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67 protocols using ab62557

1

Western Blot Analysis of Apoptosis and Autophagy

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Protein samples were extracted from myocardial tissue and H9C2 cells. Protein concentrations were determined using the BCA method to ensure consistent loading of each sample. Proteins were separated using SDS-PAGE, and then transferred to 0.45-μm PVDF membranes. After blocking with skim milk for 1 hour, membranes were incubated with antibodies against Bcl-2 (ab32124), Bax (ab53154), p53 (ab32389), LC3B(ab63817), SQSTM1/62 (ab91526), ATG5 (ab53154), Beclin1 (ab62557), or β-actin (ab8226) (antibodies purchased from Abcam Biotechnology, USA) at 4 °C overnight. After labeling with secondary antibodies, the target protein was observed using enhanced chemical luminescence.
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2

Immunofluorescence Staining of Autophagy Markers

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Primary HESCs, human peritoneal macrophages, THP-1 cells, and HESCs after multiple treatments were fixed in ice-cold methanol for 15 min, washed three times with 4°C PBS, incubated for 15 min in 0.25% Triton X-100 diluted in PBS, immersed in PBS twice for 3 min, and blocked with 1% BSA in PBS for 30 min at about 26°C. The primary HESCs and HESCs were incubated with anti-Beclin1 (1:100; ab62557, Abcam), anti-LC3B (1:100; ab51520, Abcam), SQSTM1/p62 (1:500; ab109012, Abcam), and ULK1 (1:200; ab203207, Abcam). Human peritoneal macrophages and THP-1 cells were incubated with anti-MST1 (1:400; ab51134, Abcam) and anti-p38-MAPK (1:200; ab170099, Abcam). The incubation time of each antibody varied from 1 h to 24 h at 4°C. All antibodies were diluted in 1% BSA in PBS. After cells were immersed in PBS twice for 3 min, they were incubated with the anti-mouse/rabbit secondary antibody for 30 min at about 26°C. Anti-quench nuclear staining and mounting with DAPI (ab104139, Abcam, USA) were performed. Images were captured with a confocal microscope (LSM880 Airy, Zeiss) and processed with the Zen software (Zeiss).
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3

Western Blot Analysis of Nasal Tissues

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The nasal tissues in AR group and NR group were prepared into a homogenate and centrifuged at 2,000 r/min for 20min, and the supernatant was collected. The protein concentration was measured using BCA kit (Solarbio, Beijing, China), 40μl protein sample and 10% SDS gel buffer were mixed by 1:1 and heated 5min at 95°C for protein denaturation. Then, the mixture was transferred onto a polyvinylidene difluoride (PVDF) membrane at 80V (Merck, Darmstadt, Germany) for 30 min, and then the PVDF membrane was blocked with TBST solution containing 5% defatted milk powder at 4°C for 1h, added with rabbit anti-human FOS (1:1000, ab190289, Abcam), Bcl-2 (1:1000, ab196495, Abcam), Bax (1:1000, ab263897, Abcam), Beclin1 (1:1000, ab62557, Abcam), p62 (1:1000, ab155686, Abcam), and β-actin (1:2000, orb178392, Biorbyt, Cambridge, UK) polyclonal antibodies which were diluted with TBST solution containing 3% FBS protein, and then incubated overnight at 4°C. After re-warming, the PVDF membrane was incubated with horseradish peroxidase (HRP) labeled goat anti-rabbit IgG (1:1000, ABIN101988, antibodies-online, Aachen, Germany) for 1h, washed, and developed with ECL luminescent substrate for 3-5min. The protein expression level was normalized using β-actin, and the gray scan and quantification were performed with Image J(NIH) software.
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4

