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11 protocols using dimethylsulfoxyde dmso

1

Lipid Metabolism Regulation in NF2 Cells

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pBabe-NF2 was obtained from Addgene. Anti-Fasn siRNA (M-040091-01-0005), anti-Acaca siRNA (M-063938-01-0005), anti-Mtor (M-065427-00-0005), anti-Rptor (M-058754-01-0005), anti-Rictor (M-064598-01-0005) and non-silencing (D-001206-13-05) siRNA were purchased from Dharmacon. Individual siRNAs against Mtor (SASI_Mm01-00164496 and -00164492), Rictor (-00137732 and -00137730), Rptor (-00055298 and -00334580), Fasn (-00177858 and -00177854), Acaca (-0011590 and -00115905), and Mlycd (-00028572 and -00028576) were purchased from Sigma-Aldrich. Anti-Merlin antibodies were purchased from Abcam (#ab88957). Lipid synthesis and metabolism antibody kit (includes anti-Fasn, -phospho ACC, -ACC, -Lipin1, -ACLY, -phospho ACLY, -ACSL1, and -ACECS1 antibodies), and anti-Casp3 antibodies were purchased from Cell Signaling Technology. Anti-SREBP1 antibodies were purchased from Santa Cruz Biotechnology. Anti-GAPDH antibodies were purchased from EMD-Millipore.
Cerulenin, C75, luteolin, 5-(tetradecyloxy)-2-furoic acid (TOFA) and 5-iodotubercidin were purchased from Enzo Life Sciences. GSK2194069, dimethylsulfoxyde (DMSO), staurosporin, sodium palmitate, 70% perchloric acid, ammonium formate, acetonitrile, acetyl-coenzyme A lithium salt, malonyl coenzyme A lithium salt, propionyl-coenzyme A lithium salt, and poly-L-lysine were purchased from Sigma-Aldrich.
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2

Immunofluorescence Staining and Imaging Protocol

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Antibody and phalloidin stainings were performed as described previously [25 (link)]. The samples were imaged with a 63x magnification (oil immersion) using a Leica TCS-SP2 confocal microscope and the LCS software. The primary antibodies used in this study were the following: rabbit polyclonal against D. melanogaster Ref(2)P protein [54 (link)], mouse monoclonal against Flag tag (Clone M2, Sigma-Aldrich) and rabbit monoclonal anti-Cathepsin L (ab133641, Abcam). The appropriate Cy3-conjugated secondary antibodies were purchased from Jackson Immunoresearch Laboratories.
Lysotracker staining on tissue was performed as in ref. [55 (link)]. Images were obtained with a fluorescence microscope (Nikon Eclipse 90i) controlled by Nikon Software (Universal Imaging Corp.) using a 60x Plan-Neofluor oil objective.
Image analysis and processing were done with Fiji/ImageJ (National Institute of Health) and Photoshop CS6 (Adobe).For experiments carried out in HeLa cells, the following antibodies were used: anti-β-tubulin monoclonal antibody (Sigma-Aldrich), anti-p62 monoclonal antibody (H00008878-M01, Novus Biologicals), anti-UBPY. Dimethyl sulfoxyde (DMSO) and Hoechst #33342 were from Sigma-Aldrich and Bafilomycin A1 (#tlrl-baf1) was purchased from Invivogen.
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3

Bacterial Culture Conditions for Antimicrobial Testing

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The reference strains, mutants and plasmids used in this study are listed in Table S2. All the bacterial cultures were incubated at 37 °C in Mueller-Hinton broth (MHB) with adjusted concentrations of Ca2+ (from 20 to 25 µg/mL) and Mg2+ (from 10 to 12.5 µg/mL) (Becton Dickinson and Company, Cockeysville, MD, USA), or on Mueller-Hinton agar (MHA) (Bio-Rad, Paris, France) supplemented with antibiotics when required. Cinnamaldehyde (CNA) and dimethylsulfoxyde (DMSO) were obtained from Sigma-Aldrich (Saint-Quentin Fallavier, France).
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4

