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24 protocols using lcms 2020 mass spectrometer

1

Quantitative Analysis of Secondary Metabolites

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Secondary metabolites from 6-day-old A. parvulus or 5-day-old A. oryzae transformant liquid culture filtrates were isolated with a 1:1 volume of ethyl acetate (VWR Chemicals, Radnor, PA). After shaking on an orbital shaker for at least 1 h, the organic phase was transferred to a 50-mL tube and evaporated under nitrogen flow. The resulting solid was dissolved in acetonitrile. Organic extracts were analyzed with a Shimadzu LC-2030 3D-Prominence-i PDA system coupled to a Shimadzu LCMS-2020 mass spectrometer and equipped with a Shimadzu Shim-pack GIST C18-HP reversed-phase column (3 μm, 4.6 by 100 mm). The following method was used: a linear gradient of buffer B (0 to 95%) for 20 min, 5 min of 95% buffer B, and then 100% buffer A for 5 min. Water with 0.1% trifluoroacetic acid (TFA) for high-performance liquid chromatography (HPLC) or 0.05% formic acid for mass spectrometry (MS)-coupled analyses was used as buffer A, and acetonitrile (LCMS grade) with 0.1% TFA for HPLC or 0.05% formic acid for MS-coupled analyses was used as buffer B. The flow rate was 1 mL/min or 0.5 mL/min for HPLC or MS-coupled analyses, respectively. The equipment was controlled and results were analyzed using Shimadzu LabSolutions LCMS software.
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2

Tryptophan Quantification in Prebiotic-Supplemented LAB

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The tryptophan production by LAB was monitored as previously described (Vaitekūnas et al., 2020 (link)). In the prebiotic-supplemented LAB CFS samples, concentrations of tryptophan were determined by high-performance liquid chromatography-mass spectrometry (HPLC-MS). First, the samples were mixed with an equal volume of acetonitrile and centrifuged for 10 min at 10,000 rpm. The samples were analyzed using the Shimadzu Prominence HPLC system (Shimadzu, Kyoto, Japan) equipped with a photodiode array (PDA) detector (Shimadzu, Kyoto, Japan) and LCMS-2020 mass spectrometer (Shimadzu, Kyoto, Japan) with an electrospray ionization (ESI) source. The chromatographic separation was conducted using a YMC Pack Pro C18 column (3 × 150 mm; YMC, Kyoto, Japan) at 40°C and a mobile phase that consisted of 0.1% formic acid water solution (solvent A) and acetonitrile (solvent B) delivered in the 5–95% gradient elution mode. Mass scans were measured from m/z 50 up to m/z 2,000 at a 350°C interface temperature, 250°C desolvation line (DL) temperature, ±4,500 V interface voltage, and neutral DL/Qarray, using N2 as nebulizing and drying gas. Mass spectrometry data were acquired in both positive and negative ionization modes. The data were analyzed using LabSolutions software (Shimadzu, Kyoto, Japan).
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3

Quantifying HiPMO1 Reaction Products

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We used two different methods of LC–MS analysis for identifying HiPMO1 reaction products. (i) Full Scan LC–MS: We analyzed HiPMO1 reaction products using Full Scan LC–MS with a HPLC analysis system and a LC–MS-2020 mass spectrometer (Shimadzu). We performed HPLC analysis on a C18 column (Agela Odyssil C18, 2.1 × 100 mm) with methanol and water (90:10, v/v), containing 0.2% formic acid as a mobile phase at a flow rate of 0.2 mL/min. Mass spectra were acquired in their positive and negative mode, respectively. The full scan m/z ranged from 100 to 300. (ii) SIM LC–MS/MS: We analyzed HiPMO1 reaction products using SIM LC–MS (ACQUITY UPLC and Q-TOF MS Premier, Waters) on a U3000-HPLC C18 column (Agilent Zorbax SB-C18, 150 × 4.6 mm). The SIM LC–MS settings were as follows: mobile phase A: acetonitrile (5–100%); mobile phase B: water; time: 50 min; flow rate: 0.5 mL/min; ESI mode: positive and negative ionization SIM mode; selected molecular ions: glucuronic acid (m/z 194), saccharic acid (m/z 210), and saccharic acid lactone (m/z 192). Collision-induced dissociation was used for the MS/MS analysis.
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4

