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43 protocols using nova pak c18

1

HPLC Protocol for Quantifying FM

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The HPLC system was from Shimadzu Corporation (Kyoto, Japan) and consisted of an auto-injector SIL-9A, a Prominence LC-20AD pump, a Chromatopac C-R5A integrator and a Prominence SPD-10A UV detector. The column oven was an Igloo-CIL from SCP GmbH (Weiterstadt, Germany). The separation was performed with a reversed-phase column (Nova-Pak®, C18, 4 µm, 3.9 × 150 mm, Waters, Wexford, Ireland) equipped with a Guard Column (Nova-Pak® C18, 4 µm, 3.9 × 20 mm, Waters, Wexford, Ireland).
The mobile phase consisted of phosphate buffer with a pH of 6.8 (see Section 2.1): MeOH (70:30 v/v). The mobile phase was filtered through a 0.45-μm membrane filter and degassed continuously with He gas during the run. The sample volume was 10 µL, and the flow rate was 1 mL/min. The column oven was set to 30 °C, and the detection wavelength was 276 nm. The retention time for FM was approximately 8 min. The calibration curve in the range of 0.50–3.75 µg/ml (r2 ≥ 0.99) was prepared from a stock solution of 1 mg/mL in MeOH and diluted with the mobile phase.
For the quantification of samples containing SP, it was essential to make sure that the polymer was sufficiently washed off the column between injections by regularly running a washing program.
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2

Melatonin HPLC Quantification Protocol

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Mel-LNC suspensions were treated with acetonitrile to dissolve all components. The assay of melatonin was performed by high-performance liquid chromatography using a previously validated methodology.49 (link) For this purpose, a PerkinElmer Series 200 chromatograph (PerkinElmer Inc., Waltham, MA, USA) was used, equipped with an ultraviolet–visible detector; melatonin was quantified setting the detector at λ =229 nm. A guard-column and a column Nova-Pak C-18 (150×4.9 mm, 4 µm – Waters) were employed; a flow rate of 0.7 mL/min and an isocratic mobile phase of acetonitrile:water (55:45, v/v) were used.
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3

HPLC Analysis of Green Coffee Compounds

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HPLC analysis was performed as described previously with slight modification [8 (link)]. Briefly, a 150 mm × 2.1 mm i.d., 4 μm, Nova-Pak C18 (Waters, Milford, MA) was used as the stationary phase to analyze the standards and green coffee samples. The samples were separated using a gradient condition; buffer A (10 mM phosphate, pH 5) for 0–5 min, a linear gradient from buffer A to buffer B (40% acetonitrile) for 5–45 min, and buffer B for 10 min (1 mL/min). The samples were injected by an autosampler into Alliance 2690 HPLC system (Waters, Milford, MA), and were monitored by CoulArray electrochemical detector with four electrode channels (ESA, Chelmsford, MA).
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4

Synthesis and Characterization of 2',5'-Diacetyl-3'-deoxy-3'-xylobromoinosine

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Unless otherwise noted, the materials were obtained from commercial suppliers and used without any purification. D2O was obtained from Sigma-Aldrich. 2′,5′-Diacetyl-3′-deoxy-3′-xylobromoinosine 7 was synthesized as described in [18 ]. Recombinant E.coli PNP was obtained as described in [15 (link)].
Analytical HPLC was performed on the Waters system (Waters 1525, Waters 2489, Breeze 2), column Nova Pak C18, 4.6 × 150 mm, 5 µm, flow rate 0.5 mL/min. Method (I): gradient H2O → 25% MeOH/H2O, 20 min. Method (II): gradient H2O → 50% MeOH/H2O, 10 min.
NMR spectra were recorded on Bruker Avance II 700 spectrometers (Bruker BioSpin, Rheinstetten, Germany) in DMSO-d6 at 30 °C. Chemical shifts in ppm (δ) were measured relative to the residual solvent signals as internal standards (2.50). Coupling constants (J) were measured in Hz.
Liquid chromatography-mass spectrometry was performed on an Agilent 6210 TOF LC/MS system (Agilent Technologies, Santa Clara, CA, USA).
UV spectra were recorded on Hitachi U-2900 spectrophotometer (Tokyo, Japan).
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5

Characterization of RNase Substrate Cleavage

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The characterization of the RNases, substrate cleavage patterns was carried out by studying the digestion product profiles, as previously described [27 (link)]. The poly(C) substrate (Sigma–Aldrich) was dissolved at a concentration of 0.5 mg/ml in 10 mM HEPES/KOH at pH 7.5. Then, 50 μl of the poly(C) solution was digested with 10 μl of enzyme solution at 25°C for 1 h. Enzyme final concentrations were adjusted for each RNase: 50 nM for RNase 6 and RNase 6-H36R and 1.4 μM for RNase 6-H15A and RNase 7-H15A. At different digestion times the products of the reaction were separated by reverse-phase HPLC (Nova Pak C18, Waters) according to the previously described procedure [27 (link),28 (link)]. Briefly, the RNase/poly(C) reaction mixtures (50 μl and 15 μl for wild-type and mutant RNase 6 respectively) were injected on to the column equilibrated with solvent A (10% (w/v) ammonium acetate and 1% (v/v) acetonitrile) and the elution was carried out by an initial 10-min wash and 50-min gradient from 100% solvent A to 10% solvent A plus 90% solvent B (10% (w/v) ammonium acetate and 11% (v/v) acetonitrile). Product elution was detected from the absorbance at 260 nm, and peak identification was performed according to previous characterization of oligocytidylic acids [29 (link)].
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6

