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12 protocols using tristar lb 941 plate reader

1

In Vivo 2-5A Synthesis Assay

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Measurement of in vivo 2–5A synthesis was performed as previously described by Chitrakar et al (23 (link)). Briefly, we designed the 2–5A biosensor V6 (wild type) and V6-Y312A variant (lacking 2–5A binding capacity) and cloned them into pcDNA3.1 vector (GenScript, Piscataway, NJ, USA). HEK 293T cells were seeded into flat bottom white 96-well plates and grown to semiconfluency, and each V6 or V6–312A plasmid with OAS1 expressing plasmid (WT, C109Y, A76V, V121G, or L198V) were transfected using Lipofectamine 3000 (Thermo Fischer Scientific). 24 hours after transfection, the cells were treated with D-luciferin ethyl ester (Marker Gene Technologies, Eugene, OR, USA) and with 2 μg/ml poly(rI:rC) dsRNA and luminescence was measured in 15-minute intervals over 6 hours on a TriStar LB941 plate reader (Berthold Technologies, Baden-Württemberg, DE).
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2

Fluorescence-based Rab GTPase Nucleotide Exchange Assay

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First, 10 nmol of hexahistidine-GST-Rab was loaded with 2′-(3′)-bis-O-(N-methylanthraniloyl)-GDP (Mant-GDP; Jena Bioscience) in 20 mM Hepes, pH 6.8, 1 mg/ml BSA, 20 mM EDTA, pH 8.0, and 40 mM Mant-GDP at 30°C for 30 min. After loading, 25 mmol MgCl2 was added and the sample was exchanged into reaction buffer (20 mM Hepes, pH 6.8, 1 mg/ml BSA, 150 mM NaCl, and 1 mM MgCl2) using Zeba spin columns (Thermo Fisher Scientific). Nucleotide exchange was measured using 1 nmol of the loaded Rab and the amount of GEF was specified in the figure legends in a final volume of 100 µl reaction buffer by monitoring the quenching of fluorescence after release of Mant-GDP using a Tristar LB 941 plate reader (Berthold Technologies) under control of MikroWin software. Samples were excited at 350 nm and emission monitored at 440 nm. GTP was added to a final concentration of 0.1 mM to start the exchange reaction at 30°C. Curve fitting and extraction of pseudo first-order rate constants (kobs) was performed as described previously (Delprato et al., 2004 (link); Delprato and Lambright, 2007 (link)). Because kobs = (kcat/Km) [GEF] + kbasal, where kbasal is the rate constant measured in the absence of GEF, catalytic efficiency (kcat/Km) can be obtained.
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3

Determination of Proteasome Activities

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Proteasome activity was measured with the Proteasome-Glo™ Assay System (Promega, Fitchburg, WI) according to the manufacturer's instructions. Substrates used for determination of proteasome chymotrypsin-like (CT-L), trypsin-like (T-L), and caspase-like (C-L) activities were Succinyl-leucine-leucine-valine-tyrosine-aminoluciferin (Suc-LLVY-aminoluciferin), Z-leucinearginine-arginine-aminoluciferin (Z-LRR-aminoluciferin), and Z-norleucine-proline-norleucine-aspartateaminoluciferin (Z-nLPnLD-aminoluciferin), respectively. Luminescence was measured in white flat bottom 96-well plates (BD Falcon, Franklin Lakes, NJ) in a Tristar LB 941 plate reader (Berthold Technologies, Bad Wildbad, Germany). Blank luminescence values were subtracted from each well.
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4

BRET Assay for Protein-Protein Interactions

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BRET was performed as described previously (17 (link), 25 (link), 88 (link)). Briefly, HEK293 cells were maintained in 1x Dulbecco’s Modified Eagle Medium (Mediatech, Inc) without phenol red and supplemented with 10% fetal bovine serum (FBS), 2 mM L-Glutamine, and 1% penicillin/streptomycin (VWR, Calbiochem, and Invitrogen, respectively). Cells were transiently transfected with polyethyleneimine and RGS14-Luciferase(Luc) plus Gαi1-YFP (89 (link)) for 40 h. Cell were resuspended in Tyrode’s Solution (140 mM NaCl, 5 mM KCl, 1 mM MgCl2, 1 mM CaCl2, 0.37 mM NaH2PO4, 24 mM NaHCO3, 10 mM HEPES, and 0.1% glucose, pH 7.4) and plated at 105 cells per well in a 96-well Optiplate (PerkinElmer Life Sciences). YFP expression was quantified using a TriStar LB 941 plate reader (Berthold Technologies) at 485 nm excitation and 530 nm emission. Next, 5 μM coelenterazine H (Nanolight Technologies) was incubated for 2 min, and BRET measurements were taken at 485 nm (Luc emission) and 530 nm (YFP emission). The Net BRET ratio was quantified as follows: (530 nm signal/485 nm signal) – (485 nm signal from Luc alone). Acceptor/donor ratios were calculated as follows: (530 nm signal from YFP measurement)/(485 nm signal from BRET measurement). Each experiment was repeated three times.
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5

Measuring Intracellular cAMP Levels Using BRET

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We also used the YFP-Epac-RLuc plasmid to measure intracellular cAMP levels (Ji et al., 2017 (link)). YFP-Epac-RLuc was transfected into HEK293-GHSR1a, HEK293-OX1R and HEK293-GHSR1a/ OX1R cells. The cells were collected and distributed in a 96-well white microplate after 24 h and cultured in HEPES-buffered phenol red-free medium for another 24 h. Cells were washed with PBS and resuspended with Dulbecco’s phosphate buffered saline (D-PBS). BRET was measured at room temperature. Cells were stimulated with agonists (ghrelin 100 nM and/or orexin-A, 100nM) for 5 min. BRET readings were collected by Tristar LB941 plate reader (Berthold technologies GmbH & Co., Germany).
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6

