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15 protocols using 0.2 μm syringe filter

1

Quantitative Analysis of P. pubescens Leaves

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Marker analytes were accurately weighed and dissolved in methanol or methanol-DMSO (1:1) to a concentration of about 1.0 mg/mL and used as a standard solution. Each prepared standard stock solution was degassed in a sonicator and filtered through a 0.2 μm syringe filter (Pall Life Sciences, Ann Arbor, MI, USA). All stock solutions were stored in a refrigerator until the HPLC or LC–MS/MS analysis.
A sample solution for simultaneous analysis for quality control of P. pubescens leaves was prepared by dissolving 80% ethanol extract of P. pubescens leaves in 70% methanol at a concentration of 10 mg/mL. The solution was prepared by ultrasonic extraction for 60 min and then filtered through a 0.2 μm syringe filter (Pall Life Sciences, Ann Arbor, MI, USA). For the LC–MS/MS analysis, the prepared sample solution was diluted 10-fold prior to use.
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2

Preparation of Conditioned Medium from PDLSCs

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The PDLSCs were cultured in 75 cm
2cell culture flasks to 80 to 90% confluence. They were washed twice with 10 mL of phosphate buffer saline (PBS) and refreshed with 10 mL of serum-free DMEM. Culture supernatant was collected after 48 hours of incubation and then centrifuged (1000 g, 5 min at 4°C) and filtered through a 0.2 μm syringe filter (Pall corporation, Port Washington, New York, US) to remove cell debris. The CM was concentrated using ultrafiltration with a cutoff of 10 kDa (Invitrogen, Carlsbad, California, US) at 5000 g for 40 minutes and stored at −80°C until used.
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3

Extraction and Characterization of I. suffruticosa

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The aerial parts of I. suffruticosa Mill. were collected from the Siaying District, Tainan, Taiwan, in July 2015. The plant material was taxonomically identified by Professor Hsun-Shou Chang of the School of Pharmacy, Kaohsiung Medical University. A voucher specimen (Chen 5673) was deposited in the herbarium of the College of Pharmacy, Kaohsiung Medical University, Kaohsiung, Taiwan. The aerial parts of I. suffruticosa were extracted with methanol:water (1:1) for three days at room temperature. The methanol-water extracted solution was collected and concentrated using a rotary evaporator under vacuum. Residual water and solvent were removed in a vacuum oven, after which the extract was stored at 4 °C. The I. suffruticosa aerial parts extract (ISAE) used in this study was prepared by dissolving 100 mg of the crude methanol-water extract in 1 mL of distilled water with 30 min of sonication, followed by the removal of the insoluble pellets by centrifugation. ISAE was sterilized by filtration with 0.2 μm syringe filter (Pall Corporation, USA) and then used for cell-based assays. To determine the concentration of ISAE, 1 mL of ISAE was dried under vacuum in a rotary evaporator and the weight of the resultant powder was measured to calculate the concentration of ISAE. The concentration of the ISAE stock solution was 29.2 mg/mL.
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4

Inulin Quantification in Stool Samples

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We use BioPAL’s inulin immunoassay kit (BioPAL Worcester MA) to measure inulin concentration in filtrate from stool samples and followed the manufacturer’s protocol. For stool samples that came from the ex vivo assay, they were already diluted 5x and needed to be centrifuged (10’000xg for 2 minutes) before passing the supernatant through a 0.2 μm syringe filter (Pall Corporation, Port Washington NY). For stool samples that came from the in vivo diet study [21 (link)], they were thawed on ice and homogenized to a 5x dilution fecal slurry in PBS buffer before being spun down and filtered similarly to the ex vivo samples. The fecal filtrates were stored at -80°C, always thawed on ice, and diluted to an appropriate dilution to be in the detection range of the ELISA Inulin kit. For reference, the ex vivo inulin conditions needed to be diluted at least 1’000-fold while the ex vivo control or in vivo samples only needed to be diluted at 10-fold.
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5

Polyphenol and Antioxidant Extraction Protocol

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PSE was purchased from the Korea Plant Extract Bank, Korea Research Institute of Bioscience and Biotechnology (Deajeon, Korea). For the analysis of total polyphenols, total flavonoids, and 1,1-diphenyl-2-picrylhydrazyl (DPPH) radical scavenging capacity, 20 mg of PSE was added per 1 mL of 50% methanol and extracted for 24 h in a water bath set to 37ºC. The extract was then filtered through a 0.2 μm syringe filter (PALL Life Sciences, Port Washington, NY, USA) and diluted to a concentration of 1 mg/mL. The diluted sample was protected from light and stored in a refrigerator for future analysis.
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6

Simultaneous Determination of 19 Markers in OCE

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For the test solutions for simultaneous determination of the 19 markers in OCE, about 100 mg was accurately taken of each prepared OCE water extract and commercially available products in a 10 mL volumetric flask, then filled with 70% MeOH (100 mg/10 mL). The continuously mixed samples were subjected to ultrasonic extraction at room temperature for 60 min. For the quantitative analysis of compounds 4, 7, 8, and 13, the prepared test solution was diluted 10-fold and used. All solutions were filtered before analysis using a 0.2 μm syringe filter (Pall Life Sciences, Ann Arbor, MI, USA) and then injected into the HPLC instrument.
Standard solutions of the 19 reference standard compounds were prepared at a concentration of 1.0 mg/mL using methanol or DMSO–MeOH solution (1:1), and then used while refrigerated.
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7

