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10 protocols using hexane

1

Allicin Synthesis with Hexane-DCM Extraction

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Allicin synthesis was performed, with slight modifications, according to Albrecht et al. [53 (link)]. Instead of chromatographic separation, hexane (Carl Roth, Karlsruhe, Germany) and dichloromethane (Carl Roth, Karlsruhe, Germany) extraction was used.
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2

Extraction and Isolation of Natural Compounds

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Solvents for different steps in analyses were partially denatured ethanol (AustrAlco, Spillern, Austria) for extraction, hexane, ethyl acetate (both Carl Roth, Karlsruhe, Baden-Württemberg, Germany) and methanol (VWR, Radnor, PA, USA) for open column chromatography and TLC, chloroform-d1 (VWR) and pyridine-d5 (Armar, Döttingen, Aargau, Switzerland) for NMR.
HPLC mobile phases consisted of ultrapure water prepared from deionized water with a Barnstead MicroPure system (Thermo Fisher Scientific, Waltham, MA, USA), HPLC-grade acetonitrile (VWR) and formic acid for LC-MS (Honeywell, Charlotte, NC, USA).
Reference substances were abietic acid contributed by the Department of Pharmaceutical Chemistry, University of Graz, Austria, apigenin (Sigma-Aldrich, St. Louis, MO, USA), chrysin, pinocembrin-7-methyl ether (pinostrobin), linoleic acid (all Carl Roth) and oleic acid (Fluka, Buchs, St. Gallen, Switzerland).
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3

Microbial Production of Isoprenoids

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Geranic acid (85%), geraniol (98%) and thymol (99%) were purchased from Sigma-Aldrich (Taufkirchen, Germany). (L)-(+)-Rhamnose monohydrate, glycerol and hexane (≥99%) were purchased from Carl Roth (Karlsruhe, Germany).
For growth assays, P. putida strain DSM 12264, S. cerevisiae strain CEN.PK2-1C [65 (link)] and E. coli strain DH5α [66 ] were used. Each organism was grown in complex medium: terrific broth (TB) for P. putida, yeast medium (YM) for S. cerevisiae and lysogeny broth (LB) for E. coli. Additionally, LB was used as preculture medium for Geranic acid production experiments with P. putida. For whole cell de novo syntheses, E2 medium [25 (link)] containing 10% LB was used. For PCR amplification of the MVA pathway genes, DNA of M. xanthus DSM 16526 was used.
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4

Extraction and Isolation of Natural Compounds

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Solvents for different steps in analyses were partially denatured ethanol (AustrAlco, Spillern, Austria) for extraction, hexane, ethyl acetate (both Carl Roth, Karlsruhe, Baden-Württemberg, Germany) and methanol (VWR, Radnor, PA, USA) for open column chromatography and TLC, chloroform-d1 (VWR) and pyridine-d5 (Armar, Döttingen, Aargau, Switzerland) for NMR.
HPLC mobile phases consisted of ultrapure water prepared from deionized water with a Barnstead MicroPure system (Thermo Fisher Scientific, Waltham, MA, USA), HPLC-grade acetonitrile (VWR) and formic acid for LC-MS (Honeywell, Charlotte, NC, USA).
Reference substances were abietic acid contributed by the Department of Pharmaceutical Chemistry, University of Graz, Austria, apigenin (Sigma-Aldrich, St. Louis, MO, USA), chrysin, pinocembrin-7-methyl ether (pinostrobin), linoleic acid (all Carl Roth) and oleic acid (Fluka, Buchs, St. Gallen, Switzerland).
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5

Analyzing Phthalate and Alcohol Compounds

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Monobutyl phthalate (MBP, 99% purity), di-n-butyl phthalate (DBP, 99%), diethylhexyl phthalate (DEHP, 99.5%), diethyl phthalate (DEP, 99%), dimethyl phthalate (DMP, 99%), phthalic acid (PA, > 99.5%), 2-ethyl-1-hexanol (99.6%), terephthalic acid (98%), and isophthalic acid (99%) were purchased from Sigma Aldrich Chemie GmbH (Hamburg, Germany). Acetonitrile, ethyl acetate, hexane, and formic acid were of HPLC grade and purchased from Carl Roth (Karlsruhe, Germany).
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6

Ethanolic Extraction of Plant Compounds

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Ethanolic extracts were prepared from the roots and rhizomes of the plant. Sliced dried plant material was ground and about 50 g was used for the extraction. The lipophilic compounds were removed by pre-extraction with hexane (Carl Roth, Karlsruhe, Germany). Ethanolic extraction with 96% ethanol (Carl Roth, Karlsruhe, Germany) took place in an ultrasonic bath (Elma, Singen, Germany) for 10 min at room temperature, followed by centrifugation at 4000 RPM for 10 min. Ethanolic extraction was repeated three times, the supernatants were collected, and the solvent was evaporated using a rotary evaporator (Heidolph, Schwabach, Germany), followed by freeze drying using a VirTis Sentury freeze dryer (SP Scientific, Buena, CA, USA) resulting in 28.52% (“Mattmark”) and 32.47% (“Rosavine”) extraction yields. The ethanolic extracts, designated as M/R 96% EtOH, were stored in dark glass flasks in a fridge at 4 °C.
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7

