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157 protocols using pgc 1α

1

Western Blot Analysis of Cellular Markers

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Cultured cells were washed twice in PBS and lysed in ice-cold RIPA buffer (Pierce) supplemented with protease and phosphatase inhibitor cocktail (Thermo Scientific). Twenty micrograms of protein were resolved in 4–12% acrylamide gels, transferred to nitrocellulose membranes, and blotted overnight with antibodies against REDD1 (1:500, Proteintech), cleaved caspase 3 (1:500, Cell Signaling), LC3 (1:1000, Cell Signaling), p62 (1:1000, Cell Signaling), OXPHOS cocktail (1:1000, Abcam), PGC1α (1:1000, BioVision), TFAM (1:500, Cell Signaling), and GAPDH (1:5000, Abcam). After incubating with secondary antibodies for 1 hour at room temperature, blots were visualized using the Odyssey Infrared Imaging System (LI-COR). Intensity values were analyzed with the ImageStudioLite software and normalized to those of GAPDH.
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2

Quantitative ChIP Analysis by Real-Time PCR

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Real time PCR-based quantitative ChIP analysis was performed according to a previously described protocol25 (link). Subconfluent cells were trypsinized and protein-DNA cross-linking was conducted by treating cells with formaldehyde at a final concentration of 1% for 10 min at room temperature with gentle agitation. Glycine was added to quench the reaction. Antibodies against HIF-1α (Abcam, Cambridge, MA, # ab463), PGC1α (Biovision, Milpitas, CA #3934100) were used to immunoprecipitate protein-DNA cross-linked fragments. Primers were designed to amplify 60- to 100-bp amplicons and were based on sequences in Ensembl Genome Browser for mouse locus. Samples from three or more immunoprecipitations were analyzed. Products were measured using Power SYBR Green reagent (#4367659, Applied Biosystems, Grand Island, NY) in 25-µl reactions. The amount of product was determined relative to a standard curve of input chromatin. Dissociation curves showed that PCRs yielded single products. Sequences of the primers are described in the supplemental table 2.
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3

Western Blot Analysis of Cellular Proteins

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First, 2 mL/well cells (about 2 × 105) were seeded in 6-well plates and treated according to the protocol. Cells were collected and washed twice with PBS; then, they were resuspended in RIPA Lysis Buffer (Biosharp, Hefei, China) and supplemented with 1 mM of phenylmethanesulfonyl fluoride. Protein was extracted by centrifugation at 14,000× g for 15 min at 4 °C, and the concentration of protein was measured with a BCA protein assay kit (Thermo Scientific, Waltham, USA). Equal amounts of protein (80–150 µg) were separated by 10–20% SDS-PAGE gel and transferred to PVDF membranes at different electric currents according to the size of protein molecules. The membranes were blocked for 2 h in 5% non-fat milk dissolved with Tris-buffered saline containing 0.05% Tween-20 (TBST) at room temperature. Protein expression was detected using a primary antibody γ-H2A.X (1:1000, Abcam, Cambridge, MA, USA), BDNF (1:5000, Abcam, Cambridge, MA, USA), AMPKα (1:1000, CST, Danvers, MA, USA), PGC-1α (1:2000, Abcam, Cambridge, MA, USA), ULK2 (1:1000, CST, Danvers, MA, USA), SIRT1 (1:1000, CST, Danvers, MA, USA), β-actin (1:5000, Abcam, Cambridge, MA, USA), and horseradish peroxidase-conjugated anti-rabbit secondary antibodies (1:10,000, Abcam, Cambridge, MA, USA). A Quantitative analysis of a western blot was performed using Image-Pro Plus software (Media Cybernetics, Rockville, MD, USA).
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Western Blot Analysis of BAT Proteins

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Proteins were extracted from BAT by lysing in modified RIPA buffer, as previously described [28 (link)]. Proteins were subjected to electrophoresis on gradient gels (Bio-Rad, Hercules, CA), then transferred to polyvinylidene fluoride (PVDF) membranes. Membranes were incubated in blocking buffer for 1 hour at room temperature, followed by primary antibodies for UCP1 (Thermo Fisher Scientific, Rockford, IL) (1:1000), PGC1α (Abcam, Cambridge, MA) (1:1000), and total OXPHOS cocktail (Abcam, Cambridge, MA) (1:250). Alpha-Tubulin (1:1000), and GAPDH (Cell Signaling, Danvers, MA) (1:1000) were used as the housekeeping control. Next, membranes were incubated in secondary antibodies, rabbit polyclonal (1:20000) and mouse polyclonal (1:20000) respectively and blots were developed using Li-COR Imager System (Lincoln, NE).
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5

Protein Extraction and Western Blot Analysis

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Total protein was extracted from SD rat adipose tissue using Radio-Immunoprecipitation Assay (RIPA) lysis buffer (Dalian Meilun Biotechnology Co., LTD., Dalian, China) containing protease and phosphatase inhibitor (Beyotime, Shanghai, China). Protein samples were diluted using loading buffer and denatured at 98 °C for 5 min. The protein sample was electrophoresed on the sodium dodecyl sulfate-polyacrylamide gel (SDS-PAGE) at a concentration of 5–15% (v/v), and the isolated protein was subsequently transferred to a polyvinylidene fluoride (PVDF) membrane (Millipore Corp., Billerica, MA, USA). The PVDF membrane was blocked with 5% skimmed milk powder. After blocking, the PVDF membrane was incubated overnight at 4 °C in diluted primary antibody and then incubated with goat anti-rabbit IgG/horseradish peroxidase (HRP) secondary antibody for 1 h (Biosynthetic Biotechnology Co., Ltd., Beijing, China). Primary antibodies include UCP1, PRDM16, PGC-1α, P38-MAPK, ATF2, and β-actin (Abcam plc. shanghai, China) (Table S4). Gray analysis of Western blots was performed by Image J 1.48V software (National Institutes of Health, USA).
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6

