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7 protocols using n tetraacetic acid

1

Standardized Cell Culture Conditions

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All reagents were of analytical grade or of the highest grade available. Antibiotic mixture of penicillin/streptomycin (10,000 U/mL/10,000 mg/mL), fungizone (250 mg/mL), and heat-inactivated fetal bovine serum (FBS) were obtained from GIBCO Invitrogen (Barcelona, Spain). Collagen G was obtained from Merck (Darmstadt, Germany). 4-Fluorobenzaldehyde (≥98%), collagenase from Clostridium histolyticum Type IA, desmosterol (≥84%), dexamethasone, ethylene glycol-bis-(2-aminoethylether)-N, N, N’, N’-tetraacetic acid (EGTA), gentamicin, insulin solution from bovine pancreas (10 mg/mL), methoxyamine hydrochloride (≥98%), N,O-bis(trimethylsilyl)trifluoroacetamide with 1% trimethylchlorosilane (BSTFA + 1% TMCS), O-(2,3,4,5,6-pentafluorobenzyl)hydroxylamine hydrochloride (PFBHA, ≥99%), sodium chloride (NaCl, ≥99.5%), thiazolyl blue tetrazolium bromide (MTT, ≥98%), thymol (≥98.5%), Triton X-100, trypan blue solution, Williams’ E medium, and all standards used throughout the work were purchased from Sigma-Aldrich (St. Louis, Missouri, USA). Methanol (≥99.9%) and pyridine (≥99%) were purchased from VWR (Leuven, Belgium).
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2

Comet Assay for DNA Strand Break Detection

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The comet assay was performed using a Trevigen Comet Assay Kit (Trevigen Inc., Gaithersburg, MD, USA) to detect DNA strand breaks at the single-cell level as described previously [18 (link)]. Briefly, cells were exposed to millimeter-wavelength radiation for 24 h, collected by trypsinization and centrifuged immediately after exposure, then mixed with low melting point agarose to prepare a cell suspension in 0.1% agarose/phosphate buffered saline (PBS). After gelation of the agarose, the cells were lysed, then the alkaline unwinding was performed (1 h at 4 °C, pH > 13). The resulting DNA samples were electrophoresed at 1 V/cm for 30 min in a 0.3 M NaOH (Nacalai Tesque, Kyoto, Japan) and 1 mM ethylenediamine-N,N,N’,N’-tetraacetic acid (Sigma-Aldrich) solution. After the DNA was stained with SYBR Green I, immunofluorescence images were captured using a fluorescence microscope (Olympus, Tokyo, Japan). DNA strand breaks were analyzed using Comet software (Perceptive Instruments, Suffolk, UK). At least 100 comets from each gel were analyzed, and at least five independent experiments were performed. Tail length indicates the pixel length of the comet tail, tail percent indicates the percentage of tail content relative to comet content, and tail moment was calculated as follows:

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3

Mitochondrial Function Assessment Protocol

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D-mannitol, 3-4,5-dimethylthiazol-2-yl] 2,5-diphenyltetrazolium bromide (MTT), 2’,7’-dichlorofluorescein diacetate (DCFH-DA), Tris-HCl, sodium succinate, sucrose, KCl, Na2HPO4, MgCl2, potassium phosphate, Rhodamine 123 (Rh 123), coomassie blue, ethyleneglycol-bis(2-aminoethylether)-N,N,N’,N’-tetraaceti c acid (EGTA), ethylenediamine tetraacetic acid (EDTA), dimethyl sulfoxide (DMSO), N-(2-Hydroxyethyl)piperazine-N’-(2-ethanesulfonic acid) (HEPES), and bovine serum albumin (BSA) were purchased from Sigma Chemical Co. (St. Louis, Mo, USA). All chemicals were of analytical grades.
Atorvastatin, lovastatin, and L-carnitine were kindly donated by Poursina Pharmaceutical Co. (Tehran, Iran). Coenzyme Q10 (Roche, Switzerland) was a gift from akbarieh Co. (Tehran, Iran).
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4

Vascular Smooth Muscle Function Assay

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Bradykinin (BK) acetate salt, N′-tetraacetic acid (EGTA), nifedipine, Nω-nitro-l-arginine (L-NA), sodium nitroprusside (SNP), tetraethylammonium (TEA; Sigma-Aldrich, St, Louis, MO, USA) and U46619 (Cayman Chemical Co., Ann Arbor, MI, USA) were used. All Krebs salts and other chemicals were general-purpose or analytical grade and purchased from Nakalai Tesque (Kyoto, Japan) or Wako (Osaka, Japan). Stock solutions were dissolved in distilled water, except nifedipine, which was dissolved in ethanol. The solutions were prepared fresh on the day of the experiment.
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5

