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Synergy h1 hybrid

Manufactured by Agilent Technologies
Sourced in United States, Germany

The Synergy H1 Hybrid is a multi-mode microplate reader from Agilent Technologies. It is designed to perform various detection methods, including absorbance, fluorescence, and luminescence, within a single instrument. The Synergy H1 Hybrid can accommodate a wide range of microplate formats and provides reliable performance for a variety of applications in life science research and drug discovery.

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129 protocols using synergy h1 hybrid

1

Steady-State Kinetics of OGA Mutants

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The steady-state kinetics of WT OGA and mutants were measured with the fluorogenic substrate 4-methylumbelliferyl-N-acetyl-β-D-glucosaminide (4MU-GlcNAc) as previously reported57 (link). Briefly, 2 nM enzyme was incubated with each of 10, 50, 150, 300, 600, and 1200 μM 4MU-GlcNAc as the substrate in 25 μL reaction (50 mM NaH2PO4 pH 6.5, 100 mM NaCl, 0.1 mg/mL BSA) for 10 min at 37 °C. The reaction was quenched by 150 μL of 200 mM glycine pH 10.75. The fluorescence of liberated 4-methylumbelliferone was measured using BioTek Synergy H1 Hybrid microplate reader (Agilent) with excitation and emission wavelengths of 360 and 450 nm, respectively. Enzymatic activity was converted to μM/min using a standard curve of free 4-methylumbelliferone. All analyses were carried out in triplicate. Michaelis-Menten kinetic parameters were calculated by Prism 5 software (GraphPad).
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2

Quantifying UV-induced DNA Damage

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Cell
extract was incubated
at 20 °C for 30 min under alkaline conditions, neutralized by
adding 300 μL of 0.1 M HCl, and sonicated for 15 s to diminish
the single- and double-stranded DNA regions. This sample set was used
to estimate the UV-induced DNA breaks.
After processing each
sample as mentioned above, 20 μL of 20 mM Hoechst 33258 (bisbenzimide)
DNA probe in 0.6 M phosphate buffer (pH 7.6) was added and centrifuged
at 10 000g for 5 min. Fluorescence intensity
of 200 μL supernatant was measured using a microplate reader
(Agilent BioTek Synergy H1 Hybrid) at 343 nm with emissions between
380 and 550 nm. The percentage fraction (% F) of
dsDNA was calculated using the formula, F = (UVt
– ss)/(ds – ss) × 100, where ss, ds, and UVt corresponded
to fluorescence intensities of ss, ds, and UVt samples, respectively.
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3

Photosynthetic Efficacy Quantification

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Photosynthetic efficacy of the wild type and transformant was quantified
as a measure of PSII activity and chlorophyll a content,
which provides an estimate of the well-being of photosynthetic cells.
To allow maximal irradiation and avoid cell shadowing, cultures grown
to an OD750 nm of 0.3 were placed in open Petri
dishes and irradiated in a UV-B cross-linker (Fisher Scientific) for
60 min. Cultures were grown under conditions mentioned in Section 2.1 for 3 days
to allow cell recovery, and PSII functionality was measured after
24, 48, and 72 h using a MINI-PAM (Walz, Effeltrich, Germany) to measure
the minimal and maximal fluorescence yields (Fo and Fm). Based
on these parameters PSII quantum yield (Fv/Fo) was calculated using the equation Fv/Fm = (FmFo)/Fm.26 (link) In addition,
chlorophyll a (chl a) was measured at an excitation
of 420 nm and an emission of 680 nm using a microplate reader (Agilent
BioTek Synergy H1 Hybrid), and the photosynthetic efficacy was compared.
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4

Quantifying Mitochondrial Mutation Levels

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We determined the levels of the m.5024C>T mutation by “last-cycle hot” PCR25 (link) which visualizes only nascent amplicons and removes interference from hetero-duplexes formed during melting and annealing cycles. Total genomic DNA was extracted from FACS sorted cells with the NucleoSpin Tissue XS kit (740901.50; Takara) according to the manufacturer’s instructions and from tissues with phenol-chloroform extraction24 (link). The DNA concentration was determined spectrophotometrically (BioTek Synergy H1 hybrid). The WT allele for the m.5024C>T mutation completes a mismatched primer, creating a restriction site for PstI not present in the mutant PCR product. The following primers were used: F- 5′-CCACCCTAGCTATCATAAGCACA-3′ and B-5′-AAGCAATTGATTTGCATTCAATAGATGTAGGATGAAGTCCTGCA-3′. PCR products were digested with PstI and resolved in a 12% polyacrylamide gel. The radioactive signal was quantified using a Cyclone phosphor-imaging system (PerkinElmer) and OptiQuant software Version 5.0 (PerkinElmer).
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5

Mitochondrial ROS Generation Assay

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The levels of mitochondrial reactive oxygen species (ROS) generation were measured by using MitoSOX™ Red mitochondrial superoxide kit (M36008, Thermo Fisher). Experiments were conducted according to the manufacturer’s instructions. Briefly, S2 cells were harvested, washed twice with PBS, resuspended in 5 μM MitoSOX reagent working solution and then incubated at 25 °C for 20 min in darkness. The fluorescence intensities (excitation/emission [Ex/Em] = 510/580 nm) were measured on a multi-mode microplate reader (Synergy H1 Hybrid, BioTek).
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6

