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20 protocols using cpt1a

1

Immunoblotting Techniques for Lipid Metabolism

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Immunoblotting was conducted as previously described [31 (link)] using primary antibodies at 1:1000 dilutions for stearoyl-CoA desaturase-1 (#2283S; SCD1, Cell Signaling), carnitine palmitoyltransferase 1A (#12252S; CPT1a, Cell Signaling), PPARγ (#2443S; Cell Signaling Technology, Inc., Danvers, MA), β-actin (#4967; Cell Signaling), PPARα, (#sc9000; Santa Cruz Biotechnology Inc., Santa Cruz, CA), glycerol-3-phosphate acyltransferase (#sc382257; GPAM, Santa Cruz), and sterol regulatory element-binding protein 1C (#sc366; SREBP1c, Santa Cruz). Adipocyte fatty acid binding protein (aP2) was kindly provided by Dr. David Bernlohr (U. of Minnesota) and used at a 1:10,000 dilution. Horseradish peroxidase-conjugated secondary antibodies were probed for 2 h at room temperate at 1:1000 dilutions. Blots were exposed to a chemiluminescence reagent and X-ray films were developed using a SRX-101A Konica Minolta film developer.
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2

Subcellular Fractionation and Protein Analysis

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Colon cancer cells or tumor organoids were collected and detergent-solubilized cell lysates were obtained as described previously8 (link),14 (link). The NE-PER Nuclear and Cytoplasmic Extraction Kit (Thermo) was used to separate cytoplasmic and nuclear fractions. Equal amounts of total cell lysates were resolved by SDS–PAGE and subjected to Western blot analysis. The following antibodies, including CPT1A, acetylated-lysine (pan-Lys, #9441) acetyl-histone H3 (Lys9) (#9649), acetyl-histone H3 (Lys27) (#8173), histone H3 (#14269), active-β-catenin (#8814), total β-catenin (#8480), were purchased from Cell Signaling; the acetyl-α-tubulin (T7451) and β-actin (A1978) antibodies were from Sigma-Aldrich; and the total α-tubulin (sc-5286) and Lamin A/C (sc-20681) antibodies were from Santa Cruz.
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3

Immunoblot Analysis of Metabolic Proteins

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Immunoblot analysis was performed as described previously (10 (link), 32 (link), 34 (link)). Antibodies for ACLY (#4332), P-S79-ACC (#11818), ACC (#3676), FASN (#3180), P-S473-Akt (#4060), P-T450-Akt (#12178), Akt (#9272), PThr183/Tyr185-JNK (#4668), JNK (#9252), α/β-Tubulin (#2148), CPT1A (#97361), hexokinase II (HKII) (#2867), phosphofructokinase (PFKP) (#8164) were purchased from Cell Signaling (Danvers, MA, United States). The antibody for P-S455-ACLY (#PA5-97395) was purchased from Thermo Fisher Scientific (Chicago, IL, United States). The antibody for malonyl CoA decarboxylase (MLYCD) (#15265-1-AP) were purchased from Proteintech (Rosemont, IL, United States). Secondary HRP conjugated anti-mouse antibody (ab205719) was purchased from Abcam (Boston, MA, United States), secondary HRP-conjugated anti-rabbit antibody (#7074) was purchased from Cell Signaling (Danvers, MA, United States).
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4

Western Blot Analysis of Cell Signaling Proteins

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Protein lysates were prepared from T-cell pellets using RIPA (Sigma-Aldrich) solution and the Halt™ Protease/Phosphatase Inhibitor Single-Use Cocktail (Thermo Fisher Scientific). Protein concentrations were determined using a BCA protein assay Kit (Thermo Fisher Scientific). Proteins (>10 µg) were separated on a sodium dodecyl sulphate-polyacrylamide gel electrophoresis (SDS-PAGE) system and transferred by wet blotting (Biorad, Hercules, California, USA). Western blots were probed using primary antibodies against Tubulin, CPT1a, Bcl-2, Bcl-xL, and Mcl-1 (Cell Signaling Technology Inc., Danvers, Massachusetts, USA and Supplementary Table 3). Bands were detected using horseradish peroxidase-conjugated anti-rabbit or anti-mouse IgGs (Cell Signaling Technology; Agilent) and an ECL substrate (Cell Signaling Technology Inc.).
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5

Western Blot Analysis of Metabolic Proteins

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Tissues were homogenized with 1× passive lysis buffer (Promega) supplemented with protease inhibitor cocktail (Sigma) and Xpert Phosphatase Inhibitor Cocktail Solution (GenDEPOT, Barker, TX, USA). Lysates were quantified using BCA protein assay kit (Thermo Fisher Scientific) and an equal amount of protein was electrophoresed on 8–10% SDS-polyacrylamide gel and transferred onto polyvinylidene fluoride membranes. Blots were blocked in 1× TBS-tween 20 containing 5% non-fat milk (Difco, Sparks, MD, USA) and incubated with primary antibodies. Antibodies including AMPK, p-AMPK, ACC, FAS, CPT1a, PEPCK-C, G6Pase, CD36, and PPAR-α were purchased from Cell signaling and α-tubulin, GAPDH were purchased from Santa Cruz Biotechnology (Dallas, TX, USA). Next day, the membranes were washed with 1× TBS-T and reacted with horseradish peroxidase-conjugated secondary antibodies (1:10,000) (Santa Cruz Biotechnology) and visualized by SuperSignalTM West Pico Chemiluminescent substrate (ThermoFisher Scientific). Band intensity was measured by Image J software 1.48v (NIH, USA) and was normalized to the α-tubulin.
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6

