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148 protocols using kinetex

1

Targeted UHPLC-ESI-MS Analysis of Compounds

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UHPLC-ESI-MS analysis was performed with a UHPLC (Nexera X2 system consisting of LC-30AD, SIL-30AC, CTO-20AC, Shimadzu, Tokyo) coupled to a triple quadrupole mass spectrometer (TQ8040, Shimadzu) with the Jet Stream electrospray ionization source. Two different core-shell C18 columns with different dimensions were tested. One is a longer core-shell column (Kinetex, 2.1 mm × 100 mm, 2.6 μm particle size, Phenomenex, Torrance, Calif). The other column was a shorter core-shell column (Kinetex, 2.1 mm × 50 mm, 2.6 μm particle, Phenomenex). The mobile phase system for the positive ionization UHPLC-ESI-MS was composed of water (A) and ACN (B). The analyzes are carried out under the following conditions: Analysis time of 15 min, Scan interval of 50–400 m/z, collision energy of -35V, Nebulizing gas of 3 l/min, DL temperature of 250 °C, Heat block temperature of 400 °C, Drying gas flow of 0.2 ml/min, Pump A flow of 0.2 ml/min, and Pump B flow of 0.2 ml/min.
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2

NADase Assay and HPLC Metabolite Analysis

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The protocol for NADase assay and HPLC metabolites measurements were described previously [7 (link)]. One hundred nanograms of TIR proteins (2–5μl beads) were used for NADase assays with 5μM NAD+ in 20μL reaction. Reactions were carried out at 37°C for the indicated time and stopped by addition of 1M of perchloric acid (HClO4). NAD+ metabolites were extracted using HClO4/K2CO3 method. Extracted metabolites were analyzed by HPLC (Nexera 2) with Kinetex (100 x 3mm, 2.6μm; Phenomenex) column. The experiments were repeated three times.
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3

Quantification of Ursolic Acid by HPLC

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An EliteLaChrom chromatograph with a PDA detector and EZChrom Elite software (Merck, Darmstadt, Germany) was used for chromatographic analysis. The samples were analyzed on a C18 reversed-phase core–shell column (Kinetex, Phenomenex, Aschaffenburg, Germany) (10 cm × 4.6 mm i.d., 2.6 μm particle size) using a mixture of acetonitrile and water (60:40 v/v) with 0.025% of trifluoroacetic acid as the mobile phase at a temperature of 20 °C and an eluent flow rate of 1.2 mL·min−1. The sample injection volume was 10 μL. The UA retention time was determined as tR = 8.42 min. The concentration of UA in the samples was determined from the area under the curve at 281 nm with a calibration curve obtained with the methanolic solution of UA (100–1000 μg/mL, y = 1E + 10x − 22,7314; R2 = 0.9998). All analyses were repeated three times.
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4

SARM1 Activity Assay with 8-Br-cADPR

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Sarm1 in vitro activity was assessed as described previously with modification (Essuman et al., 2017) .
Briefly, human SARM1 (15nM)-laden beads were mixed with various concentrations of 8-Br-cADPP in 50mM HEPES, pH 7.5, 50µM NAD, and 25µM NMN at 25 °C. Reaction was carried out in a ThermoMixer.
At various time points, the reaction was stopped by taken 50µL from the reaction mixture and mixing with 50µL 0.5M perchloric acid (HClO4) before placing on ice for 10 minutes. After centrifugation at 18,000xg for 10 minutes, supernatant was mixed with 6µL 3M K2CO3 for neutralization. Samples were placed on ice for another 10 minutes and centrifuged one more time. 45µL of supernatant containing extracted metabolites was mixed with 5µL 0.5M Potassium Phosphate buffer and quantified by HPLC (Nexera X2) with Kinetex (100 × 3 mm, 2.6µm; Phenomenex) column. ADPR and Nam production rates were calculated from samples taken at various time points at each 8-Br-cADPR concentration.
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5

Comprehensive Characterization of Micellar Systems

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High performance liquid chromatography (HPLC) analysis was performed on a Hewlett Packard/Agilent series 1100 (Agilent, Santa Clara, CA, USA) equipped with an analytical C18 reverse phase column (Kinetex, 75 × 4.6 mm, 2.6 μm, Phenomenex, Torrance, CA, USA). Nuclear magnetic resonance (NMR) studies were performed on a Varian 500 system (400 MHz). The sizes and polydispersity of micelles were determined on a Delsa Nano C particle analyzer (Beckman Coulter, CA, USA). Fluorescence microscopy was conducted on a FSX 100 (Olympus, PA, USA). 8453 UV–Vis spectrophotometer (Agilent, CA, USA) was used to acquire UV–Vis spectra and Cary Eclipse fluorescence spectrophotometer was used to measure fluorescence. For transmission electron microscopy (TEM) image, a 2.0 μL aliquot of the micelle solution was deposited on a copper grid coated with a carbon film. The sample was dried at room temperature and then imaged on a Tecnai G2 Spirit BioTWIN transmission electron microscope, operating at 100 kV (note that this drying procedure employed in TEM analysis may cause considerable changes in the size and shape of the micelles since they only exist in solution).
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6

UHPLC-DAD Analysis of Compounds

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UHPLC–DAD analysis was performed according to a published protocol 29. The utilized system was an Agilent 1290 series HPLC instrument, equipped with a quaternary pump, autosampler, column oven, and a photodiode array detector (Agilent, Waldbronn, Germany). A Phenomenex Kinetex 1.7 µm XB‐C18 column (50 × 2.10 mm) guarded with an in‐line filter was used as stationary phase, and water (A) and acetonitrile (B), each fortified with 0.1% formic acid, as mobile phase solvents. The applied gradient was as follows: 95% A at 0 min, 85% A at 0.5 min, 75% A at 5 min, 65% A at 6 min, and 2% A at 6.1 min and held at this composition for 0.9 min (total runtime: 7 min); then the column was equilibrated for 5 min under the initial conditions. Flow rate, temperature, and injection volume were adjusted to 0.45 mL/min, 45°C, and 1 µL, respectively. Detection wavelengths were set to 234 and 350 nm.
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7

