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NuPAGE is a polyacrylamide gel electrophoresis (PAGE) system designed for the separation and analysis of proteins. It utilizes pre-cast, pre-formed gels that provide consistent, high-resolution protein separation. NuPAGE gels are available in various formats and pore sizes to accommodate a wide range of protein molecular weights.

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735 protocols using nupage

1

Sialidase Activity and Protein Separation

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Example 11

Purified bacteria sialidases (1 μg) were incubated with DFSA (0.1 mM) at room temperature for 1 h, and separated on 4-12% NuPAGE (Invitrogen). 5×105 influenza viruses were incubated with DFSA (0.1 mM) at room temperature for 1 h, and separated on 4-12% NuPAGE (Invitrogen). Sialidase transfectant 293T cells were lysed by different lysis buffers: pH4.5 (1% NP-40, 100 mM NaOAc, 150 mM NaCl, 3 mM KCl, pH 4.5, 1×EDTA-free protease inhibitor cocktail from Roche), pH 7.4 buffer (1% NP-40, 25 mM Tris, 150 mM NaCl, 3 mM KCl, pH 7.4, 1×EDTA-free protease inhibitor cocktail from Roche), and pH 9.0 buffer (1% NP-40, 25 mM Tris, 150 mM NaCl, 3 mM KCl, pH 9.0, 1×EDTA-free protease inhibitor cocktail from Roche). The lysates were collected and incubated with DFSA (0.1 mM) at 37° C. for 1 h. Following incubation, the samples were clarified, and protein concentrations were determined by bicinchoninic acid protein assay kit (Pierce). For each sample, 20 μg total lysate was separated on 4-12% NuPAGE (Invitrogen). After electrophoresis, the gels were blotted onto PVDF membranes (Millipore). Click reactions were performed on the PVDF membranes, and labeling signals were processed and analyzed by chemiluminescence detector.

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2

Viral Capsid Protein Detection

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Western blot analysis was performed to detect viral capsid proteins. Samples were heat-denatured in LDS sample buffer and sample reducing agent (NuPAGE, Life Technologies) at 75 °C for 15 min. Denatured samples were loaded and separated via electrophoresis on a 4–12% Bis-Tris gel (NuPAGE, Life Technologies), transferred onto a nitrocellulose membrane, and probed sequentially with B1 primary antibody (American Research Products) followed by horseradish peroxidase conjugated antimouse secondary antibody (American Research Products). Lumi-Light Western Blotting Substrate (Roche Applied Science) was then added to the nitrocellulose membrane and imaged with Fuji Las-4000.
Silver stain analysis was also conducted to detect viral capsid proteins as well as capsid proteolytic fragments. Viral samples were denatured in LDS and separated via electrophoresis on a 4–12% Bis-Tris gel (NuPAGE, Life Technologies). Viral capsid proteins and proteolytic fragments were detected with a silver stain kit according to manufacturer’s protocol (Life Technologies, Carlsbad, CA).
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3

Western Blot of Mouse Gastric Corpus

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Mouse gastric corpus tissue was snap-frozen in liquid nitrogen and stored at –80°C until further use. Tissue was thawed in RIPA buffer containing protease inhibitor cocktail on ice, then sonicated 3 times on ice. Lysates were centrifuged at 21,130g for 30 minutes at 4°C, and the protein concentrations from the supernatants were determined using the BCA Protein Assay Kit (Pierce). Lysates were diluted in NuPAGE (Thermo Fisher Scientific) loading buffer and NuPAGE sample reducing agent, then loaded onto NuPAGE 12% Bis-Tris gels. Gels were transferred to 0.45 μm nitrocellulose membranes (MilliporeSigma). Membranes were blocked in Tris-buffered saline with 0.1% Tween-20 containing 5% nonfat milk prior to probing with the appropriate antibodies. Blots were developed using SuperSignal West Pico chemiluminescent substrate (Thermo Fisher Scientific). Information related to the antibodies used for Western blotting, including supplier and catalog numbers, is provided in Table 4. See complete unedited blots in the supplemental material.
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4

