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6 protocols using gel pro analyzer software version 3

1

Western Blot Analysis of Liver Proteins

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The liver tissues were dissolved by radioimmunoprecipitation assay buffer (Beyotime Institute of Biotechnology, Haimen, China), total protein was isolated and the protein concentration was determined using a bicinchoninic acid Method-Protein Quantitative Reagent kit (Beyotime). After that, tan equal quantity of protein was fractionated using 8, 10 or 13% SDS-PAGE and transferred onto polyvinylidene difluoride membranes (EMD Millipore, Bedford, MA, USA). Then, the membranes were blocked by 5% (w/v) fat-free milk and immunoblotted with primary antibodies (dilution and suppliers were listed in Table I) 4°C overnight. After washing, the membranes was incubated with HRP-conjugated secondary antibodies (goat anti-rabbit IgG, 1:5,000; goat anti-mouse IgG, 1:5,000; Beyotime Institute of Biotechnology) at 37°C for 45 min. Next, the specific protein bands was visualized using enhanced chemiluminescence reagent (Qihai Biotec, Shanghai, China) and the gray density was analyzed using Gel-Pro Analyzer software version 3.0 (Media Cybernetics, Inc., Silver Spring, MD, USA).
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2

Quantitative RT-PCR Analysis of Lung Tissues

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Total cellular RNA of lung tissues was isolated using the RNAprep Pure kit (For Tissue) (Tiangen Biotech Co., Ltd.) according to the manufacturer's protocol. Total RNA (2.0 µg) was reverse transcribed into complementary DNA using the RevertAid First Strand cDNA Synthesis kit with oligo(dT). All primers were designed and synthesized by Takara Bio, Inc. The primer sequences, annealing temperatures and expected product sizes are listed in Table I. All PCR procedures were conducted in the MJ Research PTC-200 DNA Engine Thermal Cycler (Bio-Rad Laboratories, Inc.) using the following cycling parameters: 2 min of initial denaturation at 94°C, followed by 30 sec of denaturation at 94°C, and 35 cycles of 30 sec at 94°C (denaturing), 30 sec at 58°C (annealing) and 30 sec at 72°C (elongation), with a final extension at 72°C for 5 min. The presence of PCR products was confirmed by gel electrophoresis on a 2% agarose gel and staining with ethidium bromide. Bands were visualized in a Gel Doc 1000 system (Bio-Rad Laboratories, Inc.). β-actin was used as an internal control in parallel for each replicate. Gel-Pro Analyzer software version 3.0 (Media Cybernetics, Inc., Rockville, MD, USA) was used to quantify the denisty of each band. The experiments were performed three times independently, and the mean value was used for comparison.
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DRG Protein Expression Analysis

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The DRG tissues from five rats that were randomly selected in each group were used in a western blot study to examine the protein levels of high mobility group protein 1 (HMGB1) and NF-κBp65. The L4–6 DRG was homogenized in RIPA lysis buffer (Servicebio, China) with protease inhibitor and phosphatase inhibitor cocktail (Applygen, Beijing, China). Supernatant protein concentrations were determined after centrifugation at 12,000 rpm for 30 min with a BCA Protein Assay reagent kit (Thermo Pierce, Rockford, IL, USA). Equal amount of the sample (40 μg of protein) was separated on sodium dodecyl sulphate–polyacrylamide gels (SDS–PAGE) and transferred to a polyvinylidenedifluoride (PVDF) membrane. The membranes were incubated with primary antibodies overnight at 4 °C. The primary antibodies were anti-HMGB1 (1:1000; Cell Signaling Technologies), anti-NF-κBp65(1:1000; Cell Signaling Technologies) and anti-β-actin (1:3000; Santa Cruz Biotechnology). The membranes were incubated with anti-mouse or anti-rabbit HRP secondary antibodies (1:3000; Santa Cruz, Biotechnology) for 1 h. The images were digitized from the membrane, and the band intensity was quantified using Gel-Pro Analyzer software, version 3.1 (Media Cybernetics, Bethesda, MD, USA).
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4

Quantitative Western Blot Analysis of PDE4D

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Western blotting was performed as described previously65 (link) with minor modifications. Punched prefrontal cortical tissues (3 mm in diameter around the injection site on both sides) were extracted by RIPA lysis buffer (Millipore, Billerica, MA, USA) plus protease inhibitor and phosphatase inhibitor cocktail (Thermo Pierce, Rockford, IL, USA). Fifty microgram of total protein was resolved by electrophoresis, transferred onto nitrocellulose membranes and blocked by 5% skimmed milk solution. The membranes were incubated with rabbit antibody against PDE4D3, PDE4D4, PDE4D5 (all at a dilution of 1:500; FabGennix, Frisco, TX, USA), cAMP response element-binding (CREB) protein, pCREB (both at a dilution of 1:500; Millipore, Billerica, MA, USA) or β-actin (at a dilution of 1:3000; Santa Cruz Biotechnology, Santa Cruz, CA, USA) at 4 °C overnight. After washing and incubating with secondary antibodies (at a dilution of 1:3000; Santa Cruz Biotechnology, Santa Cruz, CA, USA), the specific bands were detected and quantified using Gel-Pro Analyzer software, Version 3.1 (Media Cybernetics, Bethesda, MD, USA).
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5

Hippocampal TSPO Expression Analysis

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The western blot analysis was conducted as described previously (Wang et al., 2016 (link)). Briefly, hippocampal tissues (3 mm in diameter around both injection sites) were removed and then extracted by RIPA lysis buffer (Applygen, China). Fifty microgram of protein were separated by SDS-PAGE, measured and analyzed by western blot with primary antibody rabbit anti-TSPO (1:1000; Abcam, Cambridge, MA, United States) and β-actin (1:3000; Santa Cruz, CA, United States). The expression of protein was measured by Gel-Pro Analyzer software, Version 3.1 (Media Cybernetics, Rockville, MD, United States) and the TSPO expression was normalized to β-actin. Every experiment was independently repeated no less than four times.
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6

Quantitative Western Blot Analysis of TSPO

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The punched hippocampal tissues (3 mm in diameter around the injection sites on both sides) were extracted by RIPA lysis buffer (Applygen, China) plus protease inhibitor and phosphatase inhibitor cocktail (Thermo Pierce, Rockford, IL, USA). Equal amounts (50 μg) of protein were resolved by electrophoresis, transferred onto polyvinylidene difluoride (PVDF) membranes and blocked with 5% skim milk solution. The membranes were incubated with rabbit anti-TSPO (at a dilution of 1:1000; Abcam, Cambridge, MA), or β-actin (1:3000; Santa Cruz Biotechnology, Santa Cruz, CA, USA) at 4°C overnight. After washing and incubating with secondary antibodies (1:3000; Santa Cruz Biotechnology, Santa Cruz, CA, USA), the specific bands were detected and quantified using Gel-Pro Analyzer software, Version 3.1 (Media Cybernetics, Bethesda, MD, USA).
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