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6 protocols using abi reverse transcription kit

1

Quantification of miRNA and mRNA Expression

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Total RNA was extracted from tissues and cells using a mirVana™ miRNA Isolation Kit (Ambion, Carlsbad, CA, USA) according to the manufacturer’s protocols. RNA samples OD260/OD280 ratios ranging from 1.9–2.0 were considered good quality. ABI® Reverse Transcription Kit (Applied Biosystems, Foster City, CA) was used for reverse transcription. Quantitative polymerase chain reaction (PCR) measurements for miR-let-7b-5p and miR-let-7c-5p were performed using TaqMan MicroRNA Assays (Applied Biosystems, Foster City, CA). Relative expressions of miR-let-7b-5p and miR-let-7c-5p were calculated using a comparative CT method with an internal control RNU6B for miRNA. The mRNA expression of target genes was detected by microarray hybridization and gene expression analyses that were performed using the GeneChip Human Genome U133 Plus 2.0 microarrays (Affymetrix) and Affymetrix GeneChip System (Biotechnology, Shanghai, China).
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2

Adipogenic Differentiation of Immortalized SVF Cells

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Immortalized stromal vascular fraction (SVF) cells were exposed to DMEM/F-12 GlutaMAX (Invitrogen) containing dexamethasone (5 μM, Sigma), insulin (0.5 μg mL−1, Sigma), isobutylmethylxanthine (0.5 mM, Sigma), rosiglitazone (1 μM, Cayman), T3 (1 nM, Sigma), and 10% FBS for 2 days. After induction, cells were maintained in media containing insulin (0.5 μg mL−1), T3 (1 nM), 10% FBS, and 5 μM of each compounds for 3 days. Total RNA was extracted from 3T3-L1 cells or immortalized SVF cells. The RNA was reverse-transcribed using the ABI reverse transcription kit (Applied Biosystems/Thermo Fisher Scientific, Waltham, MA). Quantitative polymerase chain reactions were performed with SYBR green fluorescent dye using an ABI9300 polymerase chain reaction machine. Relative mRNA expression was determined by the ΔΔCt method normalized to glyceraldehyde-3-phosphate dehydrogenase (GAPDH) levels. Primer sequences are as follows. aP2 primers: 5′-AAG GTG AAGAGC ATC ATA ACC CT-3′ (forward), 5′-TCA CGC CTT TCA TAA CAC ATT CC-3′ (reverse); GAPDH primers: 5′-ACA CAT TGG GGG TAG GAA CA-3′ (forward), 5′-ACC CAG AAG ACT GTG GAT GG-3′ (reverse).
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3

Quantitative Analysis of miR-215 and RUNX1 Expression

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Total RNA was extracted from tissues and cells using miRNeasy FFPE Kit (Cat. No.217504, Qiagen) and Trizol reagent (Invitrogen, Carlsbad, CA, USA) according to the manufacturer's instructions. RNA samples OD260/OD280 ratios ranging from 1.9–2.0 were considered good quality. Reverse transcription and quantitative PCR measurements for miR-215 and endogenous control RNU6B were performed with TaqMan MicroRNA Assays (Applied Biosystems, Foster City, CA). Relative expression of miR-215 was calculated using a comparative CT method.
Reverse transcription and quantitative PCR for RUNX1 mRNA were conducted using random primer using ABI® Reverse Transcription Kit (Applied Biosystems, Foster City, CA) and SYBR Green master mixture (Applied Biosystems) with the housekeeping gene GAPDH as an internal control. RUNX1 primers were as follows: forward 5′-AATGCTACCGCA GCCATGAAG-3′, reverse 5′-GGTTTGTGAAGACAGTGA TGGTCAG-3′.
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4

Measuring RORβ Overexpression Response

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Total RNA was extracted from RORβ OE/MG63 cells using RNeasy Plus Micro Kit (Qiagen), and the RNA was reverse transcribed using the ABI reverse transcription kit (Applied Biosystems/Thermo Fisher Scientific, Waltham MA). Quantitative PCR was performed with a 7900HT Fast Real Time PCR System (Applied Biosystems) using SYBR green (Roche). A list of primers used for these studies is shown in S1 Table. To measure the effect of IL1β stimulation, 2 nM ILβ (recombinant human IL-1β/IL-1F2, R&D system) was added to WT and RORB OE cells. After 24hr, total RNA was isolated and analyzed by qRT-PCR.
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5

Quantifying mRNA and mtDNA Levels

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Total mRNAs were isolated using TRIzol reagent purchased from Thermo Fisher Scientific. Reverse-transcription of the RNA was performed with ABI Reverse Transcription Kit (Thermo Fisher Scientific). Quantitative PCR was performed using 7900HT Fast Real-Time PCR System (Life Technologies, Carlsbad, CA) following the manufacturer’s instructions. Relative mRNA expression levels of each gene were normalized to TATA-binding protein TBP. The mtDNA copy number was evaluated based on the ratio of mtDNA to nuclear DNA by quantitative PCR. The mtDNA was quantified based on the mitochondrial gene, VIPR1, and MT-ATP6, respectively. The relative amounts of mtDNA were normalized to nuclear DNA, B2M. The primer pairs used in this study are listed in the table below.
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6

Quantifying mRNA and mtDNA Expression

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Total mRNA was isolated using TRIzol reagent (Thermo Fisher Scientific, Waltham, MA). RNA reverse transcription was performed using an ABI Reverse Transcription Kit (Thermo Fisher Scientific, Waltham, MA). Quantitative PCR was performed with a 7900HT Fast Real-Time PCR System (Life Technologies, Carlsbad, CA) following the manufacturer’s instructions. Relative mRNA expression levels of each gene were normalized to the expression level of the TATA-binding protein TBP. The mtDNA copy number was evaluated based on the ratio of mtDNA to nuclear DNA by quantitative PCR. The mtDNA was quantified based on the mitochondrial gene Polg. The nuclear DNA was quantified based on the nuclear DNA gene Actb. The primer pairs used in this study are listed in Supplementary Table 2.
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