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Agilent 7890a gas chromatography

Manufactured by Agilent Technologies
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The Agilent 7890A is a gas chromatography system designed for high-performance analysis of complex samples. It features precise temperature control, a reliable autosampler, and flexible configuration options to meet diverse analytical requirements. The 7890A provides accurate and reproducible results for a wide range of applications.

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7 protocols using agilent 7890a gas chromatography

1

Quantification of Lignin Composition

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Total lignin was measured by acetyl bromide method with slight modifications from (Foster et al., 2010a ). Briefly, 1 mL of 25% acetyl bromide (Sigma‐Aldrich) was added to 4–5 mg of protein‐free CWRs and incubated at 50 °C for 3 h; then the samples were cooled down on ice for 15 min and 2.5 mL of glacial acetic acid was added to stop the reaction. A volume of 400 μL 1.5 M NaOH and 300 μL of 0.5 M hydroxyl amine hydrochloride (Sigma‐Aldrich) were added to 300 μL of the samples and vortexed. 200 μL of the solution was pipetted into the Corning® 96‐well UV‐Transparent Microplates (Corning, Kennebunk) and the absorbance was recorded at 280 nm with Spark 20M microplate reader (Tecan, Männedorf). A blank with the reagents only was included to correct background absorbance. The extinction coefficient of 17.75 g−1/cm for grasses was used for the calculation of lignin content (Foster et al., 2010a ).
To determine the lignin monomeric composition, thioacidolysis (Rolando et al., 1992 ) was performed with 10 mg protein‐free CWRs by follow the procedure described previously (Zhao et al., 2023 (link)). For derivatization, 50 μL of pyrimidine (Sigma‐Aldrich) and N‐methyl‐N‐trimethylsilyl trifluroacteamide (Sigma‐Aldrich) was added and incubated for 5 h. Derivatized products were quantified with Agilent 7890A gas chromatography as described (Zhao et al., 2021 (link), 2023 (link)).
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2

GC-MS Analysis of Metabolites in Cultured Cells

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Confluent cells in 6-well plated were homogenized in 0.5 mL of chilled 80% (v/v) methanol. The samples were centrifuged at 12,000 rpm for 10 min and the supernatants were transferred to a high recovery glass sampling vial (CNW, VAAP-31509-1232-100) to vacuum dry at room temperature. The residue was re-suspended with 30 μL pyridine containing 20 mg/mL methoxyamine hydrochloride (Sigma-Aldrich, 226904) at 37 °C overnight and further derivatized with 20 μL of N-tert-Butyldimethylsilyl-N-methyltrifluoroacetamide (Sigma-Aldrich, Cat#: 394882) at 70 °C for 30 min. Then 1 μL aliquot of the derivatized sample was injected into Agilent 7890 A gas chromatography coupled with Agilent 5975 C mass spectrometer. Separation was achieved on a HP-5ms fused-silica capillary column with the helium as the carrier gas at a constant flow rate of 1 mL/min through the column.
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3

Quantifying Intracellular Glycogen and Extracellular Metabolites

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The intracellular glycogen concentration in 1 mg of cells (dry weight) was collected and extracted as according to a previous study (Nakajima et al., 2017) . Glycogen concentration was measured using an EnzyChrom Glycogen Assay Kit (BioAssay Systems, Hayward, CA, USA) according to the manufacturer's instructions.
The supernatant of the culture broth was filtered to remove large size impurities using a Millex HV 0.45-µm filter (Merck KGaA, Darmstadt, Germany). The concentrations of BuOH, ethanol, pyruvate, lactate, formate, acetate, and succinate in the culture supernatant were determined using an Agilent 7890A gas chromatography (GC) system (Agilent Technologies, Santa Clara, CA, USA) equipped with a DB-WAX 123-7062 column (60 m × 0.32 mm inner diameter × 0.25 μm; Agilent Technologies) and a Prominence high-performance liquid chromatography (HPLC) system (Shimadzu, Kyoto, Japan) equipped with a UV/vis detector (SPD-20A), a refractive index detector (RID-10A), and an Aminex HPX-87X column (Bio-Rad, Hercules, CA, USA). The chromatographic conditions were as described in the previous study (Morita et al., 2017) .
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4

