Table 1.
Primer sequences used to detect indicated 16S rRNA regions of target organisms
| Target | Primer ID | Sequence (5′→3′) | 5′ location | GenBank accession no. |
|---|---|---|---|---|
| A. vaginae | AvFP-BV1 | FAM-isodC-CCC TGG TAG TCC TAG CTa | 746 | AJ585206 |
| AvRP-BV1 | CGG CAC GGA AAG TAT AAT CT | 808 | ||
| BVAB-2 | BvabFP-BV2 | FAM-isodC-CGT GTA GGC GGC TAG ATA AGT G | 199 | GQ900639 |
| BvabRP-BV2 | TCC AGC ACT CAA GCT AAA CAG TTT GT | 283 | ||
| G. vaginalis | Gv-16S-F1 | FAM-isodC-GTG ACA TGG TGC TAA TCC CT | 1226 | HQ114564 |
| Gv-16S-F2 | GCT GCC CAC TTT CAT GAC TT | 1388 | ||
| Megasphaera-1 | MegaFP-BV2 | GCT CTG TTA TAC GGG ACG AAA AAG | 419 | AB279971 |
| MegaRP-BV2 | FAMb-isodC-CGG ACG GAT ACT GTT GGC ATC | 462 | ||
| L. crispatus | Lc-16S-F1 | CAG GTC TTG ACA TCT AGT GCC ATT T | 969 | HQ716720 |
| Lc-16S-F2 | FAM-isodC-CAT GCA CCA CCT GTC TTA G | 1041 |
a
FAM (5-carboxyfluorescein) is used as the reporter dye and is coupled to the initial 5′ nucleotide in the primer. isodC, 2′-deoxy-5-methyl-isocytidine is the initial nucleotide at the 5′ end of the fluorescently labeled primer.
b
In the multiplexed BV PCR construct, MegaRP-BV2 was labeled with HEX.