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12 protocols using silica gel

1

Anti-Inflammatory Compound Fractionation

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Extract C4 was selected for fractionation through a preparative column chromatography due to its high anti-inflammatory capacity. The initial mass of the extract was 3.57 g. Extract C4 and silica gel 60–200 μm (VWR, Fontenay-sous-Bois, France) were added to a MeOH: CH2Cl2 (v/v) (1:1) solution, concentrated until dryness, and fractionated using a glass column packed with silica gel 60. The elution system consisted of a n-hexane: ethyl acetate (NH:EA) gradient step until 100% ethyl acetate was reached, followed by a MeOH:CH2Cl2 (v/v) mixture (1:1) and 100% MeOH. The fractionation of C4 afforded a total of 16 fractions, according to the employed mobile phase (F1—100% NH, F2—95:5 NH:EA, F3—90:10 NH:EA, F4—85:15 NH:EA, F5—82.5:17.5 NH:EA, F6—80:20 NH:EA, F7—77.5:22.5 NH:EA, F8.1 and F8.2 75:25 NH:EA, F9—70:30 NH:EA, F10—60:40 NH:EA, F11—50:50 NH:EA, F12—100% EA, F13 50:50 MeOH:CH2Cl2, F14.1 and F14.2—100% MeOH).
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2

Purification and Characterization of Organic Compounds

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All solvents were purified according to reported procedures, and reagents were used as commercially available. Methanol, ethyl acetate, dichloromethane, ammonia and petroleum ether (35–60°C) were purchased from VWR and used without further purification. Column chromatography was performed on VWR silica gel (70–230 mesh). 1H NMR and 13C NMR spectra were recorded in CDCl3 or DMSO-d6 on a Bruker AC 300 spectrometer working at 300 MHz and 75 MHz, respectively (the usual abbreviations are used: s: singlet, d: doublet, t: triplet, q: quadruplet, m: multiplet). Tetramethylsilane was used as internal standard. All chemical shifts are given in ppm. Purity of all the new compounds evaluated by HPLC (Agilent 1100, C18) analysis was > 95%.
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3

Synthesis of 5-Chloro-1-Methyl-1H-Indole-2-Carbinol

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To a stirred solution of 5-chloro-1-methyl-1H-indole-2-carbaldehyde (1) (1.675 g, 8.651 mmol) in THF (25 mL) was added pentyl magnesium bromide (2) (9 mL, 2.0 M solution in Et2O) at −78°C dropwise over a period of 5 min. The reaction mixture was stirred at −78 °C for 20 min and then at rt for 15 min. Aqueous NH4Cl (20 mL) was added and the organic layer was extracted with EtOAc (3 × 25 mL). The combined organic extracts were washed with brine (50 mL), dried over Na2SO4, and the solvents were evaporated to obtain the crude mixture. Silica gel (from VWR International, Radnor, PA) column chromatography (15% EtOAc/hexane) afforded the product as a yellow solid (2.089 g, 91%). HRMS (ESI) m/z calcd for [C15H20ClNO + H]+, 266.1311; found 266.1616. 1H NMR (400 MHz, CDCl3): δ 7.53 (d, J = 1.6 Hz, 1H), 7.21 (d, J = 8.7 Hz, 1H), 7.15 (dd, J = 8.7 Hz, 1.9 Hz, 1H), 6.37 (S, 1H), 4.84 – 4.80 (m, 1H), 3.80 (s, 3H), 2.00 – 1.94 (m, 2H), 1.62 – 1.34 (m, 6H), 0.91 (t, J = 6.9 Hz, 3H). 13C NMR (CDCl3): δ 143.4, 136.4, 128.1, 125.1, 122.0, 120.0, 110.1, 98.6, 67.3, 36.2, 31.7, 30.3, 25.8, 22.6, 14.0.
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4

Tissue Biopsy Preservation Protocol

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Tissue biopsies were immediately fixed in 4% paraformaldehyde (BDH Chemicals Ltd, Dagenham, U.K.) in 0·1 mol L−1 phosphate-buffered saline (PBS), pH 7·4, and washed in 15% PBS-buffered sucrose, embedded in optimum cutting temperature compound and snap-frozen in isopentane precooled in liquid nitrogen. Samples were air-freighted to London on dry ice and kept at −80 °C until use. Cryostat sections (6 μm) were cut from the biopsies, mounted on 0·1% poly-l-lysine-coated slides, dried overnight at 37 °C, then stored with silica gel (VWR International Ltd, Lutterworth, U.K.) at −80 °C until used.
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5

Characterization of Fluorescent Compounds

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Reagents and chemicals, including silica gel (60 Å, 230–400 mesh), were purchased from VWR (Radnor, PA, USA) and used without further purification unless otherwise noted. Nuclear magnetic resonance (NMR) spectra were recorded on an Avance III (400 MHz, Bruker, Billerica, MA, USA) spectrophotometer. 19F NMR spectra were recorded using trifluoroacetic acid as a standard (δ = −76.55 ppm). Mass spectrometry was performed on an LC/MS 6545 Q-TOF (Agilent, Santa Clara, CA, USA) in APCI mode. Purity analysis by HPLC was performed on an Agilent 1100 system with a diode array detector and C8 ZORBAX Eclipse Plus column (Agilent). Absorption data was collected on a Cary-100 UV-vis spectrophotometer (Agilent) in double-beam mode using 1-cm path quartz cuvettes. Corrected fluorescence spectra were collected on a Fluorolog 3 fluorometer (Horiba Jobin-Yvon, Kyoto, Japan) equipped with an R928 PMT (Hamamatsu, Bridgewater Township, NJ, USA). Solutions were prepared such that absorption remained below 0.1 AU to prevent reabsorption and self-quenching.
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6