Protein Extraction from CAVD Tissue

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Collagenase (C0130-100MG, Sigma-Aldrich) and hyaluronidase (H3506-100MG, Sigma-Aldrich) were dissolved in DMEM to obtain a solution of 1 mg/ml and 50 U/ml, respectively, which was then sterile filtered through a 0.2-μm syringe filter (Pall Life Sciences). The hydrogel model or CAVD tissue was cut up into small pieces with a sterile razor blade and digested in the collagenase and hyaluronidase solution for 4 hours at 37°C. The solution was mixed every 30 min and vortexed briefly in the end. Once finished, the digested hydrogel suspension was passed through a 40-μm cell strainer (Thermo Fisher Scientific), and the resulting solution was spun down at 1500 rpm for 5 min. The supernatant was aspirated, and the pellet was washed in PBS and lastly suspended in 20 μl of RIPA Lysis and Extraction Buffer (Thermo Fisher Scientific) supplemented with PhosSTOP phosphatase inhibitor (Sigma-Aldrich) and cOmplete, protease inhibitor (Sigma-Aldrich). To maximize protein yield, acetone precipitation was used. Acetone cooled to −30°C was added to each of the samples and left to incubate for 1 hour at −30°C. Afterward, the tubes were centrifuged for 10 min at 10g after which the supernatant was aspirated. Last, the tubes with the precipitated proteins were left to airdry until complete dryness.
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8

ETV4 Overexpression and Knockdown in Lung Cancer

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For overexpression of ETV4, H1435 lung cancer cells were transfected with ETV4-overexpressing plasmid or control vector (pcDNA6) for 48 h by using the Fugene Reagent (Roche). For lentiviral production, the envelope plasmid (pMD2.G), packaging plasmid (pCMV-deltaR8.91), and target gene (ETV4 shRNA clones and luciferase shRNA control clone) were transfected into HEK-293 cells by using Polyethylenimine Reagent (Sigma) for 24 h. The media was changed to Complete Medium, which included 10% FBS, 2 mM L-glutamine, and 1% penicillin/streptomycin. After 48 h, the supernatant was collected and filtered by a 0.2-μm syringe filter (Pall Life Sciences). For lentiviral infection, CL1-5 cells were infected with 2 ml of lentiviral supernatant and 2 μl of polybrene (hexadimethrine bromide, Sigma) for 48 h. These transient transfectants were further assayed according to the purpose of each experiment.
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9

Quantitative HPLC Analysis of Flavonoids

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High-performance liquid chromatography (HPLC) for the quantitative analysis of the four flavonoids, schaftoside, homoorientin, cytisoside, and isovitexin, was conducted on a Shimadzu Prominence LC-20A series system (Kyoto, Japan). This system consisted of a solvent delivery unit (LC-20AT), online degasser (DGU-20A3), column oven (CTO-20A), automatic sample injector (SIL-20 AC), and photodiode array detector (PDA, SPD-M20A). The data were acquired and processed using LC solution software (version 1.24; Shimadzu, Kyoto, Japan). Separation of the four flavonoids was achieved on a Gemini C18 column (250 mm × 4.6 mm, 5 μm, Phenomenex, Torrance, CA) maintained at 50 °C. The mobile phases consisted of 0.1 % (v/v) aqueous trifluoroacetic acid (A) and acetonitrile (B). The gradient flow was as follows: 5–10 % B for 0–10 min, 10–50 % B for 10–30 min, 50–100 % B for 30–40 min, 100 % B for 40–45 min, and 100–5 % B for 45–50 min. Re-equilibration time was 10 min. The flow rate was 1.0 mL/min and injection volume was 10 μL. For quantitative determination, 250 mg of lyophilized sample was dissolved in 50 mL of distilled 70 % methanol and then ultrasonicated for 20 min. After extraction, the solution was filtered through a 0.2 μm syringe filter (Pall Life Sciences, Ann Arbor, MI) before injection into the HPLC system.
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10

HPLC Profiling of SGT-4 Biomarkers

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HPLC analysis of the extract was performed using a Shimadzu Prominence LC-20A series (Kyoto, Japan) coupled with a photodiode array (PDA) detector. The data were acquired and processed using LabSolution software (version 5.54 SP3). Seven analytes were separated on a Waters SunFire C18 column (250 × 4.6 mm, 5 μm, Milford, MA, USA) at an oven temperature of 40 °C. The mobile phases consisted of 0.1% (v/v) TFA in distilled water (A) and acetonitrile (B). The gradient flow was as follows: 10–60% B for 0–30 min, 60–100% B for 30–40 min, 100% B for 40–45 min, 100–10% B for 45–50 min, and 10% B for 50–60 min, with a flow-rate of 1.0 mL/min and an injection volume of 10 μL. For the simultaneous HPLC analysis of the seven primary biomarker compounds in SGT-4 sample, 200 mg of lyophilized SGT-4 extract was dissolved in 20 mL of 70% methanol and then extracted using an ultrasonicator for 20 min. The extracted solution was filtered through a 0.2 μm syringe filter (PALL Life Sciences, Ann Arbor, MI, USA) prior to HPLC analysis.
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