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11 protocols using adenosine triphosphate (atp)

1

Oxidative Stress Parameters Quantification

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In the serum and supernatants of model rats and cells, respectively, the levels of oxidative stress parameters (malondialdehyde [MDA], reactive oxygen species [ROS], superoxide dismutase [SOD], and glutathione [GSH]), Fe2+, and ATP levels were measured using commercial kits (MDA/ROS/SOD, Solarbio; GSH, Elabscience, Wuhan, China; Fe2+, BioVision, Milpitas, CA, USA; ATP, Solarbio) as per the manufacturer’s instructions.
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2

Murine Peritoneal Macrophage Isolation and Activation

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The isolation and culture of primary murine peritoneal macrophages were conducted as described (Zhong et al. 2019 (link)). Four days after the intraperitoneal injection of 3 mL 3% thioglycolate (Sigma-Aldrich) into C57BL/6J mice, peritoneal macrophages were harvested by peritoneal lavage with precooled Roswell Park Memorial Institute RPMI 1640 (Gibco, Life Technologies, Carlsbad, CA). The cells were collected by centrifuging at 1000 rpm for 8 min and washed with cooled phosphate‐buffered saline. The cells were resuspended in cell culture medium and counted on the counting plate after sufficient mixing. Macrophages were plated into 6-well or 12‐well plates (2 × 106 cells/well or 1 × 106 cells/well). To investigate the effect of rTWEAK on the macrophages, the cells were treated with rTWEAK (100 ng/mL) and LPS (100 ng/mL) for 12 h. To investigate the activation of the NLRP3 inflammasome, the cells were primed with rTWEAK (100 ng/mL) and LPS (100 ng/mL) for 135 min. Cells were then stimulated with ATP (2.5 mM, Solarbio, China) for 45 min.
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3

Dexamethasone and Trimetazidine Modulate NLRP3 Activation in Murine C2C12 Myotubes

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Murine C2C12 myoblasts were obtained from ATCC and incubated at 37 °C, 5% CO2 in DMEM with 80U/ml penicillin and 0.08 mg/ml streptomycin and 10% fetal bovine serum (Gibco). For the induction of differentiation into myotubes, sub-confluent myoblasts were switched to DMEM containing 2% horse serum (Biological Industries, Israel), and then cultured for 4 days. The myotubes were treated with 10 μM dexamethasone for 24 h [46 (link)], and 150 μM trimetazidine was added in the last 6 h [19 (link)]. To activate NLRP3, after treated with 10 μM DEX and/or 150 μM TMZ, C2C12 myotubes were cultured in a medium containing 100 ng/mL LPS (Sigma-Aldrich, US) for 2 h, followed by adding 2.5 mM ATP (Solarbio, China) and cultured for another 1 h [24 (link)]. For inhibiting phosphoinositide 3-kinase (PI3K)/AKT pathway, C2C12 myotubes were cultured in a medium containing 2.5 μM picropodophyllin (PPP) (MCE, China) for 24 h [24 (link)].
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4

Isolation and Pyroptosis Induction in Rat Synovial Fibroblasts

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Synovial tissues removed from five 2-month-old male SD rats were snipped into pieces of ~3 mm3, homogenized in DMEM (Gibco; Thermo Fisher Scientific, Inc.) and incubated for 1 h at 37°C with 1 mg/ml type I collagenase (Sigma-Aldrich; Merck KGaA). The samples were filtered through a 100-µm cell strainer. After dissociation, the FLSs were pelleted via centrifugation at 300 × g at ~25°C for 5 min and plated in DMEM supplemented with 10% FBS (Gibco; Thermo Fisher Scientific, Inc.) and 1% antibiotics (100 U/ml penicillin and 100 µg/ml streptomycin; Invitrogen; Thermo Fisher Scientific, Inc.). Cells were cultured at 37°C in a humidified atmosphere with 95% air and 5% CO2, and were identified as described in our previous studies (9 (link),10 (link)). Primary FLSs from passages 3–5 were used for subsequent experiments.
To induce pyroptosis, FLSs were stimulated with LPS (3 µg/ml; Sigma-Aldrich; Merck KGaA) in DMEM for 12 h and then treated with ATP (Beijing Solarbio Science & Technology Co., Ltd.) at 37°C (3 mM) for 4 h. For the control group, FLSs were treated with DMEM for 12 h and then treated with DMEM in combination with 0.9% saline of the same volume as ATP for 4 h. Compounds in the supernatant were detected using specific ELISA kits. FLSs were collected to detect protein and gene expression levels, and caspase-1 activity, as well as to perform immunofluorescence.
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5