Polyamine Content Analysis in Transgenic Plants

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Cherry fruits and leaves of transgenic and wild-type plants were collected to detect PA content. The steps were as follows: grind the material to a powder using liquid nitrogen and weigh 0.5 g of the sample in a 10 mL centrifuge tube; add 1.5 mL of pre-cooled perchloric acid, shake well and mix, then put it into the refrigerator at 4 °C for 1 h; then centrifuge at 4 °C, 15,000 rpm for 30 min; take 1 mL of supernatant and add 10 μL of benzoyl chloride and 1 mL of 2 mol/L sodium hydroxide and mix well, then put it into the water bath at 37 °C for 30 min; add 2 mL of saturated sodium chloride and 2 mL of ether and mix well and centrifuge at 6000 rpm for 5 min; take 2 mL of ether phase, blow dry with a nitrogen blowing instrument; add 2 mL of ether, shake well, and centrifuge for 20 s, then blow dry with nitrogen; add 1000 μL of 60% methanol and shake centrifuge for 30 s; and filter with a 0.45 μm organic filter membrane and fix the volume in a 1.5 mL brown volumetric flask for testing. The determination of polyamines was performed by a high-performance liquid chromatograph (Agilent 1260, Agilent, American) on a chromatographic column (Nova-Pak C18, WATERS, American) with the mobile phase of methanol: water (60:40) at a flow rate of 1 mL·min−1, column temperature of 30 °C, a wavelength of 254 nm, and experiments were set up with three biological replicates.
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7

HPLC Separation of Amino Acids and Amines

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HPLC separation was performed on the instrument already cited in Section 2.5. A Waters (Milford, MA, USA) reversed-phase column Nova-Pak® C18 (3.9 mm × 300 mm; 4 μm), thermostated at 40 °C, was used. Mobile phases were A (25 mM acetate buffer pH = 5.65) and B (80:20 mixture of acetonitrile and methanol). Flow rate: 1.1 mL/min. HPLC gradient, for solvent A was: 0 min, 100%; 7 min, 96%; 18 min, 94%; 23 min, 92%; 25 min, 92%; 28 min, 85%; 50 min, 77%; 60 min, 55%; 65 min, 40%; 67 min, 20% and 70 min, 100%.
Detection was performed at 280 nm while quantification was based upon calibration curves obtained by plotting peak areas vs. concentration of solutions of standard amino acids and amines at known concentration.
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8

Quantitative Analysis of Organic Pollutants via HPLC

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The analysis of target compounds was carried via HPLC (Agilent 1100 Series; Agilent Technologies, Santa Clara, CA, USA) that was coupled with a diode array detector (DAD, G1315A, Agilent Series). Measurements were done at wavelength of 285 and 240 nm for 3,5-DCP and 2,4-DCA, respectively. A Nova-Pak C18 (3.9 mm × 150 mm, 4 µm, Waters Corporation, Milford, MA, USA) reversed-phase column was used. The mobile phase consisted of 70% methanol and 30% ultrapure water. The flow rate and temperature of the column were set as 1.0 mL/min and 25°C, respectively. The injection volume was 100 µL. Analytical methods were validated for a concentration range of 0.0625–2 mg/L. Six-point calibration curves showed good linearity (R2) with correlation coefficients of 0.9998 and 0.9996 obtained for 3,5-DCP and 2,4-DCA, respectively. Detection and quantification limits were established as 0.06 and 0.21 mg/L for 3,5-DCP and 0.03 and 0.12 mg/L for 2,4-DCA, respectively. An Orion (USA) 720A+ model pH-meter was used for all pH measurements. A Jenway 6300 model spectrophotometer (Staffordshire, UK) was employed for colorimetric, residual PS analyses [53]. Fe and Al releases were monitored on a Perkin-Elmer ICP-MS (PerkinElmer, Inc., Waltham, MA, USA) [54].
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9

HPLC Analysis of Chemical Samples

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The HPLC system (Beckman-Coulter) consisted of a 126 solvent module, 166 detector, and IBM personal computer. Data acquisition and processing were carried out using 32 Karat 7.0 version software (Beckman-Coulter). Samples (20 μL) were injected in a Nova Pak C18, 300 × 3.9 mm i.d., and 4 μm reversed-phase column (Waters), and elution was carried out at 0.9 mL/min using a 25 mM glacial acetic acid/acetonitrile binary gradient as shown in Table 1. Mobile phases were filtered through a 0.45 μm membrane filter. The column was maintained at 18°C.
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10

Rumen Inoculum Sampling and Analysis

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The rumen inoculum mixtures were sampled at 0, 4, 8, and 12 h of fermenting post inoculation. Ruminal inoculum fluids were collected at 0, 4, 8, and 12 h post inoculation. Rumen fluid samples were then filtered through four layers of cheesecloth. Samples were divided into 2 portions. The first portion, around twenty milliliters of rumen inoculum, was put into plastic bottles for ammonia nitrogen (NH3-N) and volatile fatty acid (VFA) analysis. The sample was centrifuged at 16,000×g for 15 min, and the supernatant was stored at −20°C before NH3-N analysis by using the micro Kjeldahl methods (AOAC, 1990 ) and VFA analysis by high performance liquid chromatography (HPLC; Instruments by controller water model 1525, Waters Corporation, Milford MA, USA) water model 2707 auto sampler; water model 2489 UV detector and BREEZE software; column novapak C18; column size 3.9 mm×300 mm; mobile phase 10 mM H2PO4 [pH 2.5]) (Samuel et al., 1997). The second portion was fixed with 10% formalin solution in sterilized 0.9% saline solution. The total direct count was made by the methods of Galyen (1989) based on the use of a haemocytometer (Boeco, Hamburg, Germany). The last portion was stored at −20°C for DNA extraction (Yu and Morrison, 2004 (link)).
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