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9 protocols using nunc f96 microwell

1

Measuring Biofilm Cell Lysis by ATP

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To measure cell lysis, we used the luminescence assay described in reference 29 (link) to measure increases in extracellular ATP levels using a commercial ATP determination kit (Molecular Probes). Prior to measuring cell lysis, biofilms were grown for 24 h with different concentrations of antibiotics, as described previously, in a 96-well plate. We then washed the plate twice with nuclease-free water and removed excess liquid. After washing, 10 μl of nuclease-free water was added to each well and biofilms were scraped by using inoculation loops or pipette tips. Solutions were transferred to a new 96-well white polystyrene plate (Nunc F96 MicroWell; Thermo Scientific), and 90 μl of ATP standard assay solution from the ATP determination kit (Molecular Probes) was added to each sample. Luminescence was measured with a plate reader.
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2

Measuring Fatty Acid β-Oxidation in Cells

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β-oxidation of fatty acids was measured as previously described65 (link). Briefly, we plated 30 x 104 cells in 6-well plates and 18h later, we incubated the cells with medium supplemented with [9, 10-3H]-palmitate (Hartmann Analytic GmbH, 1 mCi/mL) bound to 10% fatty acid free bovine serum albumin (Sigma). A total of 3.3 μl of [9, 10-3H]-palmitate and 6.7 μl of fatty acid free bovine serum albumin were used per 1 ml of cell culture medium and cultured for 24 h. After 24 h, supernatant was applied to ion-exchange columns (Dowex 1X8–200, Sigma), and tritiated water was recovered by eluting with 0.5 ml of H2O. A 100μl aliquot was then mixed with 100μl of liquid scintillation cocktail and measured the amount of radioactivity released with a Top count NXT liquid scintillation counter (Packard) in 96-well polystyrene plates (Nunc F96 microwell, Thermo). β-oxidation was expressed as counts per minute (CPM) per milligram of protein.
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3

Monitoring Bioluminescence in Chlamydomonas

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The transformant colonies were inoculated into 100 μL of TAP medium and maintained in 96 well plates (Nunc MicroWell, Thermo Fisher Scientific) for 3 days at 24°C in LL conditions (30–40 μmol m-2 s-1). Following this, 5 μL of the culture was transferred into 100 μL of fresh TAP medium containing D-luciferin (final concentration, 100 μM) in 96 well white plates (Nunc F96 MicroWell, Thermo Fisher Scientific). The plates were maintained at 24°C in LL conditions (30–40 μmol m-2 s-1) for 1 day before bioluminescence monitoring. Bioluminescence was monitored using a custom-made automatic bioluminescence apparatus [53 (link), 54 (link)].
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4

Quantifying Mechanical Stimulus-Induced ATP Release

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The luciferin-luciferase assay (CellTiter-Glo®2.0 Assay; Promega, Madison, WI, USA) was used to quantify the amounts of ATP released in the bathing solution of cultured cells in response to rinsing-induced mechanical stimulation27 (link). Briefly, 20 μl of bathing solution samples were individually placed in triplicate in white walled 96-well plates (Nunc F96 MicroWell; Thermo), and 100 μl CellTiter-Glo®2.0 reagent was added directly to each well. Plates were incubated at room temperature for 15 minutes and were transferred to the Multilabel Plate Reader VICTOR X5 (PerkinElmer, Waltham, MA, USA), where luminescence was measured using a 1-sec integration time. The ATP concentration in the samples was calculated with the same procedure as for the in vivo study.
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5

Quantifying ATP in Bladder and Cell Cultures

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The luciferin‐luciferase assay (CellTiter‐Glo Luminescent Cell Viability Assay; Promega, Madison, WI) was used according to the manufacturer's protocol to quantify the amounts of ATP released in the bladder lumen and in the bathing solution of TRT‐HU1 cells. Briefly, 20 μL samples taken from the bladder of anesthetized mice and the bathing solution of TRT‐HU1 cells were individually placed in white‐walled 96‐well plates (Nunc F96 MicroWell; Thermo Fischer Scientific), and 100 μL CellTiter‐Glo reagent was added directly to each well. The plates were then incubated at room temperature for 15 min on a shaker, and transferred to the Multilabel Plate Reader VICTOR X5 (PerkinElmer, Waltham, MA), where luminescence was measured using a 1 sec integration time. The ATP concentration in the samples was calculated from standard curves constructed using ATP from 20 nmol L−1 to 20 μmol L−1.
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6

