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14 protocols using bicinchoninic acid kit

1

Analytical Methods for Wastewater Characterization

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The NH3-N concentration was analyzed using the alkaline phenol hypochlorite method [21 (link)]. The MCP was analyzed using the bicinchoninic acid kit (Solarbio life sciences, Beijing, China) following the procedures described by the previous study [22 (link)]. Volatile fatty acids (VFA) were measured by a gas chromatograph (Agilent 6890N, Santa Clara, CA, USA) equipped with a column (DB-WAXETR, 30 m × 1.0 µm × 0.53 mm, Agilent, Santa Clara, CA, USA) following our previous method [23 (link)]. Briefly, the 2-ethylbutyric acid (2EB) was used as an internal standard, and the calculation was carried out by an internal standard correction quantitative method. The specific operation parameters are as follows: the carrier gas was N2, the split ratio was 40:1, the flow rate was 2.0 mL/min, the average linear velocity was 38 cm/s, and the column pressure was 11.3 psi. The programmed temperature was adopted, the initial temperature was 120 °C (3 min), and the temperature was increased to 180 °C (1 min) at 10 °C/min. The hydrogen flame detector temperature was 250 °C. The H2 flow rate was 40 mL/min, air flow rate was 45 mL/min, column flow rate was 45 mL/min, the inlet temperature was 210 °C, and the injection volume was 0.6 μL.
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2

Protein Expression Analysis in Ear Tissue

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A small piece of ear tissue was lysed with RIPA Lysis Buffer (Solarbio, Beijing, China) using Qiagen TissueLyser II (Qiagen, HK, China) with shaking at 20 Hz for 5 min and standing on ice for 5 min. The aforementioned procedure was repeated twice. Then, the lysates were centrifuged at 13,000 ×g for 10 min. Concentrations of total protein were determined using a bicinchoninic acid kit (Solarbio). Subsequently, an equal amount of protein sample was loaded in each well and subjected to sodium dodecyl sulfate-polyacrylamide gel electrophoresis for electrophoresis and then transferred onto polyvinylidene difluoride membrane. After blocking with 5% skim milk, the membrane was incubated overnight at 4°C with the following primary antibodies: mouse anti-TSLP (1:1000, Abcam), mouse anti-nuclear factor-kappa B (NF-κB) p65 (1:1000, Cell Signaling Technology, MA, USA), and mouse anti-PAR2 (1:1000, Abcam); anti-β-actin antibody was used as a loading control. The other day, the membrane was incubated with corresponding secondary antibodies after washing. Finally, specific bands were observed by ImageQuant 350 (GE, MA, USA) with standard chemiluminescence (Thermo, IL, USA). The band intensity was calculated by ImageJ software (National Institutes of Health, MD, USA) compared with β-actin.
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3

Western Blot Analysis of EMT Markers

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Proteins were extracted with RIPA lysis buffer (CWBiotech, Beijing, China) on ice for 30 minutes. Protein quantity was determined using bicinchoninic acid kit purchased from Solarbio Science & Technology Co., Ltd. (Beijing, China). Equivalent amounts of proteins (30 µg) were separated by 10% SDS-PAGE and transferred to a polyvinylidene fluoride membrane (EMD Millipore, Billerica, MA, USA). Membranes were blocked with 5% nonfat milk in Tris-buffered saline containing 0.1% Tween 20 for 1 hour at room temperature and then incubated with the following specified antibodies for 1 hour at room temperature: anti-MTBP (1:2,000 dilution; Sigma-Aldrich), anti-ZEB2 (1:5,000 dilution; Abcam), anti-E-cadherin (1:5,000 dilution; Cell Signaling Technology, Danvers, MA, USA), anti-N-cadherin (1:5,000 dilution; Cell Signaling Technology), anti-β-catenin (1:5,000 dilution; Cell Signaling Technology), anti-Vimentin (1:5,000 dilution; Cell Signaling Technology), and anti-GAPDH (1:5,000 dilution; Cell Signaling Technology). The membranes were then incubated with HRP-conjugated goat anti-mouse or anti-rabbit IgG (ZSGB-BIO) for 1 hour at room temperature. Signals were visualized using an enhanced chemiluminescence reagent and captured using AI600 version 1.2.0 on Amersham Imager 600 (GE Healthcare, Chicago, IL, USA).
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4

