The CFX96 Touch Real-Time Quantitative PCR system is a laboratory instrument designed for real-time PCR analysis. It is capable of performing quantitative polymerase chain reaction (qPCR) experiments to detect and quantify specific DNA or RNA sequences.
PrimeScript™ RT Master Mix (TAKARA) was used to extract the total RNA (0.5 μl) of CTRL, NOR, TF and SF group samples and convert it to cDNA with a total capacity of 10 μl. Quantitative PCR was performed using the BioRad CFX96 Touch Real-Time Quantitative PCR system. The final reaction volume was 25 μl, and each sample used a 2 μl cDNA template. GAPDH acted as an internal control. The reaction was repeated 3 times, with at least 3 independent runs. Data analysis was performed using the ΔΔCt method Bio-Rad Ranking Manager 3.1. Primer sequences are shown in Table 1.
Primer sequences used for the validation amongst upregulated genes.
Table 1
Name
Direction
5’→3′
COL1A1
Forward
GCTCCTCTTAGGGGCCACT
Reverse
ATTGGGGACCCTTAGGCCAT
RUNX2
Forward
GACTGTGGTTACCGTCATGGC
Reverse
ACTTGGTTTTTCATAACAGCGGA
GAPDH
Forward
AATGGATTTGGACGCATTGGT
Reverse
TTTGCACTGGTACGTGTTGAT
Yang C., Gao C., Liu N., Zhu Y., Zhu X., Su X., Zhang Q., Wu Y., Zhang C., Liu A., Lin W., Tao L., Yang H, & Lin J. (2021). The effect of traumatic brain injury on bone healing from a novel exosome centered perspective in a mice model. Journal of Orthopaedic Translation, 30, 70-81.
To determine the protein stability and to compare the various mutants, a heat denaturation analysis was carried out using a CFX96 Touch real time quantitative PCR system (Bio-Rad) [28] (link). Protein stability measurements were performed in a buffer containing 20 mm Tris, pH 8.0, 250 mm NaCl, 5% glycerol (v/v), and 5 mm β-mercaptoethanol. The 25 μl of reaction mix contained 5 μm protein and SYPRO Orange (Invitrogen). Heat denaturing curves were observed within the temperature range of 37-85 °C, at a ramp rate of 1.8 °C/min, collecting data every 10 s. The data obtained was normalized using GraphPad Prism software.
Mojumdar A., Adam N, & Cobb J.A. (2022). Multifunctional properties of Nej1XLF C-terminus promote end-joining and impact DNA double-strand break repair pathway choice. DNA repair, 115.
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