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9 protocols using anti sirt3

1

Immunoprecipitation and Western Blot Analysis

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Sufficient amounts of anti-SOD2 or anti-Sirt3 antibody (Santa Cruz) were added to the fresh protein supernatant and incubated at 4°C overnight. Next, 25 µl of protein A+G agarose beads (Beyotime, Haimen, China) was added and incubated for 3 h at 4°C. The mixture was then centrifuged at 2500× g for 5 min at 4°C°C, and the supernatant was discarded. The precipitate was washed five times with ice-cold PBS. After washing, the immunocomplex was boiled in 2x SDS buffer for 5 min. The supernatant was then collected by centrifugation and subjected to western blotting analyses with anti-acetyl-lysine antibody (1∶1000, Cell Signaling Technology), anti-SOD1(1∶500, Santa Cruz), anti-SOD2 (1∶500, Santa Cruz), anti-SOD3 (1∶500, Santa Cruz), anti-Sirt3 (1∶500, Santa Cruz), anti-Sirt4 (1∶500, Santa Cruz), and anti-Sirt5 antibodies (1∶500, Santa Cruz). The control for these IP experiments was normalized against rabbit IgG.
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2

Immunohistochemical Analysis of SIRT1 and SIRT3 in Liver Tissue

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Liver tissue was fixed with 10% formalin, embedded in paraffin, and sectioned. The sections were stained with hematoxylin and eosin for light microscopic morphological examination. For assessment of SIRT1 and SIRT3, 3-μm sections were permeabilized in phosphate-buffered saline, incubated in 10 mM sodium citrate buffer with pH 6.0 for 100°C, 10 minutes, and incubated with anti-SIRT1 (1:50 dilution, Santa Cruz Biotechnology) antibody and anti-SIRT3 (1:50 dilution, Santa Cruz Biotechnology) antibody. Sections were then incubated with secondary antibody (1:200 dilution, Santa Cruz Biotechnology) and followed by staining with diaminobenzidine chromogen (Vector Labs, Burlingame, CA, USA) and counterstaining with hematoxylin. The stained sections were examined under microscopy (×400; Nikon, Tokyo, Japan) and all histological assessments were made by a pathologist.
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3

Quantifying Sirt3 and SOD2 Protein Levels

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MSCs were collected and incubated for 30 min on ice in RIPA Lysis Buffer (Beyotime, China) for extracting total protein. The BCA Protein Assay Kit (Beyotime, China) was used for protein quantification. Protein sample lysate (30 μg of each) was resolved by 10% sodium dodecyl sulfate (SDS)-polyacrylamide gels and then transferred onto PVDF membranes (Millipore, United States). Membranes were blocked at room temperature for 2 h with 5% non-fat milk in Tris-buffered saline (TBS) to avoid non-specific blots and then incubated with primary antibodies: anti-Sirt3 (1:1,000, Santa Cruz) and anti-SOD2 (1:1,000, Santa Cruz) overnight at 4°C. Membranes were washed three times to remove excessive primary antibodies and then incubated for 1 h at room temperature with anti-rabbit IgG secondary antibody at an appropriate dilution of 1:2,000. The immunoreactive protein bands were visualized on an electrochemiluminescence detection system (JENE, United Kingdom) by enhancing ECL Plus (Beyotime, China). β-Actin was used as an internal control.
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4

Western Blot Analysis of Protein Expression

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Proteins were extracted with radioimmunoprecipitation assay (RIPA) buffer (150 mM NaCl, 1% Triton X-100, 1% sodium deoxycholate, 50 mM Tris-HCl, 2 mM ethylenediamine tetraacetic acid, 1 mM phenylmethylsulfonylfluoride, 1 mM dithiothreitol, 10 mM Na3VO4 and 20 mM NaF, pH 7.5). Homogenates were centrifuged at 4 °C for 15 min, and the supernatant was used for western blot. Proteins of 20–50 μg were separated with sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE, Beyotime, Shanghai, China) and then transferred to a polyvinylidene fluoride (PVDF) membrane (Millipore, Billerica, MA, USA). After blocking with 5% non-fat milk for 2 h at room temperature, the membranes were incubated with anti-SIRT3 (1:1000, Santa Cruz Biotechnology Inc., San Diego, CA, USA), anti-ANP, anti-BNP, anti-forkhead-box-protein 3a (FOXO3a), anti-SOD2 (1:1000, Abcam, Cambridge, UK), or anti-β-tubulin (1:3000, Bioworld Technology, St. Louis, MO, USA) primary antibodies overnight at 4 °C. After washing with TBST, the membranes were incubated with a horseradish peroxidase-conjugated secondary antibody (Santa Cruz Biotechnology Inc., San Diego, CA, USA) for 2 h at room temperature. Finally, the membrane was exposed to enhanced chemiluminescence substrate (ECL, Thermo Fisher Scientific Inc., Rockford, IL, USA) reagent for determination of protein expression.
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5

Western Blot Analysis of Sirt3, Acetyl Lysine, and Coq2

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The procedure was performed as described by Ariza et al. [21 (link)] with samples of whole cell extracts (50 μg of protein) applied per gel lane. The following primary antibodies were used: Anti-Sirt3 (Santa Cruz Biotechnology, Inc) at 1:1000 dilution, anti-acetyl lysine (Cell Signaling) at 1:1000 dilution, and anti-Coq2 [25 (link)] at 1:1000 dilution. In all cases, horseradish peroxidase-conjugated secondary antibodies were used to reveal immunoreactivity by enhanced chemiluminescence. An anti-rabbit secondary antibody (at 1:2,000 dilution, Santa Cruz Biotechnology, Inc) was used for Sirt3 and acetyl lysine, while an anti-chicken secondary antibody (at 1:5,000 dilution, Sigma-Aldrich) was used for Coq2.
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6