Cryopreserved PBMC Isolation from Septic and Healthy Blood

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PBMC from septic patients and healthy volunteers were isolated from 7 mL of blood freshly drawn on anticoagulated tubes with Lympholyte®-H Cell Separation Media (Cedarlane, Burlington, Canada) centrifugation. PBMC were immediately cryoconserved after isolation in Roswell Park Memorial Institute medium 1640 (RPMI) complemented with 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid (HEPES) and glutamine (Eurobio Abcys, Courtaboeuf, France) containing 40% AB human serum (SAB) and 10% dimethylsulfoxyde (DMSO) (Sigma-Aldrich, Saint-Louis, MO).
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5

Comprehensive Analytical Standards Protocol

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UPLC-MS grade acetonitrile (ACN) and methanol (MeOH) were ordered from Biosolve (Dieuze, France). Ethyl 3-aminobenzoate methanosulfonate, dimethylsulfoxyde (DMSO) (purity ≥99.7%), ammonium hydroxide (NH4OH) (purity ≥99%), and acetic acid (AA) (purity ≥99%) were purchased from Sigma-Aldrich (Saint-Quentin Fallavier, France). Ammonium acetate (NH4Ac) (purity ≥99%) and heptane (purity ≥90%) were supplied by Merck-Millipore (Saint-Quentin en Yvelines, France). Ammonium formate (NH4FA) (purity ≥99%) was acquired by Biosolve Chimie (Dieuze, France). Formic acid (FA) (purity 98%), isopropanol (IPA) and HPLC water were ordered by Fisher (Illkirch, France). Ammonium bicarbonate (NH4HCO3) (purity 99%) and sodium hydroxide were obtained by Fluka (Steinheim, Germany).
Labelled (15N, 13C, D) or unlabelled analytical standards (IS–S1 Table) (purity ≥97%) were purchased from Sigma-Aldrich, Fluka, CliniSciences (Nanterre, France), Chemservice (Dallas, United States), CDN isotopes (Quebec, Canada), or Merck-Millipore.
Stock solutions of individual standards at concentrations of 0.1, 0.2, or 1.0 mg/mL were prepared in ACN, H2O, ACN/H2O, DMSO, or MeOH according to their solubilities, and were stored at -18°C until use. Working standard mixtures were prepared by diluting the stock solutions with ACN.
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6

Murine Model of Allergic Airway Inflammation

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Female BALB/c mice (n = 6–8 mice per group), purchased from Charles River Breeding Laboratories (L’Arbresle, France), were used for all experiments. Mice were housed in a ventilated cage system. The protocol was approved by the Ethics Committee on Animal Experimentation of the Pays de la Loire (accreditation number: 9456). Mice were sensitized on days 0, 7, 14, and 21 by percutaneous application of 500 μg of crude extract of Dermatophagoides farinae (Der f, Stallergenes Greer, Antony, France) diluted in 20 μl of dimethyl sulfoxyde (DMSO) (Sigma-Aldrich, Saint Louis, Missouri, USA) on the ears, without any synthetic adjuvant. They were challenged intranasally with 250 μg of Dermatophagoides farinae (Der f, Stallergenes Greer, Antony, France) in 40 μl of sterile phosphate buffered saline (PBS) on day 28 to induce AHR and again on days 29, 30, 35, 36, and 37 to enhance AHR. Mice were sacrificed on day 38 (Figure 1A).
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7

Preparation and Validation of PhlTx1 Variants

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Lyophilized synthetic PhlTx1 wild-type and variant forms (purity rate > 97%) were dissolved in appropriate solutions to give adequate stock solutions. All compounds used as reference molecules to pharmacologically validate the current flowing through each channel subtype, as indicated in Table 3, were purchased from Sigma-Aldrich and Smartox Biotechnology (Saint-Egrève, France).
The toxins were dissolved in distilled water to give a 100 µM stock solution, and the chemicals were dissolved in 100% dimethylsulfoxyde (DMSO, Sigma-Aldrich) to give a 10 mM stock solution. Just prior to experiments, successive dilutions were performed in the appropriate standard physiological medium (supplemented with 0.1% bovine serum albumin (BSA, Sigma-Aldrich) for toxins to avoid plastic adherence, and with 0.3% DMSO for chemicals to maintain solubility), to give the compound final concentrations indicated in the text.
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8

