TABLE 2.
Primers used to detect the three BDD treponeme phylogroups and all treponemes
| Primer specificity | Primer (sequence) | Predicted band size (bp) | Region of 16S targeted (positions)a | Reference or source |
|---|---|---|---|---|
| Universal | 16S F (5′-AGAGTTTGATCCTGG-3′) | 7-26 | 27 | |
| 16S R (5′-TACCTTGTTACGACTT-3′) | 1,526 | 1491-1506 | ||
| Group 1 (T. medium/T. vincentii-like) | TmF (5′-GAATGCTCATCTGATGACGGTAATCGACG-3′) | 472-500 | This study | |
| TmR (5′-CCGGCCTTATCTAAGACCTTCTACTAG-3′) | 475 | 1001-1029 | ||
| Group 2 (T. phagedenis-like) | TbF (5′-GAAATACTCAAGCTTAACTTGAGAATTGC-3′) | 612-640 | This study | |
| TbR (5′-CTACGCTACCATATCTCTATAATATTGC-3′) | 400 | 1006-1029 | ||
| Group 3 (T. denticola/T. putidum-like) | TpF (5′-GGAGATGAGGGAATGCGTCTTCGATG-3′) | 459-484 | This study | |
| TpR (5′-CAAGAGTCGTATTGCTACGCTGATATATC-3′) | 475 | 1017-1045 | ||
| Treponema sp. | TPF (5′-AARCATGCAAGTCGARCGGCAAG-3′) | 335 | 49-71 | 21 |
| TPR1 (5′-TCCATTGCGGAATATTCTTA-3′) | 365-384 |
a
Locations relative to those for the Escherichia coli 16S rRNA gene sequence reported under GenBank accession number M25588 (11) are given.