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15 protocols using polyclonal antibodies

1

Immunohistochemical Analysis of Murine Retinal GST3

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The enucleated mouse eyes were embedded whole in O.C.T. (Tissue Tek), frozen at −80°C, cryo-sectioned, and stored at −20°C. Retinal sections were fixed with 4% paraformaldehyde and processed using standard protocol for IHC by probing with polyclonal antibodies (Abcam, Inc.) against murine GST3/GST pi protein (murine homolog of GSTP1), followed by secondary antibodies coupled to Alexa 488 (Invitrogen) showing green fluorescence. DAPI was used to stain nuclei (blue). The immunostaining was detected using a confocal Leica TSP microscope.
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2

Serum A1AT Glycoprotein Analysis

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Pooled, HCC serum [11 (link)] was depleted of IgG using protein A/G coated agarose beads as described elsewhere [10 (link)] and serum incubated on 96-well plates coated with A1AT antibody for 2 hours at room temperature. Captured proteins were resolved via SDS-PAGE and either stained with colloidal Coomassie brilliant blue (Colloidal Blue Staining Kit, Thermo Fisher) or proteins transferred using western-blotting method to PVDF membranes for immunoblot analysis. Fucosylation was detected using biotin-conjugated Aleuria aurantia lectin (AAL). A1AT was detected using a polyclonal anti-A1AT (Sigma-Aldrich). IgM or IgG was detected using polyclonal antibodies (Abcam, Cambridge, MA). Bound AAL or antibody was visualized using IRDye®800-conjugated streptavidin or IRDye®700-conjugated anti-rabbit antibody.
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3

Serum Enzyme and Antioxidant Assessment

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Serum activity of enzymes creatine kinase (CK) and lactate dehydrogenase (LDH) was measured with commercial kits (Labtest, São Paulo, Brazil). Total reactive antioxidant potential (TRAP) was determined as described in the literature [37 (link)]. The assay is based on the employment of a peroxyl radical generator (2,2-azo-bis(2-amidinopropane); AAPH) mixed with luminol, and the scavenging activity of samples prevents luminol oxidation by AAPH. The synthetic antioxidant Trolox (Acros Organics BVBA, Geel, Belgium), a vitamin E analog, was applied as a positive control at a concentration of 100 µM [38 (link)]. The antioxidant capacity of samples was recorded through 60 min and results were calculated as area under the curve (AUC). Quantitative analysis of IL-1β and IL-10 was determined by indirect ELISA using polyclonal antibodies (Abcam, Cambridge, UK). TNF-α was quantified using an ELISA sandwich kit following the manufacturer’s instructions (R&D Systems, Inc., Minneapolis, MN, USA).
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4

Immunological Profiling of Host Tissues

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Specimens from host spleen, lung and colon were mechanically disrupted and homogenized using a handheld homogenizer (Omni International, Kennesaw, GA). Supernatants were collected for ELISA of tumor necrosis alpha (TNF-α), interferon gamma (IFN-γ), RANTES/CCL-5 and phosphorylated STAT 5A/B (eBioscience, San Diego, CA). Inducible nitric oxide synthase (iNOS) levels were detected using polyclonal antibodies (Abcam, Cambridge, UK) for western blotting. Total protein concentration in the supernantant was measured using Bradford’s reagent. Supernatants were then subjected to sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). Proteins were then transferred from the gel to nitrocellulose membranes and ECL reagent was used for visualization of the protein (GE Healthcare, Buckinghamshire, UK).
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5

Klotho and MnSOD Expression in Kidney

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The protein expression of Klotho and manganese superoxide dismutase (MnSOD) in kidney homogenates was determined by western blot analysis. The polyclonal antibodies for Klotho (1:1000) and MnSOD (1:50) were obtained from Abcam (Cambridge, MA) and Cell Signaling Technology (Danvers, MA). Kidney homogenates were separated by 10% sodium dodecyl sulfate-polyacrylamide gel electrophoresis, transferred to nitrocellulose membranes, and blocked overnight at 4°C in 5% bovine serum albumin. Immunodetection was performed by incubating the membranes with the primary antibodies diluted in blocking buffer for 1 h at room temperature. After washing, a chemiluminescent horseradish peroxidase substrate was diluted in blocking buffer and applied for 60 min. Band intensity was quantified with the Quantity One software (Bio-Rad, Hercules, CA), with β-Actin acting as the normalization protein (1:10,000; Sigma-Aldrich, St. Louis, MO).
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6