AMPK and Cellular Signaling Quantification

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The protein levels of AMPKα, p-AMPKα, SIRT1, PGC-1α, TGF-β1, and α-SMA (1 : 200, Abcam, USA) were determined in each group by incubating the samples in primary antibodies overnight followed by incubation with secondary antibodies and IHC detection reagent (ZSGB-BIO, Beijing, China) at 37°C for 45 min. The results were detected using DAB (ZSGB-BIO, Beijing, China), and hematoxylin staining was used to label the nuclei. The cells were observed and photographed using an optical microscope (BX61). The number of positively stained cells was counted in five microscopic fields at 400x.
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7

Immunoblotting Analysis of Mitochondrial Proteins

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Total proteins were extracted using PRO-PREP buffer (iNtRON Biotechnology Inc., Seoul, Korea) containing phosphatase inhibitors (GenDEPOT, Barker, TX, USA), separated by SDS-PAGE, transferred to PVDF membranes (Millipore, Billerica, MA, USA), and analysed by immunoblotting. Primary antibodies against the following proteins were used: UCP1, PGC1α, CPT2, PPARα, AHNAK, and OXPHOS (oxidative phosphorylation) complexes (all from Abcam); pHSL, HSL, pPKA substrates, and GAPDH (all from Cell Signaling Technology, Beverly, MA, USA); and tyrosine hydroxylase (Millipore). The antibodies were diluted 1:1,000 with TBS containing 0.1% (v/v) Tween-20 (TBST, Biosesang, Seongnam, Korea). The membranes were then incubated with a peroxidase-conjugated secondary antibody (AbClon, Seoul, Korea), and antibody-specific signals were detected by enhanced chemiluminescence and quantified using the MicroChemi 4.2 system (DNR Bio Imaging Systems, Jerusalem, Israel).
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8

Liver and Kidney Protein Expression

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Liver and kidney homogenates were prepared using 1× RIPA buffer with protease inhibitors. The protein concentration was measured using the Pierce BCA Protein Assay kit (Thermo Scientific). We used 30 ug of protein on an SDS-PAGE and then transferred it to either a nitrocellulose (Protran BA 83, Whatman) or a polyvinylidene difluoride (PVDF) membrane. We then blocked with 3% BSA-TBST (tris buffer saline with tween 20). The membranes were then probed with antibodies Cpt2 (Pierce), Pgc1α (Abcam), Acsl1 (Cell Signaling), Acot1 (Cell Signaling), Acot2 (Cell Signaling), Cpt1α (Abcam), Acadm (GeneTex), Acsf3 (Pierce), Total Acc (Cell Signaling), Acly (Cell Signaling), Hadha (Genetex), Aco2 (Cell Signaling), Fasn (BD Biosciences), and Hsc70 (Santa Cruz Biotechnology). Hsc70 used the appropriate Cy3 fluorescent secondary antibodies, and the other primary antibodies used the corresponding secondary antibodies conjugated to horseradish peroxidase. Images were collected using an Alpha Innotech FluorChemQ and presented with minimal image processing.
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9

Cardiac AMPK and Glucose Transporter Analysis

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Approximately 30 mg heart tissues collected from LV were homogenized in lysis buffer (Beyotime, Nantong, China) supplemented with a cocktail of protease and phosphatase inhibitors (Sigma Chemical Co., St Louis, MO) and centrifuged. Protein lysates from each sample were then loaded onto 12% SDS-polyacrylamide gels (40 μg/well). Following electrophoresis, separated proteins were transferred to polyvinylidene difluoride (PVDF) membrane (Thermo Scientific, USA). The blotted membrane was then incubated with primary antibodies specific for AMPKα and phospho-AMPKαThr172 (Cell Signaling Technology, Inc., USA), glucose transporter-1 (GLUT-1) (Cell Signaling Technology, Inc., USA), glucose transporter-4 (GLUT-4) (Cell Signaling Technology, Inc., USA), PGC-1α (Abcam, UK), and β-actin (Kangcheng Biological Co., China) overnight at 4°C. After washes, blots were then incubated with horseradish peroxidase-conjugated secondary antibody (Abbkine, Inc., USA) for 2 h. Finally, immunocomplexes were visualized by ECL Plus (Thermo Scientific, USA) and analyzed with Image Lab Software (Bio-Rad Laboratories, Inc., USA). Quantification of relative protein expression was normalized to β-actin and expressed as fold change.
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10

Western Blot Analysis of Adipose Tissue

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Aliquots from fat pad homogenates were used for protein (Bicinchoninic Acid Kit, Thermo Scientific, Waltham, MA) measurements, and Western blots. For Western blot analyses, tissue lysates were separated on 10% acrylamide gel under reducing conditions. After transfer to polyvinylidene fluoride membranes (Immobilon-P, Millipore, Billerica, MA), the membranes were stained with primary antibodies against UCP1 (Abcam, Cambridge, MA), PGC-1α (Abcam, Cambridge, MA), and β-actin (Cell Signaling, Danvers, MA) and then detected with the appropriate secondary antibody (LI-COR, Lincoln, NE). Proteins were analyzed using an Odyssey Infrared Imaging System (LI-COR, Lincoln, NE). Images were quantified by ImageJ software.
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