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Three microliters of RT-PCR reaction were added to the second step (nested) PCR and amplified for other 30 cycles, using the same cycling conditions of the first step.
When the PCR program reached the lower annealing temperature of 52°C, 28 additional cycles were performed by using the same cycling conditions except for the use of a constant annealing temperature of 52°C.
Oligonucleotide primers and TaqMan™ probes (Table 2) were obtained through the services of TIBMOLBIOL and designed such as PCR reactions for both genes could be ran in the same plate (using the same cycling conditions).
In the case of several tick isolates the glpQ fragment was not detected or was at the limit of detection after the first round of amplification; in these cases a nested protocol was applied using the same cycling conditions with an internal set of primers: glpqF and glpqRn (Table 2).
alata using the same cycling conditions as above.
The RT-PCR reactions were done using "Ready-To-Go™ RT-PCR Beads" (Amersham Biosciences, USA) using the same cycling profile described before.
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The nested PCR used the same cycling parameters for the second round, but the number of cycles was increased to 40.
We used the same cycling conditions for all reactions: an activation step at 95°C for 10 min followed by 50 cycles of 95°C for 15s, a touchdown from 65 to 55°C for 15s 0.5°C/cyclee) and 72°C for 20s.
We used the same cycling conditions and reagents concentrations as in the restriction enzyme experiment but using Maxima Hot Start DNA polymerase (Fermentas).
All the reactions were carried out using the same thermal cycling conditions.
A second hybridization then was performed, using the same thermal cycling parameters, except that the final hold at 58 °C was extended to approximately 20 h.
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