Preparation and Characterization of Organic Compounds

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Chemicals were purchased from following suppliers: Manchester Organics, abcr, VWR, Fluka, Acros, Roth, ChemPure, Merck, Sigma Aldrich, Apollo scientific, and Fluorochem. Solvents were dried before use, if required. Air- and moisture-sensitive reactions were carried out under argon atmosphere. Room temperature (rt) refers to 20–25 °C. The progress of a reaction was monitored by thin layer chromatography using pre-coated TLC sheets POLYGRAM® SIL G/UV254 purchased from Macherey-Nagel. Detected spots were observed under UV light at λ 254 nm and 365 nm. Flash chromatography was performed with silica gel 40–63 μm from VWR Chemicals.
NMR spectra (1H, 13C, 19F) were recorded on Mercury 300/Mercury 400 (Varian, Palo Alto, CA, USA) or Fourier 300/Avance DRX 400 Bruker (Billerica, MA, USA) instruments. Signals of solvents were used as internal standards for 1H-NMR (CDCl3, δH = 7.26; DMSO-d6, δH = 2.50) and 13C-NMR (CDCl3, δC = 77.16; DMSO-d6, δC = 39.52). The chemical shifts (δ) are reported in ppm as follows: s, singlet; d, doublet; t, triplet; m, multiplet; and the coupling constants (J) are reported in Hz. Mass spectra were recorded on an ESQUIRE 3000 Plus (ESI, low resolution) and a 7 T APEX II (ESI, high resolution) from Bruker Daltonics.
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7

Purification and Characterization of Compounds

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All reagents were purchased by Sigma Aldrich (Darmstad, Germany) and solvents by VWR International (Radnor, USA) and were used without further purifications. Column chromatographic separations were performed using silica gel (VWR International) with a particle size of 0.040-0.063 mm. Preparative HPLC-MS were carried out on a Waters AutoPurification system (3100 Mass Detector, 2545 Pump Gradient Module, 2767 Sample Manager, and 2998 PDA detector). UPLC analysis was performed using a UPLC Acquity H-Class coupled with the QDa and TUV detectors, using Kinetex® F5 column, 1.7 μm, 2.1 × 100 mm, applying a gradient of CH 3 CN (0.05% TFA) in H 2 O (0.05% TFA) from 50% to 100% in 8 min and 100% of B in 4 min (0.2 mL min -1 ), peak area revealed at 210 nm and 430 nm (method 1). All compounds are >95% pure by HPLC. NMR spectra were recorded at 310 K on a Bruker AVANCE 600 MHz and a Bruker Avance Neo 500 MHz spectrometer.
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8

Column Chromatography Protocols

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Manual column
chromatography
was performed with silica gel, 60 Å, 230–400 mesh particle
size from VWR International GmbH (Darmstadt, Germany) or silica gel
(w/0.1% Ca), 60 Å, 230–400 mesh particle size from Sigma-Aldrich
GmbH (Steinheim, Germany). Automated column chromatography was performed
on a Büchi Pure C-815 flash system (Büchi Labortechnik
GmbH, Essen, Germany) using Reveleris C18 reversed phase
cartridges (Büchi Labortechnik GmbH, Essen, Germany).
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9

Purification and Extraction of US Compound

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Dried hooks and stems of US were purchased from Hwalim Natural Drug (Busan, Korea) in September 2010 and authenticated by one of the study authors (Jin Woo Hong). A voucher specimen (accession number PDRLCW-1) has been deposited in the Plant Drug Research Laboratory of Pusan National University (Mirang, Korea). The dried hooks and stems of US (2.0 kg) were ground to a fine powder and then successively extracted at room temperature with n-hexane, ethyl acetate and methanol. Briefly, hexane extracts of US were filtered and evaporated under reduced pressure at 45 °C and then lyophilized, which yielded a white powder of hexane extract (14.54 g). The hexane extract (11.31 g) was subjected to chromatography on a silica gel (40 μm; J.T. Baker, Phillipsburg, NJ, USA) column (70 x 8.0 cm) with a step gradient of 50 % CHCl2 in hexane, 100 % CHCl2, 5 and 20 % acetone in CHCl2 and 5, 25 and 50 % MeOH in CHCl3 to obtain 62 fractions. Of these extracts, the solid form of fraction 43 (23.1 mg) was dissolved with dimethyl sulfoxide (DMSO) for further experiments.
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10

Extraction and Isolation of Compounds from U. sinensis

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Dried hooks and stems of U. sinensis were purchased from Hwalim Natural Drug (Busan, Korea) in September 2010. A voucher specimen (accession number PDRLCW-1) has been deposited in the Plant Drug Research Laboratory of Pusan National University (Miryang, Korea). The dried hooks and stems of U. sinensis (2.0 kg) were ground to a fine powder and then successively extracted at room temperature with n-hexane, ethyl acetate and methanol. Briefly, hexane extracts of U. sinensis were filtered and evaporated under reduced pressure at 45℃ and then lyophilized, which yielded a white powder of hexane extract (14.54 g). The hexane extract (11.31 g) was subjected to chromatography on a silica gel (40 µm; J.T. Baker, Phillipsburg, NJ, USA) column (70×8.0 cm) with a step gradient of 50% CHCl2 in hexane, 100% CHCl2, 5% and 20% acetone in CHCl2 and 5%, 25% and 50% MeOH in CHCl3 to obtain 62 fractions. Of these extracts, the solid form of faction 43 (23.1 mg, JGH43IA) was dissolved with dimethyl sulfoxide for further experiments.
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