Western Blot Analysis of ApoB100

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After the addition of LDS Sample buffer and reducing agent (Nupage, Invitrogen, France) to GC samples and incubation at 95 °C for 10 min, each sample (containing 30 μg of total protein per well) was applied onto 4-12 % polyacrylamide gradient gels (Nupage, Invitrogen, France) inserted in a X-Cell SureLock system (Invitrogen, France) and then blotted to nitrocellulose membranes (Protan, Schleicher and Schuell, Dassel, Germany). The membrane was saturated during one hour with Phosphate Buffered Saline (PBS), 0.1 % Tween (PBS-T 0.1 %) and 5 % low-fat dried milk. An incubation was performed overnight at 4 °C, with a rabbit polyclonal human anti-ApoB100 antibody (H-300) (1:1000, sc- 25542, Biotechnology, Santa Cruz, USA), in PBS-T 0.1 %. Then, the membrane was incubated for one hour with an anti-rabbit HRP antibody (Biotechnology, Santa Cruz, USA) diluted in PBS-T 0.1 % (1:5000). APOB was detected using Supersignal West Pico Trial kit (Thermoscientific, Rockford, USA) and ChemiDocTM XRS Embellish-Images LabTM 2.0 Software system (Bio-Rad).
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5

Western Blot Analysis of Protein Signaling

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Protein concentrations in cell lysates were measured by use of the Bicinchoninic Acid Protein Assay kit (Pierce, Rockford, IL, USA), according to the manufacturer's protocol. Proteins were separated on SDS-PAGE, 4–12% Bis-Tris gels (NuPAGE; Invitrogen), and transferred to polyvinylidene difluoride membranes (NuPAGE; Invitrogen), which were blocked with 5% BSA and incubated with anti-pStat3-Y705 (ab76315; Abcam, Cambridge, United Kingdom), anti-Stat3 (#4904; Cell Signaling, Danvers, MA), anti-Bcl-6 (sc858; Santa Cruz Biotechnology, Santa Cruz, CA), or rabbit antiactin antibodies (A2066; Sigma-Aldrich) at 4°C overnight. Detection was performed with peroxidase-conjugated anti-rabbit secondary antibody (NA934VS; GE Healthcare Life Sciences, Pittsburgh, PA, USA) and Amersham ECL Select substrate (GE Healthcare Life Sciences). Chemiluminescent signals were visualized and quantified by the ChemiDoc equipment and Quantity One software (Bio-Rad Laboratories, Hercules, CA, USA).
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6

Western Blot Analysis of KAP1 and KZNF

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Human ESC (H9) and ZNF-transfected mouse transchromosomic ES and HEK cells were lysed in 50 mM Tris-HCl (pH 8.0); 150 mM NaCl; 5 mM MgCl; 0.5 mM EDTA; 0.2% NP-40; 5% glycerol; 0.5 mM DTT and Complete protease inhibitor cocktail (Roche) and centrifuged at max speed for 10 minutes at 4C to remove debris. Cleared lysates were subjected to SDS-PAGE on Nupage (Invitrogen) 4–12% protein gels for SDS-PAGE and transferred to nitrocellulose as described in the Nupage manual. Blots were incubated overnight in 5% non-fat dried milk in PBS-T and incubated with 1:1000 anti-KAP1 antibody (ab10484), 1:1000 anti-KZNF antibody (ab104878) or 1:1000 anti-HA (ab9110) antibody in PBS for 3 hours and Goat-anti-rabbit-HRP secondary antibody for 30 minutes at room temperature (RT). Blots were incubated with SuperSignal West Dura Extended Duration Substrate (Thermo Scientific) and visualized on a Biorad Chemidoc MP system.
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7

Protein Visualization by SDS-PAGE Electrophoresis

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Samples were visualized by gel electrophoresis of SDS-treated samples. Approximately 1 µg of protein per lane diluted in Novex sample buffer was loaded on a Novex 4–12% Bis-Tris gel (Invitrogen, The Netherlands) in MOPS running buffer (Invitrogen, The Netherlands) following the manufacturer protocol. In addition, electrophoresis was performed on NuPAGE® (Invitrogen, Carlsbad, CA, USA) systems according to the instructions of the manufacturer using 4–12% NuPAGE® gels under nonreducing conditions. Gels were developed with a coomassie staining protocol.
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8