Muscle Protein Extraction and Analysis

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Muscle strips were snap frozen in liquid nitrogen and stored at −80 °C. Upon thawing, muscle strip cells were digested in lysis buffer with freshly added 0.1 mM leupeptin (Calbiochem) for zymography and Western blotting, or RIPA buffer (Thermo Scientific) for total protein measurements and muscle creatine kinase (MCK) assays. Lysis buffer consisted of 20 nM Tris–HCl at pH 7.5, 5 mM ethylene glycol-bis(2-aminoethylether)-N,N,N′,N′-tetraacetic acid (Sigma-Aldrich), 20 mM β-glycerolphosphate (Alfa Aesar), 150 mM NaCl (BDH), 1 mM sodium orthovanadate (Sigma-Aldrich), 10 mM NaF (Sigma-Aldrich), 1% Triton X-100 (EMD Chemicals) and 0.1% Tween-20 (Fisher Scientific)36 (link). After sonication and centrifugation, protein extract supernatant was collected. Using a Pierce BCA Protein Assay Kit (Thermo Scientific), total muscle strip protein content was measured at 562 nm with a spectrophotometer. Extracted protein supernatant was used to determine MCK production using a Liquid Creatine Kinase Reagent Set (Pointe Scientific) and absorbance was measured at 340 nm with a microplate reader.
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6

Comprehensive Biochemical Assay Protocol

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Glutathione (GSH), 2′,7′-dichlorofluorescein diacetate (DCFH-DA), trichloroacetic acid, malondialdehyde, 3-[4,5dimethylthiazol-2-yl]-2,5-diphenyltetrazolium bromide, 2,4,6-tripyridyl-s-triazine, ferric chloride hexahydrate (FeCl3.6H2O), D-mannitol, thiobarbituric acid, 3-(N-morpholino) propane sulfonic acid, fatty acid-free bovine serum albumin fraction V, coomassie brilliant blue, Rhodamine123, dinitrophenylhydrazine (DNPH), dithiothreitol (DTT), ethylene glycol-bis(β-aminoethyl ether)-N, N, N′, N′-tetraacetic acid (EGTA), Ethylenediaminetetraacetic acid (EDTA), 6-hydroxy-2,5,7,8-tetramethylchroman-2-carboxylic acid (Trolox), tramadol, bovine serum albumin (BSA), and sucrose were obtained from Sigma (Sigma-Aldrich, St. Louis, MO). Kits for assessing biomarkers of renal injury were obtained from Parsazmoon® (Tehran, Iran). High-performance liquid chromatography (HPLC) grade methanol, potassium chloride (KCl), 3-(N-morpholino) propanesulfonic acid (MOPS), iodoacetic acid, 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid (HEPES), acetonitrile HPLC grade, meta-phosphoric acid, dinitro fluoro benzene, n-butanol, and 2-amino-2-hydroxymethyl-propane-1,3-diol-hydrochloride (Tris-HCl), were purchased from Merck (Darmstadt, Germany).
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7

Membrane Isolation from C1498 Cells

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The membranes from C1498-WT and engineered C1498-VLA cells were derived using a previously described method with some modifications (51 ). First, the cells were harvested and washed in a starting buffer containing 30 mM tris-HCl (pH 7.0) (Quality Biological) with 0.0759 M sucrose (Sigma-Aldrich) and 0.225 M d-mannitol (Sigma-Aldrich). The washed cells were resuspended in an isolation buffer containing 0.5 mM ethylene glycol-bis(β-aminoethyl ether)-N,N,N′,N′-tetraacetic acid (Sigma-Aldrich), a phosphatase inhibitor cocktail (Sigma-Aldrich), and a protease inhibitor cocktail (Sigma-Aldrich). Then, the cells were homogenized using a Kinematica Polytron PT 10/35 probe homogenizer at 70% power for 15 passes. The homogenate was first centrifuged at 10,000g in a Beckman Coulter Optima XPN-80 ultracentrifuge for 25 min. The supernatant was then collected and centrifuged at 150,000g for 35 min. The resulting pellet of cell membrane was washed and stored in a solution containing 0.2 mM ethylenediaminetetraacetic acid (USB Corporation) in UltraPure DNase-free/RNase-free distilled water (Invitrogen). Total membrane protein content was quantified by a BCA protein assay kit (Pierce).
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