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Iblot transfer system

Manufactured by Thermo Fisher Scientific
Sourced in United States, United Kingdom

The IBlot transfer system is a lab equipment product by Thermo Fisher Scientific designed for rapid and efficient protein transfer from SDS-PAGE gels to membranes. The core function of the IBlot transfer system is to facilitate the transfer of proteins from gels to membranes for further analysis and detection.

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106 protocols using iblot transfer system

1

Western Blot Analysis of STAT1 and Mx1

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Cell lysates were prepared using mammalian protein extraction reagent M-PER (Thermo Fisher Scientific, Waltham, MA) with Protease and Halt™ phosphatase inhibitor cocktails (Thermo Fisher Scientific) using an equal number of cells per sample. Samples were analyzed by SDS-PAGE using 10–20% Tris-Glycine gels (Thermo Fisher Scientific) under reducing conditions. As a molecular weight marker, protein ladder (cat# 7727S) from Cell Signaling Technology (Danvers, MA) was used. Nitrocellulose membranes and iBlot™ transfer system (Thermo Fisher Scientific) were used for Western Blot analysis. All other reagents for Western Blot analyses were purchased from Thermo Fisher Scientific. Membranes were blocked with nonfat dry milk (BIO-RAD, Hercules, CA) for 1 h followed by incubation with primary antibodies against STAT1, pSTAT1 (pY701, BD Transduction Lab, San Jose, CA), or Mx1 (gift from O. Haller, University of Freiburg, Freiburg, Germany) O/N at 4 °C. Secondary goat anti-mouse and anti-rabbit antibodies were purchased from Santa Cruz Biotechnology. SuperSignal West Femto Maximum Sensitivity Kit (Thermo Fisher Scientific) was used to develop membranes, and images were taken using LAS-3000 Imaging system (GE Healthcare Bio-Sciences, Pittsburgh, PA).
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2

Histone Modification Analysis in THP-1 Cells

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Human THP-1 leukemia cells were grown as previously described. Following treatment, cells (6 × 106) were then collected, pelleted, and snap frozen. Total histone extracts were prepared using a Histone Extraction Kit (Abcam #113476). Extracts (7µg) were separated on 4–12% Bis-Tris NuPAGE gels (Thermo Fisher) and transferred to nitrocellulose membranes using an iBlot transfer system (Thermo Fisher). Primary antibodies were diluted in TBST + 5% BSA and incubated overnight at 4 °C: mouse anti-H3K4me3 (Abcam #1012; 1:500), rabbit anti-H3K9me3 (Cell Signaling #13969; 1:1000) and rabbit anti-total H3 (Cell Signaling #4499; 1:2000). Membranes were washed 3 × 10 min with TBST and incubated with HRP-conjugated secondary antibodies (1:5000 in TBST + 1% BSA) for 1 hr at room temperature. SuperSignal West Dura chemiluminescence substrate (Thermo Fisher) was added and immunoblots were imaged using a BioRad ChemiDoc Imager. Densitometric analysis was performed using ImageJ. Additional details are described in supplemental methods.
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3

Protein Extraction and Western Blotting

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All lysates were prepared with denaturing lysis buffer (8 M Urea, 50 mM Tris pH 8.0). Total protein concentration was determined using the BCA Protein Assay kit (ThermoFisher). Samples were electrophoresed using Novex 4–20% Tris-Glycine gels (ThermoFisher) at 230 V for 40 min and then transferred onto a nitrocellulose membrane using the iBlot Transfer system (ThermoFisher). Membranes were blocked for 1 h with PBS containing 5% non-fat milk and 0.1% Tween 20, followed by two 5-min washes in PBS buffer containing 0.1% Tween 20. Membranes were incubated with primary antibodies (Supplementary Table 1) for 1 h, and secondary horse-radish peroxidase-conjugated antibody for another hour.
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4

