Table 1. 16S rRNA gene group-specific primer for quantitative Real Time-PCR a .
| Target | Reference Strain | Primer sequence (5´ to 3´) and Orientationb | Reference |
|---|---|---|---|
| Domain Bacteria (targets 16S V3 region) | Escherichia coli ATCC 25922 | F: CGGYCCAGACTCCTACGGG, R:TTACCGCGGCTGCTGGCAC | [50] |
| Clostridium leptum subgroupc | Clostridium leptum DSMZ 753 | F: TTACTGGGTGTAAAGGG, R: TAGAGTGCTCTTGCGTA | [51] |
| Clostridium coccoides - Eubacterium rectale subgroupd | Clostridium coccoides DSMZ 935 | F: AAATGACGGTACCTGACTAA, R: CTTTGAGTTTCATTCTTGCGAA | [52] |
| Bacteroides groupe | Bacteroides ovatus DSMZ 1896 | F: GAAGGTCCCCCACATTG, R: CAATCGGAGTTCTTCGTG | [53] |
| γ-Proteobacteria/ Enterobacteriaceae | Escherichia coli ATCC 25922 | F: AAACTCAAATGAATTGACGG, R: CTTTTGCAACCCACTCC | [54] |
| Lactobacillus groupf | Lactobacillus acidophilus DSM 20079 | F: CACCGCTACACATGGAG, R: AGCAGTAGGGAATCTTCCA | [55,56] |
| Bifidobacterium genus | Bifidobacterium sp. (murine origin) | F: CTCCTGGAAACGGGTGG, R: GGTGTTCTTCCCGATATCTACA | [52,55,56] |
| Enterococcus genus | Enterococcus faecalis DSM 20478 | F: CCTTATTGTTAGTTGCCATCATT, R: ACTCGTTGTACTTCCCATTGT | [57] |
| Mouse Intestinal Bacteroides | MIB plasmid 16-1 | F: CCAGCAGCCGCGGTAATA, R: CGCATTCCGCATACTTCTC | [58] |
a
Modified from: Ref. [59]
b
F, Forward R, Reverse
c
including Faecalibacterium (Fusobacterium) prausnutzii Clostridium 16S rRNA cluster IV
d
Clostridium 16S rRNA cluster XIVa/b
e
including Prevotella and Porphyromonas
f
including Leuconostoc , Pediococcus , Aerococcus and Weissella but not Enterococcus or Streptococcus