Protein Extraction and Western Blot Analysis

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Cells were dispensed in 6-well plates. After treatment, cells were washed with ice-cold phosphate-buffered saline (PBS) and lysed in RIPA buffer containing protease inhibitors (Solarbio, Beijing, China) for total protein extraction. The cell lysates were incubated on ice for 30 min, and shocked for 30 s every 10 min. A nuclear and cytoplasmic protein extraction kit (Beyotime, Beijing, China) was used to extract nuclear and cytoplasmic protein fractions. After measuring protein concentrations with a bicinchoninic acid kit (Solarbio), equal amounts of protein were subjected to SDS-PAGE, then transferred to polyvinylidene fluoride membranes and incubated with primary antibodies overnight at 4°C. The blots were incubated with horseradish peroxidase-conjugated secondary antibody and detected using a ProteinSimple FluorChem M system (ProteinSimple, Silicon Valley, CA, USA). The primary antibodies included anti-E2F1 (catalog # 3742S; CST, Boston, MA, USA), anti-H3 (catalog # 17168-1-AP; Proteintech Group, Wuhan, China), anti-GAPDH (catalog # 60004-1-Ig; Proteintech Group), anti-DP1 (catalog # ab186831; Abcam, Cambridge, UK), anti-γ-H2A.x (catalog # ab2893; Abcam), and anti-MGMT (#86039; CST).
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5

Protein Expression and Autophagy Analysis

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Referring to the manufacturer's instructions, the protein was extracted from tissues or cells using a total protein extraction kit (Solarbio, Beijing, China). Protein quantification was performed with a bicinchoninic acid kit (Solarbio). Subsequent to electrophoresis, the protein was transferred onto a polyvinylidene fluoride (PVDF) membrane. After sealing in 5% skimmed milk, the membrane was probed with primary antibodies anti-NRF1 (#46743, Cell Signaling Technology), anti-KAT2A (66575-1-Ig, Proteintech), anti-METTL3 (ab195352, Abcam, Cambridge, UK), anti-LC3 (#4108, Cell Signaling Technology), anti-p62 (ab211324, Abcam), anti-Beclin-1 (ab302669, Abcam), and anti-β-actin (GTX109639, Genetex, Irvine, CA, USA) at 4 °C overnight. Afterward, the membrane was re-probed with secondary antibody for 2 h and washed with PBS (3 × 10 min). Following addition of developer solution, the membrane was examined using a chemiluminescent imaging system.
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6

Lung Injury Metabolic Assessment

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Blood samples collected from the right femoral artery were analyzed using a blood analyzer and EG7+ cartridges (Abbott, USA) to assess the oxygenation and metabolic state in each treatment group. Lungs were lavaged using 2.0 mL normal saline to collect BALF. Protein levels were quantified using a bicinchoninic acid kit (Solarbio, China). The left lung was weighed to determine the wet weight and placed in an oven at 70°C for 72 hours. When completely dehydrated, it was weighed to estimate the dry weight. Finally, the Wet/Dry weight ratio of the left lung was calculated. The oxygenation index (OI) was determined with the PaO2/FiO2 ratio.
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7

