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26 protocols using ecl plus reagent

1

Western Blot Analysis of Atxn3 in Mouse Retina

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Retina lysates from Atxn3+/+ and Atxn3−/− mice were obtained by homogenization and sonication in RIPA lysis buffer (50 mM Tris pH 7.5, 1 mM EDTA, 150 mM NaCl, 0.5% NP40, with protease inhibitors (Complete, Roche Diagnostics, Indianapolis, IN)). Proteins from Atxn3+/+ and Atxn3−/− mouse RPE were extracted following a previously described protocol (Wei et al., 2016 (link)). Proteins (30 μg) were resolved in 10%–12.5% SDS-PAGE gels, transferred onto PVDF membranes and blocked with 5%–10% non-fat milk in PBS-T for 1 h, followed by an overnight incubation at 4°C with primary antibodies and a peroxidase-conjugated anti-mouse or anti-rabbit secondary antibody (1:2000) for 1 h. Bands were visualized by treatment either with the ECL-plus reagent (Western Lightning®, PerkinElmer, Waltham, MA) and exposure to autoradiography films or with Lumi-Light Western Blotting Substrate (Roche Diagnostics, Indianapolis, IN) and chemiluminescence detection in a LAS-4000 mini Luminescence Image Analyzer (Fujifilm, Tokyo, Japan). Fiji software (Schindelin et al., 2012 (link)) was used to quantify protein band density and α-tubulin or GAPDH were used for normalization. Figure 4 shows representative western blots (n = 4). Uncropped blots are shown in Figure S5D.
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2

Tetravalent Peptide Library Screening

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Tetravalent peptide libraries were synthesized on a cellulose membrane, using a ResPep SL SPOT synthesizer (Intavis Bioanalytical Instruments AG, Kölln-reisiek, Schleswig-Holstein, Germany)56 (link). Fmoc-βAla-OH (Watanabe Chemical Industries, Hiroshima, Japan) was used in the first cycle, followed by aminohexanoic acid as a spacer. Fmoc-Lys(Fmoc)-OH (Watanabe Chemical Industries) was used in the next two cycles to create four branches in the peptide chain for subsequent motif synthesis. Membranes were blocked with 5% skim milk and blotted with biotinylated Aβ1–28 (10 µg/ml) (AnaSpec, Fremont, CA, USA). After extensive washing, the Aβ1–28 bound to each tetravalent peptide was detected with horseradish peroxidase (HRP)-labeled streptavidin (Agilent Technologies, Santa Clara, CA, USA) and Enhanced Chemiluminescence (ECL) Plus Reagent (PerkinElmer, Inc, Waltham, MA, USA). The intensity of each peptide spot was then quantified as a pixel value, using an ImageQuant LAS 500 CCD imager (GE Healthcare Life Sciences, Marlborough, MA, USA).
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3

Investigating Akt signaling inhibitors

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RPMI-1640 medium, fetal bovine serum (FBS), penicillin and streptomycin were purchased from Lonza Milano SRL (Milan, Italy). Torin-2, NVP-BGT226, MK-2206 and ZSTK474 were obtained from Selleck Chemicals (Houston, TX, USA). For cell viability determination, Cell Proliferation Kit I (MTT) was purchased from Roche Applied Science (Basel, Switzerland). Annexin V/7-ADD detection kit and cell cycle kits were from Merck-Millipore (Darmstadt, Germany). For Western blot, antibodies to total Akt-1, Ser473 p-Akt-1 and Thr308 p-Akt-1 were from Santa Cruz Biotechnology (Santa Cruz, CA, USA), while all the other antibodies were from Cell Signaling Technology (Danvers, MA, USA), including the rabbit secondary antibody. The mouse secondary antibody, z-VAD-fmk, 3-Methyladenine (3- MA), Bafilomycin A1, Ficoll-Paque Plus and phytohemagglutinin were purchased from Sigma Aldrich (Milan, Italy). Dynabeads T-cell separation kit was from Invitrogen life Technologies (Monza MB, Italy). Signals were detected using ECL Plus reagent from Perkin Elmer (Boston, MA, USA).
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4

