TABLE 1

Primers used to detect DD-specific treponeme phylogroups, all treponeme species, D. nodosus, and F. necrophorum

Primer targetPrimer namea (sequence)Predicted band size (bp)Gene targetedRegion of gene targeted (positions)bReference
Universal16S F (5′-AGAGTTTGATCCTGG-3′)7–2642
16S R (5′-TACCTTGTTACGACTT-3′)1,52616S1491–1506
Group 1 (“T. medium/T. vincentii-like”)TmF (5′-GAATGCTCATCTGATGACGGTAATCGACG-3′)472–50032
TmR (5′-CCGGCCTTATCTAAGACCTTCTACTAG-3′)47516S1001–1029
Group 2 (“T. phagedenis-like”)TbF (5′-GAAATACTCAAGCTTAACTTGAGAATTGC-3′)612–64032
TbR (5′-CTACGCTACCATATCTCTATAATATTGC-3′)40016S1006–1029
Group 3 (T. pedis)TpF (5′-GGAGATGAGGGAATGCGTCTTCGATG-3′)459–48432
TpR (5′-CAAGAGTCGTATTGCTACGCTGATATATC-3′)47516S1017–1045
Treponema sp.TPF (5′-AARCATGCAAGTCGARCGGCAAG-3′)49–7137
TPR1 (5′-TCCATTGCGGAATATTCTTA-3′)33516S365–384
D. nodosusDnF (5′-TGAAGAATGAAAGCGGGGGC −3′)179–198This study
DnR (5′-CTAATCCTGTTTGCTACCCACG-3′)58316S762–783
F. necrophorumlktA-F (5′-ACAATCGGAGTAGTAGGTTC-3′)6332–635049
lktA-R (5′-ATTTGGTAACTGCCACTGC-3′)402Lkta6715–6732
  • a In the primer name, F stands for forward and R stands for reverse.

  • b Locations relative to those for Escherichia coli 16S rRNA gene sequence (GenBank accession number: M25588) (43).