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Thermo ltq orbitrap xl

Manufactured by Thermo Fisher Scientific
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The Thermo LTQ Orbitrap XL is a high-resolution mass spectrometer that combines a linear ion trap (LTQ) with an Orbitrap mass analyzer. It provides accurate mass measurements and high-resolution capabilities for a wide range of analytical applications.

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14 protocols using thermo ltq orbitrap xl

1

Comprehensive Metabolomic Profiling of Plasma and Fecal Samples

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Plasma and fecal samples were prepared using the cold methanol extraction method, clarified up with 0.2-μm ultracentrifugation spin filters, and further diluted with water containing 0.1% formic acid and subjected to nontargeted metabolic profiling. Briefly, samples were analyzed by ultrahigh performance liquid chromatography/tandem mass spectrometry (UHPLC/MS/MS) with Thermo LTQ Orbitrap XL (Thermofisher, CA). Metabolites were identified by automated comparison of the ion features in the experimental samples to a reference library of chemical standard entries that included retention time, the mass-to-charge ratio (m/z), preferred adducts, as well as associated MS spectra, and were quality controlled using pooled sample alignment using the Progenesis QI metabolomics package.
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2

Purification and Characterization of Organic Compounds

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All solvents were purified according to the solvents handbook. Unless otherwise noted, materials were obtained from commercial suppliers and used without further purification. All reactions were performed under a dinitrogen atmosphere using Schlenk line techniques or inside a dinitrogen-filled glove box. Flash column chromatography was carried out using 300- to 400-mesh silica gel at medium pressure. 1H NMR (nuclear magnetic resonance) and 13C NMR spectra were recorded at 25°C on Bruker Advance 500-MHz NMR spectrometers. High-resolution mass spectral analysis was performed on a Thermo LTQ Orbitrap XL (ESI+) or a P-SIMS-Gly of Bruker Daltonics Inc. (EI+). Optical rotations were determined at 589 nm (sodium D line) by using a PerkinElmer 343 polarimeter. The measurement of ees was performed on Waters-Alliance (2998, Photodiode Array Detector).
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3

Single-Cell Mass Spectrometry Imaging

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CSCs and NSCCs were attached onto the laminin-coated glass slides through overnight culture (Figure 1C), and the slides were placed on a motorized XYZ-translation stage system (Figure 1D), which was controlled by a LabView software package.30 (link) A syringe (250 μL; Hamilton Co., Reno, NV, USA) was used to continuously provide the sampling solvent (acetonitrile; Sigma-Aldrich), and a stable liquid junction was formed at the single-probe tip to extract cellular contents during the experiment. Using a microscope as a guide, a cell of interest was selected by controlling the stage system, and the selected cell was penetrated by lifting the Z-stage (Figure 1B). Cellular components were extracted by sampling solvent at the Single-probe tip, withdrawn toward the nano-ESI emitter through a self-aspiration process, and ionized for analysis using a Thermo LTQ Orbitrap XL mass spectrometer (Thermo Scientific, Waltham, MA, USA; Figure 1D). MS scans were acquired for individual cells, whereas MS2 experiments were conducted for ions of interest. MS analysis parameters are listed as follows: mass resolution, 60,000; ionization voltage, +4.5 kV (positive ion mode) or −4 kV (negative ion mode); 1 microscan; 100 ms max injection time; AGC (automatic gain control), on.
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4

UPLC-MS Analysis of Secondary Metabolites

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The secondary metabolite extracts were analysed using a Dionex Ultimate 3000 UPLC System (Thermo Fisher Scientific, Waltham, MA, USA) coupled to a photodiode array (PDA) detector using a 100 mm ACQUITY UPLC BEH C18 1.7 μm column (Waters Corporation, Milford, MA, USA). A linear gradient (5 to 95%) of a water solution containing 0.1% (volume/volume (v/v)) formic acid (solvent A) and an acetonitrile solution containing 0.1% (v/v) formic acid (solvent B) as the mobile phase was used to separate the extracts at a flow rate of 0.6 mL/min for 18 min. The mass detection and analysis were performed with a Thermo LTQ Orbitrap XL (Thermo Fisher Scientific, Waltham, MA, USA) mass spectrometer using the positive mode of ionisation and a detection range of 200–2000 m/z. The gathered data were analysed using Thermo Xcalibur version 3.0 software. The monoisotopic masses were compared using the Dictionary of Natural Products (DNP) database (Buckingham 1993 ) with the following parameters: exact molecular mass, absorption spectrum, source of isolation, fragmentation and physical characteristics (Running 1993 (link)). Compounds were considered similar when the difference between their exact masses was less than 5 ppm and the absorption spectra were identical.
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5