Western Blot Analysis of T-Cell Signaling

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Cellular lysates were mixed with Laemmli sample buffer, heated at 95 °C for 10 minutes and separated on NuPAGE Bis-Tris gels by electrophoresis and transferred to nitrocellulose membranes using the iBlot transfer system (Thermo Scientific). Membranes were incubated in 3% fat-free dry milk for 1 hour at room temperature followed by overnight incubation with primary antibodies. Proteins were detected with Super Signal West Dura (Thermo Scientific #34075) using a Bio-Rad ChemiDoc MP imaging system. Immunoblots were quantified using ImageJ (NIH). Primary antibodies used were: pLck (Y394, R&D Systems), pZAP-70 (Y319), AP1, NFĸB and Lck from Cell Signaling, pLAT(Y226), total ZAP-70, and NFAT-1 from BD Biosciences, total LAT from Biolegend, beta-Actin from Sigma, CD3 (OKT3), and GAPDH from Thermo Fisher, CD28 from BD Biosciences and acetyl histone H3K9 and trimethyl histone H3K27 from Millipore.
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5

Protein Fractionation and Visualization

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IEF fractions were further resolved by molecular weight fractionation using conventional sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE). This two-step reduction in the complexity of the proteome by IEF and SDS-PAGE was important for the visualization of deiminated proteins by western blot analysis. Briefly, IEF samples were diluted in 4x reducing loading buffer (10% LDS, 10% glycerol, 0.4 M DTT, 250 mM Tris buffer, 20 μL bromphenol blue (10 mg/mL), pH 8.4), heated at 70°C (10 min), and then fractionated in NuPage 4–12% Bis-Tris gels (Novex, Thermo Fisher, Waltham, MA), using 1x MES (2-[N-morpholino] ethanesulfonic acid) running buffer (9.76 gm/L MES, 60.6 gm/L Tris Base, 0.3 gm/L disodium ethylenediaminetetraacetic acid (EDTA), and 1 gm/L SDS, pH 8). Proteins were transferred to nitrocellulose using an iBlot transfer system (Thermo Fisher, Waltham, MA).
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6

Detecting EV Proteins by Western Blot

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Protein from neurospheres and isolated EVs was extracted using 1xRIPA lysis buffer (EMD Millipore; Reference # 20–188), with addition of Halt protease & phosphatase inhibitor cocktail (Thermo Fisher Scientific; Product # 78442). Extracted protein concentration was determined using Pierce BCA protein assay kit (Thermo Fisher Scientific; Catalog # 23225). 25ug of protein was size-fractionated on a 4–12% Bis-Tris Gel, ran at 150V for 60 minutes, and blotted to a PVDF membrane using iBlot transfer system (Thermo Fisher Scientific; Catalog # IB301001). Subsequently, the membrane was blocked for one hour with 2.5% goat serum and 5% nonfat dry milk in Tris-buffered saline that contains 0.1% Tween-20 (TTBS), then incubated overnight with polyclonal rabbit anti-CD63 antibodies diluted 1:1000 (System Biosciences; Catalog # EXOAB-CD63A-1). CD63 is an established surface marker for EVs. The blot was washed and incubated with an HRP-conjugated goat anti-rabbit IgG (Invitrogen) at dilution 1:1000 for one hour, then developed using PerkinElmer Western Lightning Plus-ECL (PerkinElmer; Catalog # NEL103001EA) and visualized using a CCD camera (Fluorchem Q, Alpha Innotech).
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7

Isolation and Characterization of EBV gp350

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CHO cells were cultured and stably co-transfected with full-length pCAGGS-gp350/220 and pCI-puro vector containing a puromycin resistance gene. Forty-eight h post-transfection, DMEM media containing 10 μg/ml of puromycin was added to enrich for cells expressing gp350/220 protein. Puromycin-resistant clones were expanded, followed by flow cytometry sorting using m72A1 to a purity >90%. EBV gp350-positive CHO cells were harvested and lysed in radioimmunoprecipitation assay buffer (RIPA) followed by centrifugation at 15,000 g for 15 min on a benchtop centrifuge. The lysate was collected and heated at 95°C for 10 min in SDS sample buffer containing β-mercaptoethanol, then separated using SDS-PAGE. Proteins were transferred onto a nitrocellulose membrane using an iBlot™ Transfer System (Thermo Fisher Scientific) followed by incubation in blocking buffer (1% BSA; 20 mM Tris–HCl, pH 7.5; 137 mM NaCl; and 0.1%Tween-20 [TBST]) for 1 h. The blots were incubated in TBST containing purified anti-gp350 antibodies (1:50) overnight at 4°C. After three washes with TBST, the blots were incubated with HRP-conjugated goat anti-mouse (1:2,000) in TBST for 1 h. After three washes, the antibody-protein complexes were detected using Amersham ECL Prime Western Blotting Detection Reagent (GE Healthcare). All experiments were independently repeated three times.
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8