Western Blot Analysis of EMT Markers

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Total protein was harvested from cells using cell lysis buffer (50 mM Tris-HCl (pH 8.0), 4 M urea, and 1% Triton X-100) supplemented with protease inhibitors. To determine the concentration of cell lysates, the BCA kit (KeyGEN BioTECH, Cat. No: KGP902) was employed. Subsequently, proteins of varying molecular weights were separated through SDS-PAGE and transferred onto a nitrocellulose membrane. Subsequently, the membrane was blocked with 5% skim milk for 2 h and then incubated with primary antibodies overnight at 4 ℃, followed by secondary antibodies for 1 h. The following antibodies were used: anti-ETS1 (Beyotime, Cat. No: AF6812, 1:1,000), anti-E-Cad (ABclonal, Cat. No: A20798, 1:2,000), anti-Vimentin (Proteintech, Cat. No: 10366-1-AP, 1:2,000), anti-Snail1 (Proteintech, Cat. No: 13099-1-AP, 1:1,000), anti-SIRT3 (Santa Cruz, Cat. No: sc-365,175, 1:200), anti-H3K27cr (PTM BIO, Cat. No: PTM-545RM, 1: 1,000), anti-GAPDH (Proteintech, Cat. No: 60004-1-Ig, 1:10,000), anti-H3 (Proteintech, Cat. No: 17168-1-AP, 1:10,000), anti-rabbit IgG (SAB, Cat. No: L3012, 1:10,000), and anti-mouse IgG (SAB, Cat. No: L3032, 1:10,000). The intensity of bands was scanned and then measured using Image J software.
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7

Cardiac Fibroblast Protein Analysis

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Protein samples extracted from cardiac fibroblasts or the left ventricular myocardium were separated by 10% or 6% sodium dodecyl sulfate- (SDS-) polyacrylamide gel electrophoresis (PAGE). Then, the proteins in the gel were transferred onto membranes of polyvinylidene fluoride (PVDF) (Millipore, Billerica, MA, USA). After the membranes were blocked with 5% nonfat milk at room temperature for 2 h, the membranes with proteins were incubated overnight with an appropriate primary antibody for anti-SIRT3 (1 : 1000; Santa Cruz Biotechnology, St. Louis, MO, USA), anti-α-SMA, collagen I, collagen III (1 : 1000; Bioss, Beijing, China), anti-DRP1 (1 : 1000; Cell Signaling Technology, USA), anti-β-tubulin (1 : 3000; CMCTAG, Milwaukee, WI, USA), and anti-GAPDH (1 : 7000; Sigma-Aldrich, St. Louis, MO, USA) at 4°C. Next, membranes were incubated with horseradish peroxidase- (HRP-) labeled IgG at room temperature for 2 h. Enhanced chemiluminescence (ECL, Thermo Fisher Scientific Inc., Rockford, IL, USA) was dropped to visualize the protein blots.
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8

Western Blot Analysis of SIRT3 and SOD2

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Protein samples were separated with sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) and transferred to polyvinylidene difluoride (PVDF) membrane (Millipore, Billerica, MA, USA). After blocking, the primary antibodies were incubated overnight at 37 °C followed by HRP-conjugated secondary antibodies incubation for 2 h. The primary antibodies used were listed as follows: anti-SIRT3 (1:1000, Santa Cruz Biotechnology Inc., San Diego, CA, USA), anti-SOD2 (1:1000, Abcam, Cambridge, UK), and anti-β-tubulin (1:3000, Bioworld Technology, St. Louis, MO, USA). Protein bands were visualized with enhanced chemiluminescence (ECL) (Thermo Fisher Scientific Inc., Rockford, IL, USA). The target protein expression level was normalized to the level of β-tubulin.
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9

Western Blotting Analysis of Cellular Proteins

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Western blotting was performed as previously described (6) . Total cell lysates were prepared in RIPA lysis buffer plus protease inhibitors cocktail (Sigma Aldrich) and phosphatase inhibitors (Sigma Aldrich). Nuclear fractions were obtained by using NE-PER nuclear and cytoplasmic extraction kit and following manufacturer's instructions. Samples were resolved by SDS-PAGE on precast gels (12%, 4-12%) and transferred to nitrocellulose membranes (Bio-Rad Laboratories), which were then immunoblotted. The following primary antibodies were used: custom anti-Lonp1 (Primm), anti-Lamin B1 (Santa Cruz Biotechnology), anti-b-actin (Abcam), anti-TOM20 (Santa Cruz Biotechnology), anti-SIRT3 (Santa Cruz Biotechnology), anti-GFP (Abcam), anti-HSF1 (Abcam). The following secondary antibodies were used: HRP-conjugated goat anti-rabbit and HRP-conjugated goat anti-mouse (Bio-Rad Laboratories). Enhanced Clarity chemiluminescent substrate (Bio-Rad laboratories) was used to detect proteins by using a Chemidoc MP (Bio-Rad Laboratories). Image analysis was performed by Image Lab software v5.2.1.
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