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18 protocols using spectrofluorometer

1

Measurement of Caspase-3 Activity

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Caspase-3 activity was measured as previously described (30 (link)). The activities of caspase-3 were measured using a DEVD-AFC device (BioVision). Cells were collected from monolayers and then lysed in 60 μl of cell lysis buffer for 10 min on ice. After centrifugation, 45 μl of supernatant were extracted and added to a 96-well plate. Next, 50 μl of 2 × reaction buffer (containing 10 Mm dithiothreitol) were added to each sample. Finally, 5 μl of the 1 Mm DEVD-AFC substrate (50 μM final concentration) were added, and the mixture was incubated for 1–2 h at 37°C. The levels of cleaved caspase substrate were measured using a spectrofluorometer (Molecular Devices).
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2

Fluorometric Caspase Activity Assay

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Caspase activity assay was conducted using fluorogenic caspase substrate. After treatment, cells were collected and lysed in assay buffer. Aliquots of crude cell lysate were incubated with caspase substrate at 37 °C for 30 min in the dark. The caspase activity was determined by measuring the relative fluorescence intensity at 505 nM following excitation at 400 nm using a spectrofluorometer (Molecular Devices). Caspase activity was expressed as a percentage with the control group as 100%.
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3

CaMKP Activity Assay with MUP Substrate

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The protein phosphatase assays were carried out at 30°C for 20 min in a reaction mixture containing 50 mM Tris–HCl (pH 8.0), 20 mM dithiothreitol, 10 mM MnCl2, 0.01% Tween 20, 25 μM Methylumbelliferyl Phosphate (MUP), and 1 μg of CaMKP. The reaction was started by the addition of CaMKP and terminated by the addition of EDTA. MUP would be converted to the soluble fluorescent reaction product methylumbelliferone when they are hydrolyzed by CaMKP. The fluorescence of methylumbelliferone present in the reaction mixture was measured by a spectrofluorometer (Molecular devices, CA, USA) with excitation at 360 nm and emission at 440 nm.
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4

Striatal AChE Activity Quantification

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Acetylcholinesterase (AChE) activity was assessed in striatal homogenates using a commercially available colorimetric AChE assay (Abcam, Cambridge, UK), according to the manufacturer’s instructions. Briefly, whole striatum was homogenized in lysis buffer by sonicating on ice. Striatal homogenates were incubated with acetylthiocholine and production of thiocholine was identified by development of DTNB-thiol adduct. The reaction was read at 410 nm using a spectrofluorometer (Molecular Devices, San Jose, CA, USA) and absorbance was calibrated to known standards of AChE (mU/mL). Activity was normalized to total protein and data were expressed as mU/mg protein.
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5

Measuring Mitochondrial Membrane Potential

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Mitochondrial membrane potential reflects the functional state of the mitochondria within cells (Wadia et al., 1998 (link)). Changes in MMP were measured by the uptake of 5, 50, 6, 60-tetrachloro-1, 10, 3, 30-tetraethylbenzimidazolcarbocyanine iodide (JC-1) into the mitochondria. When excited at 488 nm, the monomeric form of JC-1 has an emission maximum at 525 nm, but the aggregated form (J-aggregates) has an emission maximum at 595 nm (Reers et al., 1991 (link)). Cells and isolated mitochondria were incubated with JC-1 at 37°C for 30 min in medium or reaction buffer (0.32 mmol/L sucrose, 10 mmol/L Tris, 20 mmol/L Mops, 50 μmol/L EGTA, 0.5 mmol/L MgCl2, 0.1 mmol/L Pi (K+), 5 mmol/L sodium succinate in the presence of 5 μg/mL JC-1). At the end of the incubation, the dye-loaded cells and mitochondria were collected by centrifugation, washed extensively with reaction buffer to remove excess dye, and then resuspended in the same buffer at the appropriate dilution. The cells were visualized under an inverted fluorescence microscope (Nikon, Ti-E Live Cell Imaging System Japan), and the fluorescence intensity was measured (488 nm excitation and 595 nm emission) on a Molecular Device spectrofluorometer (United States).
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6