Quantifying Surfactant Molecules on Mosquitoes

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To assess the amount of surfactant molecules on fallen and unaffected mosquitoes after spraying, we sprayed 2 mM DOSS solution to mosquitoes flying in the mosquito net at a distance of 40 cm and collected 7 unaffected and 6 fallen mosquitoes. The mosquitoes were stored individually in screw-top glass vials (Maruemu Corporation) in the fridge until extraction. We added 1 mL of 50% methanol (Kanto chemical Co., Inc.) solution to the vials and extracted DOSS on mosquito body by vigorously vortexing them for 1 min. DOSS on mosquito body was quantified by high-performance liquid chromatography coupled to mass spectroscopy using LCMS2020 (Mass spectrometer; Shimadzu). The injection volume was 5 μL for each sample solution. L-column2 ODS (3 μm, 2.1 × 150 mm, Chemicals evaluation and research institute) was used as the analysis column. The HPLC solvent consisted of solvent A (50% methanol containing 100 mM ammonium acetate) and solvent B (95% methanol containing 100 mM ammonium acetate). The samples were separated with a linear gradient from 50 to 100% solvent B with a low rate of 300 nL/min using HPLC. The mass spectrometer was operated in a selected ion monitoring (SIM) mode with m/z 421.20 for DOSS. Calibration lines were generated by plotting the concentration against the peak area of DOSS.
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5

Fusarium verticillioides Mycotoxin Production

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The fungal strain Fusarium verticillioides (MRC 826) was inoculated on pre-soaked, sterile maize kernels, in a form of spore suspension. The incubation was set to 25 °C for 5 weeks, and the final FBs concentration in dried culture material was harvested in different production batches. Details on fungal culture preparation were published earlier [72 (link)]. The final FB1 concentrations were 2000–4000 mg/kg in the air-dried culture material harvested in different batches. The FB2 concentration of the inoculum materials was ca. 30% of the FB1 content and the FB3 concentration was ca. 10–15% of the FB1 content. The fungal culture was mixed into the ration of the experimental animals so as to provide a daily FBs (FB1 + FB2 + FB3) feed concentration of 15 and 30 mg/kg. The diet fed to the control group did not contain detectable amounts of FBs, whereas the experimental diets were mixed with fungal culture to provide 15 and 30 mg FBs/kg diet. In the diets, the absence of FBs co-occurrence with deoxynivalenol (DON), zearalenone (ZEN), and T-2 toxin was also confirmed, in which the analyzed diets did not contain detectable concentrations (below the limit of detection; 0.053, 0.005, and 0.011 mg/kg for DON, ZEN, and T-2 toxin, respectively). The content of FBs was determined by the LC-MS-2020 mass spectrometer (Shimadzu, Kyoto, Japan) [73 (link)].
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6

Fluorescence and Photoacoustic Imaging of Cancer Tissues

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Materials and Instruments: All the reagents and solvents are of commercial quality and without further purification. Anhydrous solvent were prepared according to general procedure. Phosphate buffered saline (PBS: 2.97 mM Na2HPO4, 1.05 mM KH2PO4; pH 7.4), 1H and 13C NMR spectra were recorded on a Bruker Advance III 500M spectrometer and referenced to solvent signals. Mass spectra were obtained on Shimadzu LCMS-2020 mass spectrometer. Fluorescence spectra were determined on an Agilent Cary Eclipse spectrophotometer. Absorption spectra were determined on a Hitachi U3010 UV-Visible spectrophotometer. Confocal microscopy images were obtained using confocal microscopy (Leica SP8, Mannheim, Germany). In vivo fluorescence images and photoacoustic images were measured with a Maestro in vivo imaging system (CRI Inc, Woburn, MA) and VisualSonics Vevo® 2100 Imaging System (FUJIFILM VisualSonics Inc.), respectively. Cryostat Section of tissues was performed on Leica CM1900.
Clinical human tissue specimen: The clinical samples of peritoneal, rectal and gastric cancer patients were obtained from Hangzhou First People's Hospital (Hangzhou, China). Written informed consents from patients and approval from the Institutional Research Ethics Committee of the hospital were obtained before the use of these clinical materials for research purposes.
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7