Comprehensive NMR and Mass Spectrometry Analysis

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UV spectra were recorded on a Jasco V-530 spectrophotometer (Jasco Europe s.r.l., Cremella, Italy); ECD spectra were recorded on a Jasco 715 spectropolarimeter using 1 cm cuvettes; 1H NMR and 2D NMR experiments were carried out at 700 MHz on a Bruker Avance Neo spectrometer (Bruker BioSpin Corporation, Billerica, MA, USA) equipped with a cryoprobe for standard 5 mm tubes; 1H and 13C chemical shifts were referenced to the residual solvent signal (CD3OD, δH 3.31, δC 49.0); 31P chemical shifts were referenced to aqueous 85% w/w H3PO4P = 0 ppm) as an external standard. The multiplicity-edited HSQC spectra was optimized for 1JCH = 145 Hz and the HMBC experiments for 2,3JCH = 8.0 Hz and 2,3JPH = 8.0 Hz. Through-space 1H connectivities were evidenced using a ROESY experiment with a mixing time of 200 ms. High-resolution ESI-MS and HR-ESI-HPLC experiments were recorded on a Thermo LTQ Orbitrap XL mass spectrometer (Thermo Fisher Scientific Inc., Waltham, MA, USA) combined to a Thermo U3000 HPLC system. High-performance liquid chromatography (HPLC) separations were achieved on an Agilent 1260 Infinity Quaternary LC apparatus (Agilent Technology, Cernusco sul Naviglio, Italy), equipped with a diode-array detector (DAD).
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6

Synthesis and Characterization of Novel Compounds

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The control of all reactions was monitored by TLC using aluminium sheets of Merck silica gel 60 F254, 0.2 mm. Melting points were determined on an Electrothermal 9002 melting point apparatus and are uncorrected. NMR spectra were recorded on a Bruker Avance Neo spectrometer (Bruker BioSpin Corporation, Billerica, MA, USA) at 400 MHz (1H) and 100 MHz (13C) using dimethylsulfoxide-d6 as solvent. All chemical shifts were reported as δ values (ppm) relative to residual solvent signal (δH 2.50, δC 39.5). High Resolution Mass Spectra (HRES-MS) were obtained with Thermo LTQ Orbitrap XL mass spectrometer (Thermo Fisher Scientific Inc., Waltham, MA, USA) combined to a Thermo U3000 high-performance liquid chromatography (HPLC) system (ESI technique, positive mode). The starting material 1 was prepared according to the literature [64 (link)].
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7

Real-time Monitoring of PMS-Quinone Reactions

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To identify the intermediates in PMS activated by DMBQ, DCBQ and TFBQ, in situ analysis and real-time monitoring of the reaction of PMS and quinones were carried out by droplet spray ionization mass spectrometry (DSI-MS). A detailed description of DSI-MS is given elsewhere.22,24 (link) A photograph of the DSI-MS is shown in Fig. S1. The protocol for in situ analysis and real-time monitoring of PMS activated by different quinones involved three steps (Fig. S2). Firstly, 10 μL of methanol/water (v/v: 7/3) was loaded onto the corner at 0 s. When a high voltage of −4 kV was applied to the solution, an electrospray was formed between the corner and the MS inlet. Then, 10 μL of different quinones (DMBQ, TCBQ, and TFBQ) (5 × 10−5 mol L−1) was loaded onto the corner at 10 s. Finally, 30 μL of PMS (5 × 10−4 mol L−1) was loaded onto the corner at 14 s. Data were recorded continuously during these additions of reagents. The sample solutions were adjusted at pH 10 before pipetting to the corner. These experiments were implemented on a Thermo LTQ-Orbitrap XL mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA). The operation parameters were set as follows: resolution, 60 000; capillary temperature, 275 °C; ion maximum injection time, 500 ms; tube lens voltage, −110 V; capillary voltage, −35 V.
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8

