson & Weimer [36] |
| R | TCCTGCACGCTACTTGGCTG | ||||||
| Bifidobacterium spp. (126 bp) | F | CGCGTCCGGTGTGAAAG | 59 | 400 | 107.0 | 0.994 | Xiang et al. [37] |
| R | CTTCCCGATATCTACACATTCCA | ||||||
| Enterococcus spp. (144 bp) | F | CCCTTATTGTTAGTTGCCATCATT | 59 | 400 | 84.0 | 0.966 | Rinttilä et al. [30] |
| R | ACTCGTTGTACTTCCCATTGT | ||||||
| Faecalibacterium prausnitzii (203 bp) | F | GGAGGATTGACC CCTTCAGT | 59 | 600 | 85.0 | 0.985 | Balamurugan et al. [38] |
| R | CTGGTCCCGAAGAAACACAT |