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8 protocols using xevo g2 s mass spectrometer

1

rhIL-12 Characterization by UPLC-MS

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The rhIL-12 samples were denatured by 10mM DTT (Sigma, St. Louis, MO, USA) and deglycosylated by PNGase F (New England Biolabs, Beijing, China), then analyzed by the Acquity UPLC system connected online to a Xevo G2-S mass spectrometer (Waters Corporation, Milford, MA, USA). The column was a Waters BEH300 C4 column (2.1 mm × 50 mm, 1.7 μm particle). The flow rate was 0.2 mL/min using a gradient from 5% to 50% Solvent B (Solvent B being 0.1% formic acid in acetonitrile, Solvent A being 0.1% formic acid in water) in 7 min at a column temperature of 35 °C. The scan range of the mass spectrometric was m/z 500–3000. Data were acquired and processed using UNIFI 1.6 (Waters Corporation, Milford, MA, USA).
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2

Comprehensive Analytical Techniques for Natural Product Characterization

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Optical rotations were measured on a Jasco P-2000 polarimeter (Jasco, Easton, MD, USA). IR spectra were recorded on a Perkin–Elmer FT-IR Spectrum Two spectrometer (Perkin Elmer, Boston, MA, USA). 1H and 13C NMR spectra were recorded on an Agilent 500 (Agilent Technologies, Santa Clara, CA, USA) or on a Bruker 500 spectrometer (Bruker, Billerica, MA, USA), using CD3OD as solvent. Chemical shifts were referenced using the solvent signals at δH 3.30 and δC 49.0. COSY, HSQC, HMBC, and NOESY experiments were performed using standard Agilent or Bruker pulse sequences. High-resolution mass spectra (HRESIMS) were obtained on a Waters XEVO G2-S Mass spectrometer (Waters, Milford, MA, USA). Column chromatography was carried out on Merck Silica gel 60 (70–230 mesh) (Merck, Darmstadt, Germany). SPE separations were performed on Supelco DSC18 cartridges (Supelco, Bellefonte, PA, USA). HPLC separations were performed on a LaChrom-Hitachi apparatus (Merck, Darmstadt, Germany) using a differential refractometer RI-71. Luna Si (2) (250 × 4.6 mm, 5 μm) (Phenomenex, Torrance, CA, USA) and Luna Si (2) (250 × 10 mm, 5 μm) (Phenomenex, Torrance, CA, USA) columns were used for separations in normal phase. All solvents were of HPLC grade.
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3

Analysis of Enzyme-Polysaccharide Interactions

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The purified AlgM4 (0.25 mg/mL) enzyme was mixed with an equal volume of 1.0% (w/v) SA, polyM, or polyG; incubated in a water bath at 30 °C for 6 h; and then concentrated in vacuo. After high-speed centrifugation, the supernatants were collected and filtered through filter membranes with a 0.22 µm pore size. The filtrates were analyzed using liquid chromatography (LC)-MS. The equipment used in the analysis was a UPLC-QTOF-MS/MS system (Waters Corporation, Milford, MA, USA), which consisted of a UPLC I-Class instrument (Waters Corporation, Singapore) and a XEVO G2-S mass spectrometer (Waters Corporation, Milford, MA, USA). The operating conditions of LC were as follows: ACQUITY UPLC HSS T3 C18 column (2.1 mm × 100 mm, 1.8 μm, Waters Corporation, Milford, MA, USA); gradient elution with 0.1% formic acid-water (A) and formic acid-acetonitrile (B); flow rate, 0.5 mL/min; column temperature, 35 °C; analytic time, 10 min; injection volume, 1.0 μL. The MS conditions were as follows: ion scan mode, negative-ion ESI mode; scan range, 100–1700 Da; ion source temperature, 100 °C; desolvation gas temperature, 400 °C; desolvation gas flow rate, 1000 L/h; capillary voltage, 2.5 kV; cone voltage, 40 V; low collision energy, 6 V; high collision energy, 35–50 V; data acquisition software, MassLynx 4.1 SCN 884 (Waters Corporation, Milford, MA, USA); data acquisition mode, MSE.
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4

