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6 protocols using chemidoc touch imaging

1

Evaluating Man-PEI Plasmid Complexation

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We evaluated the ability of Man-PEI to complex with a plasmid-based on a gel retardation assay, using agarose gel electrophoresis. Briefly, we complexed the Man-PEI at different nitrogen to phosphate (N/P; indicates the ratio between the number of nitrogen atoms present in the Man-PEI to the phosphate atoms in the nucleic acid) ratios and run the samples in a 1% agarose gel with 0.1 μg/mL ethidium bromide, as previously described [29 (link)]. The nucleic acid’s signal was visualized under a Chemidoc Touch Imaging (Biorad, Hercules, CA, USA).
To evaluate the ability of Man-PEI to protect nucleic acid degradation in the presence of DNAses, we complexed the pGL-3 plasmid with Man-PEI at different N/P ratios and incubated the samples in the presence of DNase I (2U of DNase/600 ng of plasmid for 30 min at 37 ºC; naked plasmid with DNAses was used as positive control). Following the deactivation of the DNAses using EDTA, the nucleic acids were released from the complexes using 8% polyacrylic acid (PAA) and run in the agarose gel, as described above.
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2

Co-Immunoprecipitation and Western Blot Protocol

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Western blot was performed according to the previously published protocol29 (link). For coimmunoprecipitation cells were lysed in hypotonic buffer, followed by nuclear lysis. Protein lysates were incubated in pulldown antibody for 2 h at 4 °C and beads (Protein A/G PLUS, Santa Cruz; normal mouse antibody (CST) and beads without antibody served as control) added for one more hour. Beads were washed with nuclear lysis buffer and SDS-PAGE performed. Buffer recipes are listed in the Supplementary information. ChemiDoc™ Touch Imaging (Bio-Rad) System was used for detection. Quantification of protein amount was done by Image LabTM Software (Bio-Rad).
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3

Western Blot Protein Analysis Protocol

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The proteins of all the groups were collected by the RIPA lysis buffer in an ice-bath. The protein contents were measured using BCA kits. Next, 20 μg of proteins were loaded onto 7.5% or 10% SDS–acrylamide gel by electrophoresis and semi-dry transferred to PVDF membranes. The PVDF membranes were blocked with 5% skimmed milk at room temperature for 1 h and then incubated with primary antibody overnight at 4 °C. Finally, the PVDF membranes were washed with TBST and incubated with secondary antibody for 1 h. Images of target blots were captured using ECL by ChemiDoc Touch Imaging (Bio-rad, Hercules, CA, USA) and quantified using the ImageJ software (NIH, Bethesda, MD, USA).
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4

Western Blot Protein Detection and Stripping

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The proteins were resolved by gel electrophoresis and transferred onto the nitrocellulose membrane. The blots were blocked using blocking solution (5% skim milk in 1× TBS). The primary antibodies were made in 1% skim milk (prepared in 1× TBS) and added onto the blots and were left for overnight incubation in shaking conditions at 4 °C. Next day, two washes were given using 0.1% TBST (0.1% Tween-20 in 1× TBS) for 5 min each. The secondary antibodies prepared in 1% skim milk was added to the blots and left for shaking for 1-h incubation at room temperature. 2–3 washes were given with 0.1% TBST before developing the blot using Millipore Immobilon Forte Western HRP Substrate kit (Cat number-WBLUF0100) in the Biorad Chemidoc Touch imaging system.
For stripping of proteins from the blot, 1X Millipore Reblot Plus Strong Antibody Stripping Solution (Cat number-2504) was added to the blot and left for shaking at room temperature for 20–25 min. The blot was developed using the ECL kit to check for any signal on the membrane. Two washes were then given with blocking solution (5% skim milk in 1× TBS) for 5 min each and then proceeded with incubation with the primary antibody solution.
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5

Western Blot Analysis of Tight Junction Proteins

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Proteins were extracted from homogenized colonic tissues of mice using ice-cold RIPA lysis buffer containing complete EDTA-free protease inhibitor cocktail and PhosSTOP Phosphatase Inhibitor as previous (5 (link)). After centrifugation, the supernatants were collected, and protein concentrations were quantitated by BCA assay (Beyotime Biotech, Beijing, China). Forty-microgram protein of each sample were separated by 10% SDS-PAGE and electro-transferred onto polyvinylidene difluoride (PVDF) membranes (BioRad, Hercules, CA, United States). Membranes were blocked with 5% defatted milk and incubated with indicated primary antibodies at 4°C for 12h. Then, membranes were incubated with HRP-conjugated anti-rabbit IgG secondary antibody (#7074, CST, Boston, MA, United States) at room temperature for 1h. Finally, the protein bands were test using Clarity™ ECL Western blot substrate (1705,060, Bio-Rad, Hercules, CA, United States) and captured using the ChemiDoc Touch imaging. Primary antibodies and dilutions used were anti–β-actin (AC026, ABclonal Biotechnology Co., Ltd., Wuhan, China, 1:50000), anti-ZO-1 (ab96587, Abcam, Cambridge, United Kingdom, 1:1000), and anti-occludin (ab167161, Abcam, Cambridge, United Kingdom, 1:1000).
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6

Cell Proliferation and Gene Expression Analysis

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All plastic materials and reagents were cell culture grades obtained from Nunc Thermo Fisher Scientific (NY, USA) and Gibco (Invitrogen, NY, USA), respectively. Erythromycin and dimethyl sulfoxide (DMSO) were purchased from Sigma (St. Luis, MO, USA). Cell proliferation was examined by the PrestoBlue™ Cell Viability Reagent (Invitrogen, NY, USA). RNA extraction was performed with RNeasy Mini kit (Qiagen, CA, USA), a NanoVue Spectrophotometer from GE Healthcare (England, UK) as well as the Luminaris Color HiGreen qPCR Master Mix and Protease Inhibitor Cocktail from Thermo Fisher Scientific (MA, USA). cDNA was prepared by the SuperScript ® III First-Strand Synthesis System (Invitrogen, NY, USA). The measuring and blotting instruments were the CFX96 Touch™ Real-Time PCR detection system (Bio-Rad, CA, USA), Varioskan LUX Multimode Microplate Reader (Thermo Fisher Scientific, MA, USA). Trans-Blot ® Turbo™ transfer system and ChemiDoc™ Touch Imaging (Bio-Rad, CA, USA).
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