Quantifying Tight Junction Proteins in BREC

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Total protein content of confluent BREC monolayers was quantified by Western immunoblotting. BREC were harvested in a detergent-based extraction buffer. After the determination of total protein concentrations using DC protein assay kit (Bio-Rad), fifty micrograms protein was diluted in LDS sample buffer and was loaded on 4%–12% Bis-Tris 1.5-mm, 10-well gels (NuPAGE, Invitrogen). The gels were run according to NuPAGE protocols using MOPS SDS running buffer (Invitrogen), transferred to MSI nitrocellulose (Fisher Scientific, Pittsburgh, PA), blocked in 2% ECL Advance blocking reagent (Invitrogen) in 0.5% TBS-T, and immunoblotted with: polyclonal rabbit α-Claudin-5 (Invitrogen; 1:1000), polyclonal rabbit α-Occludin (Invitrogen; 1:1000), monoclonal rat α-ZO-1 (Millipore; 1:1000), or monoclonal mouse α-β-Actin (Cell Signaling; 1:5000). Primary antibodies were detected with horseradish peroxidase-conjugated α-mouse, α-rabbit or α-rat IgG and chemiluminescence (ECL Plus; GE Healthcare, Buckingham-shire, England). Images were acquired with FluorChem™ E chemiluminescent detector (Protein Simple, San Jose, CA) and the intensity of each band was analyzed using ImageJ 1.46r (National Institutes of Health, USA) software.
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9

TCA Precipitation for Protein Extraction

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For TCA (trichloroacetic acid) precipitation, 10 mL of S. pombe cell culture (containing ∼1 × 108 cells) was mixed with 1/4 volume (2.5 mL) of ice-cold 100% TCA. The resulting mixture was centrifuged, and pellets were washed with 10% TCA, followed by cell disruption with glass beads in 10% TCA. After centrifugation at 8000 rpm for 10 min at 4°, washed precipitates were resuspended in SDS sample buffer containing 1 mM phenylmethyl-sulfonyl fluoride (PMSF) and boiled at 70° for 10 min. After centrifugation at 14,000 rpm for 10 min, supernatants were loaded for SDS-PAGE. Antibodies against FLAG (Sigma), Mis17 (Shiroiwa et al. 2011 (link)), tubulin (TAT1; a gift from Dr. Keith Gull, University of Oxford, UK) and Cdc2 (PSTAIR; a gift from Dr. Yoshitaka Nagahama, National Institute for Basic Biology, Okazaki, Japan) were employed as primary antibodies. Custom-made 3–8% gradient Tris-Acetate gels (NuPAGE, Invitrogen) were used for Mis17, while NuPAGE 12% Bis-Tris gels were run using NuPAGE MES SDS Running Buffer for Cnp1. An LAS3000 (Fuji Film) was used for signal detection.
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10

Quantitative Western Blot Protein Analysis

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Proteins (18 μl sample per lane) were separated by SDS-PAGE (NuPAGE® 4–12% Bis-Tris gel; NuPAGE® 3–8% for the collagens; Invitrogen) and Western blotting was performed by transferring the proteins semi-dry to nitrocellulose on a Novablot electrophoretic transfer apparatus, according to the protocol of the manufacturer (Invitrogen). After blocking with PBS/5% skim milk powder/0.1% Tween-20 for a minimum of 10 min, the blots were incubated overnight with appropriate dilutions of polyclonal rabbit antisera in 12.5 ml of PBS/0.1% Tween-20/0.5% skim milk powder. After washing 5 times (PBS/0.1% Tween-20), blots were incubated (4 h) with IRDye800CW-labeled goat anti-rabbit IgG (Licor Biotechnology, NE, USA) and subsequently washed as before. The IRDye800-labeled proteins were detected by infrared scanning using Odyssey V3.0 scanning software (Westburg, Leusden, The Netherlands).
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