Table 1.
PCR primers and conditions.
| Bacterial strain | Targeted gene | Primer name | Sequence (5′-3′) | Size (bp) | Annealing temperature (°C) |
|---|---|---|---|---|---|
| S. mutans | 16S rRNA genes | Sm 1 (575F) | Tag 1-X-GGTCAGGAAAGTCTGGAGTAAAAGGCTA | 282 | 56 |
| Sm 2 (856R) | Biotin-GCGGTAGCTCCGGCACTAAGCC | ||||
|
| |||||
| S. sobrinus | 16S rRNA genes | SobF (54F) | Tag 2-X-CGGACTTGCTCCAGTGTTACTAA | 546 | 56 |
| SobR (599R) | Biotin-GCCTTTAACTTCAGACTTAC | ||||
|
| |||||
| S. wiggsiae | 16S rRNA genes | Scar 448F | Tag 3-X-GTGGACTTTATCAATAAGC | 172 | 51 |
| Scar 619R | Biotin-CTACCGTTAAGCAGTAAG | ||||
|
| |||||
| Actinomyces species | 16S rRNA genes | AorF | Tag 4-X-GGCTGCGATACCGTGAGG | 104 | 56 |
| AorR | Biotin-TCTGCGATTACTAGCGACTCC | ||||
|
| |||||
| V. parvula | rpoB genes | Vp2696F | Tag 5-X-GAAGCATTGGAAGCGAAAGTTTCG | 623 | 57 |
| Vp3318R | Biotin-GTGTAACAAGGGAGTACGGACC | ||||
Actinomyces species includes A. oris, A. naeslundii, and A. odontolyticus.
“X” represents “spacer C3.” The Spacer C3 [three-carbon spacer, (CH2)3, using Phosphoramide C3 spacer (Glen Research, Sterling, VA)] is inserted between Tags 1 (to 5) and a respective forward primer [35].