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1

Quantifying Oxidative Stress in Brain Injury

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To measure oxidative stress in the injured brain tissue, level of malondialdehyde (MDA), a biomarker of lipid peroxidation, was estimated. The level of MDA in the injured hemispheres was examined using the TBARS (thiobarbituric acid-reactive substances) Assay Kit (Cayman Chemical, Ann Arbor, MI) [21 (link)]. The optical density (OD) was read at 540 nm by a spectrophotometer and the results were defined as μM/μg wet tissue.
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2

Metabolic and Inflammatory Biomarkers Analysis

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Using commercially available diagnostic kits, the levels of serum glucose, insulin, pyruvic transaminase (GPT), glutamic oxaloacetic transaminase (GOT), creatinine, urea, total cholesterol (TC), total triglycerides (TG), low-density lipoprotein (LDL), and high-density lipoprotein (HDL) were measured (Human, Wiesbaden, Germany). Also, using rat ELISA kits, the levels of pro-inflammatory biomarkers such as TNF-α, IL-1β, IL-6, caspase-3, NO, and PGE-2 were determined according to the provided guidelines (R&D Systems Inc., USA). The physiological lysis buffer was used to homogenize the liver and kidney tissues (1:10, w/v). Diagnostic kits were used to measure the concentrations of TBARS and GSH (Cayman Chemical Co., USA). The enzymatic activity of SOD, CAT, GPx, GR, and GST in post-mitochondria supernatants of hepatic and renal tissues was assessed using assay kits (R&D Systems Inc., USA). TNF-α, IL-1β, and IL-6 levels were also assessed in hepatic and renal-prepared tissue samples using rat ELISA kits according to the provided protocol (R&D Systems Inc., USA).
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3

Urinary Biomarkers of Kidney Injury

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Urinary total protein and albumin excretions were determined using commercially available kits from Biorad, Hercules, CA and Exocell, Philadelphia, PA, respectively. Urinary excretions of nephrin, podocalyxin and collagen were measured using ELISA kits from Exocell, Philadelphia, PA. Urinary MCP-1 excretion was assessed as a marker of inflammation using an ELISA kit from BD Bioscience, San Jose, CA. Plasma and urinary creatinine were assessed using a kit from Cayman Chemical (Ann Arbor, MI) and values were used to calculate creatinine clearance. Urinary TBARS excretion was assessed as a marker of oxidative stress (Cayman Chemical, Ann Arbor, MI). Urinary nitrate/nitrite was also assessed as an indication of available NO using a kit from Cayman Chemical, Ann Arbor, MI.
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Oxidative Stress and BDNF Measurement

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The dissected hippocampus was homogenized in lysis buffer mixed with a protease inhibitor cocktail (Sigma–Aldrich Corp., MI, USA) utilizing Tissue Master-125 homogenizer (Omni International, Kennesaw, GA, USA) (Al-Sawalha, et al. 2017 ). The levels of thiobarbituric acid reactive substances (TBARS) (Cayman Chemical, MI, USA) and brain derived neurotrophic factor (BDNF) (R&D Systems, MN, USA) were measured by ELISA kits following the manufacturers’ instructions. The activity of anti-oxidant enzymes; catalase (Cayman Chemical, MI, USA), glutathione peroxidase (GPx) (Sigma–Aldrich Corp., MI, USA) and superoxide dismutase (SOD) (Sigma–Aldrich Corp., MI, USA) were measured according to the manufacturers’ instructions. The optical density was measured at the specified wavelengths as per kit’s manual using an Epoch Biotek microplate reader (BioTek, Winooski, VT, USA). The concentration of total protein was determined by a commercially available kit (BioRAD, Hercules, CA, USA). The levels of TBAR, BDNF, VGEF and activities of the anti-oxidant enzymes were normalized to total protein in each sample.
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5