Protein Expression Analysis of H9C2 Cells

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H9C2 cells were lysed in ice–cold radioimmunoprecipitation assay lysis buffer, at 4 °C for 60 min and then the homogenate was incubated and centrifuged. The supernatant was collected, and the protein concentration was determined using the bicinchoninic acid protein assay kit according to the manufacturer’s protocol (Beyotime, Haimen, China). The supernatant was mixed with ×5 loading buffer and heated for 5 min at 100 °C, and then 30 micrograms of sample was subjected to electrophoresis using an SDS-PAGE gel system, transferred to a membrane and blocked at 37 °C for 2 h. Diluted primary antibodies to HIF-1α (1:200, abcam, ab1), BNIP3 (1:500, abcam, ab10433), and Beclin-1 (1:500, abcam, ab62557) were added, and the membrane was incubated overnight (4 °C). The membrane was washed with TBST solution and incubated with HRP-conjugated secondary antibody (1:10,000, sanggon, D110024) for 1 h at room temperature. Enhanced Chemiluminescence (ECL) was used for visualization and imaging. Gray value analysis of the target protein bands was performed using the Quantity One image analysis system.
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5

Immunohistochemical Analysis of Knee Chondrocytes

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Mouse knee joint sections were deparaffinized, washed, and incubated with primary antibody to LC3 (PM036; MBL; 1:1000), Beclin-1 (ab 62557; Abcam; 1:200) or cleaved caspase-3 (CC3) (#9664; Cell Signaling; 1:100), 1 h at room temperature. This was followed by the Dako REAL EnVision Detection System, Peroxidase/DAB + (K-5007, Dako). Finally, the slides were mounted with DePEX mounting medium (Leica Biosystem).
In both right and left mouse knee joints, three pictures of the center of medial femoral condyle and medial tibial plateau that is not covered by the menisci were taken using a microscope (LEICA ICC50W). The total number of chondrocytes and the number of positive cells for the corresponding antibody were counted in each section. The values are expressed as % of positive cells vs total number of chondrocytes44 (link).
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6

Quantifying Hepatic Autophagy Markers

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Five-µm-thick sections of the formalin-fixed paraffin-embedded hepatic tissues were stained for Beclin-1 and LC3-II. Heat-mediated antigen retrieval was performed using citrate buffer, pH 6.0, and microwaved for 20 min. The sections were then incubated with the rabbit polyclonal anti-Beclin-1 primary antibody (ab62557) (Abcam, Cambridge, UK) at 1 µg/mL dilution and the rabbit monoclonal recombinant anti-LC3B primary antibody [EPR18709] (ab221794) (Abcam, Cambridge, UK) at 0.1 μg/mL dilution following the avidin-biotin-peroxidase complex technique [52 (link)]. The substance 3,3′-Diaminobenzidine was used as chromogen and hematoxylin as counterstain. Image J’s color deconvolution plugins were then used to quantify the immunoexpression of Beclin-1 and LC3-II in liver tissues in ten high-power microscopic fields per marker per rat [53 (link)].
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7

Western Blot Analysis of Autophagy Markers

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Proteins were extracted from OS tissues or cells using Tissue Extracts & Cell Lysates (Santa Cruz, San Diego, CA, USA), and 50 µg proteins were applied to carry out the sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) for 90 min. After proteins were transferred onto the UltraCruz Nitrocellulose Pure Transfer Membranes (Santa Cruz), TBS Blotto A (Santa Cruz) was exploited as a blocking reagent to prevent the binding of no-specific protein-binding signals. Then the membranes were incubated with primary antibodies in the diluted solution at 4°C overnight, followed by the combination of secondary antibody and primary antibodies at room temperature for 1 h to form the protein complex. The objective protein levels were analyzed by detecting the intensity of the immunoconjugated signals through Western Blotting Luminol Reagent (Santa Cruz) under the ImageLab software version 4.1 (Bio-Rad, Hercules, CA, USA). All the antibodies were bought from Abcam (Cambridge, UK): anti-Beclin-1 (ab62557, 1:1000), anti-light chain 3B (anti-LC3B; ab51520, 1:1000), anti-P62 (ab109012, 1:1000), anti-HDAC4 (ab12172, 1:1000), internal control anti-GAPDH (ab9485, 1:3000) and secondary antibody goat anti-rabbit IgG/HRP (ab205718, 1:5000).
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8

