Table 2.
Target | Primers | Sequence from 5′ to 3′a | Annealing temperature | Reference |
---|---|---|---|---|
Akkermansia muciniphila | AM1 | CAGCACGTGAAGGTGGGGAC | 50°C | [18] |
AM2 | CCTTGCGGTTGGCTTCAGAT | |||
Bifidobacterium genus | Bifido5′ | GAT TCT GGC TCA GGA TGA ACG C | 60°C | [19, 20] |
Bifido3′ | CTG ATA GGA CGC GAC CCC AT | |||
Bifidobacterium adolescentis | Ado-Ang5′ | GGA TCG GCT GGA GCT TGC TCC G | 63°C | [21] |
Ado3′ | CCC CGA AGG CTT GCT CCC AGT | |||
Bifidobacterium bifidum | Bifidum5′ | TGA CCG ACC TGC CCC ATG CT | 61°C | [21] |
Bifidum3′ | CCC ATC CCA CGC CGA TAG AAT | |||
Bifidobacterium breve | Breve5′ | AAT GCC GGA TGC TCC ATC ACA C | 62°C | [21] |
Breve3′ | GCC TTG CTC CCT AAC AAA AGA GG | |||
Bifidobacterium catenulatum group | Caten5′ | GCC GGA TGC TCC GAC TCC T | 64°C | [21] |
Caten3′ | ACC CGA AGG CTT GCT CCC GAT | |||
Bifidobacterium longum group | Longum5′ | TTC CAG TTG ATC GCA TGG TCT TCT | 65°C | [21] |
Longum3′ | GGC TAC CCG TCG AAG CCA CG | |||
Clostridium coccoides group | g-Ccoc-F | AAA TGA CGG TAC CTG ACT AA | 53°C | [22] |
g-Ccoc-R | CTT TGA GTT TCA TTC TTG CGA A | |||
Clostridium difficile | Cdif-F | TTG AGC GAT TTA CTT CGG TAA AGA | 62°C | [23] |
Cdif-R | TGT ACT GGC TCA CCT TTG ATA TTY A | |||
Clostridium leptum subgroup | sg-Clept-F | GCA CAA GCA GTG GAG T | 60°C | [24] |
sg-Clept-R3 | CTT CCT CCG TTT TGT ACC | |||
Clostridium perfringens | CPerf165F | CGC ATA AYbG TTG AAA GAT GG | 64°C | [25] |
CPerf269R | CCT TGG TAG GCC GTT ACC C | |||
Staphylococcus aureus nuc gene | NUC1 | GCG ATT GAT GGT GAT ACG GTT | 55°C | [26] |
NUC2 | AGC CAA GCC TTG ACG AAC TAA AGC |
aR represents a (A/G) wobble nucleotide; Y represents a (C/T) wobble nucleotide.
bC in the reference was replaced by Y to detect better different C. perfringens strains.