Detailed Organic Synthesis Protocols

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All commercial reagents and solvents
were used as-received without further purification. Reactions were
monitored via thin-layer chromatography performed on Merck silica
gel plates (60 F254) or analytical liquid chromatography/mass spectroscopy
(LC/MS) performed on a Shimadzu Shim-pack XR-ODS (C18, 2.2 μm,
3.0 × 50 mm, linear gradient from 10% to 100% B over 3 min, then
100% B for 1 min [A = water + 0.1% formic acid, B = MeCN + 0.1% formic
acid], flow rate: 1.6 mL/min) using a Shimadzu UFLC system equipped
with a LCMS-2020 mass spectrometer, LC-20AD binary gradient module,
SPD-M20A photodiode array detector (detection at 254 nm), and SIL-20AC
sample manager. All compounds used in the bioassay are >95% pure
as
determined by HPLC analysis. Flash column chromatography was performed
on an automated purification system using Fuji Silysia prepacked silica
gel columns. 1H and 13C NMR spectra were recorded
on a Bruker Advance at 400 and 100 MHz, respectively. Spectral data
are reported as follows: chemical shift (as ppm referenced to tetramethylsilane),
integration value, multiplicity (s = singlet, d = doublet, t = triplet,
q = quartet, m = multiplet, br = broad), and coupling constant. High-resolution
mass spectra were recorded on a Thermo Fisher Scientific LTQ Orbitrap
using electrospray positive ionization.
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8

Analytical Characterization of Compounds

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Unless otherwise noted, the following instruments and conditions were used. The 1H-NMR, 13C-NMR, and 2D-NMR spectra were recorded using an ECA-800 or ECA-600 spectrometer (JEOL), and chemical shifts were expressed in δ (ppm) with tetramethylsilane (TMS) as the reference standard. The LC/Orbitrap MS analysis was performed using an LC-20A UFLC system (Shimadzu) equipped with the LTQ Orbitrap XL mass spectrometer (Thermo Fisher Scientific). The UPLC/MS analysis was performed using a Xevo TQD UPLC/MS system (Waters). The LC/MS analysis was performed using an LC-20A UFLC system equipped with an LCMS-2020 mass spectrometer (Shimadzu).
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9

Photocatalytic Dye Degradation by CuS Nanoparticles

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An aqueous solution of CV/MB/RhB dyes mixtures were prepared (5 ppm). 80 mg of as-prepared CuS nanoparticles were added into 50 mL of dyes mixture. The suspension was stirred in a dark condition for 45 min. Afterward, the suspension was exposed to mercury lamp visible light (70 W). A UV-visible spectrophotometer was used to measure the absorbance of the photo irradiated suspension. The initial dyes and degraded intermediate products were detected through Shimadzu LCMS-2020 mass spectrometer (Kyoto, Japan).
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10

Orbitrap and LCMS-2020 Peptide Analysis

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LC/MS measurements were carried out using an Orbitrap Exploris 240 mass spectrometer at 60,000 resolution (Thermo Fisher Scientific) for confirmation of peptides in the venom and an LCMS-2020 mass spectrometer (Shimadzu, Kyoto, Japan) for confirmation of peptide synthesis. For analysis by Orbitrap Exploris 240, an RP-HPLC column (Everest C18 1.0 mm × 250 mm, Hichrom, Reading, UK) was used for separation; this column was eluted with 0.1% formic acid in H2O (solvent A) and 0.1% formic acid in CH3CN (solvent B) at a flow rate of 0.05 mL/min using a linear gradient of 5–50% of solvent B over 45 min. For analysis by LCMS-2020, an RP-HPLC column (Poroshell 120-EC-C18 2.1 mm × 75 mm, Agilent) was used for separation; this column was eluted with 0.1% formic acid in H2O (solvent A), and 0.1% formic acid in CH3CN (solvent B) at a flow rate of 0.3 mL/min using a linear gradient of 5–60% of solvent B over 15 min.
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