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132 protocols using versamax plate reader

1

DPPH and Nitric Oxide Scavenging Assays

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The scavenging activity of 2,2-diphenyl-1-picrylhydrazyl (DPPH) radicals was measured as previously described [13 (link)]. Briefly, each sample (250 µL) of EtSCT was mixed with 500 µL of 0.2 mM DPPH (Sigma-Aldrich Co.) in 95% ethanol solution or 100 µL of 95% ethanol solution, then incubated for 30 min at room temperature. The absorbance of the reaction mixture was subsequently measured at 517 nm using a Versa-max plate reader (Molecular Devices). The DPPH radical scavenging activity of the EtSCT was expressed as the percent decrease in absorbance relative to the control.
The scavenging activity of nitric oxide (NO) was measured as previously described [14 (link)]. Briefly, each sample of EtSCT (500 µL) was mixed with 500 µL of 10 mM sodium nitroprusside (Sigma-Aldrich Co.), then incubated at 25℃ for 150 min. This mixture was subsequently added to 500 µL of 1% sulfanilamide solution and 500 µL of 0.1% N-(1-naphthyl) ethylenediamine dihydrochloride solution and incubated at room temperature for 10 min. Next, the absorbance of the reaction mixture was measured at 546 nm using a Versamax plate reader (Molecular Devices). The NO scavenging activity of the EtSCT was expressed as the percentage absorbance relative to a control treated with dimethyl sulfoxide (DMSO, 3047-4460, DAEJUNG Chemicals & Metals Co., LTD, Siheung, Korea).
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2

Quantifying Phenolic and Flavonoid Content

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To measure the total phenolic contents, we used the Folin-Ciocalteu method with slight modification17 . Briefly, 1 ml of EtSCT solution was mixed with 5 ml of Folin-Ciocalteu reagent (Sigma-Aldrich Corporation, St. Louis, MO, USA) and then incubated at room temperature for 5 min. The mixture was subsequently added to 15 ml of 20% Na2CO3 and vortexed for 30 sec, after which the absorbance was repeatedly measured at 765 nm using a VersaMax plate reader (Molecular Devices, Sunnyvale, CA, USA). A standard calibration curve was made using different concentrations of gallic acid (Sigma-Aldrich Corporation), and the concentration of total phenolic contents in EtSCT was presented as mg gallic acid equivalent of extract.
Flavonoid contents were measured as previously described18 . Briefly, several different concentrations of EtSCT (200 µl) were mixed with 60 µl of 5% NaNO2 (Sigma-Aldrich Corporation) and 60 µl of 10% AlCl3 (Sigma-Aldrich Corporation). Following incubation at 25°C for 5 min, the mixture was added to 400 µl of 1 M NaOH, and the absorbance was repeatedly measured at 510 nm using a VersaMax plate reader (Molecular Devices). A standard calibration curve was then made using different concentrations of catechin (Sigma-Aldrich Corporation). The final concentration of flavonoid contents in EtSCT was presented as mg catechin equivalent of extract.
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3

Quantifying Phenolics and Flavonoids in EEtRLP

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Total phenolics were measured by the Folin-Ciocalteu method, with slight modification [17 ]. Briefly, 1 mL of EEtRLP solution was mixed with 5mL of Folin-Ciocalteu reagent (Sigma-Aldrich Co., St. Louis, MO, USA) and then incubated at room temperature for 5 min. The mixture was subsequently added to 15 mL of 20% Na2CO3 and vortexed for 30 sec, after which the absorbance was repeatedly measured at 765 nm using a Versa-max plate reader (Molecular Devices, Sunnyvale, CA, USA). A standard calibration curve was made using different concentrations of gallic acid (Sigma-Aldrich Co.), and the concentration of total phenolic contents in EEtRLP was presented as mg gallic acid equivalent of extract.
The total flavonoid contents were measured as previously described [18 ]. Briefly, 200 µL of several different concentrations of EEtRLP were mixed with 60 µL of 5% NaNO2 (Sigma-Aldrich Co.) and 60 µL of 10% AlCl3 (Sigma-Aldrich Co.). Following incubation at 25℃ for 5 min, the mixture was added to 400 µL of 1M NaOH and the absorbance was repeatedly measured at 510 nm using a Versa-max plate reader (Molecular Devices). A standard calibration curve was then made using different concentrations of catechin (Sigma-Aldrich Co.). The concentration of flavonoid contents in EEtRLP was presented as mg catechin equivalent of extract.
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4

DPPH Radical Scavenging Assay for MED

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The scavenging activity of MED against 2,2-diphenyl-1-picrylhydrazyl (DPPH) radical was determined as a method with some modification described in a previous study [16 ]. Briefly, 12 different concentrations (1 to 2000 µg/mL) of MED were mixed with 100 µL 0.1 mM DPPH (Sigma-Aldrich Co., St. Louis, MO, USA) in a 95% ethanol solution. After the 30 min of incubation at room temperature, the absorbance of reaction mixture was determined using Versa Max plate reader (Molecular Devices, Sunnyvale, CA, USA) at 517 nm. The final data were represented as the reduction percent in absorbance, relative to the control. The IC50 value was defined the MED concentration that exerts a 50% reduction in DPPH radical scavenging activity.
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5