Western Blot Analysis of CPT1 Proteins

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Protein lysates were loaded on a polyacrylamide gel. Proteins were transferred to a polyvinylidene difluoride membrane using the mini trans-blot transfer system (Bio-Rad). To detect specific antigens, blots were probed with primary antibodies CPT1A (Cell Signaling, 12252 Dilution 1:1000) GAPDH (Santa Cruz, sc-32233 Dilution 1:5000), and CPT1C (abcam ab123784 Dilution 1:500) on a shaker at 4 °C, overnight, followed by 1 h of room temperature incubation with HRP-conjugated secondary antibodies (Santa Cruz). Chemoluminescence was recorded using the automated Gel Doc XR system (Azure).
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7

Immunoblot Analysis of Cell Signaling Pathways

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Primary antibodies including CPT1A (Cell signaling), PPAR-γ (Santa Cruz Biotechnology), β-catenin, β-actin (Millipore), p-AMPK(T172)/AMPK (Cell signaling), p-AKT(T308)/Akt (Cell Signaling) were used at 1:1000. Secondary antibodies including goat anti-rabbit IgG-HRP (Millipore) and goat anti-mouse IgG-HRP (Millipore) were used at 1:5000. Cells were lysed in Laemmli sample buffer after treatment and subjected to SDS-polyacrylamide gel electrophoresis and immunoblot analysis. For immunoprecipitation, cells were lysed in radio immunoprecipitation assay (RIPA) buffer [10 mM sodium phosphate (pH 8.0), 150 mM NaCl, 1% Triton X-100, 1% sodium deoxycholate, and 0.1% SDS in the presence of 1 mM DTT, 1 mM phenylmethylsulfonylfluoride, and a protease inhibitor cocktail (Sigma)], precleared with protein A beads, and then incubated with 1 μg of antibody against β-catenin or isotype control IgG with protein A-agarose beads on a rotator overnight at 4°C. After 3 washes with RIPA buffer, immunoprecipitated complexes were eluted in sample buffer by boiling and subjected to immunoblot analysis. Immunoblots were visualized by chemiluminescence substrate (ThermoFisher) and imaged by a ChemiDoc XRSplus system (BioRad).
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8

Western Blot Analysis of Cell Signaling

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Total RNA was isolated from cell lines using the Qiagen RNeasy Mini Kit (Valencia, CA). For Western blots, cell lysates dissolved in RIPA buffer underwent standard electrophoresis and antibody detection. The details are described in the Supplementary Material and Methods. The following antibodies were used: ACSL1 (#4047), Cyclin A2 (#4656), Cyclin B1 (#4138), Cyclin E1(#4129), p21 (#2947), p27 (#3686), CDK6 (#3136), cyclin D3 (#2936), and CPT1A (#12252) from Cell Signaling (Boston, MA) or γ-tubulin (#T6557, Sigma-Aldrich).
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9

Protein Expression Analysis by Western Blot

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Cell lysates were prepared in Laemmli sample buffer containing β-mercaptoethanol. Proteins were resolved by SDS-PAGE and transferred to PVDF. Membranes were blocked in 1% BSA and incubated in primary antibodies overnight at 4 °C. Proteins were detected using HRP secondary antibodies and chemiluminescence substrate (Pierce, Rockford, IL, USA) on a ChemiDoc Imaging System (Bio-Rad, Hercules, CA, USA). The following primary antibodies were used: BAP1 (#13271), Aurora-A (#3092), PLK1 (#4513), cyclin B1 (#4135), Wee1 (#4936), phospho-RB (#9308), S6 (#2217), PKM2 (#3198), GLUT1 (#12939), HK1 (#2024), HK2 (#2867), PKM2 (#3198), FASN (#3180), ACC (#3662), ACSL1 (#9189), ACLY (#4332), CPT1A (#12252), phospho-ACC (S79, #3661), phospho-mTOR (S2448, #2971), mTOR (#2983), phospho-ERK1/2 (#9101), ERK1/2 (#9102), phospho-S6 (S235/236, #4857), phospho-S6 (S240/244, #2215), and HSP90 (#4877) from Cell Signaling Technology; CPT1C (ab123794) from Abcam (Cambridge, UK); GLUT3 (sc-30107) and GNAQ (sc-393) from Santa Cruz Biotechnology, Inc. (Dallas, TX, USA); SREBP1 (#557036) from BD Pharmingen and β-actin (#A2066) from Sigma-Aldrich.
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10

Western Blot Analysis of Hepatic Signaling

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Antibodies against p-ACC (Ser79), ACC, FASN, CPT1A, IP3R1, VDAC, phospho-Akt (Ser473), Rictor, MFN2, BiP, CHOP, Caspase-1, cleaved Caspase-1, cleaved Caspase-3, PARP, and GAPDH were purchased from Cell Signaling (Danvers, MA, USA). Anti- NLRP3, anti-XBP-1, and anti-ATF6 antibodies were purchased from EMD Millipore (Billerica, MA, USA). Anti-IP3R3 antibody was purchased from BD Biosciences (San Jose, CA, USA). Clarity Western ECL substrate was purchased from Bio-Rad (Hercules, CA, USA). Liver homogenates (50 μg of protein per well) were separated by 10% SDS-PAGE gel, proteins were transferred to nitrocellulose membrane as previously described15 (link), and then blots were probed using the antibodies listed above. Band intensities were detected, normalized and quantified with the Chemidoc and Image Lab 5.0 software (Bio-Rad Laboratories, Hercules, CA). GAPDH was used as loading control.
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