Quantification of Biomarkers in Blood Samples

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The blood samples were acquired at inclusion and samples from all centres were analysed in one laboratory. sST2, TGFβ1, N-terminal probrain natriuretic peptide (NT-pro-BNP), C reactive protein (CRP) and creatinine were quantified. sST2 was analysed by enzyme immune assay using the Presage ST2 Assay (Critical Diagnostics, San Diego, California, USA). TGFβ1 was measured in duplicate using commercially available antibodies (R&D Systems, Minneapolis, Minnesota, USA) in a 384 format using the combination of a SELMA (Jena, Germany) pipetting robot and a BioTek (Winooski, Vermont, USA) dispenser/washer (EL406). Absorption was read at 450 nm with wavelength correction set to 540 nm (Synergy H1 Hybrid, Biotek, Vinooski, Vermont, USA). All intra-assay coefficients of variation were <6%.
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7

Antifungal Activity Screening of Synthetic Peptides

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The synthesized peptides were screened for antifungal activity against the molds A. pullulans (Ap) and Rhodotorula sp. (Rh) (both obtained from Professor Arne Tronsmo, The Norwegian University of Life Sciences, Ås, Norway) and the yeast C. albicans (Ca, ATCC 10231) as previously described [13 (link)]. In short, fungal spores were grown in potato dextrose broth media (Difco) containing 2% D(+)-glucose (Merck, Darmstadt, Germany) at 25–30 °C while shaking at 200 rpm overnight. The cultures were diluted with a dextrose media containing glucose to a concentration of approx. 4 × 105 spores/mL. Aliquots of the cultures (50 µL) were transferred to 96 well microtiter plates preloaded with the synthetic peptides (50 µL) in two-fold serial dilutions (256 to 1 µg/mL). Polymyxin B and CHX (both with concentrations ranging from 12.5 to 0.09 μg/mL) served as positive antibiotic controls. The microtiter plates containing the fungal spores and the test peptides were incubated at room temperature for 48 h and OD600 was recorded using a Synergy H1 Hybrid microplate reader system (BioTek, Winooski, VT, USA). MIC was defined as the lowest peptide concentration showing an optical density less than 10% of the negative (growth) control. All experiments were performed in triplicate.
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8

Fluorescence Polarization Assay for Protein-Protein Interaction

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The FP assay was performed as described previously.[15 (link)] Briefly, 1:1 Rev1-CT/FAM-Polκ-RIR complex (10 μL, 0.2 μM) and compound (10 μL, varying concentrations) were mixed in a black 384-well plate and incubated for one hour. Fluorescence polarization was measured on a Synergy H1 Hybrid multi-mode plate reader (Biotek, excitation 485 nM, emission 528 nM).
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9

Nanoparticle-based Cytokine Delivery Assay

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HycloneTM trypan blue stain and BCA protein assay were purchased from ThermoFisher Scientific and used as purchase. A ThermoScientific microcentrifuge was used in the process of CG production from U937 monocytes. Cyanine 3 (Cy3) NHS monoester dyes were purchased from Kerafast and used as per manufacturer’s recommendations. Cholesterol and 1,2-dioleoyl-sn-glycero-3-phosphocholine (DOPC) were purchased from Avanti Polar Lipids. A BioTek Synergy H1 Hybrid microplate reader was used for fluorescence measurements. Extrusion was performed with a Genizer Jacketed Gextruder (10 mL).
DOPC and cholesterol used in the production of nCVTs and liposomes were obtained from Avanti Polar Lipids (Alabaster, AL, USA). Filter membranes used during extrusion were purchased from GE Healthcare Life Sciences (Marlborough, MA, USA). DNA isolation was performed by using the DNeasy Blood & Tissue Kits from Qiagen (Hilden, Germany), following the manufacturer’s protocol. Measure-ITTM High-Sensitivity Nitrite Assay Kit was purchased from ThermoFisher Scientific (Waltham, MA, USA). ELISA kits for measuring interleukin-6 (IL-6) and Tumor Necrosis Factor-α (TNF-α) were obtained from Biolegend (ELISAmax™, San Diego, CA, USA).
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10

hGDF Cytotoxicity Evaluation on Discs

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hGDF cells were seeded on top of each specimen at a density of 1 × 104 cells/well. The hGDFs were incubated in direct contact with the disc for 1, 3, and 5 days. At the end of each incubation period, a solution of 0.5 mg/mL MTT (Sigma Aldrich, St. Louis, MO, USA) was added to each well and then the cells were incubated for 4 h at 37 °C and 5% CO2. A solubilization solution was added into each well to dissolve the insoluble formazan. The spectrophotometrical absorbance of the samples was measured at 650 nm using a microplate reader (Synergy H1 Hybrid BioTek Instruments, Winooski, VT, USA). Five replicates and three independent analyses were assessed for MTT assay.
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