Quantifying Gut Hormones: An ELISA-Based Approach

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The concentration of cholecystokinin (CCK), gastrin and somatostatin (SS) were quantified using ELISA kits (Cusabio Biotech Co., Ltd., Wuhan, China), according to the manufacturer’s instructions. Briefly, transverse colon tissues (100 mg) were homogenized in ice-cold 1× PBS (pH 7.2–7.4) using a glass homogenizer (Sigma-Aldrich Co.). Resultant tissue lysates were then centrifuged at 1,000 × g for 5 min at 4°C, after which the supernatant was collected for analysis. After addition of the three specific hormone antibodies (separately in each well), the supernatant was incubated for 1 h at 37°C, to which HRP-Streptavidin solution was subsequently added and further incubated for 1 h at 37°C. This was followed by addition of the TMP One-Step Substrate Reagent, followed by incubation of the mixture for 30 min at 37°C. The reaction was terminated following addition of the stop solution. Finally, absorbance of the reaction mixture was read at 450 nm using the Molecular Devices VersaMax Plate Reader (Molecular Devices).
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6

MDA Levels Quantification in Brain Tissue

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The MDA levels in the brain sample were assayed using a Lipid Peroxidation (MDA) Assay Kit (Sigma-Aldrich Co.) according to the manufacturer's protocols. Briefly, 45 mg cortex and 5 mg hippocampus tissue from each group of mice were homogenized in MDA lysis buffer containing butylhydroxytoluene (BHT), after which the homogenates were stored at -20℃ until analysis. The sample or standards and TBA solution (70 mM thiobarbituric acid and 5M glacial acetic acid) were incubated at 95℃ for 60 min, then cooled to room temperature in an ice bath for 10 min, after which the reaction absorbance at 532 nm was read using a Versa max plate reader (Molecular Devices).
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7

C1s Inhibition Assay with ElpQ

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Active-site inhibition of C1s by ElpQ was measured using a chromogenic substrate cleavage assay as previously described using the following modifications (31 ). ElpQ181–343 or Futhan (Sigma), a broad specificity complement protease inhibitor, at a concentration of 25 μM was added to 100 μM Z-L-Lys thiobenzyl (Sigma) and 100 μM 5,5-dithio-bis-(2-nitrobenzoic acid) (TCI) in HBS–Ca2+ (10 mM Hepes [pH 7.3], 140 mM NaCl, and 5 mM CaCl2). Just prior to measurement, 6.25 nM C1s–CCP1–CCP2–SP was added for a final 80 μl reaction volume. Reactions were carried out at 37 °C for 1 h and read at 412 nm using a Versamax plate reader (Molecular Devices) in triplicate. Data were normalized by including C1s with substrate as a 100% cleavage control or peptide and 5,5-dithio-bis-(2-nitrobenzoic acid) as 0%.
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8

TLR and Dectin-1 Activation Assays

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For HEK-Blue-hTLR and -hdectin1 assays, cells were plated in 96-well tissue culture plates at 1x105 cells/well in HEK-Blue Detection medium containing the substrate for SEAP. Serial dilutions of Sc BG and other sourced BG extracts were used for stimulation Supernatants were transferred to a new plate and the optical density (OD 650 nm) was measured (VERSAmax plate reader, Molecular Devices).
To assess NFκB activity, RAW-Blue macrophages were cultured in the recommended medium and incubated in the same conditions. SEAP was measured using a colorimetric enzymatic assay. Supernatants were incubated with Quanti-Blue (InvivoGen) 25% v/v. for 2 h at 37°C, and OD 650nm was measured.
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9

Quantification of Proteoglycans and DNA in Cell-Laden Hydrogels

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The remaining halves of the harvested cell-laden hydrogels were used for biochemical analysis. The samples were weighted (wet weight), freeze dried overnight and weighed again (dry weight). To determine the GAG and DNA contents, the samples were digested overnight at 56°C in 200 µL papain digestion buffer (0.2 M NaH2PO4 + 0.01 M EDTA*2 H2O in milliQ, pH = 6.0) supplemented with 250 µL/mL papain solution (16-40 units/mg protein, P3125, Sigma Aldrich) and 0.01 M cysteine (C9768, Sigma Aldrich). The amount of sulfated GAGs, as a measure of proteoglycans, was determined with a dimethylmethylene blue (DMMB, pH = 3.0) assay31 (link) using known concentrations of chondroitin sulfate C (Sigma Aldrich) as a reference. In short, samples were diluted in PBS-EDTA and mixed with the DMMB solution. Excitation was measured directly after mixing at 525 nm and 595 nm with a versa max plate reader (Molecular devices, Wokingham, UK). The measurement at 525 nm was divided by the measurement at 595 nm and the GAG concentration of the samples was calculated from a quadratic fit of the standard curve and were corrected for the dilution. Quantification of DNA was performed with a Quant-iT PicoGreen dsDNA kit (Molecular Probes, Invitrogen) using a spectrofluorometer (Biorad, Veenendaal, the Netherlands).
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10

Growth and Inhibition of Bacterial Strains

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Strains were grown in LB with or without the addition of inducer and antibiotics
as indicated. For growth curves, overnight cultures were diluted to an OD600 of
0.1 in fresh medium (200 μl volume in 96-well plate) and incubated at 37°C
while shaking. Growth was measured by determining the OD600 every 20 min using
a Promega GloMax Multi plate reader, or a Molecular Devices VersaMax plate reader. Colony
forming units (CFUs) were determined by plating dilutions of a growing culture during a
depletion experiment or before, during, and after treatment with targocil. To wash out the
compound, the cells were pelleted, washed once with medium and resuspended to the same
density. Inhibition by targocil was tested by soaking a small filter disk with 10
μl targocil (5 mM stock in DMSO) and placing it on a plate where the strain of
interest had been spread.
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