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FastStart DNA Master Hybridization Probes kit (Roche Molecular Biochemicals, Mannheim, Germany) was used; 4 µl of the master mixture and 5 µl of DNA samples were loaded into glass capillary tubes.
The sample or calibration blend (50 μL) was added to this master mixture, and the final mixture was incubated at 37 °C for 1 h.
To prevent carryover, 200 µ M of uracil triphosphate was part of the master mixture, and uracil-N-glycosylase was used systematically.
To reduce the risk of false-positive results due to contamination with PCR products, dTTP was partially replaced by dUTP in the reaction master mixture and a dUTP glycosylase step was performed before each PCR.
BigDye® Terminator v3.1 Cycle Sequencing Kit (Applied Biosystems Inc. [ABI], Warrington, UK) was used where 1 μl of the template PCR product; 4 μl of BigDye™ 3.1 master mixture and 1.6 picomoles of the corresponding primer were mixed and the solution was brought to 10 μl by adding sterile water.
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The PCR master mixtures and cycling parameters for the PLU/VIV and Pvr47 assays were the same as the protocol used for the PLF/UNR/VIR assay above.
Each 20 μl RT-qPCR reaction mixture included 2 μl of the cDNA product, 17 μl SYBR Green master mixture (Applied Biosystems) and primers (Additional file 1: Table S1).
Ten microliters of extracted sample were added to the PCR master mixture containing KIPyV and WUPyV primers and probes (Table 1).
The resulting mixture ratio of vinclozolin, flutamide, and procymidone was 31:1:18 based on weight (Table 2), and the master mixture contained 22,026 mg vinclozolin, 696.6 mg flutamide, and 12,675 mg procymidon in 600 mL corn oil.
PCR amplification in a 20 μl reaction volume consisted of a master mixture containing DNA Taq polymerase, dNTP mixture and buffer (LightCycler DNA Master SYBR Green 1, Roche Diagnostics, catalog no. 2158817), 4 mM MgCl2, 0.9 μM of each primer and cDNA in a glass capillary tube.
Genomic DNA and PCR master mixture were transferred into ABI 384-well reaction plates (Applied Biosystems, Foster City, CA, USA) using a Biomek FX robot (Beckman Coulter, USA).
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