Immunodetection of Cellular Proteins

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Polyclonal antibodies against the housekeeping gene β-actin and GAPDH were purchased from Abcam and Santa Cruz Biotechnology, respectively. Histone H3 and phospho-ERK1/2 (Thr 202/Tyr 204) (20G11) were purchased from Cell Signaling Technology (Beverly, MA). Antibodies to the phosphorylated forms of cyclin E (sc-12917-R), CDK (sc-28435-R), CDK-2 (sc-101656), total form of cyclin E (sc-247), and viral protein ICP0 (sc-56985) were purchased from Santa Cruz Biotechnology (Santa Cruz, CA), Us11 antibody was kindly provided by Professor Bernard Roizman. ERK1/2 (137F5) was purchased from Cell Signaling Technology. Monoclonal antibody to FLAG FITC-conjugate was purchased from SIGMA. Secondary antibodies anti-rabbit and anti-mouse IgG conjugated to peroxidase were also from Santa Cruz Biotechnology. Protein bands were visualized using SuperSignal West Pico as a chemiluminescent substrate (Thermo Scientific, Rockford, IL).
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7

Protein Immunoblot Analysis Protocol

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Specific proteins or human serum[23 (link)] depleted as above were resolved via SDS-PAGE and either stained with colloidal Coomassie brilliant blue (Colloidal Blue Staining Kit, Thermo Fisher) or transferred PVDF membranes for immunoblot analysis. IgM, IgG, or kininogen was detected using polyclonal antibodies (Abcam, Cambridge, MA and AbBiotec, San Diego, CA, GenScript, Piscataway, NJ). Bound antibody was visualized using IRDye® 800-conjugated anti-mouse-800, IRDye®-conjugated anti-mouse-antibody, IRDye® 800-conjugated anti-goat antibody.
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8

Immunolocalization of Occludin and ZO-1

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Immunofluorescence was used to determine the localization of occludin and, zona occludens-1 (ZO-1) proteins. The intestinal section was washed with PBS, mounted in embedding medium, and stored at −80 °C until use. Frozen sections were cut at 10 μm and were mounted on the slides. The polyclonal antibodies against occludin and, ZO-1 (Abcam, Cambridge, UK) were incubated according to the manufacturer’s instructions. The sections were probed with their respective FITC-conjugated secondary IgG antibodies. The nuclei were counterstained with DAPI (4, 6-diamidino-2-phenylindole). Slides incubated without any primary antibody were using as negative controls. Confocal analysis was performed with a confocal scanning microscope (Leica Microsystems, Heidelberg GmbH, Mannheim, Germany).
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9

Immunohistochemical Analysis of Dystrophin and Sarcoglycan Proteins

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Histopathological studies were performed as before (33 (link), 34 (link)). Polyclonal antibodies against DMD (Abcam, Cambridge, UK) and SGCD (R214), and monoclonal antibodies against α-DG (IIH6), β-DG (AP83), SGCA (20A6), and SGCG (21B5) were used for immunohistochemistry.
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10

Quantification of VEGFA Protein Expression

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Cells were lysed in PhosphoSafe (MERCK Life Sciences, Billerica, MA, USA). Equal amounts of protein isolates were separated on SDS-PAGE and transferred to a nitrocellulose membrane (Bio-Rad, Hercules, CA, USA). For VEGFA protein expression, we used 1 mg/mL polyclonal antibodies (Abcam, Cambridge, UK). Vimentin (Sigma-Aldrich, Saint Louis, MS, USA) served as loading control. For visualization, we used horseradish peroxidase-coupled secondary antibodies (Abcam and Agilent) and the ECL Plus kit (GE Healthcare, Chalfont St. Giles, UK). iBright FL1000 (Thermo Fisher, Waltham, MS, USA) was used for processing and visualization. All western blots were repeated three times showing comparable results.
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