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Isoamyl alcohol

Manufactured by Thermo Fisher Scientific
Sourced in United Kingdom, United States

Isoamyl alcohol is a clear, colorless liquid organic compound. It is commonly used as a solvent and reagent in various laboratory applications.

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6 protocols using isoamyl alcohol

1

Porcine Skin Permeation Analysis

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Acetone, cytoseal60, ethanol, isoamyl alcohol, isopropyl myristate (IPM), Tween 80 (T80), nile red (NR) were purchased from Thermofisher. Abdominal porcine tissue was supplied from a local market and stored at −20 °C until use.
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2

Quantification of cGAS-bound DNA

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MH-S cells were carefully washed with pre-chilled PBS 2 times. Pre-chilled RIPA lysis buffer (50 mM PH7.4 Tri-HCl, 15mM NaCl, 1mM EDTA, 0.1% NP-40, 1.25% Triton X-100, protease inhibitor) was added, and then MH-S cells were collected to sterilized 1.5 ml Eppendorf tubes using a pre-chilled scraper, then cells were centrifuged at 14,000 g/min for 15 min at 4 °C, the supernatant was incubated with the magnetic agarose beads containing the antibody overnight (Invitrogen, Dynabeads M-280 sheep anti-rabbit). Cells were washed twice with low salt wash buffer (50 mM Tris, 150 mM NaCl, 1 mM EDTA, 0.05% NP-40), and then were divided into two equal parts, one for detecting IP efficiency by western blotting. Another magnetic bead sample was added with 200 μl of DNA decrosslinking solution (10 mM Tris, 1Mm EDTA, 0.65% SDS), incubated at 65 °C for 16 h, and then proteinase K (20 mg/ml) was used to digest protein by incubating for 2 h at 37 °C. The DNA that bound to the cGAS protein was extracted through the mixture of phenol, chloroform, and isoamyl alcohol (25:24:1) (Thermo Fisher), and then was precipitated in 75% ethanol. Finally, the DNA was dissolved in the nuclease-free water and quantified by qPCR by using: Cytochrome c oxidase I (mtDNA gene) and housekeeping gene (18S rDNA) (27 (link)), the PCR primers used in the reaction are listed in Supplementary Table S1.
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3

Optimized RNA Extraction Protocol

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All stock reagents were purchased from commercial suppliers at appropriate stock concentrations, and only SDS and PVP40 were purchased as powders and were weighed and added directly to extraction buffers. The stock solutions UltraPure™ 1 m Tris/HCl (pH 7.5; Thermo Fisher Scientific), sodium chloride solution 5 m (Sigma‐Aldrich), UltraPure™ 0.5 m ethylenediaminetetraacetic acid (EDTA), (pH 8.0; Thermo Fisher Scientific), sodium dodecyl sulfate (SDS; Sigma‐Aldrich), polyvinyl pyrrolidone (PVP40; Sigma‐Aldrich), 2‐mercaptoethanol (Sigma‐Aldrich), UltraPure™ DNase/RNase‐free distilled water (Thermo Fisher Scientific), acid‐phenol: chloroform (pH 4.5) with isoamyl alcohol at a final ratio of 25 : 24 : 1 (Thermo Fisher Scientific), chloroform/isoamyl alcohol mixture (Sigma‐Aldrich), lithium chloride (8 m; Sigma‐Aldrich), ethanol absolute for analysis (Merck), chloroform for analysis (Merck), and RNaseZap™ RNase decontamination wipes (Invitrogen) were of molecular biology grade and were free of RNAses, DNAses, and pyrogens. All plastic supplies for the preparation of extraction buffer and the tubes used for extraction were disposable and were free of RNAses, DNAses, and pyrogens. We avoided the use of reagents with acute toxicity, such as diethyl pyrocarbonate, which is frequently used to inactivate RNAses.
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4

Lyophilised LNG Formulation Analysis

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Lyophilised LNG (pharmaceutical grade of European Pharmacopeia reference; 99.9% pure; MW: 312.45 g/mol), sodium phosphate monobasic and sodium phosphate dibasic were obtained from Sigma-Aldrich, UK. Jadelle® subcutaneous implants (Bayer, Germany) were a kind gift from the Population Council, New York, USA. LC–MS-grade water and acetonitrile, and hexane, isoamyl alcohol, ethyl acetate, diethyl ether, tert-butyl methyl ether and chloroform were purchased from Fisher Scientific, UK, and used as received. Sodium dodecyl sulphate (SDS) was purchased from VWR, UK. Phosphate-buffered saline (PBS) pH 7.2 was from Gibco (Thermo Fisher, UK). De-ionised water was obtained from a Purite water purification system, USA. All other solvents and chemicals were of analytical grade and stored at room temperature. A Techne sample concentrator supplied with a stream of gas nitrogen was used for the evaporation of organic solvents in a dry bath (Labnet digital, USA). The UV–Vis spectrophotometer was a Cary 60 (Agilent Technologies UK Ltd). Microcentrifuge tubes were vortex-mixed using an infrared vortex mixer (F202A0175FI, Fisherbrand, UK) and centrifuged using a microcentrifuge (Heraeus Fresco 17, Thermo Scientific, UK).
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5

Comprehensive DNA and RNA Extraction

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Following treatments, total DNA and RNA were extracted using a phenol-chloroform-isoamyl alcohol. Briefly, 200 μL of a phenol solution at pH 7.6–7.8 (UltraPure™ buffer-saturated phenol; Invitrogen, Burlington, ON), 200 μL of molecular grade chloroform (Fisher scientific, Ottawa, ON) and 20 μL of isoamyl alcohol (Fisher scientific) were added to each sample. Samples were then homogenized and centrifuged in a table-top microcentrifuge for 1 min at 13,000 rpm. The supernatant was kept and assessed for a second phenol-chloroform step. Finally, the supernatant was treated twice with 200 μL of chloroform and total DNA and RNA precipitated by adding 500 μL of ethanol and 20 μL of sodium acetate (3M, pH 5.2) and incubation at −70 °C overnight followed by centrifugation for 30 min at 4 °C in a table-top microcentrifuge at 13,000 rpm. The pellet representing total nucleic acid was resuspended in 50 μL of RNase-free water and stored in a freezer at −70 °C until used.
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6

Mitochondrial ROS Detection Assay

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Euthasol® (pentobarbital sodium and phenytoin sodium) was obtained from (Virbac Corporation, Westlake, TX, USA). The mitochondrial ROS Detection Assay Kit and mitoquinone mesylate (MitoQ) were obtained from Cayman Chemical Company (Ann Arbor, MI, USA). Oligomycin, carbonyl cyanide‐4(trifluoromethoxy) phenylhydrazone (FCCP) and rotenone/antimycin A were obtained from Sigma‐Aldrich (St. Louis, MO, USA). Dulbecco's modified Eagle's medium (DMEM), Fluo‐4 AM, phenol, chloroform and isoamyl alcohol were obtained from Fisher Scientific (Waltham, MA, USA). Antibodies sc‐28860 and sc‐373694 were obtained from Santa Cruz (Dallas, TX, USA). miR‐210 mimic, AllStarsNegative Control siRNA, and HiPerfect transfection reagent were obtained from Qiagen (Germantown, MD, USA).
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