Table 1 Primers and probes used in the real-time PCR assays
Bacteria | Target genes | Primers/Probe sets | Amplicon size (bp) |
|---|---|---|---|
Aggregatibacter actinomycetemcomitans | leukotoxin gene | 5′-CGGGGCTTTCTACTACGGGA-3′ | 123 |
5′-ATGCCTCAAGCATTCTCGCA-3′ | |||
5′-FAM-GGTCAGCTTGGCAATCAGCCC-BHQ1–3’ | |||
Campylobacter rectus | groEL gene | 5′-AAATTTAAGCGGCGACGAGG-3’ | 132 |
5′-TCCTTGCTCACGCTTACGGA-3’ | |||
5′-HEX-GGCTTTGACGCGGGCGTAGT-BHQ1–3’ | |||
Eikenella corrodens | proline iminopeptidase (pip) gene | 5′-GCCAACTGCTGCTGGAAGTG-3’ | 110 |
5′-GCCGCTGATTTCGGAGAGTT-3’ | |||
5′-HEX- ACAGCCATCGGCACAGGCAT-BHQ1–3’ | |||
Fusobacterium nucleatum | 16S ribosomal RNA gene | 5′-GGCTGTCGTCAGCTCGTGTC-3’ | 114 |
5′-CTCATCGCAGGCAGTATCGC-3’ | |||
5′-FAM-AACGAGCGCAACCCCTTTCG-BHQ1–3’ | |||
Porphyromonas gingivalis | hemagglutinin (phg) gene | 5′-ACACGGTGTATCGTGACGGC-3’ | 119 |
5′-GCCGGCTGCGTACTTAACCT-3’ | |||
5′-HEX-CGACCTACCGCGATGCAGGA-BHQ1–3’ | |||
Prevotella intermedia | hemagglutinin (phg) gene | 5′-CACACGCTGGCGAAACCTAC-3’ | 143 |
5′-CACGTGGCGTTGCTTCTTTC-3’ | |||
5′-HEX-CCGAAGATGCGCCGTTGAAC-BHQ1–3’ | |||
Prevotella nigrescens | gyrase subunit B (gyrB) gene | 5′-AGCAAGCTGTAGGCGAGGCT-3’ | 132 |
5′-GCTGAACACTTTCGCGTGCT-3’ | |||
5′-Texas Red-GCTCGTATTGCAGCCCGCAA-BHQ2–3’ | |||
Tannerella forsythia | karilysin protease gene | 5′-TGGCAAATCGCTCATCATCC-3’ | 140 |
5′-TTCCATGTTCCCCAACCACA-3’ | |||
5′-Texas Red-CCATTAAGCCCATTGCCCGG-BHQ2–3’ | |||
Treponema denticola | oligopeptidase B (opdB) gene | 5′-AGAAAGGCTTTGGGCGACAG-3’ | 127 |
5′-GCTGGAGCCGTAGCTTCCAT-3’ | |||
5′-Cy5-CGGGTCCTCACCCGCTCTTC-BHQ2–3’ | |||
Actinomyces viscosus | sialidase (nanH) gene | 5′-GCTCCCTCATGCTCAACTCG-3’ | 140 |
5′-GATGATCTGGGCGTTGTCCA-3’ | |||
5′-Texas Red-GAGCCGGTCCCCGACAAGAA-BHQ2–3’ | |||
Enterococcus faecalis | gelatinase (gelE)-serine protease (sprE) operon | 5′-GATGGCAGTGCGACACCATT-3’ | 101 |
5′-CGATCGTTTTGTTTGCCGAC-3’ | |||
5′-HEX-GCTTTTTCCCCGAATGCGGA-BHQ1–3’ | |||
Eubacterium nodatum | hypothetical protein | 5′-TGCTTGCCGGTGACTTAGGA-3’ | 130 |
5′-AAACCGGGCTCAACAACCAT-3’ | |||
5′-Texas Red-TTGAGGAGCCGGTGACTTTGG-BHQ2–3’ | |||
Group of Streptococcus | 16S ribosomal RNA gene | 5′-GTACAACGAGTCGCAAGCCG-3’ | 149 |
5′-TACAAGGCCCGGGAACGTAT-3’ | |||
5′-FAM-TAATCGCGGATCAGCACGCC-BHQ1–3’ | |||
Parvimonas micra | 16S ribosomal RNA gene | 5′-GAGGAATACCGGTGGCGAAG-3’ | 148 |
5′-GGCACCGAGATTTGACTCCC-3’ | |||
5′-FAM-GGTACGAAAGCGTGGGGAGCA-BHQ1–3’ | |||
Staphylococcus aureus | clumping factor A (clfA) gene | 5′-GCGCAAGTAACGAAAGCAAAA-3’ | 132 |
5′-GATTTTGCGCCACACTCGTT-3’ | |||
5′-FAM-TGCTGCACCTAAAACAGACGACACA-BHQ1–3’ | |||
Streptococcus mutans | mannitol-specific enzyme II (mtlA) gene | 5′-CAGCGCATTCAACACAAGCA-3’ | 103 |
5′-TGTCCCATCGTTGCTGAACC-3’ | |||
5′-HEX-TGCGGTCGTTTTTGCTCATGG-BHQ1–3’ |