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3 protocols using gene specific primers

1

Quantitative RT-PCR for Gene Expression

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Total RNA was purified from cultured cells using TRIzol reagent (Invitrogen; Thermo Fisher Scientific, Inc.) according to the manufacturer's protocol. For first-strand cDNA synthesis, 1 µg total RNA was transcribed to cDNA using a reverse-transcription system with random hexamers (A3500; Promega Corporation) according to the manufacturer's protocol. RT-qPCR was performed on a StepOnePlus Real-Time PCR system with Power SYBR-Green PCR Master Mix (Applied Biosystems; Thermo Fisher Scientific, Inc.). The PCR was performed with 1 µl cDNA in a 20 µl reaction mixture comprising 10 µl Power SYBR Green PCR Master Mix, 2 µl primers and 7 µl PCR-grade water. The PCR program was as follows: A denaturation step at 95°C for 10 min, 40 cycles each of 95°C for 15 sec and 60°C for 1 min. Quantification of gene expression data was calculated using the 2−ΔΔCq method the crossing point of the target genes with β-actin was calculated using the formula 2-(target gene−β−actin) and the relative amounts were quantified (39 (link)). The sequences of the gene-specific primers used (Bioneer Corporation, Daejeon, Korea) are listed in Table I.
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2

Adipocyte Differentiation Pathway Analysis

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Extraction solvents were acquired from Samchun [Seoul, Korea: methylene chloride, D1602; methanol (MeOH), M1450], Junsei Chemical Co., Ltd. [Tokyo, Japan: n-butanol (n-BuOH), 6313050380], and JT Baker (Philipsburg, NJ, USA: n-hexane, 9304-03). Cell culture and assay reagents, Oil red O stain, and staining solvents were purchased from Sigma-Aldrich Co. (St. Louis, MO, USA). Gene specific primers were from Bioneer (Daejeon, Korea) and the primary antibodies were purchased from Cell Signaling Technology, Inc. [Danvers, MA, USA: PPARγ, #2443; CCAAT/enhancer-binding protein (C/EBP) α, #2295; p-38, #4511; p-c-Jun N-terminal kinase (JNK), #9255; p-extracellular-signal-regulated kinase (ERK), #4370], Abcam [Cambridge, UK: sterol regulatory element-binding protein-1c (SREBP-1c), ab3259], and Santa Cruz Biotechnology (Dallas, TX, USA: β-actin, sc-47778). Sources for other reagents and equipment were given in the designated sections when they are first mentioned.
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3

Anti-inflammatory Mechanisms of Phytochemicals

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LPS (E. coli 0111: B4), 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT), sulfanilamide, N-(1-naphthyl)-ethylenediamine dihydrochloride, dimethyl sulfoxide (DMSO), harpagoside, cinnamic acid, and TAK-242 were purchased from Sigma-Aldrich (St. Louis, MO, USA). Harpagide was purchased from Chengdu Biopurify Phytochemicals Ltd. (Chengdu, China). Dulbecco's modified Eagle's medium (DMEM), foetal bovine serum (FBS), and an antibiotic-antimycotic solution were purchased from Invitrogen Co. (Grand Island, NY, USA). A sodium nitrite solution was purchased from Fluka (Buchs, Switzerland). Phosphoric acid was purchased from Junsei (Tokyo, Japan). Gene-specific primers were synthesized by Bioneer (Daejeon, Korea). AMV reverse transcriptase, a dNTP mixture, random primers, RNasin, and Taq polymerase were purchased from Promega (Madison, WI, USA). Goat anti-mouse IgG-HRP, goat anti-rabbit IgG-HRP, goat anti-goat IgG-HRP, and antibodies specific for iNOS, COX-2, IL-1β, NF-κB p50, NF-κB p65, IKK-α/β, p-IKK-α/β, ERK1/2, p-ERK1/2, IRF3, STAT1, p-STAT1, JAK1, and β-actin were purchased from Santa Cruz Biotechnology Inc. (Santa Cruz, CA, USA). Antibodies against TNF-α, IκB-α, p-IκB-α, SAPK/JNK, p-SAPK/JNK, p38, p-p38, p-JAK1, p-IRF3, INF-β, TLR4, and Myd88 were purchased from Cell Signaling Technology (Beverly, MA, USA).
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