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24 protocols using t booh

1

Wound Healing Assay with tBOOH

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All drugs were dropped onto the OP50 bacterial lawn from a high concentration stock and allowed to dry for 1~2 hours at room temperature before transferring the young adult animals. For prolong drug treatments, young adults were transferred to freshly made NGM drug plates and incubated overnight at 20°C before needle wounding. tert-butyl hydroperoxide (tBOOH, B2633 Sigma) was dissolved in M9; the working concentration of tBOOH is 1 mM.
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2

Quantifying Intracellular Glutathione Levels

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Intracellular glutathione (GSH) was determined by quantifying its conjugation with cell-permeable reagent monochlorobimane (mCB, Sigma-Aldrich, Steinheim, Germany), forming a fluorescent signal. The cells were prepared and incubated with PBDEs, as described above, for ROS measurements. Then, 100 µL of mCB dye was added to each well to get the final concentration of 40 µM. The plate was incubated for 20–40 min, and then fluorescence was recorded on an Infinite M200PRO plate reader with an excitation and emission spectra of 355 nm and 460 nm, respectively. For positive controls, we used tert-butyl hydroperoxide (tBOOH, Sigma-Aldrich, Steinheim, Germany) at the final concentration of 100 µM. We evaluated the mean of three separate experiments (each conducted in duplicate) using the Prism software and presented as normalized signal to untreated control, according to the dye manufacturer’s calculation protocol.
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3

Oxidative Stress Survival Assay

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L4 stage worms were transferred to plates containing 40 mM paraquat (Sigma-Aldrich) or 7.5 mM tert-butyl hydroperoxide (t-BOOH; Sigma-Aldrich). These plates had been seeded with HT115 bearing RNAi plasmids for 2 days. Animals were incubated at 20°C and, from day 1 of adulthood, scored for survival daily or hourly for paraquat or t-BOOH, respectively. Raw mortality data for all trials are provided (Supplementary Dataset 2).
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4

Intrathecal Modulation of Oxidative Stress and CaMKII in Neuropathic Pain

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To determine whether superoxide and pCamKII were involved in at-level pain behaviors, an intrathecal catheter (CS-1 Intrathecal Catheter; ReCathCo, Allison Park, PA, USA) was implanted from the cisterna magna to the T5/6 level, and 2 cm of the free end was left exposed at the nape of the neck to allow drug administration. The catheter was implanted 5 days before the test under inhalation anesthesia (isoflurane; induction, 3%; maintenance, 1.5%). Saline (20 μL) was injected daily to prevent clogging of the intrathecal catheter. After implantation, the rats were individually housed and monitored for secure implantation. The superoxide anion scavenger Tempol (1 mg/10 μL/kg; Sigma-Aldrich, St. Louis, MO, USA), hydroxyl radical donor t-BOOH (0.4 mg/10 μL/kg; Sigma-Aldrich), non-specific ROS scavenger PBN (3 mg/kg; Sigma-Aldrich), pCamKII inhibitor KN-93 (50 μg/10 μL/kg), and inactive enantiomer KN-92 (50 μg/10 μL/kg; EMD Biosciences, San Diego, CA, USA) were intrathecally administered, and the i.t. tubing was flushed with saline (10 μL). To determine the contribution of AMPA and NMDA receptors to the hyperexcitability of WDR neurons, we administered the AMPA receptor antagonist NBQX (1 μg) or NMDA receptor antagonist MK-801 (50 μg) to SCI rats. All drug doses were set according to previous studies [10 (link),15 (link),24 (link)].
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5

Ferroptosis Inhibition Mitigates IVH Injury

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Three or more independent experiments were performed for all experiments. Animals and cell cultures for each group were randomized with the website www.randomization.com. Treatment, data collection, and data analyses were blinded by using different investigators or by masking sample labels.
For in vitro experiments, we tested different dosages of Hemin (0, 10, 50, or 100 μM) and RSL3 (0, 2, 4, 8, 16, or 32 μM) at 12 and 24 h respectively. We added 2 μM Ferrostatin-1 (Fer-1, S7243, Selleck), 100 μM Deferoxamine (DFO, Y0001937, Sigma), 100 μM Necrostatin-1 (Nec-1, N9037, Sigma), 1 mM 3-Methyladenine (3-MA, HY-19312, MCE, USA), or 10 μM Q-VD-OPh (SML0063, Sigma) at the same time with Hemin or RSL3 based on previously published work [21 (link), 48 (link)]. We treated cells with 20 μM t-BOOH (458139, Sigma, USA) for 12 h, with or without Fer-1 or 0.5 mM GSH (G4251, Sigma, USA) at the same time. Cells were collected for PI staining, TUNEL staining, immunofluorescence staining, flow cytometry, GPx4 activity assay, RT-qPCR, and RNA-seq.
For in vivo experiments, Fer-1 (2 mg/kg) or vehicle (0.1% DMSO (D1418, Sigma), 2.5% PEG300 (202371, Sigma) and 0.25% Tween80 (P1754, Sigma) in saline) was injected daily (i.p.) for the initial 7 days beginning 2 h after IVH. The assessment included behavior tests, neuroimaging, histology, and TEM.
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6

