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19 protocols using image labtm software version 5

1

Pharmacological Modulation of Signaling Pathways

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All statistical calculations were performed using GraphPad Prism 5 (GraphPad, San Diego, CA, USA). Results from behavioral experiments were expressed as means ± SEM. Statistical analysis was performed by two-way ANOVA followed by the Bonferroni post-hoc test. For Western blot assay, optic density was measured using the Image LabTM Software version 5.2 from Bio-Rad (Hercules, CA, USA). Results were expressed as the ratio of the phosphorylated form to the total form of the tested proteins (pMOR/MOR and pNR1/NR1) related to the STZ-treated rats. Changes in the activity of PKA and PKC were presented as relative values compared to the STZ-treated rats. Statistical analyses were conducted using one-way ANOVA followed by Dunnett’s post-hoc test. Differences were considered significant at * p < 0.05, ** p < 0.01, and *** p < 0.001.
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2

Western Blot Analysis of Brain BDNF

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For Western blot analysis, brain cortexes were quickly collected and frozen in dry ice. Tissue samples were homogenized in RIPA buffer and quantified using the Bradford method, as previously described [14 (link)]. Equivalent amounts (50 μg) of protein were subjected to electrophoresis on BoltTM 4–12% Bis-Tris Plus gel (Life Technologies Corporation, Carlsbad, CA, USA, No. 04127) and transferred to a Hybond ECL nitrocellulose membrane (GE Healthcare Bio-Science, Piscataway, NJ, USA, No. 10600003). The membrane was cut above the 25 KDa and the 50 KDa band of the marker. The two lower parts of the membrane were separately incubated with an anti-BDNF and an anti-β-actin antibody, respectively, to avoid membrane stripping and reprobing (Figure S1). The primary and secondary antibodies used are listed in Table S2. Densitometric analysis of digitized Western blot images was performed using ChemiDoc XRS Imaging Systems and the Image LabTM Software version 5.2 (Bio-Rad, Hercules, CA, USA). This software creates automatic highlights of any saturated pixels in the Western blot images. Images acquired with exposition times that generated protein signals out of a linear range were not considered for quantification.
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3

Zymographic Analysis of MMP-2 and MMP-9

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The MMP-2 and MMP-9 levels in cell supernatants were detected by zymographic analysis as reported by Latronico et al. [52 (link)]. Briefly, 50 μL of supernatants, containing about 10 μg of total proteins, was precipitated with 1 mL of ice-cold acetone. After incubation for 1 h at −20 °C and centrifugation at 13,000× g at 4 °C, dry pellets were solubilized with 15 μL of Laemmli sample buffer without β-mercaptoethanol. Samples were run in a 7.5% polyacrylamide gel copolymerized with 0.1% (wt/v) gelatin. After the electrophoretic run at 120 V, gels were rinsed twice with 2.5% Triton X-100/10 mM CaCl2 in 50 mM Tris–HCl, pH 7.4 (washing buffer) and incubated for 24 h at 37 °C in 1% Triton X-100/50 mM Tris–HCl/10 mM CaCl2, pH 7.4 (incubation buffer). After staining and destaining of gels, MMP-2 and MMP-9 levels were visualized as a clear band of digestion on a blue background of the gel and were quantified by computerized densitometric image analysis using Image LabTM Software, Version 5.2 (Bio-Rad Laboratories, Hercules, CA, USA). Gelatinase levels were expressed as percentage of positive control (LPS-activated cells).
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4

One-Dimensional Protein Separation

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The extracted proteins (150 μg) of all 30 isolates along with low range pre-stained marker (Bio-Rad) were separated on 1DE. Stacking gel of 4% acrylamide/bisacrylamide (30%/0.8%) and resolving gel of 12.5% acrylamide/bisacrylamide (30%/0.8%) were subjected to 50 V for 30 minutes and then at constant 70 V. Proteins were stained with CBB G-250. Gel images were scanned with ChemiDoc TM MP Imaging System with Image Lab TM Software version 5.2 (Bio-Rad, USA).
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5

Protein Expression Analysis in Brain and Liver

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The brain JAK2, STAT3, SOCS, PTP1B proteins, and the liver IRS-1 and PI3K proteins were assessed by Western blot technique achieved by extraction from tissue homogenates using ice-cold radioimmunoprecipitation assay (RIPA), using the V3 Western Workflow Complete System, Bio-Rad Hercules, (CA, USA) as described previously [22 (link)]. Protein bands were visualized using enhanced chemiluminescence (Pierce ECL Western blotting substrate) and Alliance gel doc (Alliance 4.7 Gel doc, UK). UV Tec software (UK) was used to semi-quantify protein bands. All protein bands were normalized against β-actin protein. Band intensity was analyzed by the ChemiDoc imaging system with Image Lab TM software version 5.1 (Bio-Rad Laboratories Inc., Hercules, CA, USA).
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Western Blot Analysis of p38 MAPK

