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7 protocols using bmg fluostar omega

1

Genotyping SNPs Associated with Deterioration

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SNPs associated with the rate of deterioration were analyzed by Kompetitive Allele Specific PCR (KASP) approach and high resolution DNA melting (HRM) approach. KASP analysis was performed by Ag-Biotech (Monterey, CA, USA). Amplification was performed using Veriti Thermal Cyclers (Applied Biosystems, Foster City, CA, USA), starting with 9 min at 94 °C, a touchdown phase of 10 cycles at 94 °C for 20 s and at 65 °C for 60 s with a 1 °C decrease in temperature per cycle, followed by 29 cycles of 94 °C for 20 s and 57 °C for 60 s. BMG FluoSTAR Omega (BMG Labtech, Cary, NC, USA) plate reader was used to read fluorescence signals for final SNP callings. PCR for HRM analysis was performed as described for sequencing, but using P-016F (5′-ACT TGG TAG TTA GGT GTG CGT-3′) and P-018R (5′-GTA GAC AGT GCC ACC CCA AC-3′) primers. To facilitate heteroduplex formation prior HRM analysis, samples were heated to 95 °C for 30 s, followed by cooling to 25 °C for 30 s. HRM analysis was conducted using LightScanner 96 Hi-Res Melting Systemset (formerly, Idaho Technology, Salt Lake City, UT, USA).
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2

Recombinant Hamster PrP Production and RT-QuIC

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Recombinant hamster PrP (HaPrP90-231; provided by NIH Rocky Mountain Laboratory) production and filtration followed the methods of Schwabenlander et al.32 (link). All ingredients of RT-QuIC master mix (1× PBS, 500 µM EDTA, 50 µM ThT, 300 mM NaCl, and 0.1 mg/ml HaPrPrP) were filter-sterilized through 0.22 µm PVDF filters. 98 µL of the master mix was pipetted into wells of 96-well black clear bottoms plates. The plate was sealed with clear tape after 2 µL samples were added. Plates were then shaken on BMG FLUOstar Omega microplate readers (BMG LABTECH Inc., Cary, North Carolina, USA) at 700 rpm (57 s double orbital shaking followed by 83 s resting). Fluorescence was recorded after 21 shake/rest cycles using a 450 nm excitation filter and 480 nm emission filter. The gain was set to 1600. The machine performed 21 flashes/well and no well-scan was conducted. 45 °C, 50 °C, and 55 °C were used. 55 °C was only used for investigating whether decomposing tissues would have converging dilutions. 50 °C was used for enzymatic digestions.
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3

Cholesterol Level Measurement using NR12S

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NR12S was used to indirectly measure changes in cellular plasma membrane cholesterol levels after exposure to lipid depleting and repleting conditions, as previously described [14 (link)]. The fluorescence emission spectra of NR12S depends on the surrounding lipid order shifting towards shorter wavelengths when incorporated into a more liquid ordered phase [46 (link)], for example, a phase containing more cholesterol. A BMG Fluostar Omega plate reader (BMG Labtech, Aylesbury, UK) was used to measure the NR12S emission values at 560 and 630 nm using an excitation wavelength of 520 nm. The intensity ratio 560 nm/630 nm was then calculated. We previously validated the effectiveness of NR12S at determining the depletion of cellular PM cholesterol levels by exposing cells to increasing amounts of MβCD for 1 h, as described in [47 ].
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4

SNCA Promoter Activity Assay in SH-SY5Y Cells

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SNCA Promoter fragments and assay conditions were as previously described [31 (link)]. SH-SY5Y cells were performed in 24-well plates seeded at 5 × 104 cells/well 24 h prior to transfection. Transfections of promoter constructs in pGL Basic (with firefly luciferase activity) were performed using FuGENE HD transfection reagent (Promega), as per manufacturer’s instructions. To control for variation in transfection efficiency among replicates, promoter constructs were co-transfected with the Renilla luciferase vector, pRL-TK (Promega). At 24 h post transfection, SH-SY5Y cells were harvested and firefly and Renilla luciferase chemiluminescence were measured while using the Dual-Luciferase Reporter Assay System (Promega) in a BMG FLUOstar Omega plate reader (BMG Labtech GmbH, Offenburg, Germany). Luciferase activity was calculated as the ratio of firefly to Renilla luciferase activity.
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5

