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Sds page gel

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SDS-PAGE gels are laboratory equipment used for separating and analyzing proteins based on their molecular weight. They provide a reliable and standardized method for protein electrophoresis, allowing for the separation and visualization of complex protein mixtures.

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753 protocols using sds page gel

1

SDS-PAGE Analysis of EV Proteins

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SDS-PAGE analysis of the EV proteins was performed by SDS-PAGE gel (Bio-Rad, Berkeley, CA) followed with silver staining using a ProteoSilver Plus Silver Stain Kit (Sigma). For EV fractions with different elution times, 6 and 14 min, respectively, the EV proteins derived from 40 μL of serum were loaded onto the gel, with 0.05 μg of BSA standard protein (Abcam, Cambridge, MA) employed as a reference. For the concentrates filtered by the three Amicon RC centrifugal filters (MWCO 10/50/100 kDa), the EV proteins from the same amount of 10 μg of EV standard were loaded onto the gel, with BSA again employed as a reference.
EV proteins (~5 μg) were separated by SDS-PAGE gel (Bio-Rad) and transferred to a PVDF membrane (Bio-Rad). The PVDF membranes were blocked for 1 h at room temperature in PBST containing 5% milk and incubated overnight at 4°C with the following primary antibodies in PBST containing 2% BSA: mouse anti-human CD9 monoclonal antibody (1:1000) (ab254175, Abcam, Cambridge, UK) and mouse anti-human CD63 monoclonal antibody (1:1000)(ab1318, Abcam). After incubation with appropriate HRP-conjugated secondary antibodies (1:3000) in PBST containing 2.5% milk, blots were performed using Super signal Chemiluminescence Reagent (Thermo Scientific, Rockford, IL).
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2

Western Blot Analysis of Extracellular Vesicles and Brain Tissue

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For EV samples, after being lysed with TENT buffer, the equivalent amount of protein was loaded on 4–20% SDS-PAGE gels (Bio-Rad). For mouse brain tissue samples, homogenates of hippocampus from each experimental group and an equal proportion of corresponding homogenates, S1, S1p and P2, were loaded on 10% SDS-PAGE gels (Bio-Rad) and electrotransferred to 0.45 μm nitrocellulose membranes (Bio-Rad). For dot blotting, an equal volume of EV samples were dotted onto 0.45 μm nitrocellulose membranes (Bio-Rad) and washed twice with TBS buffer. The membranes were then blocked in freshly prepared 5% BSA diluted in TBS before being immunoblotted with specific primary antibodies (Supplementary Table 1). The membrane was further incubated with HRP-labelled secondary antibodies (Santa Cruz Biotech) and scanned using the C300 digital chemiluminescent imager (Azure Biosystems). The band densities were digitally measured using ImageJ (NIH).
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3

Quantification of Phosphorylated Signaling Proteins

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Cells were harvested 24 hrs after seeding on PUR substrates in a radioimmunoprecipitation buffer containing a cocktail of protease and phosphatase inhibitors (Pierce). Equal protein concentrations were prepared for loading with NuPAGE sample buffer (Life Technologies) and separated on a 10% SDS-PAGE gel (BioRad). Proteins were transferred to a PVDF membrane and blocked with 5% BSA in TBS containing 0.1% Tween-20 for 1h at room temperature, followed by incubation with either phospho-p38MAPK (1:1000, Cell Signalling), p38MAPK (1:1000, Cell Signalling), phospho-Smad2/3 (1:1000, Cell Signalling) or Smad2/3 (1:1000, Cell Signalling) antibodies overnight at 4°C. After washing, membranes were blotted with anti-rabbit IgG (1:2000, SantaCruz), and bands were detected by enhanced chemiluminescence using an In-Vivo MS FX Pro (Bruker). Membranes were then stripped and reprobed using an antibody for β-actin (1:5000, Sigma) as a loading control. Phosphorylated events were quantified by normalizing the band intensity of phosphorylated protein to total protein. Analysis was performed using Image J software.
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4

Quantification of LAT2 Protein Expression

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20 µg of total protein was loaded onto a 10% SDS-PAGE gel (Cat: #1610158, Bio-Rad, USA) and blotted to Nitro cellulose membranes (Cat: 88018, Thermo Fisher Scientific, the Netherlands) followed by incubation with block buffer (Cat: P/N 927-40000, Licor, Bioscience, USA). Protein levels were assessed by immunoblotting using specific antibodies against LAT2 (Cat: 11986S, Cell Signaling Technology, Leiden, the Netherlands, 1:1000), and β-actin (Cat: ab8229, Abcam, Cambridge, UK, 1:500) as a loading control, followed by incubation with secondary antibodies (IRdye 680 CW, Cat: P/N 925-68071, P/N 925-68074; IRDye 800 CW, Cat: P/N 925-32211, P/N 925-32214, Licor Bioscience, USA) and detection of signals using the Odyssey imaging system (Licor Bioscience, USA).
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5

Western Blot Analysis of TREM-1 in Lung Tissue

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The lung tissues were homogenized, separated on 10% SDS-PAGE gel (Bio-Rad, USA), then transferred onto a PVDF membrane using the semi-dry method20 (link)21 (link)22 (link). After blocking, membranes were incubated with mouse anti-TREM-1 antibodies (R&D Systems, USA) overnight. Horseradish peroxidase-conjugated secondary antibodies (Santa Cruz, USA) were applied and enhanced chemiluminescence to detect protein content. Images were collected using a FluorChemQ system (Alpha Innotech Corporation, USA).
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6