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Proteins were extracted from gastrocnemius muscle homogenates using ice-cold radioimmunoprecipitation assay (RIPA) buffer supplemented with phosphatase and protease inhibitors. Following centrifugation, proteins were separated by SDS/polyacrylamide gel electrophoresis and transferred to polyvinylidene difluoride membranes (Pierce, Rockford, IL, USA). After transfer, the membranes were washed with PBS then blocked in blocking buffer, followed by incubation overnight at pH 7.6 at 4 °C with antibodies (1:1000, dilution) for p38 MAPK (Cat. No. PA5-17713), phospho-p38 MAPK (Cat. No. 44-684G) and β-actin (Cat. No. PA1-46296) (Thermo Scientific, Rockford, Illinois, USA). After washing, membranes were incubated at 37 °C for 1 h with peroxidase-labeled secondary antibodies (1:4000, dilution). Band intensity was analyzed by ChemiDocTM imaging system with Image LabTM software version 5.1 (Bio-Rad Laboratories Inc., Hercules, CA, USA). Phospho-p38 MAPK protein expression was represented relative to p38 MAPK (as fold change from control).
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7

Western Blot Analysis of Thyroid Proteins

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As carried out earlier61 (link), individual protein samples (20 μg each) extracted from thyroid gland were separated on a 12% SDS-polyacrylamide gel and then transferred on to a nitrocellulose membrane electrophoretically. The membrane was blocked in a 5% BSA and 0.5% Tween-20 for 1 h with mild shaking at room temperature followed by an overnight incubation at 4 °C with the primary antibodies, anti-TPO (1:2000 dilutions), anti-TSHR (1:2000 dilutions) and internal loading control β-actin (1:2000 dilutions) overnight at 4 °C. After washing thrice with sterile phosphate buffer saline (PBS) and 0.05% Tween-20, incubated with horseradish peroxidase (HRP) -conjugated secondary anti-mouse antibody (1:5000 dilutions) for 1 h at room temperature. The membrane was then developed using enhanced chemiluminescence (ECL), Thermo Scientific, Pierce, USA, and visualized using ChemiDocTM MP Imaging system (Bio-Rad, USA). Western blot images were quantified using image LabTM software version 5.1 (Bio-Rad).
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8

Western Blot Analysis of Smad2 Protein

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Briefly, 5 mg of liver tissue was homogenized in RIPA buffer, then centrifugation at 12,000 rpm for 20 minutes. The protein concentration for each cell lysate was determined using Bradford assay. Equal amounts of protein (20-30 µg of total protein from cell lysate) were separated by SDS-PAGE and then transferred to a polyvinylidene difluoride membrane. The membrane was blocked in TBS buffer containing 5% skim milk and 0.1% Tween 20 at room temperature for 1h and incubated with Smad2 primary antibody supplied by Thermoscientific overnight at pH 7.6 at 4°C with gentle shaking. After washing, peroxidase-labeled secondary antibodies were added, and the membranes were incubated at 37°C for 1h. Band intensity was analyzed by ChemiDocTM imaging system with Image LabTM software version 5.1 (Bio-Rad Laboratories Inc., Hercules, CA, USA). Beta actin were used to normalize the Smad2 protein levels.
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9

Quantification of Hippocampal Aβ and BACE1 Proteins

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Hippocampal tissues were homogenized in a lysis buffer and the protein content was measured using a Bradford assay kit (Bio-Rad, USA). Briefly, equal amounts of protein (20 μg) were separated by SDS-PAGE and transferred to polyvinylidene difluoride membranes (Pierce, Rockford, IL) using a Bio-Rad Trans-Blot system. The membranes were blocked with a blocking solution composed of 20 mM Tris-Cl (pH 7.5), 150 mM NaCl, 0.1% Tween 20 and 3% bovine serum albumin and incubated overnight at 4 °C with one of the following primary antibodies (1:1000): Aβ (1–42), β-secretase 1 or β-actin obtained from Thermo Fisher Scientific Inc. (Rockford, IL). The filters were washed and subsequently probed with peroxidase-labeled secondary antibodies. Finally, the band intensity was analyzed using a ChemiDoc imaging system with Image LabTM software version 5.1 (Bio-Rad Laboratories Inc., Hercules, CA, USA). The results were presented as arbitrary units after normalization to levels of the β-actin protein expression.
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10

Western Blot Analysis of Striatal Protein Signaling

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After protein extraction from striatal tissues using RIBA lysis buffer (Bio Basic Inc., Markham Ontario, L3R 8T4 Canada), equal amounts of protein were separated on a poly-acryl amide gel by SDS-PAGE using a Bio-Rad Mini-Protein II system. Polyvinylidene difluoride membranes was used to transfer the protein (Pierce, Rockford, IL, USA) with a Bio-Rad Trans-Blot Turbo system. Immunodetection of Western blots was conducted by incubating the membranes at room temperature for 1 h with blocking solution composed of 20 mM Tris–Cl (pH 7.5), 150 mM NaCl, 0.1% Tween 20 and 3% bovine serum albumin. Membranes were incubated overnight at 4 °C with one of the following primary antibodies (1:1000): p-(Tyr 1022/1023) JAK1 (Cat. no. 700028), p-(Tyr 1007–1008) JAK2 (Cat. no. PA5-85,735), p-(Tyr 705) STAT3 (Cat. no. 710093) and β-actin (Cat. no. MA5-15,739) obtained from Thermo Fisher Scientific Inc. (Rockford, IL). After washing, peroxidase-labeled secondary antibodies were added, and the membranes were incubated at 37 °C for 1 h. Analysis of the band intensity was performed using ChemiDoc™ imaging system with Image LabTM software version 5.1 (Bio-Rad Laboratories Inc., Hercules, CA, USA). The results are expressed as arbitrary units after normalization to β-actin protein expression.
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