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Color optitaq pcr master mix 2

Manufactured by EURx
Sourced in Poland

Color OptiTaq PCR Master Mix (2×) is a ready-to-use solution that contains all the necessary components for PCR amplification, including the OptiTaq DNA polymerase, dNTPs, and reaction buffer. The mix is formulated with a tracking dye for easy monitoring of the reaction progress during gel electrophoresis.

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3 protocols using color optitaq pcr master mix 2

1

Quantitative PCR Optimization Protocol

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PCR reaction was carried out using Color OptiTaq PCR Master Mix (2×) (EURx, Poland). The PCR mixture contained 0.6 μL of each 10 μM primers (forward and reverse), 5 μL of Color OptiTaq PCR Master Mix (2×), and 0.8 μL of nuclease-free deionized water. 3 μL of cDNA was added to each PCR mixture. The PCR was performed in Bio-Rad T100 Thermal Cycler (Bio-Rad, Hercules, CA, USA). PCR conditions were as follows: initial denaturation for 5 min at 95 °C. Then 95 °C, 56.7 °C, 72 °C, each for 30 s for 27 cycles. To complete the PCR reaction, 10 min incubation at 72 °C was applied. The PCR products were analyzed on 2% w/v agarose gels containing ethidium bromide. Housekeeping gene HPRT1 was used for normalization to correct for differences in loading of the cDNAs samples.
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2

Genomic DNA Extraction and Verification

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Forty-eight hours after transfection, the RH30 cells were harvested for gDNA analysis and single-cell clone isolation. Clones were seeded on a 96-well plate at a density of 0.5 cells per well.
gDNA was extracted from each clone with a Cell Culture DNA Purification Kit (EURx) according to the vendor’s protocol. The concentration of gDNA was measured with Nanodrop One (Thermo Scientific) or Quawell Q5000 (Quawell Technology, Inc., San Jose, CA, USA). The deletion verification was performed with a PCR reaction with Color OptiTaq PCR Master Mix (2×) (EURx) using the following primers:
For: 5’-TCGGAAGCCTAACTACAGCGA-3’
Rev: 5’-GGTCGTAGGGCTGCTGGAAG-3’
Perfect Plus 1 kb DNA Ladder (EURx) was used as a ladder.
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3

RNA Isolation and Gene Expression Analysis

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Total amount of RNA was isolated using RNeasy Plus Mini kit (Qiagen, Hilden, Germany) according to manufacturer's instruction. The amount of total RNA was assessed in spectrophotometric measurement (NanoDrop Technologies, Wilmington, DE, USA). cDNA synthesis was conducted with the use of oligo(dT) starters and GoScript Transcriptase (Promega GmbH, Germany) according to provided protocol. Prepared cDNA was utilised for the assessment of gene expression at the mRNA level utilising Color OptiTaq PCR Master Mix (2×) (EURx, Poland) according to manufacturer's instruction. Measurements were performed as previously described [22] . For primers used in the study PCR conditions were applied as follows: initial denaturation at 95 °C for 5 min; followed by 30 cycles: 30 s at 95 °C, 30 s at 58 °C (45 s at 55 °C for AR) and 30 s at 72 °C; and final extension at 72 °C for 10 min. Electrophoresis in the 1.5% agarose gel containing ethidium bromide was used for PCR product visualisation. Bands were normalised using GAPDH. Utilised primers' sequences are presented in Supplementary Materials (Table S1). Primers were manufactured by Sigma-Aldrich (St. Louis, MO, USA). Fluorescence signal of ethidium bromide was detected by Bio-Rad Chemi-Doc™ XRS + System (Bio-Rad, Hercules, CA, USA).
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