Polyphenol Interaction with rBap_B Protein

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rBap_B protein at 0.1 mg/ml was incubated in phosphate-citrate buffer pH 4.4. in a 96-well plate Nunc™ F96 MicroWell™ (ThermoFisher Scientific) with 200 µM of each polyphenol (Table 1). Before measuring thioflavin-T (Th-T) was added at the final concentration of 25 µM. Fluorescence emission spectra were recorded in the 460–600 nm range with an excitation wavelength of 445 nm using a 5 nm slit width for excitation and emission at 25 °C in the multi-mode reader Synergy H1 Hybrid Multi-Mode Reader.
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7

Evaluation of Taxanes on P-glycoprotein

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The effect of tested taxanes on P-glycoprotein ATPase activity was assessed using the Pgp-Glo™ Assay System with a P-glycoprotein kit (Promega, CA, USA) according to the manufacturer’s protocol. Briefly, membranes (25 μg) containing human recombinant P-glycoprotein were incubated with verapamil (positive control), sodium orthovanadate (inhibitor of ATPase activity), tested compound (paclitaxel, SB-T-1216, SB-T-0035) or Pgp-Glo buffer (as a control) with non-limiting concentration of ATP in Nunc™ F96 MicroWell™ (Thermofisher Scientific, MA, USA) white plate for 120 minutes at 37 °C. Afterwards, ATP-detection reagent, containing recombinant Ultra-Glo™ Luciferase and luciferin substrate, was added to the samples and luciferase activity signal was determined using a TECAN Infinite M200 Pro luminometer (TECAN, Männedorf, Switzerland).
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8

Measuring Fatty Acid β-Oxidation in Cells

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β-oxidation of fatty acids was measured as previously described65 (link). Briefly, we plated 30 x 104 cells in 6-well plates and 18h later, we incubated the cells with medium supplemented with [9, 10-3H]-palmitate (Hartmann Analytic GmbH, 1 mCi/mL) bound to 10% fatty acid free bovine serum albumin (Sigma). A total of 3.3 μl of [9, 10-3H]-palmitate and 6.7 μl of fatty acid free bovine serum albumin were used per 1 ml of cell culture medium and cultured for 24 h. After 24 h, supernatant was applied to ion-exchange columns (Dowex 1X8–200, Sigma), and tritiated water was recovered by eluting with 0.5 ml of H2O. A 100μl aliquot was then mixed with 100μl of liquid scintillation cocktail and measured the amount of radioactivity released with a Top count NXT liquid scintillation counter (Packard) in 96-well polystyrene plates (Nunc F96 microwell, Thermo). β-oxidation was expressed as counts per minute (CPM) per milligram of protein.
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9

Circadian Bladder ATP Release in Mice

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Distension-induced urothelial ATP release into the bladder lumen was quantified from eight-week-old female C57BL/6 mice and from age-match female uCx43KO mice at both ZT8 (sleep/light phase) and ZT20 (active/dark phase). The experimental procedures were as previously reported [8 (link)]. Briefly, with animals under 2.0% isoflurane anesthesia, a 24 G catheter (SR-OT2419C, Terumo, Tokyo, Japan) was inserted into the urethra and held in place with a clamp (AM-1, Natsume Seisakusho Co. Ltd., Tokyo, Japan). The catheter was then connected to a tube filled with phosphate buffered saline (PBS) and a pressure reservoir. After bladder distention with 30 cm H2O for 10 min, the PBS from the bladder lumen was collected and snap-frozen in liquid nitrogen. The luciferin-luciferase assay (CellTiter-Glo Luminescent Cell Viability Assay; Promega, Madison, WI, USA) was used to quantify the amounts of ATP released. Briefly, 20 μL of the collected PBS samples were individually placed in triplicate in white walled 96-well plates (Nunc F96 MicroWell; Thermo Fisher Scientific, Waltham, MA, USA), and 20 μL CellTiter-Glo® 2.0 reagent was added directly to each well. Plates were incubated at room temperature for 10 min and then transferred to the Multilabel Plate Reader VICTOR X5 (PerkinElmer, Waltham, MA, USA), where luminescence was measured using a 1 s integration time.
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