HIF-1α Expression in PC12 Cells

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PC12 cells in RPMI 1640 media were plated at 5.5 × 105 cells/well density in 6-well plates and they were allowed to adhere for 24 h. Then the cells were treated with varying concentrations of D-607 for 1 h after which the media containing drug was removed followed by incubation in fresh RPMI media for another 24 h. Cells were washed twice in ice-cold PBS and lysed in RIPA buffer for 30 min at 4 °C. A total of 40 μg protein was separated on 8% SDS-polyacrylamide gels (SDS-PAGE) and transferred to the polyvinylidene difluoride (PVDF) membranes (Bio-Rad, Hercules, CA, USA). The membrane was blocked with 5% (w/v) nonfat dry milk in TBS-T for 1 h at room temperature. Afterwards, the blocked membrane was incubated overnight at 4 °C with anti-HIF-1 α antibody (Novus Biologicals, USA; catalog # NB100-105SS) at a dilution of 1:500 in 5% (w/v) nonfat dry milk in TBS-T. Blots were washed three times in TBS-T and incubated for 1 h at room temperature with HRP-conjugated anti-mouse secondary antibody (1:5,000) in 5% (w/v) nonfat dry milk in TBS-T. The image was visualized using ECL-Plus reagent (Perkin–Elmer, Waltham, MA, USA) and ImageQuant LAS 4000 imager (GE Healthcare Biosciences, Pittsburgh, PA, USA). Densitometric analysis was performed using ImageJ software.
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5

Cell Signaling Pathway Analysis

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RPMI-1640 and McCoy's 5A medium, fetal bovine serum (FBS), penicillin and streptomycin were purchased from Lonza Milano SRL (Milan, Italy). ZSTK474, BYL719, TGX221, AS605240, CAL101, IPI145, Imatinib, Nilotinib and GZD824 were obtained from Selleck Chemicals (Houston, TX, USA). For cell viability determination, CellTiter 96 Aqueous One Solution Cell Proliferation Assay (MTS) was purchased from Promega (Milan, Italy). Annexin V/7-ADD detection kit was from Merck-Millipore (Darmstadt, Germany). Western blot antibodies for total Akt-1, Ser473 p-Akt-1 and Thr308 p-Akt-1 were from Santa Cruz Biotechnology (Santa Cruz, CA, USA), while all the other antibodies were from Cell Signaling Technology (Danvers, MA, USA), including the rabbit secondary antibody. Chloroquine, the mouse secondary antibody and the monoclonal β-Actin antibody were purchased from Sigma Aldrich (Milan, Italy). Signals were detected using ECL Plus reagent from Perkin Elmer (Boston, MA, USA).
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6

Western Blot Analysis of Atxn3 in Mouse Retina

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Retina lysates from Atxn3+/+ and Atxn3−/− mice were obtained by homogenization and sonication in RIPA lysis buffer (50 mM Tris pH 7.5, 1 mM EDTA, 150 mM NaCl, 0.5% NP40, with protease inhibitors (Complete, Roche Diagnostics, Indianapolis, IN)). Proteins from Atxn3+/+ and Atxn3−/− mouse RPE were extracted following a previously described protocol (Wei et al., 2016 (link)). Proteins (30 μg) were resolved in 10%–12.5% SDS-PAGE gels, transferred onto PVDF membranes and blocked with 5%–10% non-fat milk in PBS-T for 1 h, followed by an overnight incubation at 4°C with primary antibodies and a peroxidase-conjugated anti-mouse or anti-rabbit secondary antibody (1:2000) for 1 h. Bands were visualized by treatment either with the ECL-plus reagent (Western Lightning®, PerkinElmer, Waltham, MA) and exposure to autoradiography films or with Lumi-Light Western Blotting Substrate (Roche Diagnostics, Indianapolis, IN) and chemiluminescence detection in a LAS-4000 mini Luminescence Image Analyzer (Fujifilm, Tokyo, Japan). Fiji software (Schindelin et al., 2012 (link)) was used to quantify protein band density and α-tubulin or GAPDH were used for normalization. Figure 4 shows representative western blots (n = 4). Uncropped blots are shown in Figure S5D.
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7