Oxidative and Thermal Stress Assays

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Stress resistance assays were performed as described previously20 (link), with modifications. Gravid adults were allowed to lay eggs for 12 hrs on NGM plates seeded with OP50. For the oxidative stress assay, L4-stage worms were transferred onto 5 μM FUDR-treated NGM plates with E. coli bacteria and 7.5 mM tert-butyl hydroperoxide (t-BOOH, Sigma, St. Louis, MO, USA) solution. For the thermotolerance assay, L4-stage worms were placed in a 35 °C incubator. The number of live worms was counted every 2 or 3 hr and recorded as dead when the worms did not respond to tactile stimuli with a platinum wire. All the assays were conducted at least twice independently. OASIS (https://sbi.postech.ac.kr/oasis/) and OASIS2 (https://sbi.postech.ac.kr/oasis2/) were used for statistical analysis67 (link),68 (link), and p values were calculated using a log-rank (Mantel–Cox method) test.
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7

Evaluating Accumbal ROS Mediation of Nicotine Sensitization

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To determine whether the effects of MEGR on nicotine sensitization were mediated by accumbal ROS, the ROS donor tert-butyl hydroperoxide (t-BOOH; 3.0 μg/200 nL/side; Sigma-Aldrich) [28 (link)] was dissolved in MRS and bilaterally administered into the NaccSh via the injectors (internal cannulae, 17 mm; 28-gauge) using motorized syringe pumps over a period of 60 s approximately 60 min after the fourth MEGR treatment. For the intra-NaccSh infusions of t-BOOH, stainless steel guide cannulae (15 mm; 23-gauge, 2 mm shorter than the internal cannulae) were bilaterally implanted into the brain using a stereotaxic instrument while the rats were under anesthesia; the cannula tips were placed 2 mm above the NaccSh so that the injectors exactly targeted the NaccSh. Five minutes after t-BOOH administration, the rats were systemically challenged with nicotine and tested in the locomotor testing boxes for 60 min. Immediately after the behavioral test, the rats were decapitated and their brains were removed to verify the guide cannula placement.
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8

Quantifying Redox-Sensitive Protein Modifications

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Monobromobimane (MBB), Tris (2-carboxyethyl)phosphine hydrochloride (TCEP), sulfosalicylic acid (SSA), 1-fluoro-2,4-dinitrobenzene (DNFB), TPP® tissue culture dishes, NU6027, penicillin/streptomycin, and t-BOOH were purchased from Sigma (St. Louis, MO). Fetal bovine serum, Dulbecco’s modified Eagle’s medium (DMEM) (standard liquid media) were from Invitrogen (Rockville, MD). β-cyano-L-alanine and diallyl trisulfide were purchased from the Cayman Chemical Company (Ann Arbor, MI). Antibodies used were anti-ATR-pS435 (Cell Signaling Technology Inc, Danvers, MA, catalog number 2853s), anti-total-ATR (Invitrogen, Waltham, MA USA, catalog number PA1–450), anti-CHK1-pS345 (Invitrogen, catalog number PA5–34625), anti-total-CHK1(Abcam, Cambridge, MA, catalog number ab47574), anti-3-MST (Santa Cruz Biotechnology, Santa Cruz, CA, catalog number sc-135993), anti-CSE (Santa Cruz Biotechnology, catalog number sc-101924), anti-CBS (Santa Cruz Biotechnology, catalog number sc-67154), and anti-Visfatin (Nampt, Bethyl Laboratories, Montgomery TX, catalog number A300–779A), rabbit anti-GADPH (Sigma, catalog number G9545), and anti-beta-actin (abcam, catalog number ab8227). Secondary antibodies were goat anti-rabbit IgG (catalog numbers ab6721 & ab2040, Abcam), goat anti-mouse IgG (catalog number ab205719, Abcam), and goat anti-mouse IgG (catalog number sc358920, Santa Cruz).
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9

Oxidative Stress Assays in C. elegans

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The manual oxidative stress assays were performed as described in detail in the bio-protocol63 . L4 worms were manually picked onto fresh OP50 plates. The next day, 10–12 day-one old C. elegans were transferred into 24-well plates containing 1 mL M9 Buffer in quadruplicates for each strain and condition (three wells with sodium arsenite (Sigma-Aldrich) and one well M9 as control). For tBOOH stress assay, about 80 L4 C. elegans per condition were picked onto fresh RNAi plates. Three days later, 20 day-three-old C. elegans were picked onto NGM plates containing 15.4 mM tBOOH (Sigma-Aldrich). The survival was scored every hour until all animas died. Exploded animals were excluded from the statistics. The log-rank (Mantel–Cox) method was used to test the null hypothesis and calculate P values (JMP software v.9.0.2.).
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10

Alkaline Comet Assay for DNA Damage

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K562 cells were seeded at 1.5 × 105 cells/mL. A total of 24 h later, cells were treated with inhibitors and harvested after 24 h. Positive control cells were treated with 200 µM tert-butyl hydroperoxide (t-BOOH) (Sigma-Aldrich, Taufkirchen, Germany) for 30 min. Alkaline comet assay was performed as described in [19 (link)]. DNA damage (tail intensity) was evaluated with Comet IV software (Perceptive Imaging, Liverpool, U.K.). Per experiment, at least 50 cells were measured for each condition.
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