Synthesis and Conjugation of TAZ Peptide

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A 21 amino acid peptide PESFFKEPDSGSHSRQSSTDS of a region near the N terminal of TAZ protein was designed and synthesized. The immune grade peptide (China Peptides. Co. Ltd) was conjugated with the carrier protein keyhole limpet hemocyanin (KLH, Sigma) through glutaraldehyde linker as described previously. The same procedure was performed for conjugation of synthetic peptide and Bovine Serum Albumin (BSA) as a control. To examine the efficiency of conjugation, 10 μg TAZ-BSA were run on a 10% SDS-PAGE gel (Bio-Rad). The gel was stained with Coomassie Blue (Sigma). The change in mobility of conjugated BSA and appearance of the smear verified the efficiency of conjugation.
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7

NF-κB and NLRP3 Inflammasome Activation Assay

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Adherent cells were harvested and lysed in lysis buffer (50 mM Tris-HCl, 150 mM NaCl, 1% Non-idet P-40, 0.1% SDS, 0.5% sodium deoxycholate, and 1 mM phenylmethysulfonyl fluoride). For detection of the protein concentration, a Bio-Rad protein assay kit was used, with bovine serum albumin acting as a reference. 10% SDS-PAGE gel (Bio-Rad) were used to separate the protein sample containing 10 μg of protein, and then it was electrophoretically transferred onto the PVDF membrane (0.45 μm thick). After blocking with 5% non-fat milk, membranes were incubated with primary antibodies including anti-phospho-NF-κB, anti-NF-κB, anti-NLRP3, anti-caspase-1, anti-IL-1β, anti-GAPDH mAb, followed by incubation with a horseradish peroxidase-conjugated secondary antibody and visualized using a Bio-Rad Chemi Doc XRS Imaging System with an XRS camera (Bio-Rad, Hercules, CA, United States).
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8

Investigating TGF-βRII Protein Interactions

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To investigate association of membrane proteins, cells were lysed using a 1% Nonidet-P40 buffer containing a cocktail of protease and phosphatase inhibitors (Pierce). 400μg total protein lysate per tube was incubated overnight at 4°C under gentle end-over-end mixing with anti-TGF-βRII (1 μg, Santa Cruz). Subsequently, the immune complex was captured with protein A/G agarose resin, thoroughly washed with lysis buffer and eluted with non-reducing sample buffer. Proteins were then separated on a 10% SDS-PAGE gel (BioRad) and transferred to a PVDF membrane. Following blocking with 5% milk in TBS with 0.1% Tween-20, membranes were incubated with anti-Iβ3 (Santa Cruz, 1:1000) or anti-TGF-β RII (Santa Cruz, 1:1000) at 4°C overnight. After washing, membranes were blotted with anti-rabbit or anti-mouse IgG (1:5000 Santa Cruz), and bands were detected by enhanced chemiluminescence using an In Vivo MS FX Pro (Bruker). The Iβ3 and TGF-βRII co-precipitation was quantified by normalizing the band intensity of Iβ3 pulled down with TGF-βRII to total protein (anti-TGF-βRII). Analysis was performed using Image J software.
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9

Protein Expression Analysis of miR-222 Overexpression

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Cells transfected with pre-miR-222 or pre-miR-NC for 48 hours were harvested and washed using ice cold PBS, centrifuged and the supernatant discarded. The pellet was solubilized in RIPA lysis buffer (Pierce) containing protease and phosphatase inhibitor mixture (Roche). Cell lysates were placed on ice for 30 minutes and centrifuged for 10 minutes at 12,000 rpm at 4°C. The protein concentration was measured using the Bio-Rad Protein Assay (Bio-Rad). Protein samples were mixed at 1:1 ratio with Laemmli denaturation buffer (Bio-Rad) and β-mercaptoethanol (Sigma Aldrich) at a final dilution of 1/40 and boiled for 10 minutes at 95°C. Approximately 25 μg of protein was loaded and fractionated using a 10% SDS-PAGE gel (Bio-Rad). The protein was transferred onto a nitrocellulose membrane (Bio-Rad) and immunoblotted with antibodies against cleaved PARP (Cell Signaling Technology) and β-actin (Sigma Aldrich) as a loading control. Secondary antibody was anti-mouse HRP-linked (Cell Signaling Technology). Visualization of the proteins was done using the ChemiDoc-It Imaging System (UVP).
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10

Measuring IRF8 Expression in Salivary Glands

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Western blots were performed to measure the relative protein expression of IRF8 (a critical regulatory factor for pro-inflammatory macrophage/microglia activation)15 (link),16 (link) in resected SG at the different time points post-bleomycin instillation. In preparation for Western blot, bilateral SGs were processed using a lysis buffer made from a 100:1 dilution of radioimmunoprecipitation (RIPA) buffer and a protease inhibitor cocktail (Sigma-Aldrich, Atlanta, GA, USA). This mixture was then homogenized, centrifuged and stored at −80°C until use. Protein concentration was measured by the BCA protein assay method using bovine serum albumin (BSA) as standard (Thermo Scientific). The proteins were loaded onto a 10% SDS-PAGE gel along with protein standards (Bio-Rad Laboratories) in a separate lane for electrophoresis and then transferred to polyvinylidene fluoride membrane. The membrane was probed with mouse antibodies against IRF8 (1:500, Santa Cruz Biotechnology) and GAPDH (1:1000, Santa Cruz Biotechnology) and secondary antibody of goat anti-mouse (1:5000, Pierce Chemical). The protein signals were detected by enhanced chemiluminescence reagent (Pierce Chemical) and analysed using UVP BioImaging Systems. The densitometric result of IRF8 was reported as the ratio to GAPDH and then finally normalized to age-matched sham rats.
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