Western Blotting with ECL Detection

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Proteins separated by SDS-PAGE were transferred to nitrocellulose membrane using the iBLOT Transfer system (Thermo Fisher Scientific United Kingdom). Following blocking overnight at 4°C in 5% (w/v) dried milk, 0.05% (v/v) Tween20 in PBS (PBS-T), membranes were incubated with primary antibody for 1 hour at room temperature (RT) in 5% milk in PBS-T, followed by three 5-minute washes in PBS-T and a subsequent incubation with species-specific secondary antibody (goat-anti-rabbit/rat/mouse IgG-HRP, Invitrogen, United Kingdom 1:2,500) for 1 hour in 5% milk in PBS-T. After a final three 5-minute washes, the membrane was incubated with either 1 ml of Amersham ECL substrate western blotting detection reagent (GE Healthcare, Chalfont St Giles, United Kingdom lot # 9622301) or for higher sensitivity, BioRad Clarity Western ECL substrate (BioRad, Watford, United Kingdom Cat # 170–5060), used according to the manufacturers’ instructions. The signal was visualized on a BioRad ChemiDoc MP Imaging System.
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9

Protein Expression Analysis of Tumor Cells

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Tumors and cells were homogenized in ice-cold RIPA buffer supplemented with a complete mini protease inhibitor cocktail tablet (Roche) using Precellys Ceramic Kit tubes in the Precellys 24 homogenizing instrument (Thermo Fisher Scientific). Proteins from lysates were separated on NuPAGE Novex Bis-Tris 10% gels (Invitrogen). Gels were transferred onto PVDF membranes using the iBlot Transfer system (Thermo Fisher Scientific). Membranes were probed with antibodies specific for ZEB1, N-cadherin, vimentin, HMGA2 (all as mentioned previously), N-MYC (Cell Signaling Technology Cat# 84406, RRID:AB_2800038), HMGCS (A-6, Santa Cruz Biotechnology), SQLE, LDLR (Proteintech Cat# 12544–1-AP, RRID:AB_2195888 and Proteintech Cat# 10785–1-AP, RRID:AB_2281164), Cleaved caspase-3 and cleaved PARP-1 (Cell Signaling Technology Cat# 9661, RRID:AB_2341188 and Cell Signaling Technology Cat# 5625, RRID:AB_10699459), or β-actin (Sigma-Aldrich Cat# A5441, RRID:AB_476744).
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10

Immunoblotting of CLAMP and Actin

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Following 6 days of RNAi treatment, cells were scraped and 500μL was collected for immuno-blotting. To extract protein, cells were first pelleted at 5,000xg for 3 minutes at 4°C. Cell pellets were next washed in 100μL 1X phosphate buffered saline before a second centrifugation. The supernatant was removed and the cell pellets were resuspended in 40μL of lysis buffer (50mM Tris-HCl pH 6.8, 150mM NaCl, 0.5% SDS, and 0.5X protease inhibitors (Roche)). After a 5-minute incubation at room temperature, the lysates were vortexed briefly. The samples were then cleared by centrifugation at room temperature at 14,000xg for 10 minutes. The supernatant was transferred to a new tube and the protein abundance was quantified using a Qubit Fluorometer (ThermoFisher Scientific).
To immuno-blot, a total of 5μg of protein was loaded on a pre-cast Tris Glycine gel (ThermoFisher Scientific) and immobilized on PVDF membrane using the iBlot transfer system (ThermoFisher Scientific). CLAMP (1:1000, rabbit, SDIX) and Actin (1:400,000, mouse, Millipore) proteins were detected using the Western Breeze kit (ThermoFisher Scientific) following the manufacturer’s instructions.
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