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15 protocols using durapore pvdf

1

Bacterial Cell Metabolite Extraction

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For each strain, o/n cultures in LB broth were used to inoculate 25 ml LB broth to an OD600 of 0.01 and cultured for 18.5 h at 37°C with agitation at 180 rpm. For measurements of metabolites in bacterial cells, 5 ml culture were transferred onto Durapore PVDF filter membranes (Merck, Darmstadt, Germany) with a pore size of 0.45 μm by suction. After washing with PBS, cells were scraped from the filter into 1 ml of fresh PBS. Bacteria were pelleted (1 min, at 22,000 × g) and the supernatant discarded, before shock-frozen in liquid nitrogen. Afterward samples were freeze-dried and their dry weights were determined.
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2

Fabrication of Porous PVDF Membranes

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Polyvinylidene fluoride membranes (Durapore PVdF, 100 µm thickness, hydrophilic, pore size 0.1 µm) were purchased from Merck (Darmstadt, Germany) and used as supplied. Polyoxymethylene (POM, granule 3 mm), sodium dodecylbenzenesulfonate (NaDBS, 99%), ammonium persulfate (APS, 98%), ethylene glycol (EG, 99.8%), ethanol (EtOH, technical grade) and bis(trifluoromethane)sulfonimide lithium salt (LiTFSI, 99.95%) were obtained from Sigma-Aldrich and applied without further purification. Pyrrole (Py, 98%, Sigma-Aldrich, Taufkirchen, Germany) was distilled under reduced pressure and stored in the dark at −20 °C under nitrogen. Milli-Q+ (deionized water, Tallinn, Estonia) was applied as a solvent.
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3

Phage Sampling and Preservation Protocol

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Samples containing both bacteria and phage were taken every three to four days and stored at −80 °C in 20% glycerol for future analysis. Phage samples were obtained by centrifuging the biomass at 10,000× g for 5 min. The supernatant was filtered through a 0.22 μm Durapore PVDF membrane (Durapore® PVDF membrane, Merck Millipore, Billerica, MA, USA) and kept frozen (−80 °C) until analysis (DNA extraction and sequencing).
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4

Methylene Blue Solubility Determination

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An excess amount of methylene blue was added to an aqueous solution containing 1 mM MES buffer and stirred in a water bath at 25 °C. An aliquot of 0.5-mL was taken and centrifuged using a centrifugal filter unit (Durapore PVDF, 0.1 μm, Merck Millipore, Darmstadt, Germany) at 2000 rpm to achieve solid-liquid separation. The liquid phase was diluted 10,000 times; then, the absorbance at 664 nm was measured using a UV/vis spectrophotometer. As a result, the absorbance was almost stabilized after about 2 h. Therefore, after stirring the liquid for more than 12 h under different temperature conditions, visible absorption was similarly measured to evaluate saturation solubility.
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5

Polysulfidation and Dimedone-based Detection

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Thiol-activated Sepharose 4B was reduced by 10 mM DTT for 30 min in the dark, and the unreacted DTT was removed by filtration (Durapore PVDF, Merck, Darmstadt, Germany). The gel was incubated with a polysulfide solution that was generated by the reaction of 3 mM NaOCl and 10 mM Na2S in 50 mM Hepes-HCl (pH 7.5) for 30 min at room temperature and washed three times with distilled deionized water (DDW) by filtration. H2O2 (5 mM) and dimedone (5 mM) were reacted with the persulfidated gel for 1 hour at room temperature. After washing the gel three times with DDW, R-SS-dimedone was reduced by 10 mM DTT for 30 min in the dark. The released 2-thiodimedone sample was collected by centrifugal filter following the addition of 30% acetonitrile–0.33% formic acid to the gel.
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6

