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6340 ion trap

Manufactured by Agilent Technologies

The 6340 Ion Trap is a highly sensitive mass spectrometry instrument designed for precise chemical analysis. It utilizes ion trap technology to capture and analyze ionized molecules, enabling accurate identification and quantification of complex chemical compounds. The core function of the 6340 Ion Trap is to provide researchers and analysts with a powerful tool for advanced analytical applications across various industries.

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7 protocols using 6340 ion trap

1

Biochemical Detection of Fusaricidins in Paenibacillus

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To detect the presence of fusaricidins biochemically in Paenibacillus spp., endophytes were grown for 48 h on Katznelson and Lochhead liquid medium (Paulus and Gray, 1964 (link)), harvested by freeze drying, then the lyophilized powder from each strain was extracted by methanol. The methanolic extracts were run on a Luna C18 column with a gradient of 0.1% formic acid and 0.1% formic in acetonitrile. Peaks were analyzed by mass spectroscopy (Agilent 6340 Ion Trap), ESI, positive ion mode. LC-Mass analysis was conducted at the Mass Spectroscopy Facility, McMaster University, Ontario, Canada. The m/z ratios were compared to the published literature (Kajimura and Kaneda, 1996 (link), 1997 (link); Beatty and Jensen, 2002 (link)).
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2

Quantitative Analysis of Dexfenfluramine and Pergolide in Rabbit Serum

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Dexfenfluramine and pergolide concentrations in rabbit serum were determined by liquid chromatography coupled with mass spectrometry (LC–Chip–MS/MS). Briefly, the chromatographic separation was achieved on a 1200 series LC-chip system (Agilent Technologies, Germany) using an Ultra High Capacity chip including a 500 nL trapping column and a 150 mm × 75 μm analytical column, both packed with a Zorbax 80SB 5 μm C18 phase (Agilent Technologies). The mobile phase was composed of H2O/FA (100:0.1, v/v) (A) and ACN/H2O/FA (90:10:0.1, v/v/v) (B) and used in gradient elution mode (from 15% to 69% B in 5 min). Mass spectrometric detection was performed using a 6340 Ion Trap equipped with a nanoelectrospray ionization source operating in positive mode (Agilent Technologies, Waldbronn) (transitions followed for dexfenfluramine: 232.0 −> 158.8; 186.8 m/z and for pergolide: 315.2 −> 207.9; 267.0 m/z). Finally, an Oasis µElution MCX 96-well plate (Waters, UK) was used to prepare the samples for the analysis. Fifty microliters of plasma was needed per experiment and all conditions were performed in duplicate and back-calculated using a calibration curve.
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3

LC-Chip-MS/MS Quantification of Fluoxetine and Norfluoxetine

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Drug concentrations were determined from serum using liquid chromatography coupled with mass spectrometry (LC-Chip-MS/MS) that was used as previously described [22 (link), 33 , 34 (link)]. Briefly, the chromatographic separation was achieved on a 1200 series LC-chip system (Agilent Technologies, Germany) using an ultrahigh capacity chip including a 500 nL trapping column and a 150 mm × 75 μm analytical column, both packed with a Zorbax 80SB 5 μm C18 phase (Agilent Technologies). The mobile phase was composed of H2O/FA (100 : 0.1, v/v) (A) and ACN/H2O/FA (90 : 10 : 0.1, v/v/v) (B) and used in gradient elution mode. Mass spectrometric detection was performed using a 6340 ion trap equipped with a nanoelectrospray ionization source operating in positive mode (Agilent Technologies, Waldbronn). Finally, an Oasis μElution MCX 96-well plate (Waters, UK) was used to prepare the samples for the analysis. All conditions were performed in duplicate and back-calculated using a calibration curve. Fluoxetine and norfluoxetine levels were averaged across days to provide one morning and one afternoon value.
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4

Quantification of Fluoxetine and Metabolite

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To determine serum fluoxetine and norfluoxetine concentrations in dams, liquid chromatography coupled with mass spectrometry (LC-MS/ MS) was used as described [41, 50, 51, 54] . The chromatographic separation was achieved using an Ultra High Capacity chip including a 500 nL trapping column and a 150 mm × 75 μm analytical column, both packed with a Zorbax 80SB 5 μm C18 phase (Agilent Technologies) on a 1200 series LC-chip system (Agilent Technologies, Germany). The mobile phase was composed of H2O/FA (100:.1, v/v) (A) and ACN/ H2O/FA (90:10:.1, v/v/v) (B) which were used in gradient elution mode. Mass spectrometric detection was carried out using a 6340 Ion Trap consisting of a nanoelectrospray ionization source operating in positive mode (Agilent Technologies, Waldbronn). An Oasis μElution MCX 96-well plate (Waters, UK) was used to prepare the samples for the analysis. All conditions were performed in duplicate and back-calculated using a calibration curve. Twenty-five μL of serum was needed per animal. Mean ( ± SEM) medication levels for the dams at sacrifice were 19.3 ± 6.7 ng/ml for fluoxetine and 110.1 ± 26.1 ng/ml for norfluoxetine (n = 13 treated dams).
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5

