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13 protocols using horseradish peroxidase linked secondary antibody

1

Western Blot Analysis of Spinal Dorsal Horn Proteins

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Frozen tissues from the spinal dorsal horn were lysed and protein concentration was determined. Proteins were separated by using 10% SDS-PAGE and blotted onto PVDF membranes. Membranes were blocked with 5% milk for 1 h at 25° (± 2°) C and then incubated with primary antibodies at 4 °C overnight. Secondary antibodies against DHAC2 and Actin were used. The membranes were then incubated with horseradish peroxidase-linked secondary antibodies (Amersham) for 1 h at 25° (± 2°) C, and chemiluminescent detection was then performed.
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2

Cell Fractionation and Western Blot Analysis

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Cells were harvested, lysed, and processed for western blot analysis as described previously using 150mM NETN lysis buffer (20 mM Tris [pH 8.0], 150 mM NaCl, 1 mM EDTA, 0.5% NP-40, 1 mM phenylmethylsulfonyl fluoride, 10 mg/mL leupeptin, and 10 mg/mL aprotinin). For cell fractionation, we isolated cytoplasmic and soluble nuclear fractions with the NE-PER Kit (Thermo Scientific) according to the manufacturer’s protocol; to isolate the chromatin fraction, the insoluble pellet was resuspended in RIPA buffer and sonicated in a BioRuptor according to the manufacturer’s protocol (high power, 15 min, 30 s on and 30 s off at 4°C). Proteins were separated using SDSPAGE and electrotransferred to nitrocellulose membranes. Membranes were blocked in 5% milk PBS-Tween and incubated with primary antibody for 1 hr. Abs for western blot analysis included anti-PCNA (Abcam), anti-H2B (Cell Signaling Technology), anti-β-actin (Sigma), anti-FANCJ (E67), anti-HLTF (Abcam), anti-SMARCA1 (Abcam), and anti-HLTF (Santa Cruz Biotechnology). Membranes were washed, incubated with horseradish-peroxidase-linked secondary antibodies (Amersham), and detected by chemiluminescence (Amersham).
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3

Western Blot Analysis of BMP2 and ICAM1

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Western blotting was used to assess the expression BMP2 in human and mouse retinas and ICAM1 in BMP2-treated hRECs cell lysate from different experimental groups. Retinal samples were homogenized in a modified RIPA buffer (20mM Tris-HCl, 2.5 mM ethylenediaminetetraacetic acid, 50mM NaF, 10mM Na4P2O7, 1% Triton X-100, 0.1% sodium dodecyl sulfate, 1% sodium deoxycholate, 1 mM phenylmethylsulfonyl fluoride). Homogenates (30-50 μg protein) and cell lysates were separated by electrophoresis on a precast Tris-HCl 4-20% gradient gel, and transferred to nitrocellulose membrane. Retina homogenates were reacted with primary antibodies against BMP2 (1:200, (Santa Cruz Biotechnology, Dallas, Texas) and hRECs cell lysates were tested for ICAM-1 (1:250, (Santa Cruz Biotechnology, Dallas, Texas). Protein was detected by utilizing horseradish peroxidase-linked secondary antibodies and enhanced chemiluminescence (Amersham, Pittsburgh, PA). Membranes were stripped and re-probed for β-actin 1:2000 (Abcam, Cambridge, MA) to demonstrate equal loading and the results were quantified by densitometry analysis.
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4

Cell Fractionation and Western Blot Analysis

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Cells were harvested, lysed, and processed for western blot analysis as described previously using 150mM NETN lysis buffer (20 mM Tris [pH 8.0], 150 mM NaCl, 1 mM EDTA, 0.5% NP-40, 1 mM phenylmethylsulfonyl fluoride, 10 mg/mL leupeptin, and 10 mg/mL aprotinin). For cell fractionation, we isolated cytoplasmic and soluble nuclear fractions with the NE-PER Kit (Thermo Scientific) according to the manufacturer’s protocol; to isolate the chromatin fraction, the insoluble pellet was resuspended in RIPA buffer and sonicated in a BioRuptor according to the manufacturer’s protocol (high power, 15 min, 30 s on and 30 s off at 4°C). Proteins were separated using SDSPAGE and electrotransferred to nitrocellulose membranes. Membranes were blocked in 5% milk PBS-Tween and incubated with primary antibody for 1 hr. Abs for western blot analysis included anti-PCNA (Abcam), anti-H2B (Cell Signaling Technology), anti-β-actin (Sigma), anti-FANCJ (E67), anti-HLTF (Abcam), anti-SMARCA1 (Abcam), and anti-HLTF (Santa Cruz Biotechnology). Membranes were washed, incubated with horseradish-peroxidase-linked secondary antibodies (Amersham), and detected by chemiluminescence (Amersham).
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5

Western Blot Analysis of PAR in MC3T3-E1 Cells

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Western blotting was performed as described previously [25 (link)]. Briefly, whole-cell lysates from MC3T3-E1 cells were mixed with Laemmli’s buffer, separated by 5–20% SDS-polyacrylamide gel electrophoresis, and transferred onto PVDF membranes. The following primary antibodies were used: anti-PAR (Cell Signaling Technology, Danvers, MA, USA) and anti-β-actin (Sigma-Aldrich). Immune complexes were visualized using horseradish peroxidase-linked secondary antibodies (Cytiva, Tokyo, Japan). Protein bands were visualized with an enhanced chemiluminescence kit (Merck, Branchburg, NJ, USA). Image quantification was performed with Image J software (NIH, Rockville, MD, USA).
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6