Measuring Cellular Reactive Oxygen Levels

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Reactive oxygen species (ROS) levels were measured using the ROS-specific probe 5′,6′-chloromethyl-2′,7′-dichlorodihydrofluorescein diacetate (H2DCFDA, Beyotime Institute of Biotechnology, Nantong, China). Cells and mitochondria were incubated with 10 μmol/L H2-DCFDA for 30 min at 37°C in medium or reaction buffer (0.32 mmol/L sucrose, 10 mmol/L Tris, 20 mmol/L Mops, 50 μmol/L EGTA, 0.5 mmol/L MgCl2, 0.1 mmol/L Pi (K+), 5 mmol/L sodium succinate) (Friberg et al., 2002 (link)). Next, the cells were visualized under an inverted fluorescence microscope (Nikon, Ti-E Live Cell Imaging System, Japan), and the mitochondria were monitored kinetically for 60 min at 37°C on a Molecular Device spectrofluorometer (United States) with 488 nm excitation and 525 nm emission filters.
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7

Caspase-8 Induced Apoptosis Activation Assay

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Caspase-8 can induce classic apoptosis, which involves the activation of caspases that are associated with the assembly of cytoplasmic DEFs (Siegel et al., 1998 (link)). The activities of caspase-8 and caspase-3 were measured using IETD-AFC and DEVD-AFC (BioVision). Cells were collected from monolayers and then lysed in 60 μl of cell lysis buffer for 10 min on ice. After centrifugation, 45 μl of supernatant were extracted and added to a 96-well plate. Next, 50 μl of 2 × reaction buffer (containing 10 Mm dithiothreitol) were added to each sample. Finally, 5 μl of the 1 Mm IETE-AFC or DEVD-AFC substrates (50 μM final concentration) were added, and the mixture was incubated for 1–2 h at 37°C. Levels of cleaved caspase substrate were measured using a spectrofluorometer (Molecular Devices).
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8

Quantifying Cell-free DNA in Media

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Levels of cell-free DNA in culture medium were measured using the Quant-iT PicoGreen double-stranded DNA (dsDNA) assay kit (Invitrogen, Carlsbad, CA, USA). Supernatants from cultured neutrophils were collected, mixed with assay kit reagent, and fluorescence was measured using a spectrofluorometer (Molecular Devices, Sunnyvale, CA, USA) at excitation/emission of 480/540 nm. DNA concentrations were calculated using a standard curve prepared using kit-supplied DNA. Data were normalized relative to NET-DNA (ng/mL) released by stimulating cells with ATP, BzATP, or PMA.
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9

Assessing ZEBOV and MARV Inhibition by Small Molecules

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For each assay, serial dilutions of SVN were added at a 4× concentration to 96-well plates of Vero E6 cells, which were then transferred to BSL-4 containment. ZEBOV-eGFP or MARV was added at a multiplicity of infection of 0.01. For ZEBOV, the plates were incubated for 48 hr and then read on a spectrofluorometer (Molecular Devices, Sunnyvale CA) at an excitation wavelength of 485 nm. For assays of MARV inhibition, the plates were incubated for 48 hours, then assayed for viral antigen by an immunofluorescence method using the 9G4 monoclonal antibody, as previously described (Radoshitzky et al. 2011 (link)). To confirm that decreases in fluorescence did not reflect cellular toxicity, uninfected cells were treated with the same concentrations of SVN and incubated for 48 hr, and their viability was assessed by an ATP-based method (Cell Titer-Glo, Promega, Madison, WI).
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10

Measuring Oxidative Stress in Cortical Neurons

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ROS in cortical neurons were assayed using dye 2',7'-dichlorofluoroscein diacetate (DCFH-DA Molecular Probes, OR, USA). Cells were washed with HEPES-buffered saline (HBS) and incubated in the dark for 1 h in HBS containing 200 µM of DCFH-DA. Upon incubation, cells take up DCFH-DA, where intracellular esterase cleaves the molecule into DCFH. DCFH isoxidized into DCF in the presence of reactive oxygen species. The total fluorescence was measured using a spectrofluorometer (Molecular Devices Co., CA, USA) at an emission wavelength of 488 nm and an excitation wavelength of 524 nm [29 (link)].
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