Phenolic Benzotriazoles Quantification in Plasma

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Chromatographic parameters were developed and optimized for the analysis of the nine phenolic benzotriazoles and tBuPrOH-BZT. Samples were analyzed using a Shimadzu Prominence (Kyoto, Japan) LC coupled to AB Sciex (Framingham, MA) API 5000 or API 5500 MS in a positive chemical ionization mode. Phenomenex Kinetex, Phenyl-Hexyl column (50 m × 2.1 mm (ID) × 2.6 μm film thickness) (Torrance, CA) and guard column Phenomenex Security Guard (C18, 4×2 mm) were used with a flow rate of 300 μL/min. The method details are provided in Table S2.
A linear regression with 1/x weighting was used for free P-BZT, free and total octrizole, free tBuPrOcEst-BZT, total tBuPrOH-BZT, free and total bumetrizole, free DiMeEtPh-BZT, free and total ditBuCl-BZT, free and total DitPe-BZT, and total tBu-BZT to relate analyte to IS peak area response ratio to analyte concentration in plasma. A linear regression with 1/x2 was used for total P-BZT, free and total drometrizole, total DiMeEtPh-BZT, and free tBu-BZT to relate peak area response ratio to analyte concentration in plasma. Plasma concentration of each free and total phenolic benzotriazoles were reported as ng analyte/mL plasma.
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8

ESVR Profiling by UFLC-DAD-ESI-QTOF

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ESVR was analyzed in an ultrafast liquid chromatograph (UFLC, Shimadzu) coupled to a diode array detector (DAD, Shimadzu) and electrospray ionization time-of-flight mass spectrometer (ESI-QTOF-micrOTOF QII, Bruker Daltonics; operating in the positive and negative ionization modes, 120-1200 Da). A C-18 column was used (Kinetex, 2.6 μm, 150 × 2.2 mm, Phenomenex), protected by a guard precolumn of the same material. The mobile phase was water (solvent A) and acetonitrile (solvent B), both with 0.1% formic acid, in a gradient of 0-2 min 3% B, 2-25 min 3-25% B, and 25-40 min 25-80% B, followed by the washing and reconditioning of the columns (8 min). The flow rate was 0.3 mL/min, and 1 μL of the extract (1 mg/mL) was injected. The other micrOTOF QII parameters were as follows: temperature, 200°C; N2 gas flow rate, 9 L/min; nebulizer, 4.0 bar; capillary voltage, 3500 V (negative), +4500 V (positive); and internal calibration with sodium trifluoroacetate (TFA-Na) injected at the end of the chromatographic analysis. The catechin and piceatannol authentic standards were purchased from Sigma-Aldrich with ≥95% purity. The metabolites present in ESVR were identified based on the interpretation of mass and UV absorption spectra and based on comparison with the literature. When available, the compounds were confirmed by comparison with authentic standards.
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9

Amino Acid and Dipeptide Quantification by LC-MS/MS

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Detection and quantification of amino acids and dipeptides was done by LC–MS/MS, using a Vanquish HPLC system coupled to a TSQ Altis mass spectrometer (both Thermo Fisher Scientific), employing the Selected Reaction Monitoring (SRM) mode and positive polarity. In brief, dried samples were resolved in 0.1% formic acid in water and 1 µL was injected onto a Kinetex (Phenomenex) C18 column (100 Å, 150 × 2.1 mm), employing a 9-min-long linear gradient from 100% A (1% acetonitrile, 0.1% formic acid in water) to 90% B (0.1% formic acid in acetonitrile) at a flow rate of 100 µL/min. Retention times, SRM transitions, and optimal collisional energies were determined by authentic standards and degenerate dipeptide libraries. All data interpretation was performed using Xcalibur (Thermo Fisher Scientific).
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10

Radiolabeling Efficiency Evaluation

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All solvents and reagents used in this
study were obtained from Sigma Aldrich (St. Louis, MO) or Fisher Scientific
(Pittsburgh, PA). Buffers used for radiolabeling were prepared in
chelexed Milli-Q water which was filtered through a 0.22 μm
nylon filter. A Varian Mercury-300 spectrometer or a VARIAN UNITY
Inova 400 spectrometer was utilized to record 1H (300 MHz)
NMR spectra. A VARIAN VXR 500 with a UNITY INOVA Console spectrometer
was used to record 13C (126 MHz) NMR spectra. Chemical
shifts are reported in parts per million and referenced to residual
solvent resonance peaks. Radio-TLC detection was accomplished using
a Bioscan 200 imaging scanner (Bioscan, Inc., Washington, DC). Radioactive
samples were counted on a Beckman Gamma 8000 counter containing a
NaI crystal (Beckman Instruments, Inc., Irvine, CA). A two-solvent
reversed-phase HPLC system was used to evaluate the radiolabeling
efficiency with water [0.05% trifluoroacetic acid (TFA)] and acetonitrile
(0.05% TFA). HPLC used a Kinetex (Phenomenex) C-18 column (5 μm,
4.6 × 150 mm I.D.). The HPLC instrument was composed of UV absorbance
detectors set at 220 and 280 nm, a NaI radiotracer detector, and a
photodiode array detector. A gradient elution with acetonitrile (0.1%
TFA) 0–100% buffer mobile phase over the course of 13 min and
a 1 mL/min flow rate was developed for radiochemical purity profiling.
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