Gliotoxin Spiking and Detection

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For Gliotoxin spiking experiments, cultures were grown in Sabouraud–dextrose medium for 21 h followed by Gliotoxin addition (2.5 µg ml−1 final) for 3 h (n = 3 biological replicates for all specimens). All strains used are given in electronic supplementary material, table S5. Organic extracts from supernatants were analysed by RP-HPLC with UV detection (Agilent 1200 system), using a C18 RP-HPLC column (Agilent Zorbax Eclipse XDB-C18 Semi-Preparative; 5 µm particle size; 4.6 × 250 mm) at a flow rate of 2 ml min−1. A mobile phase of water and acetonitrile with TFA was used under various gradient conditions. Aspergillus fumigatus wild-type, deletion and complementation strains were grown for 72 h in Czapek Dox medium (unless stated otherwise) followed by organic extraction and LC–MS analysis as previously described [12 (link)]. Supernatants were diluted 1/10 in 0.1% (v/v) formic acid and spin filtered prior to LC–MS analysis (Agilent Ion Trap 6340) to detect BmGT presence. Gliotoxin (purity: 98%) and BmGT (purity: 99%) standards were obtained from Sigma-Aldrich and Enzo Life Sciences, respectively.
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6

Quantitative Proteomic Analysis of GT Methylation

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A. niger CBS 513.88 mycelial lysates were obtained following 48 h growth in PDB media (45 h culture followed by supplementation with GT (2.5 μg/ml) (Induced) or methanol (Uninduced) for 3 h. Mycelia were snap-frozen and ground in liquid N 2 , and lysed by sonication and bead-beating in lysis buffer A. Protein lysates were clarified by centrifugation prior to use in assays. Reaction mixtures were carried out essentially as described by [11] (link) with modifications: Tris (2-carboxyethyl) phosphine (TCEP)-reduced GT (1 mg/ml; 2 μl), SAM (25 mg/ml in PBS, 3 μl), A. niger lysate (20 μl; 3 mg/ml protein) and PBS (75 μl). Negative controls used 20 μl lysis buffer instead of lysate. Reactions were incubated at 37 °C for 3 h and terminated by adjustment to 15% (v/v) TCA, vortexed briefly and incubated on ice for 30 min. Samples were centrifuged at 10,000 × g for 10 min, 4 °C and supernatants were diluted 1/10 in 0.1% (v/v) formic acid and spin filtered prior to LC-MS/MS analysis (Agilent Ion Trap 6340) to detect thiomethylated GT derivatives [11] (link).
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7

Comparative Analysis of Gliotoxin Biosynthesis in Aspergillus fumigatus

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A. fumigatus wild-type, DgtmA and gtmA c strains (Dolan et al., 2014) (link) were grown (10 8 conidia/ml) in quadruplicate (Czapek-Dox broth, 200 rpm, 3 d; then static, 25 d 37 C). Culture supernatants and ethyl acetate organic extracts (100 ml) were analysed by RP-HPLC with UV detection (Agilent 1200 system), using a C18 RP-HPLC column (Agilent Zorbax Eclipse XDB-C18 Semi-Preparative; 5 mm particle size; 4.6 Â 250 mm) at a flow rate of 2 ml/min (Fig 1 ).
A mobile phase of water and acetonitrile with 0.1 % (v/v) trifluoroacetic acid, was used under various gradient conditions. For LCeMS analysis, organic extracts were diluted 1/10 in 0.1 % (v/v) formic acid and spin filtered prior to LCeMS analysis (Agilent Ion Trap 6340). Gliotoxin (purity: 98 %) and BmGT (purity: 99 %) standards were obtained from Sigma-Aldrich and Enzo Life Sciences, respectively. Fumagillin, pseurotin A, tryprostatin B and fumitremorgin C were identified based on published m/z ratios, retention times and fragmentation patterns as described previously (O'Keeffe et al., 2014) (link). All data were analysed using built-in GraphPad prism version 5.01 functions, as specified. The level of significance was set at p < 0.05 (*), p < 0.001 (**), and p < 0.0001 (***), unless otherwise stated.
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