Fn14 Knockdown in Macrophages

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The short hairpin RNA (shRNA) of Fn14 was purchased from Genechem (Shanghai, China). Fn14 shRNA sequences were gattcggcttggtgttgatgc. Macrophages were infected with concentrated lentivirus. The supernatant was replaced with a complete culture medium after 16 h. After being treated with shRNA, the cells were primed with LPS (100 ng/mL) for 135 min. Cells were then stimulated with ATP (2.5 mM, Solarbio, China) for 45 min.
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6

Isolation and Culture of Peritoneal Derived Macrophages

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PDMs were isolated from 50 male C57BL/6 mice (6-8 weeks old, 20-25 g), purchased from Shanghai SLAC Laboratory Animal Co., Ltd. The C57BL/6 mice were housed under controlled conditions at a temperature of 25±2˚C with a 12-h light-dark cycle and 55±2% relative humidity, as previously described (32 (link)). Mice were and sacrificed by intraperitoneal injection of overdoses of sodium pentobarbital (150 mg/kg). PDMs were cultured in an RPMI 1640 medium supplemented with 10% FBS, 100 U/ml penicillin and 100 µg/ml streptomycin in a humidified atmosphere under 5% CO2 and 95% O2 at 37˚C. Cells were randomly separated into three groups: Normal (N), LPS+ATP and AKFPD groups. PDMs in the LPS+ATP group were stimulated with 500 ng/ml lipopolysaccharide (LPS; cat. no. L8880; Beijing Solarbio Science & Technology Co., Ltd.) for 2.5 h, followed by exposure to 5 mM ATP (cat. no. 10519979001; Roche Diagnostics) for 0.5 h at 37˚C. PDMs in the AKFPD group were pre-incubated with 400 µg/ml AKFPD for 24 h at 37˚C and subsequently exposed to LPS plus ATP.
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7

Determination of ATP and Glutamate Levels

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On the 26th day, all rats were anesthetized with an intraperitoneal injection of pentobarbital sodium (100 mg/kg), and the brain tissues were collected. The levels of ATP and Glu in the striatum were determined using commercial ELISA kits (ATP, Solarbio, Beijing, China; Glu, Nanjing Jiancheng Bioengineering Institute, Nanjing, China) according to the manufacturer’s instructions.
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8

Monitoring Bitter Taste-Induced Calcium Signaling

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A typical bitter taste signal can lead to an increase in intracellular calcium (Ca2+). This Ca2+ reaction is usually elicited via gustducin/PLCβ2 cascades, activation of voltage gated channel and transmitter release (13 (link), 17 (link)). Therefore, we investigated the activation of taste signaling by monitoring calcium mobilization. MGFs (1 per well × 104 cells) were cultured overnight in 96-well black plates (Corning) with transparent bottoms. Cells were washed twice with Dulbecco’s Phosphate Buffered Saline (DPBS; Hyclone) containing calcium and magnesium, and then loaded with Fluo-4 AM (Thermo Fisher Scientific Inc., F14201) and F-127 (Thermo Fisher Scientific Inc., P3000MP) in the dark at room temperature for 1 hour. After washing with DPBS three times, the cells were incubated in darkness for another 30 minutes to completely de-esterify the dye. For single-cell calcium imaging, cells were examined using standard GFP filters (Olympus, IX83), and images were captured every 1 second for 140 seconds (inject salicin into the well at~10 seconds). 10 µM ATP (Solarbio) and DPBS were used as positive and negative controls, respectively. The baseline normalization curve of fluorescence intensity (F/F0; F0 was determined as the average of the first 5 readings) was drawn to time using GraphPad 8.0 (GraphPad Software Inc.).
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9

Pyrophosphate Release Assay for Amino Acid Activation

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This
experiment basically
followed the method reported by Wilson and Aldrich.26 (link) Specifically, the reaction system contains 10 mM amino
acid substrates, 2 mM ATP (Solarbio), 0.2 mM MESG (Medchemexpress),
1 U/mL purine nucleoside phosphorylase (Shanghai yuanye Bio-Technology
Co., Ltd.), 0.4 U/mL inorganic pyrophosphatase (Sigma), 150 mM hydroxylamine
(Sigma) and 2 μM proteins in 100 μL buffer (50 mM Tris,
200 mM NaCl and 5 mM MgCl2, pH 8.0). The value was read
at A360 in a SpectraMax M5 plate reader (Molecular Devices, Sunnyvale,
California) in 96 well, clear-bottomed plates (Corning). A360 values
were converted to pyrophosphate release, by comparing with a standard
curve (KH2PO4 from 2 μM to 128 μM)
for known quantities of pyrophosphate.
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10

Metabolic Flux Analysis of Cells

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Cells of different treatment groups were cultured in FBS-free medium overnight prior to measurement. Glucose consumption, lactate, ATP, pyruvate and Acetyl-CoA production assay kits were all purchased from Solarbio (Beijing, China) and used according to manufacturer’s instructions. All experiments were performed in triplicates.
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