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Enhanced chemstation

Manufactured by Agilent Technologies

The Enhanced ChemStation is a software suite designed for analytical instrumentation data management and analysis. It provides a comprehensive platform for controlling, acquiring, processing, and reporting data from various Agilent Technologies analytical instruments, including gas chromatographs, liquid chromatographs, and mass spectrometers.

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10 protocols using enhanced chemstation

1

Py-GC/MS Analysis of Pigment B15:3

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For Py–GC/MS analysis an HP-Plot/Q 30 m long column with a stationary phase of 0.32 mm thickness and 20 μm i.d. (Agilent Technologies, Santa Clara, CA, USA) was used. Small samples of pigment B15:3 were directly placed inside a glass tube which were then automatically inserted to the pyrolysis module at the thermal desorption unit (TDU) (both from Gerstel, Mühlheim, Germany) of the GC/MS inlet system. Pyrolysis was carried out at temperatures of 500–1,000 °C for 6 s. The temperature of the cold injection system (CIS), TDU and transfer line was maintained at 260 °C. The carrier gas flow rate was 1 ml/min using a split ratio of 1:30. The GC oven was kept at 50 °C for 2 min and afterwards ramped at 10 °C/min to 260 °C which was then held for 10 more minutes. The mass range was scanned in full scan mode from 10 to 550 m/z. Fragments were identified using a library of standards (US-NIST – National Institute of Standards and Technology – 2011 MS Library). Match and rematch for HCN, BCN and BDCN were above 900 on a scale to 999 being the best possible match. Data were analyzed using Enhanced ChemStation (E02.02.1431) from Agilent Technologies.
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2

Mass Spectra Analysis Protocol

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All data were processed with Enhanced Chemstation (Agilent MSD chemstation) for mass spectra visualization, identification, and quantitation. More detailed data processing procedures can be found in the Supporting Information.
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3

Volatile Profiling of Honeydew Compounds

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Each SPME fiber was desorbed in the injection port of an Agilent 7890B gas chromatograph (GC) coupled with an Agilent 5977A mass spectrometer (MS) (EI mode, 70 eV with a scanning range of 40.0–450.0 m/z), using a DB-5MS capillary column (Agilent, 30 m×0.25 mm i.d., 0.25 µm film thickness) in splitless mode, with helium carrier gas at constant flow rate of 1 ml/min. The injection port temperature was 280°C, and the oven temperature was held at 40°C for 1 min, ramped at 10°C/min to 300°C, then held for 25 min. Tentative identifications of the honeydew volatile components were made by comparing mass spectra with those in the mass spectral library database (Enhanced ChemStation, MSD Chemstation, Data Analysis software vF.01.00.1903, and NIST, v11, Agilent Technologies, Santa Clara, CA). Close matches were confirmed by obtaining and injecting authentic standards and comparing their Kovat’s indexes (KI), retention times, and mass spectra to ensure they matched. Compounds that were also present in controls are not reported. Peak areas representing the total ion abundance for each peak were used to calculate the percent (ratio) of each identified compound over all SPME volatile collections combined for each sex (4 Early, 2 Mid, and 1 Late). The sum of peak areas for each compound was divided by the total sum of all 13 compounds for males and for females to calculate ratios.
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4

Identification of Organic Compounds via Mass Spectrometry

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The identification of organic compounds was performed with an Agilent Technologies Enhanced ChemStation (G1701EA ver. E.02.00.493) and The Wiley Registry of Mass Spectral Data (version 3.2, Copyright 1988–2000 by Palisade Corporation, 8th Edition with Structures, Copyright 2000 by John Wiley and Sons, Inc.) using a 3% cut-off threshold. The selected peaks representing organic compounds whose mass spectra indicated compliance with reference mass spectra equal to or higher than 80% were identified using the mass spectra library. The rest of the organic compounds representing lower compliance (50–79%) were assigned to the major classes of organic compounds based on the presence of characteristic and dominating fragmentation ions (aromatic hydrocarbons–m/z 65, 77, 78, 79; aliphatic hydrocarbons–m/z 43, 57, 71, 85, 99; alcohols–m/z 45, 59, 73, 87; aldehydes–m/z 44, 58, 72; carboxylic acids–m/z 43, 45, 57, 59, 60, 71, 73, 85, 87) (Silverstein et al., 2014 ).
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5

GC-FID Analysis of Volatile Compounds

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For chemical detection, we employed an HP 5890 gas chromatograph with flame ionization detector (GC-FID, Agilent Technologies, Santa Clara, CA). Separation occurred on a DB-VRX capillary column (20 m × 0.18 mm × 1.00 μm, Agilent Technologies, Santa Clara, CA). The injection port was set to 235 °C, splitless injection. The GC oven was initially set to 35 °C and held for 5 min while the volatiles in the μPC desorbed. Then the oven was ramped to 170 °C at 10 °C/min, then to 250 °C at 30 °C/min and held for 3.33 min. The FID was set to 250 °C. Numerical analysis for peak detection and integration was performed with Agilent’s Enhanced ChemStation (F.01.00.1903, Santa Clara, CA).
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6