Immunoblotting of TREM-1 and M-CSF in OIR

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Retina samples from OIR and RA control pups were homogenized in modified RIPA buffer (20 mM Tris-HCl, 2.5 mM EDTA, 50 mM NaF, 10 mM Na4P2O7, 1% Triton X-100, 0.1% sodium dodecyl sulfate, 1% sodium deoxycholate, 1 mM phenyl methyl sulfonyl fluoride, pH 7.4). Samples containing equal amounts of protein were separated by 12% sodium dodecyl sulfate polyacrylamide gel electrophoresis, transferred to nitrocellulose membrane, and reacted for 24 h with monoclonal rat anti-mouse TREM-1 or polyclonal rabbit M-CSF antibodies (Abcam, Cambridge, MA) in 5% milk, followed by incubation with corresponding horseradish peroxidase-linked secondary antibodies (GE Healthcare Bio-Science Corp., Piscataway, NJ). Bands were quantified by densitometry, and the data were analyzed using Image Studio Lite software and normalized to loading control. Equal loading was verified by stripping the membranes and reprobing them with a monoclonal antibody against β-actin (Sigma-Aldrich, St Louis, MO).
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7

Protein Expression Analysis in Cancer Cell Lines

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UN-ADC12, UN-ADC18, UN-SCC679, and UN-SCC680 cell lines were seeded at 300 000 cells per well in 6-well plates and allowed to attach overnight. Cells were treated with PBS, sunitinib (at concentrations ranging from 100 nM to 1 μM), DC101 (100 μg/ml), or rat IgG1 antibody (100 μg/ml) for 48 h. Cells were lysed and total proteins were extracted as previously described (Catena et al, 2010 (link)). Twenty μg of total protein from each lysate was boiled at 95°C for 5 min, separated by SDS–PAGE under reduced conditions (5% 2-mercaptoethanol), and transferred onto nitrocellulose membranes. The membranes were subsequently blocked in 5% defatted milk–PBS for 1 h and incubated overnight at 4°C with the following primary antibodies: anti-AKT (1:1000; 9272; Cell Signaling Technology, Beverly, MA, USA), anti-pAKT (1:1000; 9271; Cell Signaling Technology), anti-ERK (1:1000; 9102; Cell Signaling Technology), and anti-pERK (1:1000; 9101; Cell Signaling Technology). Blots were then incubated with a horseradish peroxidase-linked secondary antibody (1:2000; Amersham Pharmacia Biotech, Little Chalfont, UK) and developed by chemiluminescence with Lumilight plus kit (Roche diagnostics, Burgess Hill, UK).
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8

Western Blot Analysis of TRAP1 and Apoptosis

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Protein and total RNA were extracted using Paris kit (Ambion-Life Technologies Ltd, Paisley, UK) according to the manufacturer’s instructions. Thirty μg of total protein from each lysate were boiled at 95 ºC for 5 min, separated by SDS/PAGE under reduced conditions (5% 2-mercaptoethanol) and transferred onto a nitrocellulose membrane. The membranes were subsequently blocked in 5% defatted milk-PBS for 1 h and incubated overnight at 4ºC with a primary antibody anti TRAP1 (1:1000, Labvision) or anti β-actin (1:10000, Sigma, Dorset, UK). Blots were then incubated with a horseradish peroxidase-linked secondary antibody (1:5000; Amersham Pharmacia Biotech, Little Chalfont, UK) and developed by chemoluminiscence with Lumilight plus kit (Roche diagnostics, Burgess Hill, UK). Apoptosis detection by western blotting was performed as described before (27 (link)).
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9

Protein Immunoblotting and Fluorescence Visualization

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The homogenates were run on 4–20% SDS–acrylamide, and then electroblotted onto PVDF membrane (Hoefer Scientific Instruments, San Francisco, CA, USA) and immunostained with primary antibodies and horseradish peroxidase-linked secondary antibody (Amersham Biosciences, UK). The signal was detected by fluorescence using ECF substrate (Amersham Biosciences, UK). The fluorescence signals were visualized by a fluorescence digital camera detection system (Typhoon and Kodak scanner).
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10

Western Blot Analysis of Protein Samples

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Protein was resolved by SDS–PAGE and transferred to nitrocellulose membranes. Membranes were blocked with 5% bovine serum albumin (BSA) for 1 h at room temperature, incubated for 1 h with primary antibody (1:1000 final dilution in TBST [150 mM NaCl, 20 mM Tris-HCl, pH 7.5, 0.05% Tween 20]) and washed three times for 5 min each with TBST. The washed membranes were incubated with an appropriate secondary antibody for 1 h at room temperature. Membranes were then washed three times for 5 min each with TBS containing 0.2% Triton X-100, and immunocomplexes were detected by enhanced chemiluminescence (ECL; Amersham Biosciences) using an appropriate horseradish peroxidase–linked secondary antibody (Amersham Biosciences).
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