Comprehensive Analytical Reagents for Metabolomic Studies

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Water (LC-MS grade), acetonitrile (LC-MS grade, ≥99.95 %), hexane (UV/IR grade, ≥99.5 %), methanol (LC-MS grade ≥ 99.95 %), isopropanol (LC-MS grade, ≥99.95 %), acetone (LC-MS grade, ≥99.9 %), butanol (for synthesis, ≥99.5 %), trichloromethane/chloroform (UV/IR grade, ≥99.8 %) and citric acid (≥99.5 % p.a.) were purchased from Carl Roth (Karlsruhe, Germany), ethyl acetate (Reag. Ph. Eur. ≥ 99.9 %) was purchased from Biosolve (Valkenswaard, Netherlands), formic acid (98 %) and acetic acid (100 %) from Fisher Scientific (Schwerte, Germany), hydrochloric acid (Reag. Ph. Eur., 37 %) and disodium hydrogen phosphate (NormaPur) from VWR Chemicals (Darmstadt, Germany), and 2,6-di-tert-butyl-4-methylphenol (BHT, 99 %) from Sigma-Aldrich (Munich, Germany). Reference compounds and isotopically labeled internal standards (IS) were purchased from Cayman Chemicals (Ann Arbor, MI, USA) for endocannabinoids and oxylipins, or Avanti Polar Lipids (Alabaster, AL, USA) for sphingolipids, LPAs, and lipids analyzed by LC-HRMS. For polar compounds, tryptophan and related metabolites, isotopically labeled IS and Reference compounds were purchased from Sigma-Aldrich or Cambridge Isotope Laboratories (Tewksbury, MA, USA). Detailed descriptions can be found in the supplementary material.
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8

Extraction of Mealworm Proteins

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Living mealworms were purchased from ENTAVA (Roggentin, Germany), frozen in liquid nitrogen, and subsequently lyophilized. Mealworm proteins were extracted according to Klost et al. [19 (link)]. The protein content was 65.4% (derived from nitrogen content according to Dumas (DUMATHERM DT, C. Gerhardt, Königswinter, Germany), protein factor 5.60 [37 (link)]). Hexane, HCl, NaOH, ethanol, and ZnSO4 were purchased from Carl Roth (Karlsruhe, Germany) or VWR (Darmstadt, Germany) and were of analytical grade. Denatured ethanol and CO2 for drying were obtained from Carl Roth (Karlsruhe, Germany) and Nippon Gases Deutschland GmbH (Hürth, Germany), respectively.
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9

SARS-CoV-2 Nucleoprotein Detection Protocol

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11-Mercaptoundecanoic acid (11-MUA, 98%), N-(3-diemethylaminopropyl)-N’-ethylcarbodiimide hydrochloride (≥98%) (EDC), N-Hydroxysuccinimide (98%) (NHS), sodium hydroxide (≥97%), ethanolamine (ETA) (≥99%), sodium dodecyl sulfate (≥99%) (SDS) and phosphate buffered saline (PBS) tablets were purchased from Sigma Aldrich. Methanol (99.9%), ammonium sulfate (≥99%), and hexane (99%) were purchased from Carl Roth GmbH & Co (Karlsruhe, Germany). SARS-CoV-2 recombinant nucleoprotein (SCoV2-N) (≥97%) was received from Baltymas (Vilnius, Lithuania) [29] (link). QCM-D gold sensors were purchased from Biolin Scientific (Gothenburg, Sweden). Specific polyclonal antibodies (anti-SCoV2-N) obtained from immunized mice and nonspecific polyclonal antibodies obtained from non-immunized mice used in this work were developed under the procedure in detail described in our previous work [29] (link). Anti-SCoV2-N antibodies were purified from blood serum by ammonium sulfate precipitation, which results in 90% purity. All experiments using laboratory mice were performed under controlled laboratory conditions according to European and Lithuanian legislation (permission no. G2-117 issued by the State Food and Veterinary Service, Vilnius, Lithuania).
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10

Cryogenic Fixation and Embedding of Brain Slices

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Brain slices, fixed, permeabilized, and labeled for GFAP, were cryoprotected stepwise in 0.1 M sodium phosphate buffer pH 7.4 (PB) supplemented with increasing concentrations of glycerol [10–20–30% (v/v)] and left overnight in 30% glycerol in PBS at 4 °C. The tissue was frozen by plunging into hexane (Carl Roth) at −70 °C. Samples were transferred into cold methanol (−90 °C) in a freeze-substitution chamber (Leica EM AFS). Methanol was replaced three times before the specimens were immersed overnight in anhydrous methanol at −90 °C, containing 2% (w/v) uranyl acetate. After rinsing several times with methanol, the temperature was gradually raised to −50 °C and left overnight at −50 °C. Tissue was then infiltrated with a mix of Lowicryl HM20 resin (Polysciences) and methanol (1:2; 1:1; 2:1, 1 h each) and left in pure resin overnight at −50 °C. Samples were transferred to flat embedding molds containing freshly prepared resin at −50 °C. UV polymerization was started at −50 °C (overnight) and then continued for 4 d at temperatures gradually increasing from −50 °C to −20 °C (24 h) and finally to +20 °C (24 h). Ultrathin sections (70 nm) were mounted on 200-mesh formvar-coated nickel grids (Plano). Images were acquired using a Zeiss EM 900 equipped with a digital camera (Proscan 1 K Slow-Scan CCD Camera).
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