Chemerin-Induced ERK1/2 Phosphorylation Assay

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CHO-K1 and MEF cells stably expressing receptors of interest were starved for 12–18 h in serum-free medium prior to stimulation. Cells were stimulated with 300 nM chemerin for 2 minutes, then collected by centrifugation and heated to 100°C for 5 min in 2X Laemmli sample buffer. Whole cell lysates were resolved on 10% Tris/Tricine polyacrylamide gels and transferred to nitrocellulose membranes. Phosphorylated ERK1/2 and total ERK1/2 were detected by using rabbit polyclonal anti-phospho-ERK1/2 (Cell Signaling #4370, 1:1,000) and anti-ERK1/2 (Cell Signaling #4695S, 1:2,000) antibodies. Chemiluminescent detection was performed using ECL-Plus reagent (Perkin Elmer).
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8

Evaluating Therapeutic Potential of Autophagy Inhibition

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Dulbecco's modified Eagle's medium (DMEM), RPMI-1640 medium, fetal bovin serum (FBS), nonessential amino acids (NEAA), penicillin and streptomycin were from Lonza (Lonza Milano SRL, Milan, Italy). For cell viability determination, Cell Proliferation Kit I (MTT) was purchased from Roche Applied Science (Basel, Switzerland). Annexin V/7-AAD and cell cycle kits were from Merck-Millipore (Darmstadt, Germany). NVP-BGT226 and Z-VAD-FMK were provided by Selleck Chemicals (Houston, TX, USA). Antibodies to total Akt-1, Ser473 p-Akt-1 and VEGF were from Santa Cruz Biotechnology (Santa Cruz, CA, USA). HIF-1α antibody was provided by BD Biosciences Pharmigen, while all the other antibodies were from Cell Signaling Technology (Danvers, MA, USA), including the rabbit secondary antibody, SQSTM1/p62 (#5114) and Cleaved Caspase-7 (Asp198, #9491) antibodies. The mouse secondary antibody, 3-Methyladenine (3-MA), Chloroquine, 1,4-Diazabicyclo[2.2.2.]octane (DABCO) and 4′,6 diamidino-2-pheny-lindole (DAPI) were from Sigma Aldrich (Milan, Italy). Signals were detected with the ECL Plus reagent purchased from Perkin Elmer (Boston, MA, USA).
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9

Nrf2 Protein Isolation and Analysis

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The nuclear and cytoplasmic protein from the chondrocytes was isolated as recommended by the manufacturer using the extraction kits (Beyotime, Shanghai, China). The nuclear and cytoplasmic protein concentration was determined using an Enhanced BCA Protein Assay Kit. The total protein was resolved on sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and transferred onto the polyvinylidene difluoride (PVDF) membrane (BIO-RAD USA). After blocking with 5% nonfat milk for 2 h, the membrane was incubated with the Nrf2 primary antibody (1:1000) and HRP-conjugated secondary antibodies. ECL Plus reagent was used to expose the membrane in an enhanced chemiluminescence detection system (PerkinElmer, USA). Semi-quantitative analysis of band intensity was analyzed byAlphaEaseFC 4.0 software.
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10

Notch Signaling Pathway Regulation

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7WD10, 7WD10-NotchΔE, or 7WD10-Notch ∆E-St6gal1 cells were seeded in 24-well plates and cultured at 37 °C, in the presence or absence of the indicated concentrations of tetravalent or monomeric peptides. After 48 h incubation, culture medium and cells were recovered separately. Cells were lysed in lysis buffer, containing 2% sodium dodecyl sulfate (SDS), 80 mM Tris-HCl (pH 6.8), 7% glycerol, 250 mM dithiothreitol (DTT), and 0.025% phenol red. Proteins in culture medium and lysates were separated by tricine SDS-polyacrylamide gel (12% acrylamide) electrophoresis (SDS-PAGE) and transferred to nitrocellulose membranes (Wako Chemicals). To separate immature APP and mature APP, glycine SDS-PAGE (7% acrylamide) was used. After boiling in phosphate-buffered saline (PBS) for 5 min and then blocking with 5% skim milk, the membranes were immunoblotted with the indicated primary antibodies, followed by HRP-conjugated secondary antibodies. Protein bands were visualized using ECL Plus Reagent (PerkinElmer) and analyzed using an ImageQuant LAS 500 CCD imager (GE Healthcare Life Sciences). Total amounts of target proteins were measured using Image J software (National Institutes of Health; NIH), after normalization to β-actin as an internal control.
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