Cytotoxicity Evaluation of Copaiba Oil Formulations

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The cytotoxicity profile of the formulation without oil (ENE), nanoemulsion containing copaiba oil (CNE), and free copaiba oil (FCO) were measured by the MTT [3-(4,5-dimethylthiazol- 2-yl)-2,5-diphenyl tetrazolium bromide] method (Sigma-Aldrich, Missouri, USA). This experiment was performed in three independent events.
Twenty-four hours before treatment, 5x103 VERO E6 cells were plated in a 96-multi-well plate. On the following day, CNE and FCO were added at concentrations ranging from 5.6, 11.2, 22.5, 45, 90, 180, and 360 μg/mL. Since the tested concentrations were based on copaiba oil, the ENE treatment was performed with the same volume used for each concentration of CNE. Cells were incubated for 24, 48, and 96 hours for VERO E6, in triplicate. After these times, the culture medium was removed from each well and exchanged for MTT solution (1 mg / mL in 100 μL of culture medium without supplementation) (Sigma-Aldrich, Missouri, USA). Cells were incubated for 30 minutes at 37°C. After the formation of the formazan crystals, the MTT solution was removed and 100 μL of DMSO (Synth, Sao Paulo, Brazil) were added per well. The absorbance was then measured at 572 nm, using a plate spectrophotometer (FLUOstar Omega/BMG LABTECH, Offenburg, BW, DE). The maximum non-cytotoxic concentration was determined considering a cut-off of 80% of cell viability.
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6

Comprehensive Western Blot Protocol

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For Western blot analysis, protein concentrations were measured by Quick StartTM Bradford Protein assay (Bio-Rad) using the plate reader Fluostar Omega BMG (BMG Labtech) and the corresponding MARS Data Analysis Software (BMG Labtech). Proteins were separated on NuPAGE®Novex® 4–12 % Bis-Tris Protein Gels (Life Technologies) followed by transfer onto a PVDF membrane (GE Healthcare) in a wet blotting chamber. Western blot analysis was performed using mouse anti-LDL receptor (1:500; NovusBiologicals); mouse anti-Alix (1:1000; BD Bioscience); rat anti-HA 3F10 (1:1000; Roche); mouse anti-GAPDH 6C5 (1:5000; Abcam); mouse anti-Hsc/Hsp70 N27F3-4 (1:1000; ENZO); mouse anti-VSV-G 5D4 (1:1000; Sigma); rat anti Sup35 M domain (1:10; hybridoma supernatant);88 (link) rabbit anti-Tau ab64193 (1:1000; Abcam); rabbit anti-Flotillin 1 ab133497 (1:1000; Abcam); mouse anti-SARS-CoV-2-spike S GTX632604 (1:1000; GeneTex); rabbit anti-hACE2 ab15348 (1:1000; Abcam); rabbit anti-clathrin heavy chain (1:1000; Abcam); rabbit anti-GFP (1:5000; Abcam). The membrane was incubated with PierceTM ECL Western Blotting Substrate (Thermo Fisher Scientific) according to the manufacturer´s recommendations and imaged with the Imaging system Fusion FX (Vilber Lourmat).
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7

Cytotoxicity of (p-BthTX-I)2K Peptide

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The toxicity of the (p-BthTX-I)2K peptide in BHK-21 and Vero cells was determined using the 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay, as previously described [28 (link)] with modifications. The cells were seeded in 96-well culture plates (TPP, Trasadingen, Switzerland) (5 × 103 cells/well) for 24 h. Then, the cells were incubated with the (p-BthTX-I)2K peptide at concentrations of 1.6, 3.1, 6.3, 12.5, 25, 50, and 100 µM. After 24 h (BHK-21) or 48 h (Vero), the medium containing the peptide was aspirated, and 100 µL of MTT (Sigma–Aldrich, St. Louis, MO, USA) diluted in DMEM (Cultilab, Campinas, SP, Brazil) (final concentration: 1 mg/mL) was added to the cells. After 30 min of incubation at 37 °C, the medium containing MTT (Sigma–Aldrich, St. Louis, MO, USA) was removed, and 100 µL of dimethylsulfoxide (DMSO) (Synth, Diadema, SP, Brazil) was added to each well of the plate, which was rotated at 200 rpm for 5 min. The absorbance was measured at a wavelength of 572 nm with a plate reader (FLUOstar Omega/BMG LABTECH, Ortenberg, Germany).
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