Serum Oxidative Stress Biomarkers

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Commercial assay kits were used to measure catalase activity (Cayman Chemical, USA; Catalogue Number 707002), 8-isoprostanes (RayBitotech Inc, USA; Catalogue Number EIA-IPF2A), TBARS (Cayman Chemical, USA; Item No. 700870), and nitrate+nitrite concentrations ([NOx] Cayman Chemical, USA; Item No. 780001) in serum. An inter-assay CV of 6.95% and intra-assay CV of 5.25% was calculated for catalase activity. An inter-assay CV of 7.40% and intra-assay CV of 2.75% was calculated for 8-isoprostanes. An inter-assay CV of 4.79% and intra-assay CV of 2.59% was calculated for TBARS. An inter-assay CV of 2.71% and intra-assay CV of 1.38% was calculated for NOx (nitrate+nitrite), and an inter-assay CV of 1.90% and intra-assay CV of 1.00% was calculated for nitrite alone. Nitrate was calculated as NOx (nitrate+nitrite) minus nitrite, as per the manufacturer’s instructions.
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6

Diabetes Biomarker Evaluation Protocol

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Nicotinamide (NA), streptozotocin (STZ), p-nitrophenyl α-D-glucopyranoside (pNPG), and α-glucosidase were purchased from Sigma-Aldrich®, St. Louis, MO, USA. Rat TNF-α, rat IL-6, and rat IL-1β ELISA kits were purchased from eBioscience (San Diego, CA USA). Rat insulin ELISA kit was purchased from Mercodia AB (Uppsala, Sweden). TBARS, Glutathione, and Glycogen assay kits were purchased from Cayman chemical company (Ann Arbor, MI, USA). All of the other chemicals are analytical grade purchased from Sigma and Merck Chemical Co.
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7

Urinary Oxidative Stress Biomarkers

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Three biomarkers of oxidative stress were measured from first morning urine samples22 (link). All analyses were conducted using commercial ELISA kits in accordance with manufacturer procedure in Yale Reproductive Ecology Lab by the same researcher (8-OHdG, Enzo Life Sciences, catalogue ADI-EKS-350; Cu-Zn SOD, Enzo Life Sciences, catalog ALX-850-033; TBARS, Cayman Chemical Company, catalogue 10009055).
8-OHdG is a modified nucleotide base and a by-product of repaired DNA damage that is excreted in urine. Levels of 8-OHdG depict the amount of oxidative damage accumulated in cellular DNA through repaired lesions on the guanine base pair caused by ROS. Cu–Zn SOD catalyzes the dismutation of superoxide anion radicals to free oxygen and hydrogen peroxide. Levels of Cu–Zn SOD represent a primary line of enzymatic defense produced in the cytoplasm to neutralize ROS. Levels of TBARS reflect peroxidation of cellular lipids resulting from oxidative stress.
The average inter-assay variability for 8-OHdG, Cu–Zn SOD, and TBARS analysis was 14%, and intra-assay variability was 5%. All results were corrected for urine concentration based on samples’ specific gravity measured with refractometer (model PAL-10S ATAGO, U.S.A., Inc).
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8

Malondialdehyde Quantification via TBARS

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Malondialdehyde (MDA) was determined using a TBARS (Thiobarbituric acid reactive substances) Assay Kit (Cayman Chemical, Ann Arbor, MI) according to the manufacturer's recommendations. The absorbance was read at 540 nm in a spectrophotometer (Spectra MAX 190, Molecular Devices).
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9

Antioxidant Activity Assessment in Liver

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The tissue samples were washed in neutral ice-cold phosphate-buffered saline 10% (w/v). The homogenate liver tissues were prepared via Teflon homogenizer (performed on ice), and then centrifuged at 4500 rpm for 15 min at 4 °C excluding cell debris. The collected supernatant was examined for antioxidant actions by using superoxide dismutase (SOD) and catalase (CAT) kits (Cayman Chemical Company, Ann Arbor, MI, USA) [39 (link)]. Malondialdehyde (MDA), as a lipid peroxidation biomarker, was also assessed to analyze the level of oxidative stress. Thus, the MDA assay kits were purchased and the reacted amount of thiobarbituric acid was determined [40 (link)] (TBARS, Cayman Chemical Company).
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10

Measuring Brain Glutathione and Oxidative Stress

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Brain concentrations of total and reduced GSH (tGSH and rGSH) were measured by ultraperformance liquid chromatography (Waters ACQUITY UPLC System) as reported by us previously [13 (link),14 (link),64 (link)]. Oxidized glutathione (GSSG) levels were calculated as the difference between tGSH and rGSH. OxS was measured using a TBARS (thiobarbituric acid reducing substances) assay kit (Cayman Chemicals, Ann Arbor, MI, USA) [70 (link)].
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