Borosilicate Glass Substrate Preparation

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Borosilicate glass was chosen as a model material because of its transparency, allowing its use for microscopy experiments. Borosilicate glass slides (76 x 26 mm, thickness ≈ 1 mm) were obtained from Schott (Tempe, AZ, USA). These slides were then laser-cut into 10x10 mm pieces to fit in 24 well cell culture plates. H2O2 (33 wt %), concentrated H2SO4, acetone, ethanol, anhydrous toluene, dimethylsulfoxyde (DMSO), 3-aminopropyltriethoxysilane (APTES) and succinimidyl-4-(pmaleimidophenyl) butyrate (SMPB) were all purchased from Sigma-Aldrich, France. The fluorophore-tagged CG-K(PEG3-TAMRA)-GGRGDS adhesion peptide (referred to as RGD-TAMRA; MW 1437 g/mol) was synthesized by Anaspec (Fremont, CA, USA). CKIPKASSVPTELSAISMLYL and fluorophore-tagged CKIPKASSVPTELSAISMLYLK-FITC peptides (referred to as BMP-2 mimetic peptide; MW 2251.75 g/mol and BMP-2-FITC mimetic peptide; MW 2769 g/mol, respectively) were produced by Genecust, Belgium. These peptides were first dissolved at 2 mM in DMSO and stored at -20 °C until use. Peptides, to be conjugated with material surface, were resuspended at 20 µM in a 0.2 µm-filtered Phosphate-Buffered Saline (PBS, Life Technologies, France) solution containing 7.5 % glycerol.
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9

Molecular Mechanisms Underlying Cell Signaling

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Linalool>95%, N-acetyl-L-cysteine (NAC), Propidium Iodide (PI), rhodamine-123 (Rh-123), U0126, Ly294002, 2,7-dichlorodihydrofluorescein diacetate (DCFH-DA), apocynin, lipopolysaccharide (LPS) and dimethylsulfoxyde (DMSO) were purchased from Sigma Chemical Co. (St Louis, MO, USA). Dulbecco's Minimal Essential Medium (DMEM), fetal bovine serum (FBS), penicillin-streptomycin (P/S) and non-essential amino acids (NEAA) were obtained from Gibco (Invitrogen Corporation, USA). Protease and phosphatase inhibitor cocktails (cat. 88666 and 78420) were from Thermo Scientific (Rockford, USA).
Anti-pan-Ras, anti-phospho-ERK (Thr202/Tyr204), anti-phospho-Akt (Ser473), antiphospho-p38 (Thr180/Tyr182), anti-p38, anti-phospho-JNK (Thr183/Tyr185), antiphospho-p70S6K (Thr389), and anti-PARP antibodies were from Cell Signaling Technology (Danvers, MA, USA). Anti-p70S6K, anti-Cdk2, anti-Cdk4, anti-cyclin A, anticyclin D1, anti-cyclin E, anti-p21, anti-p27, anti-p53 antibodies were from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Anti-ERK and anti-Akt antibodies were from BD Biosciences. Anti-β-actin antibody was from Sigma Aldrich (Bornem, Belgium).
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10

MTT Viability Assay for Adherent Cells and Mammospheres

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For adherent cultures, cells were seeded at a density of 5x10 3 cells/well in 96-well plates. At determined time points, 20 µl 5mg/ml 3-(4,5-dimethylthiazol-2-yl)-2,5diphenyltetrazolium bromide (MTT) solution (Sigma-Aldrich) were added to each well, and cells were further incubated at 37°C for 5 hours. After incubation, growing medium was removed and formazan crystals were dissolved by adding 200 µl dimethylsulfoxyde (DMSO) (Sigma-Aldrich). For mammospheres, 200 µl of MTT solution were added to each well of 12-well plates, and cells were further incubated at 37°C for 5 hours. After incubation, mammospheres were collected by gentle centrifugation, resuspended in 200 µl DMSO and transferred in 96-well plates. Plates were incubated at 37°C for 5 minutes with DMSO before measuring signals at 595 nm using the microplate reader Genios (Tecan).
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