Evaluating Apoptosis in DLBCL Cells

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DLBCL cells were incubated on a 96-well plate with either full medium or medium with indicated inhibitors used at concentrations specified in figures and figure legends. After incubation, cell viability was assessed with the 3-(4, 5 dimethylthiazol-2-yl)-5-(3-carboxymethoxyphenyl-2-(4-sulfophenyl)-2H-tetrazolium (MTS) assay (Promega). IC50 values were calculated using GraphPad Prism v6.0 software. Detection of apoptosis was performed with Annexin V-FITC Apoptosis Detection Kit BD Biosciences and analyzed using FACS Canto flow cytometer (BD Biosciences). Caspase activity was measured using Caspase 3/7 Glo assay (Promega). Briefly, 0.15 ×106/mL cells were incubated overnight with either AD-O51.4 or TRAIL (0.1 nM). Thereafter, Caspase Glo reagent was automatically injected to wells and the luminescence was measured using TriStar LB 941 plate reader (Berthold Technologies).
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7

Cytotoxicity of Oprozomib and Bortezomib

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Cytotoxicity of oprozomib and bortezomib was assayed by using the 2.5-diphenyltetrazolium bromide (MTT) assay. Briefly, 5 × 104 cells (A549, pmLF) per well were seeded in 24-well plates or 2.5 × 104 cells (mATII cells) were seeded in 48 well plates. The next day, cells were incubated with different concentrations of oprozomib or bortezomib for 72 hours (A549, pmLF) or 52 hours (mATII cells). Then, a solution of 5 mg thiazolyl blue tetrazolium bromide (Sigma) per milliliter PBS was added to each well and incubated at 37°C for 1 hour to allow reduction of the tetrazolium dye to its insoluble formazan within the cell. After aspiration of the supernatant, the blue formazan crystals were dissolved in isopropanol + 0.1% Triton X-100 (Life Technologies). Absorbance was measured at 570 nm in a Tristar LB 941 plate reader (Berthold Technologies).
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8

Bioluminescence Resonance Energy Transfer Assay for Receptor Interactions

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Constitutive interactions between GPR103-OX1R and GPR103-OX2R, BRET measurements were performed as previously described22 (link). Briefly, HEK293 cells were transiently transfected with the following combinations: pRluc-OX1R and/or pEGFP-GPR103, pRluc-GPR103 and/or pEGFP-OX1R, pRluc-OX2R and/or pEGFP-GPR103, and pRluc-GPR103 and/or pEGFP-OX2R. Cells were stimulated with OR-a, OR-B or QRFP (Phoenix Pharmaceuticals, USA) for 15 min. Following washes, cells were re-suspended in PBS followed by the addition of 5 μM Coelenterazine h for BRET measurements using the Tristar LB941 plate reader (Berthold, Germany) with two filter settings (Rluc filter, 400 ~ 475 nm; and EGFP filter, 500 ~ 550 nm).
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9

BRET Saturation Assay for Receptor Interactions

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HEK293 cells were transiently co-transfected with vectors encoding Rluc fusion or Venus fusion proteins. Twenty-four hours after transfection, cells were detached and transferred (10 5 cells/ well) to a 96-well microplate microplate white plates with an opaque bottom (Corning 3600, Stockholm, Sweden) in HEPES-buffered phenol red-free medium (Invitrogen, Life Technologies) for 24 h. Cells were then washed twice and resuspended in D-PBS (PBS containing 0.5 mM MgCl2 and 0.1% (w/v) glucose). Coelenterazine H substrate was used at final concentration of 5 μM. Analysis was made immediately using a Tristar LB941 plate reader (Berthold Technologies, Germany). The BRET ratio is defined as previously described by Pfleger et al [29] . The cells co-transfected with KOR-Rluc and mOX2αR-Venus were used as a negative control. BRET saturation curves were obtained by transiently transfecting constant or increasing amounts of plasmids encoding the Rluc-tagged donor constructs and the Venus-tagged constructs, respectively. The total amount of plasmid DNA was kept constant by adding empty plasmid.
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10

Viral Fusion Kinetics Monitoring

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A solution of DiI-labelled VLPs at 2×1012 VLPs ml−1 was mixed at a 7 : 1 (v/v) ratio with each liposome suspension at 2.5 g lipids l−1. Fluorescence was monitored for 200 s to ensure baseline stabilization prior to the addition of the fusion-inducing buffer [0.1 M sodium acetate (pH 5.2), or 0.1 M NaH2/Na2HPO4 (pH 8.5) in the negative control]. Hemifusion was monitored for an additional 800 s before addition of a detergent (decyldimethylamine-N-oxide; Anatrace) to solubilize the viral membrane completely, as a measure of 100 % fusion. Fluorescence was monitored with a TriStar LB941 plate reader (Berthold Technologies). For pH threshold determination, SPG buffers (succinic acid, sodium dihydrogen phosphate and glycine mixed at a 2 : 7 : 7 molar ratio), titrated to various pH values between 4 and 9, were used to induce fusion. The reported pH values were determined by measuring the pH of the VLP and liposome suspension after detergent solubilization.
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