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15 protocols using openlab cds

1

HPLC Analysis of Polyphenolic Compounds

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The analysis of polyphenolic compounds by high performance liquid chromatography (HPLC) was performed according to the method described previously by Kowalczewski et al. [41 (link)] on the Agilent 1260 Infinity II liquid chromatograph (Agilent Technologies, Inc., Santa Clara, CA, USA) equipped with an autosampler (G7129A), a pump (G7111A), and a diode detector (G7115A) with an overview of the spectrum (190 to 400 nm). Determinations of vanillin and p-hydroxybenzoic acid were performed at a wavelength of 280 nm; caffeic and ferulic acids at 320 nm; whereas the chlorogenic acid at 255 nm. Phenolic compounds were separated using HPLC equipped with a SB-C18 column (50 mm x 4.6 mm with 1.8 μm particle diameter, Agilent) at 25 °C. The solvents used as eluents, A: water:acetic acid (98:2), B: methanol:acetic acid (98:2) at the flow of 1 mL/min, were applied in the following gradient: 0min 3% B, 3.2 min 20% B, 4.8 min 36% B, 12 min 64% B, 13 min 100% B, 16 min 100% B, 17 min 3% B, 25 min 3% B. The samples were applied to the column in the amount of 6 mL. Quantitative calculations were made using peak areas by measurement and computer integration using OpenLab CDS (Agilent Technologies, Inc., Santa Clara, CA, USA) and the results were expressed as μg/g dm.
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2

Mass Spectra Analysis for Compound Identification

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Mass spectra were obtained using Agilent Technologies 6100 Series Single Quadrupole LC/MS. Data deconvolution was performed using OpenLab CDS (Agilent).
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3

Fatty Acid Profiling by GC-FID

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Fatty acid methyl esters (FAME) were analyzed using a 7820A GC System (Agilent Technologies, Santa Clara, CA, USA) fitted with an automatic sampler (Agilent 7693, Santa Clara, CA, USA) and a flame ionization detector (FID) connected to chromatography data system software (OpenLab CDS, Agilent ChemStation, Santa Clara, CA, USA). Separations were performed on SLB-IL 111 columns (100 m × 0.25 mm, 0.2 µm film thickness; Merck KGaA, Darmstadt, Germany), with a constant flow of hydrogen as carrier gas (0.6 mL/min). The temperature gradient was as follows: 40 °C for 4 min, then 50 °C/min to 150 °C; after 30 min 2 °C/min up to 200 °C and maintained for 30 min. Finally, the temperature was raised to 240 °C (ΔT= 4 °C/min) and maintained until the end of the analysis (75 min in total). The FID operated at 250 °C, and the injection port at 300 °C, with a split ratio of 1:80 (1 µL of sample injected). Forty-three FA peaks were identified by comparison with the peaks generated by injection of Supelco 37 Component FAME Mix (Sigma-Aldrich and Nu-Chek Prep Inc., Elysian, MN, USA) and Supelco conjugated (9Z,11E)-linoleic acid (Sigma-Aldrich). The remaining unidentified peaks were labelled using the analytical methods proposed by [30 (link)].
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4

High-Resolution DNA Sizing Protocol

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Resolution between two peaks is defined by with and the time of passage and width of band i. R50 corresponds to the resolution between the 20 and 50 kb bands in the ladder. Quantification and sizing precision were estimated using the kb extend DNA ladder as reference with the methods described in (19 (link)). The LOD was calculated by linear extrapolation of the DNA concentration corresponding to a signal to noise ratio of three from the four dilutions. Noise was estimated with Open LAB CDS (Agilent Technologies) software using a lag of 1 min at the beginning and the end of the experiment (Supplementary Figure S1).
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5

Analytical Quantification Protocol

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All sample processing
was performed in
triplicates, and each sample was injected five times. The raw data
attained from the analysis was examined using the OpenLab CDS software
(Agilent Technologies). All the data processing was performed using
Microsoft Excel, and the results estimated were expressed as their
mean and standard deviation. MATLAB (R2020b) was utilized to generate
codes for plotting the figures.
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6

Mycotoxin Concentration Analysis Protocol

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The results from the mycotoxin analyses were performed using the software package OpenLab CDS (Agilent Technologies, Santa Clara, CA, USA). A sample was considered positive for a tested mycotoxin when the concentration was above the limit of detection (LD). Samples below the LD (non-detects or left-censored data) were assigned a value of one-half the LD for the interpretation of the results and exposure assessment purposes [23 ]. The descriptive analysis of the mean, standard deviation (SD) and relative standard deviation (RSD%) was performed with Statistical Package SPSS v21 (IBM Corporation, Armonk, NY, USA).
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7

