[20]. Chromosomal DNA was isolated from the Bafilomycin A1 nmr bacteria using a Puregene DNA isolation kit (Gentra Systems, Minneapolis, MN). Bacterial chromosomal DNA from oral specimens was isolated using MORA-extract (Cosmo Bio, Tokyo, Japan). Next, 150 μl of lysis buffer was added to the pellet. The lysed bacteria

were transferred to a tube with glass beads and heated at 90°C for 10 min. The bacterial mixture was then disrupted using a Mini-Bead Beater (BioSpec Products, Bartlesville, OK) with 0.1-mm-diameter glass beads at 4,800 rpm for 2 min. Thereafter, check details 200 μl of SDS solution was added and heated at 90°C for 10 min. Next, 400 μl of phenol solution was added and mixed for 1 min. After centrifugation, the aliquot selleck kinase inhibitor was subjected to ethanol precipitation and dissolved in 20 μl of TE buffer. qPCR To monitor cell numbers, qPCR was performed with S. mutans- and S. sobrinus-specific primers designed using Primer Express 3.0 software (Applied Biosystems, Foster City, CA). The primers specific for S. mutans and S. gordonii are shown in Table 2. A universal primer was used for confirmation of the presence of chromosomal DNA (Table 2). For confirmation of primer specificities, conventional PCR

was performed using the following thermocycle: 95°C for 5 min, followed by 25 cycles of 95°C for 30 s, 47°C for 30 s, and 72°C for 1 min. Quantification of these cells in oral specimens and in vitro biofilm was performed using qPCR with the SYBR green dye to detect the Sm3-15 locus (for S. mutans) and Ss6 locus (for S. sobrinus) amplicons [5]. Bacterial chromosomal DNA was amplified using LightCycler FastStart DNA MasterPLUS SYBR Green I (Roche Diagnostics GmbH, Mannheim, Germany).

Each reaction mixture (total 20 μl) contained 5 Montelukast Sodium μl of DNA (10 ng/μl), 4 μl of 5× Master Mix, 2 μl each of forward and reverse primer (500 nM each), and 9 μl of pure water. The mixtures were applied to a LightCycler Capillary (Roche Diagnostics). Amplification and detection of specific products were performed using the LightCycler Carousel-based System (Roche Diagnostics) and the following thermocycle: 95°C for 10 min, followed by 45 cycles of 95°C for 10 s, 58°C for 10 s, and 72°C for 12 s. Dissociation curves were generated using the following conditions: 95°C for 1 min, 55°C for 1 min, and then an increase in temperature from 55.0 to 95.0°C with a heating rate of 0.5°C per 10 s. The melting curves with both primer sets showed a single sharp peak (data not shown). DNA concentrations were calculated based on standard curves obtained using 10-fold serial dilutions of bacterial DNA. All data are shown as the mean of triplicate experiments.