Sprague-Dawley Rat Model of Lung Injury

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Adult male Sprague-Dawley rats (180–220 g) were obtained from the Animal Center of the Air Force Military Medical University (Xi’an, China). Animal experiments were approved by the Animal Care and Use Committee of the Air Force Military Medical University and were performed in accordance with the Guide for the Care and Use of Laboratory Animals published by the National Institutes of Health (Publication No. 85-23, revised 1985). Anti-lysosomal-associated membrane protein 1 (LAMP1, ab24170), anti-Beclin (ab62557), anti-microtubule-associated protein light chain 3B (LC3B, ab63817), and anti-GAPDH (ab37168) antibodies were purchased from Abcam (Cambridge, UK). An anti-TFEB antibody (13372-1-AP) was purchased from Proteintech (Rosemont, IL, USA). Anti-SP-A (sc-13977) was purchased from Santa Cruz (Dallas, TX, USA). Enzyme-linked immunosorbent assay (ELISA) kits for IL-1, IL-6, and IL-10 were purchased from R&D Systems (Minneapolis, MN, USA). Nicotinamide adenine dinucleotide phosphate (NADPH) assay kits were purchased from Sigma Chemical Company (St. Louis, MO, USA). Cytochrome c (Cyt.c) assay (ELISA) kits were purchased from Solarbio Life Sciences (Beijing, China).
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9

Autophagy Pathway Protein Expression

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The expressions of ALKBH5, ATG7 (Autophagy related 7), ATG5(Autophagy related 5), Beclin1, ULK1 (Serine/Threonine-Protein Kinase ULK1), PI3KC3, p-MTOR (Mammalian target of rapamycin), and Actin proteins were analyzed by WB. The primary antibodies included monoclonal rabbit anti-ALKBH5 (Abcam, ab234528), rabbit monoclonal to ATG7 (Abcam, ab52472), rabbit monoclonal to ATG5 (Abcam, ab109490), rabbit polyclonal to Beclin1 (Abcam, ab62557), rabbit polyclonal to ULK1 (Abcam, ab203207), rabbit monoclonal to PI3KC3 (Abcam, ab40776), rabbit monoclonal to p-mTOR (Abcam, ab109268). Monoclonal mouse anti-β-actin (Abcam, ab8226) was used as an internal control to evaluate the band density on a gel imaging system.
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10

Western Blot Analysis of Autophagy and Apoptosis Markers

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GC tissues and cells were lysed in radioimmunoprecipitation assay buffer (Sangon). Next, 35 μg of proteins were loaded on 10% Bolt™ Bis-Tris precast polyacrylamide gels (Invitrogen) to perform electrophoresis for 120 min. Then the separated proteins on the gels were moved onto polyvinylidene fluoride membranes (Millipore) through an electrotransfer apparatus, and then the membranes were immersed in 5% skim milk (Sangon) to block the binding of nonspecific proteins. After incubation with primary antibodies for 4 h and secondary antibodies for 1 h at room temperature, the combined specific protein complex was detected using ECL substrate kit (Abcam, Cambridge, UK) and target protein levels were analyzed by the ImageLab software version 4.1 (Bio-Rad, Hercules, CA, USA). Our antibodies were all purchased from Abcam: anti-B-cell lymphoma-2 (anti-Bcl-2; ab185002, 1: 1000), Bcl-2-associated X (anti-Bax; ab32503, 1: 1000), anti-light chain 3B (anti-LC3B; ab51520, 1: 1000), anti-p62 (ab109012, 1: 1000), anti-Beclin-1 (ab62557, 1: 1000), anti-KAT6B (ab58823, 1: 1000), anti-GAPDH (ab9485, 1: 3000), and anti-rabbit immunoglobulin G/horseradish peroxidase secondary antibody (ab205718, 1: 5000).
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