Lifitegrast Ophthalmic Solution Formulations

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No formulation remained from either of the 2 phase 3 trials; formulations for the study that would be representative of the clinical material (confirmed by analytical data) were prepared at Covance Laboratories, Inc. In each formulation, lifitegrast was added to dose vehicle while stirring, and pH was adjusted with hydrochloric acid (HCl) and/or sodium hydroxide (NaOH). The formulation was stirred until a clear solution was obtained, filtered with a 0.22-μm filter (Millipore® Millex-GV, 0.22 μm, Durapore® PVDF; EMD Millipore, Billerica, MA) and stored at ∼5°C. Analysis of the formulations was performed by Almac Sciences (Souderton, PA), and concentrations were measured as 49.4 and 49.3 mg/mL for Formulation Nos. 1 and 2, respectively.
Formulation No. 1 (used in the OPUS-110 trial): dose vehicle consisted of sterile water for injection, sodium chloride, sodium phosphate dibasic anhydrous, sodium bicarbonate, ethylenediaminetetraacetic acid (EDTA), and sodium thiosulfate pentahydrate, adjusted to a pH of 7.30 with HCl. After addition of lifitegrast, pH was adjusted to 6.90.
Formulation No. 2 (used in the OPUS-211 trial): dose vehicle consisted of sterile water for injection, sodium chloride, sodium phosphate dibasic anhydrous, and sodium thiosulfate pentahydrate. After addition of lifitegrast, pH of the formulation was adjusted to 7.35.
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7

Cytokine Profiling of Tumor Cell Lines

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CT26, B16F10 and MC38 cells were cultured as described above for 24 h, the medium was collected and centrifuged at 500 × g for 10 min. The supernatant was transferred into a separate centrifugal filter unit (Milipore, 0.22 μm, Durapore-PVDF). The flow through was collected after centrifugation. Then 30 μl of each sample was used to measure cytokines with the MILLIPLEX®MAP Kit (MYCTOMAG-70K-PMX). The preparation was done according to the supplier’s protocol provided with the kit. The plate was analyzed using a Luminex 200 ™ device.
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8

HPLC Solvent Preparation Protocol

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The HPLC grade methanol and acetonitrile were purchased from Fisher Scientific, UK. Double-distilled, molecular grade water was obtained using a Millipore Milli-Q® (Bedford, MA, USA) water purifier. All the solvents (HPLC grade) and solutions were filtered through membrane filter (Millipore-Millex-HV® filter units, Durapore-PVDF®, polyethylene, 0.45 μm pore size) and ultrasonicated for degassing before use. Other reagents used in the present study were of AR grade.
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9

Bacterial Capture and Identification in Food Matrices

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Apple juice and lettuce were used as sample matrixes. Apple juice (0.1 g) was mixed with a 0.9 mL of 0.9% NaCl solution. For lettuce, 0.1 g of the sample in 0.9 mL of 0.9% NaCl solution was homogenized in a blender. The bacteria at concentrations of 5 × 104–107 CFU/mL were spiked into the sample matrixes. The suspension was agitated by 360° rotational mixing for 10 min to disperse the bacterial cells. Before capturing the target cells with the magnetic nanoparticles, a paper coffee filter soaked with a 0.9% NaCl solution was used to exclude large solid particles. The bacterial recoveries were evaluated by measuring the OD (wavelength, 600 nm) of the pure bacterial suspensions before and after filtering. The bacteria were then mixed with magnetic zirconia particles for 10 min. After incubation, the zirconia particles were collected and washed by applying a magnetic field. After 5 min of vortexing in a 25 μL of buffer (25 mMNH4HCO3, pH 8.5), 1 μg of trypsin in the same buffer (25 μL) was added to the sample. Following digestion, the magnetic particles were removed using a magnet and the solution was filtered (through a Millipore filter, Durapore-PVDF 0.45 μm) for LC–MS analysis. Microwave-assisted digestion and nanoLC–MS analysis were performed at this time.
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10

Fractionation and Quantification of E. coli Cellular Components

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Escherichia coli were cultured for 48 h at 37°C under static conditions. The whole cells and bacterial supernatants were collected by centrifugation at 4,310 × g for 20 min at 4°C, and filtered through a 0.45 μm Durapore PVDF (Millipore, Billerica, MA, United States). The supernatant was further subjected to ultra-centrifugation, as previously described (Wai et al., 2003a (link)), with some modifications. Soluble and insoluble fractions of the supernatant were collected as supernatant and pellets after ultra-centrifugation at 100,000 × g for 3 h at 4°C in a 45 Ti rotor (Beckman Coulter, Brea, CA, United States). Soluble fraction of the supernatant was concentrated by precipitation using 10% (w/v) trichloroacetic acid (TCA) followed by two washes with 80% acetone to remove TCA. The insoluble fraction (the pellets) of the filtrated supernatant was also collected. The whole cell samples were further subjected to subcellular fractionation by using a differential solubilization technique, as described previously (Wai et al., 2003b (link)). The protein amounts were quantified by the Bradford assay (Bradford, 1976 (link)).
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