TABLE 1.
PCR primers and probes
| Target | Primer or probe | Sequence (5′ to 3′)a | Reference or source |
|---|---|---|---|
| B. longum subsp. longum tuf gene | tuf_Blon_F | GTATCCGTCCGACCCAGCAG | This study |
| tuf_Blon_P | FAM-CGTGGCCAGGTTGT-BHQ | This study | |
| tuf_Blon_R | GGTGACGGAGCCCGGCTTG | This study | |
| B. longum subsp. infantis tuf gene | tuf_Binf_2_Fb | CGTCACCGGTCGTGTCGAG | This study |
| tuf_Binf_6_Fc | GGTCGAGATCGTCGGCATCCGTCCGA | This study | |
| tuf_Binf_P | FAM-CTGCTGCGTGGCCT-BHQ | This study | |
| tuf_Binf_R | CTCGACATCCTCACGGCC | This study | |
| B. longum subsp. longum 16S rRNA gene | B_long_F | GTTCCCGACGGTCGTAGAG | 19 |
| B_long_R | GTGAGTTCCCGGCAYAATCC | ||
| B. longum subsp. infantis 16S rRNA gene | B_inf_F | CCATCTCTGGGATCGTCGG | 20 |
| B_inf_R | TATCGGGGAGCAAGCGTGA | ||
| Bifidobacterium 16S rRNA gene | g-Bif_F | CTCCTGGAAACGGGTGG | 46 |
| g-Bif_R1 | GGTGTTCTTCCCGATATCTACA | ||
| 16S rRNA gene (all bacteria) | Uni_F | ACTCCTACGGGAGGCAGCAGT | 47 |
| Uni_R | ATTACCGCGGCTGCTGGC |
a
FAM, 6-carboxyfluorescein; BHQ, black hole quencher.
b
Forward primer for original assay to discriminate between subspecies infantis and longum.
c
Forward primer for discrimination of OTU49 from subspecies infantis and longum.