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3 protocols using vii7 real time pcr instrument

1

Quantifying miR-9 expression in NAc and HEK293T

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To verify overexpression of miR-9 following AAV-miR-9-eGFP microinfusion in the NAc and treatment in HEK293T cells, we used qRT-PCR. A total of 50 ng RNA extracted from NAc tissue was used for miRNA-specific reverse transcription using the miScript II RT kit (Qiagen). qRT-PCR was performed in a 384-well plate using miScript SYBR Green PCR kits (Qiagen) and miScript primer assays (Qiagen) for miR-9-5p, miR-9-3p, and RNU6B using an Applied Biosystems vii7 Real-Time PCR Instrument. For the HEK293T cells, miR-9-5p and miR-9-3p and RNU6B were measured using a TaqMan microRNA reverse transcription kit (Applied Biosystems; 20 ng RNA was used) and primer specific TaqMan Assays (Applied Biosystems). For the mRNA measurements, a total of 250 ng RNA extracted from the NAc and 100 ng RNA extracted from HEK293T cells were used for cDNA synthesis using an iScript cDNA synthesis kit (Biorad) and qRT-PCR was performed using PowerUp SYBR Green Master Mix (Applied Biosystems) using primer sets designed for each mRNA (see Supplementary material). Primers for REST and OPRM1 were purchased from Qiagen. Expression data were analyzed according to the 2−ΔΔCt method (Schmittgen and Livak, 2008 (link)).
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2

Quantification of miRNA Expression

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A total of 50 ng RNA from the same line of samples used for the small RNA sequencing study was used for miRNA-specific reverse transcription using the miScript II RT kit (Qiagen) according to the manufacturer’s instructions. qRT-PCR was performed in a 384-well plate using miScript SYBR Green PCR kits (Qiagen) and miScript primer assays (Qiagen) for miR-34c-5p (MS00000238), miR-760-3p (MS00033628), miR-770-3p (MS00028539), miR-140-5p (MS00000406), miR-23b-3p (MS00033341), and RNU6B (MS00033740) using an Applied Biosystems vii7 Real-Time PCR Instrument as previously described (Mavrikaki et al., 2019 (link)). miR-23b-3p was compared to RNU6B and was used as a reference gene (Supplementary Figure 4). Expression data were analyzed according to the 2–ΔΔCt method (Schmittgen and Livak, 2008 (link)).
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3

Gene Expression Analysis by qPCR

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Analysis of gene expression was carried out using qPCR. Briefly, RNA from DCs was isolated using TRIzol (Takara) as per manufacturer’s protocol. The mRNA was reverse transcribed to cDNA using oligo (dT)18 primer and Tetro reverse transcriptase (Bioline) as per protocol. The expression profile of target gene was evaluated using specific primers by qPCR master mix (Takara) in Applied Biosystems Vii7 Real time PCR instrument. GAPDH was used as an internal control. For qPCR of SIRT2 forward primer 5’-CACTACTTCATCCGCCTGCT-3’, reverse primer 5’-CCAGCGTGTCTATGTTCTGC-3’, GAPDH forward primer 5’- AGGTCGGTGTGAACGGATTTG-3’, reverse primer 5’- TGTAGACCATGTAGTTGAGGTCA-3’, NOS2 forward primer 5’-CGAAACGCTTCACTTCCAA-3’, reverse primer 5’-TGAGCCTATATTGCTGTGGCT-3’ were used.
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