HPLC Analysis of Serotonin Levels

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The HPLC system consisted of a 1200 series degasser, binary pump and autosampler (Agilent Technologies, Santa Clara, CA). An Agilent 1290 fluorescent detector was used with 279-nm excitation and 320-nm emission. Both fluorescence excitation and emission spectra were obtained during the runs to further identify the serotonin peaks. Data were acquired and analyzed using Agilent OpenLab CDS with ChemStation.
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8

GC Analysis of Gaseous Samples

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The GC (7890B, Agilent, Singapore) used in this study was equipped with flame ionization detector (FID) and capillary column (HP-MOLESIEVE, 0.530 mm × 30 m × 25.0 μm, Agilent, Singapore). The workstations for software manipulation and data processing were OpenLAB CDS developed by Agilent. According to the referenced standard (HJ 38-2017) [30 (link)], the temperature of the column chamber, gasification chamber and detector was 80 °C, 100 °C and 200 °C, respectively. Nitrogen (99.999%, Min Xing Gong Mao Co., Ltd., Hangzhou, China) was used as the carrier gas, and the total flow rate was set at 30 mL min1. The carrier gas was then divided into two channels, in which the flow of the make-up gas was controlled at 22 mL min1, and the other flow of the capillary column was controlled at 8 mL min1. Air flow (99.999%, Min Xing Gong Mao Co., Ltd., Hangzhou, China) and hydrogen flow (99.999%, Jin Gong Special Gas Co., Ltd., Hangzhou, China) were set at 300 mL min1 and 30 mL min1, respectively. The automatic injection pattern mentioned in the standard was replaced by manual injection based on the existing conditions in the laboratory.
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9

UHPLC Peptide Purity Analysis

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For determination of purity by UHPLC, the filtered peptide solution was diluted in 10–50% acetonitrile (MeCN) in water with 0.1% TFA (500 μL) to a final concentration of approximately 0.5 mg/mL. The samples were analyzed on Agilent 1290 Infinity II Series, which was computer-controlled through Agilent OpenLab CDS and ChemStation software. For standard analysis of all peptide samples, analytical UHPLC spectra were recorded on an analytical Agilent Zorbax 300SB-C18 Rapid Resolution HD column (2.1 mm × 100 mm, 1.8 μm particle size) kept at 40 °C; elution at a flow rate of 0.8 mL/min with A: MeCN/H2O (5:95) + 0.1% TFA and B: MeCN/H2O (95:5) + 0.1% TFA, isocratic 0% B for 3 min; then 0–100% B over 20 min (ca. 4.5% MeCN/min) with UV detection at 214 nm and 120 points s−1. The total method time was 23.1 min. Then, the column was re-equilibrated using a post-run method at 0% Solvent B for 2 min. Purities of the final peptides were calculated by integration of the Area Under the Curve (AUC) of desired product peak as a percentage of the AUC of all peaks (within 3–18 min) at λ = 214 nm (amide backbone).
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10

Purification and Concentration of Biomolecules

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Purifications were performed on an Agilent Infinity system equipped with an Infinity 1260 Bio Quat Pump (pump system, G5611A), an Infinity 1260 HiP Bio ALS (autosampler, G1330B), an Infinity 1290 TCC (thermostatted column compartment, G5667A), an Infinity 1260 DAD (diode array detector, G4212B), and an Infinity 1260 Bio FC-AS (fraction collector, G5664A) under Agilent OpenLab CDS (C.01.07 SR1) software control. The column (Waters XBridge BEH C18 OBD, 130 Å, 5 µm, 10 × 150 mm) was kept at 50 °C. Material was injected as aqueous solutions (up to 100 µL per injection) and eluted with gradients of solvent A (50 mM triethylammonium acetate in water) and solvent B (MeOH). Fraction collection was triggered by UV (260 nm). The following 5–50% method was used: flow 5.0 mL/min, runtime 20 min, column used was Waters XBridge BEH C18 OBD, 130 Å, 5 µm, 10 × 150 mm. The run conditions were as follows: 0.0–15.0 min 95% solvent A, 5% solvent B; 15.0–16.0 min 50% solvent A, 50% solvent B; 16.0–18.1 min 5% solvent A, 95% solvent B; 18.1–20.0 min 95% solvent A, 5% solvent B.
Following separation, desired species-containing fractions were pooled and concentrated by ultrafiltration (Millipore Amicon Ultra-15/4 centrifugal filters; Ultracel 10 K/3 K) according to manufacturer guidelines. Three cycles of sample concentration/buffer dilution with nuclease-free water were employed.
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