Reagents | Materials | Equipment | |
Life Technolgies Fast Advanced master mix (#4444557) | Microcentrifuge tubes | Pipettes (various volumes) | |
PCR grade water | pipette tips (various volumes) | Biological Safety Cabinet Class 2 Type A/B3 | |
IDTE 1x TE Buffer pH 8.0 | ABI 96-well optical plate | Fully equipped reagent and genomic preparation clean rooms | |
hIS1001 primers and probe (B. holmesii) | optical plate adhesive film | Applied Biosystems 7500 Real-Time Analyzer | |
bfrZ primers and probe (B. bronchiseptica) | adhesive film applicator | ||
Instagene Matrix (BioRad) | tube racks | ||
bfrZ-hIS1001 gBlock |
Primer ID | Sequence | Product Size (bp) | Final Concentration (nM) | Target | Reference | |
bfrZ-Qr (Bronch- R) | CCACCAAACGCAATGACCTG | 99 | 100 | bfrZ | Modified Jinnerot et al., 2015 | |
bfrZ-Qf-mod (Bronch-F) | CGAATTGCGCCCATCCCATG | 100 | ||||
BHIS41U20 (Holm-F) | GGCGACAGCGAGACAGAATC | 67 | 300 | hIS1001 | Tatti et al., 2011 | |
BHIS91L17 (Holm-R) | GCCGCCTTGGCTCACTT | 300 |
Probe ID | Sequence | Target | Dye/Quencher | Final Concentration (nM) | Reference | |
bfrZ-Qp (Bronch- P) | TCGGGAAGGTGCAGCATGTCCTGGAAATA | bfrZ | FAM/ZEN | 100 | Jinnerot et al., 2015 | |
BHIS62U28P (Holm-P) | CGTGCAGATAGGCTTTTAGCTTGAGCGC | hIS1001 | CY5/TAO | 150 | Tatti et al., 2011 |
PCR Controls | Control Organism/Reagent | Comment | |
bfrZ-hIS1001 gBlock | frozen aliquots of bfrZ and hIS1001 gblock diluted to 4.2 x 10^2 copies/ul | See below for sequence | |
NTC: No Template Control | PCR grade water | Use the same lot of water as was used in the preparation of the master mix. Tests for the sterility of the master mix reagents. |
Primer/Probe | Stock Concentration (uM) | Final PCR Concentration (nM) | Volume (uL) for 1000 reactions | |
bfrZ-Qp (FAM) (Bronch-P) | 100 | 100 | 20 | |
bfrZ-Qf-mod (Bronch-F) | 100 | 100 | 20 | |
bfrZ-Qr (Bronch-R) | 100 | 100 | 20 | |
BHIS62U28P (CY5) (Holm-P) | 100 | 150 | 30 | |
BHIS41U20 (Holm-F) | 100 | 300 | 60 | |
BHIS91L17 (Holm-R) | 100 | 300 | 60 | |
IDTE Volume | 790 | |||
Final Volume | 1000 |
Reagent | 1x reaction (uL) | |
PCR Grade Water | 4 | |
Fast Advanced Master Mix | 10 | |
20X Holm Mix | 1 |
If | Then | |
Plate will not be run immediately | Store plate in a 4C fridge until ready to perform PCR | |
Plate will be run immediately | Proceed to load and run the plate on the ABI 7500 |
Temperature (°C) | Time | Number of Cycles | |
50 | 2 min | Hold | |
95 | 20 sec | Hold | |
95 | 3 sec | 40 | |
60 | 30 sec |
Target | Dye | Quencher | |
bfrZ (Bronch) | FAM | None | |
hIS1001 (Holm) | CY5 | None |
IS481 | pIS1001 | hIS1001 | bfrZ | Interpretation | |
POS | NEG | NEG | NEG | B. pertussis Positive | |
POS/NEG | NEG | POS | NEG | B. holmesii Positive | |
POS/NEG | POS/NEG | NEG | POS | B. bronchiseptica Positive | |
NEG | POS | NEG | NEG | B. parapertussis Positive |