Mass Spectrometric Identification of Organic Compounds

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Peaks that indicated an area not less than 0.1% of the total area of the total ion current chromatogram were selected for identification. The identification was performed with an Agilent Technologies Enhanced ChemStation (G1701EA ver. E.02.00.493) and The Wiley Registry of Mass Spectral Data (version 3.2, Copyright 1988–2000 by Palisade Corporation with, 8th Edition with Structures, Copyright 2000 by John Wiley and Sons, Inc.) using a 3% cutoff threshold.
The selected peaks representing organic compounds whose mass spectra indicated compliance with reference mass spectra equal to or higher than 80% were identified. The rest of the organic compounds representing lower compliance (< 80%) were assigned only to the major classes of organic compounds based on the presence of characteristic and dominating fragmentation ions (aromatic hydrocarbons– m/z 65, 77, 78, 79; aliphatic hydrocarbons—m/z 43, 57, 71, 85, 99; alcohols—m/z 45, 59, 73, 87; aldehydes—m/z 44, 58, 72; carboxylic acids—m/z 43, 45, 57, 59, 60, 71, 73, 85, 87). Those organic compounds present in extracts of three repetitions of each sample were selected for further analysis.
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7

GC-MS Analysis of Metabolites

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GC-MS analyses were performed using either a 6890 Series gas chromatograph, equipped with a model 5973 Mass Detector or a 7890A GC equipped with a 5975C MS (Agilent Technologies, Palo Alto, CA) operating in the electron-impact ionization mode (70 eV). The analyses were carried out in splitless mode. Metabolites were separated on Agilent HP 5ms, 5% diphenyl/95% dimethyl polysiloxane capillary column (30 m × 0.25 mm, 0.25 μm film thickness). Helium was used as the carrier gas at a flow rate of 1.2 to 1.56 ml/min. Oven conditions: 80 °C, 2 min; 10 °C/min to 200 °C, hold 20 min; 3 °C/min to 250 °C, hold 5 min). The identification of compounds was facilitated by using Agilent Enhanced ChemStation version D.02.00.275 and the quantification was calculated by integrating the corresponding peak areas relative to the area of the internal standard.
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8

GC-MS Identification of Organic Compounds

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Peaks that indicated area not less than 0.1% of the total area of total ion current chromatogram were selected for identification. The identification was performed with an Agilent Technologies Enhanced ChemStation (G1701EA ver. E.02.00.493) and The Wiley Registry of Mass Spectral Data (version 3.2, copyright 1988–2000 by Palisade Corporation with 8th Edition with Structures, copyright 2000 by John Wiley and Sons, Inc., Hoboken, NJ, USA) using a 3% cutoff threshold.
The selected peaks representing organic compounds whose mass spectra indicated compliance with reference mass spectra equal to or higher than 80% were identified. The rest of the organic compounds representing lower compliance (<80%) were assigned only to the major classes of organic compounds based on the presence of characteristic and dominating fragmentation ions (aromatic hydrocarbons—m/z 65, 77, 78, 79; aliphatic hydrocarbons—m/z 43, 57, 71, 85, 99; alcohols—m/z 45, 59, 73, 87; aldehydes—m/z 44, 58, 72; carboxylic acids—m/z 43, 45, 57, 59, 60, 71, 73, 85, 87) [32 ]. Those organic compounds, which were present in extracts of two repetitions of each sample, were selected for further analysis. Statistical analysis of the results was performed using Student’s t-test.
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9

GC-MS Analysis of Saturated Alkanes

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Extracted CC samples were analysed with GC–MS. GC–MS analysis was performed on an Agilent 6890N GC-5973 MSD system. An HP-5MS column (Agilent, 30 m long, 0.25 mm in diameter, 0.25 µm thick) was used for gas chromatographic separation. The sample injection port temperature was set at 300°C using the splitless mode. Helium carrier gas was set at a flow rate of 0.9 ml/min in constant-flow mode. The oven temperature was set at 40°C for 3 min; increased to 260°C at a rate of 30°C/min, then to 300°C at 15°C/min; and held at 300°C for 18 min. C7 to C40 saturated alkanes were used as standards, and the internal standard was the linear hydrocarbon docosane (C22H46, 10 ng/l µl). GC-MS analysis data were processed using Enhanced ChemStation (Agilent, E02.02.1431).
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10

Fecal SCFA Analysis by GC-MS

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Fecal SCFAs were measured using gas chromatography and mass spectrometry (GC-MS), as described previously 17 . In brief, internal standards were mixed with 50 mg of faeces. Samples were analyzed by using a 7890A gas chromatograph coupled with an Agilent 5975C mass selective detector (Agilent Technologies, Santa Clara, CA). A HP-5-MS (5%-diphenyl 95%-methylpolysiloxane) capillary GC column (30 m x 250 µm i.d. 2.5 µm lm thickness, Agilent Technologies) was used with helium as the carrier gas at a constant ow rate of 1 mL/min. All original data were processed with Enhanced Chemstation (Agilent Technologies). The integrated areas of the SCFAs were normalized to the internal standard and quanti ed with a standard curve constructed from serial dilutions of SCFAs.
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