Characterization of Beta-Lactamase Inhibitor Binding

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AmpCEC, OXA-10, or TEM-116 (1 μM) in 50 mM Tris, pH 7.5, were incubated with tazobactam (100 μM), enmetazobactam (100 μM), or sulbactam (500 μM) (15 min, r.t.). Samples were analyzed using a Xevo G2‐S mass spectrometer (Waters) coupled to an Acquity-UPLC system (Waters), equipped with a ProSwift RP-4H 1-mm x 50-mm column (Thermo Fisher Scientific), loaded onto the column in 95% (vol/vol) water, 5% (vol/vol) acetonitrile, and 0.1% (vol/vol) formic acid, then eluted using a gradient to 5% (vol/vol) water, 95% (vol/vol) acetonitrile, and 0.1% (vol/vol) formic acid over 10 min, then introduced directly into the ESI source. Retention times of all proteins were ∼4 to 5 min. Data were analyzed using MassLynx 4.1 (Waters), with deconvolution using the MaxEnt1 algorithm.
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5

Quantitative Analysis of Target Compounds by UPLC-TOF-MS

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For the identification of TPs, ZFE extracts
were analyzed by ultraperformance
liquid chromatography time-of-flight mass spectrometry (UPLC-TOF-MS)
using a ACQUITY UPLC I-Class system (Waters) equipped with a HSS T3
column (100 mm × 2.1 mm, 1.7 μm) coupled to a XEVO G2S
mass spectrometer (Waters). The detailed instrumental conditions are
according to Seiwert et al. 2022,1 (link) and
the corresponding method can be found in the Supporting Information (Table S6). The extracts were injected without
further dilution in a water/MeOH ratio of 1:1 (v/v).
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6

Protein Mass Analysis via UPLC-ESI-MS

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Purified sfGFP constructs were desalted into water using Zeba 7K MWCO desalting columns and formic acid was added to a concentration of 0.1% in preparation for Mass Spectral analysis. Samples were first separated with an Acquity H series UPLC employing a Waters Protein BEH C4 300 Å 1.7 mm 1 × 50 mm column, followed by ESI-Q-TOF mass analysis of the intact protein performed with a Waters Xevo G2-S mass spectrometer. To obtain intact protein masses, raw mass spectral data from the protein charge state envelope was deconvoluted using MaxEnt1 processing as part of the Waters MassLynx V4.1 software package. Deconvoluted protein mass values were confirmed by manual inspection of the raw mass spectral data.
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7

Spectroscopic Analysis of Organic Compounds

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Optical rotations were measured on a Jasco P-2000 polarimeter (Jasco, Easton, MD, USA). IR spectra were recorded on a Perkin-Elmer FT-IR Spectrum Two spectrometer (Perkin Elmer, Boston, MA, USA). 1H and 13C NMR spectra were recorded on an Agilent 500 (Agilent Technologies, Santa Clara, CA, USA) or on a Bruker 500 spectrometer (Bruker, Billerica, MA, USA) using CD3OD as solvent. Chemical shifts were referenced using the solvent signals at δH 3.30 and δC 49.0. COSY, HSQC, HMBC, and NOESY experiments were performed using standard Agilent or Bruker pulse sequences. High resolution mass spectra (HRESIMS) were obtained on a Waters XEVO G2-S Mass spectrometer (Waters, Milford, MA, USA). Column chromatography was carried out on Merck Silica gel 60 (70–230 mesh) (Merck, Darmstadt, Germany). SPE separations were performed on Supelco DSC18 cartridges (500 mg/3 mL or 1 g/6 mL) (Supelco, Bellefonte, PA, USA). HPLC separations were performed on a LaChrom-Hitachi apparatus (Merck, Darmstadt, Germany) using a differential refractometer RI-71. Luna Si (2) (250 × 4.6 mm, 5 μm) (Phenomenex, Torrance, CA, USA) and Luna Si (2) (250 × 10 mm, 5 μm) (Phenomenex, Torrance, CA, USA) columns were used for separations in normal phase. All solvents were of HPLC grade.
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8

Chromatographic Analysis of Phenolic Compounds

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Chromatographic analysis was performed according to Ribeiro, Maciel, et al. (2019) , with minor changes. Briefly, the phenolic compounds were identified using an Acquity UPLC H-Class system (Waters Corp., Milford, USA) equipped with a stationary phase C18 column (50 mm × 2.1 mm, 1.7 µm) kept at 35 • C.
Mass spectrometry analysis was performed on a XevoG2-S mass spectrometer (Waters Co., Milford, USA) equipped with a quadrupole time of flight hybrid (Q-TOF) with electrospray ionization (ESI) source operating in both positive and negative mode.
The quantification of +(-)catechin, cyanidin-3-glucoside, (-)-epicatechin, and quercetin-3-rutinoside was performed using authentic standards and validated based on the ICH Guideline Q2 (Guideline, 2005) . In turn, for the other compounds identified but for which no authentic standards were available, the peak area was used to assess the impact of the digestion process and determine their bioavailability.
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