Spectroscopic Analysis of Natural Products

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High-resolution MS (positive mode) was performed on a Thermo LTQ Orbitrap XL mass spectrometer (Thermo-Fisher, San Josè, CA, USA). The spectra were recorded by infusion into the ESI source using MeOH as solvent. 1H NMR and 2D NMR experiments were carried out at 700 MHz on a Bruker Avance Neo spectrometer (Bruker BioSpin Corporation, Billerica, MA, USA); chemical shifts were referenced to the residual solvent signal (CD3OD: δH = 3.31, δC = 49.0). Two and three bond 1H-13C connectivities were determined by gradient 2D HMBC experiments optimized for a 2,3J of 8 Hz. Through-space 1H connectivities were evidenced using a NOESY experiment with a mixing time of 300 ms. A Jasco P-2000 polarimeter (Jasco Europe s.r.l., Cremella, Italy) at the sodium D line was used to measure optical rotations. High performance liquid chromatography (HPLC) separation was achieved on a Knauer K-501 apparatus equipped with a Knauer K-2301 RI detector (LabService Analytica s.r.l., Anzola dell’Emilia, Italy).
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9

NMR and Mass Spectrometry Analysis of Metabolites

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1H NMR and 2D NMR experiments were performed at 700 and 600 MHz on a Bruker Avance Neo spectrometer (Bruker BioSpin Corporation, Billerica, MA, USA) using CD3OD as solvent. All chemical shifts were referenced to the residual solvent signal (δH 3.31, δC 49.0). Through-space 1H connectivities were evidenced using a ROESY experiment with a mixing time of 200 ms. The HSQC spectra were optimized for 1JCH = 145 Hz and the HMBC experiments for 2,3JCH = 8.0 Hz. High-resolution MS and LC-MS experiments were recorded on a Thermo LTQ Orbitrap XL mass spectrometer (Thermo Fisher Scientific Inc., Waltham, MA, USA) combined with a Thermo U3000 HPLC system equipped with a solvent reservoir, inline degasser, binary pump, and refrigerated autosampler. The purification was performed on an HPLC Jasco featuring a quaternary pump, equipped with a Jupiter C18 analytical column (5 μM, 250 mm × 4.6 mm i.d.) and the metabolites were revealed by using a photodiode array detector (PDA).
UV-Vis measurements at 593 nm were performed with the BioTek Synergy HTX Multimode Reader (Agilent Technologies, Santa Clara, CA, USA).
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10

Automated Online Elution System for AIMS

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The online elution interface in AIMS analysis is schematically presented in Fig. 1B. A 500 μL Hamilton syringe (Bonaduz, Switzerland) was filled with methanol containing 0.1% (V/V) formic acid, which acted as the eluent and ionizing medium. The syringe pump installed in the MS pumped the methanolic solution at 30 μL/min through a polyether ether ketone tube that was already connected to the N6-Cel-HN by a precut 10 μL pipette tip that acted as an adapter. An electric clamp was connected to the HN, leaving 25 mm between the clamp and the tip of the needle to ensure the mechanical stability of the ESI emitter. The distance between the HN tip and the MS inlet was fixed at 10 mm to prevent electric discharges. The eluent flowed through the N6-Cel sorbent, eluting the analyte that was finally electrosprayed in the tip of the HN.
High-resolution AIMS analyses were carried out in a Thermo LTQ Orbitrap XL hybrid mass spectrometer (Thermo Fisher Scientific Inc., San Francisco, CA, USA), working with the Fourier-transform mass spectrometry analyzer. The ionization parameters of the proposed interface are presented in the Supplementary data.
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