Protein Extraction and Western Blot Analysis

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Radioimmunoprecipitation assay lysis buffer (Solarbio, R0030, Beijing, China) was used to extract total protein, Bicinchoninic acid kit (Solarbio, PC0020, Beijing, China) was used for protein quantification. The extracted 20 μ g protein was isolated and transferred to polyvinylidene fluoride membranes (Millipore, IPVH00010, MA, USA). The membranes were sealed in 5% skim milk powder (Solarbio, D8340, Beijing, China) overnight at 4 °C. Supplementary antibodies including GAPDH (5174), AGR2 (13062), ZEB1 (70512), E-cadherin (3195), N-cadherin (13116), Vimentin (5741), Slug (9585), Snail (3879), p-AKT (4060), AKT (4685), p-GSK3 β (9322), GSK3 β (5676), β-catenin (9582) were added. The primary antibodies were incubated for 12 h, then the goat anti-rabbit IgG second antibody (Solarbio, K1034G-AF594, Beijing, China) was incubated for 1 h. GAPDH was used as endogenous control, and all the primary antibodies were sourced from CST (Massachusetts, USA).
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8

Caspase-3 Expression Analysis by Western Blot

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The cells were lysed in RIPA buffer (Beyotime Institute of Biotechnology) and the protein concentration was measured using the bicinchoninic acid kit (Beijing Solarbio Science & Technology Co., Ltd.). Each protein sample (~40 µg/lane) was separated on 10% sodium dodecyl sulfate polyacrylamide gels by electrophoresis (Mini-protean-3; Bio-Rad Laboratories, Inc.) and transferred onto polyvinylidene difluoride membranes (Merck & Co., Inc.). Subsequently, the membranes were blocked with 5% skimmed milk and incubated overnight at 4˚C with primary rabbit anti-human antibodies against caspase-3 (dilution, 1:1,000; cat. no. ab13847; Abcam) and GAPDH (dilution, 1:1,000; cat. no. ab70699; Abcam). The following day, horseradish peroxidase-conjugated goat anti-rabbit immunoglobulin G secondary antibody (dilution, 1:1,000; cat. no. ABIN101988; Antibodies Online) was used at room temperature for 1 h. The membranes were observed and recorded using the enhanced chemiluminescence system (ImageQuant LAS 4000; General Electric Company) for 3-5 min. Protein expression levels were normalized to GAPDH, scanned and quantified using the ImageJ 1.46r software (National Institutes of Health).
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9

COX-2 Protein Expression Analysis

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In brief, samples were centrifuged and the resulting pellet was resuspended in RIPA cell lysis solution containing PMSF and protease inhibitors (Beyotime Biotech, Haimen, China). After shaking vigorously, cells lysed on ice for 30 min. Subsequently, the lysis solution was centrifuged at 12,000 × g for 5 min at 4°C. The supernatant was collected and transferred to a new pre-cooled centrifuge tube. A quantitative protein analysis was performed with a bicinchoninic acid kit (Solarbio, Beijing, China) according to the manufacturer’s instructions. To perform sodium dodecyl sulfide polyacrylamide gel electrophoresis (SDS-PAGE), a total of 30 μg protein was used. COX-2 protein was detected using an anti-COX-2 primary antibody (rabbit anti-human monoclonal, Cox2 (D5H5) XP®, 12282T) purchased from Cell Signaling Technology (Danvers, MA). A GAPDH antibody (rabbit anti-human monoclonal, AF7021) was purchased from Affinity Biotechnology (Jiangsu, China). Relative protein analysis was processed based on Quantity One software (Bio-Rad).
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10

Quantifying Liver Cancer Protein Expression

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The total protein of liver cancer cell lines was extracted using radioimmunoprecipitation assay lysis buffer (Cat. No. R0010; Solarbio, China), and the concentration of protein samples was quantified by a bicinchoninic acid kit (Cat. No. PC0020, Solarbio, China) on ice. Western blotting assay was conducted according to our previous publication [21 (link)]. The antibodies used were purchased from Proteintech Company (Wuhan, China), including RBMX2 polyclonal antibody (1:2,000 diluted, Cat. No. 17994-1-AP), glyceraldehyde-3-phosphate dehydrogenase (GAPDH) polyclonal antibody (1:5,000 diluted, Cat. No. 10494-1-AP), and horseradish peroxidase-conjugated Affinipure Goat Anti-Rabbit IgG(H+L) (1:5,000 diluted, Cat. No. SA00001-2).
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