Quantification of Volatile Organics and PCBs in Serum

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Organic compound quantification was performed on the volatile organic compounds (VOCs) benzene, toluene, and o-xylene using EPA Method 1624 [72 ] and selected PCBs (PCB-28, PCB-52, PCB-101, PCB-138, PCB-153, and PCB-180) using EPA Method 1625 [73 ]. Separate analyses were completed for VOC and PCB quantification, each requiring 200 μL of serum spiked with 2H labeled versions of each VOC or 13C labeled versions of each PCB. Solid-phase microextraction was performed on the headspace of the samples using a polydimethylsiloxane/divinylbenzene fiber for VOCs and polyacrylate fiber for the PCBs. An automated Gerstel (Linthicum, MD, USA) MultiPurpose Sampler II and Agilent 7890A Gas Chromatography and an Agilent 5975c quadrupole Mass Spectrometer were used for sample analysis and Agilent Chemstation for data analysis. Three independent samples were prepared for each sample, both before and after the cleanroom, with one analysis performed on each.
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5

Metabolomics Profiling of Plasma Samples

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The plasma samples were thawed and extracted with 3 vol cold organic mixture of ethanol and chloroform and centrifuged at 4 °C at 14,500 rpm for 20 min. The supernatant was split for lipid and AA profiling using Acquity ultraperformance LC coupled to Xevo TQ-S mass spectrometry (UPLC–MS/MS, Waters Corp., Milford, MA). Metabolic profiling of other metabolites including organic acids, carbohydrates, AAs, and nucleotides was done using Agilent 7890A gas chromatography coupled to Leco Pegasus time-of-flight mass spectrometry (Leco Corp., St Joseph, MI). The raw data files generated from LC–MS (targeted) and GC-MS (untargeted) were processed with TargetLynx Application Manager (Waters Corp., Milford, MA) and ChromaTOF software (Leco Corp., St Joseph, MI), respectively. Peak signal, mass spectral data, and retention times were obtained for each metabolite. The detected metabolites from GC–MS were annotated and combined using an automated mass spectral data processing software package.28 (link) The levels of lipids and AAs detected from LC-MS were measured using the AbsoluteIDQ p180 Kit (Biocrates Life Sciences, Austria) commercially available. The reference standards of these measured lipids and AAs were integrated in the kit.29 (link) More details of metabolomic experiments and data preprocessing are described in the following subsections.
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6

Quantifying Membrane Fatty Acid Composition

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The composition of cell membrane fatty acid was quantified using gas chromatography analysis outlined by Garces and Mancha (GarcÉs and Mancha, 1993 (link)). BIOPOP-3 WT, heat-adapted, and ALE strains were cultured in MRS broth and incubated at 37°C for 24 h. Cells were then harvested by centrifugation and washed twice with distilled water. Pellets were transferred to tubes with Teflon-lined caps and pentadecenoic acid (C15:0) was used as an internal standard. For lipid extraction, tubes were placed in a water bath at 80°C for 2 h. They were then cooled down at room temperature. After shaking and precipitating the sample, the contents were separated into two layers. The upper layer containing Fatty Acid Methyl Esters was extracted and analyzed using Agilent 7890A gas chromatography (Agilent, United States) equipped with a flame ionization detector and a DB-23 column (60 mm × 0.25 mm × 0.25 μm) (Agilent Technologies, Inc., Wilmington, DE, United States). The results were shown as relative percentages of each fatty acid and the ratios of saturated fatty acids and unsaturated fatty acids were calculated (Shin et al., 2018 (link)).
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7

Extraction and Analysis of Yeast Volatiles

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Fifty microliters of 48-h-old liquid culture of selected yeast strain (1 × 10 8 cells/ mL) were inoculated in vials containing 5 mL of NYDB medium and used for volatile compounds extraction. The vials were sealed with parafilm and placed on a rotary shaker (120 rpm) at 25 ± 2 o C for 48 h. Vials without yeast inoculation were used as a control. Then 5 mL ethyl acetate was added to each vial (v/v) and then placed on a magnet for 60 min. Finally, samples were centrifuged at 6000 rpm for 15 min to extract all trapped volatile compounds in treatment and control (40) . Three replications were used for each treatment. The chemical analysis of VOCs produced by yeast strain 111A-NL1 was carried out by Agilent 7890A gas chromatography (GC) coupled with Agilent 5977B mass spectrometry (MS) (Agilent Technologies, USA), using an HP-5 MS capillary column (30 m × 0.25 mm, film thickness 0.25 μm). The analytical conditions were described according to Amini et al. (2016) (41) .
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