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10 protocols using xenon arc lamp

1

Calcium-dependent Cannabinoid Receptor Signaling

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Coverslips were transferred to an imagining chamber on an inverted Olympus BBX51WI microscope equipped with a 40× objective, a xenon arc lamp (Sutter Instruments, Novato, CA, USA), and a manual stage, and a cooled charge-couple device (CCD) camera (Hamamatsu Orka II). For ratiometric imaging, the microscope was computer-controlled by HCImage software (Hamamatsu Corporation, Middlesex, NJ, USA). Cells on the field were manually marked for analysis, and F340 and F380 were measured for one min. KHB containing 0.25 mM Ca2+ (Low eCa2+) was passed through the imaging chamber for 5 min after which eCa2+ was changed to 2.5 mM (High eCa2+) using a perfusion valve control system (VC-6, Six Channel Perfusion Valve Control Systems, Warner Instruments, Holliston, MA, USA) and cells perfused for additional 10 min. This procedure was repeated in the presence of cannabinoid receptor agonists (WIN55212-2, CP55940, or methanandamide) in KHB containing low or high eCa2+. Cells were pre-incubated for 15 min for the treatments with antagonists, and the corresponding antagonists were added to the low and high eCa2+ solutions. Only one treatment was carried out on each coverslip used.
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2

Tracing E. coli Contamination in Cores

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Approximately 2.8 × 107 cells/ml of E. coli strain DH10B harboring a pBAD vector (Thermofisher Scientific, Canada), suspended in a total of 50 ml 1 × PBS, was sprayed from a spray bottle on the core catcher, diamond bits, and the surface of the frozen cores45 (link)–47 (link). pBAD is an expression vector that codes for the mNeonGreen protein. This vector and its product was targeted as the main contamination tracer in this study via PCR of vector sequences and macro-photography of the mNeonGreen protein fluorescence under 470 nm wavelength using a xenon arc lamp (Sutter Instruments, USA).
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3

Cryogenic IR Analysis of N2ase-CO Interaction

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The N2ase enzyme was prepared from Av and reacted with CO using the same protocol from our previous studies.23 (link), 44 The infrared spectra were collected with a Bruker Vertex 70v FT-IR under cryogenic temperatures. Photolysis was induced by a broadband Sutter Instruments xenon-arc lamp. Samples were held in custom built cells with Teflon spacers to give a pathlength of 70 microns.
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4

Fluorescence Imaging for Calcium Oscillations

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For fluorescence
imaging, a xenon
arc lamp equipped with a filter wheel and shutter (Sutter Instruments,
Novato, CA) containing 340 ± 5 and 380 ± 5 nm filters (Omega
Optical 340AF15 and 380AF15, Brattleboro, VT, USA) was focused onto
the islet chamber using a 10×, 0.5 NA microscope objective. Fluorescence
emission was collected with the same objective, passed through a dichroic
mirror and a 510 ± 84 nm emission filter (Semrock, Rochester,
NY, USA), and detected by a CCD camera (QImaging, Surrey, BC, Canada).
The images of all islets were collected every 20 s with 150 ms exposure
for each excitation wavelength. The ratio of fluorescence emission
at 510 nm after excitation at 340 and 380 nm was collected to calculate
free [Ca2+]i using predetermined calibration
values by reported methods.63 (link)To
quantify the period of calcium oscillations, we measured the time
between the beginnings of two consecutive oscillations was measured.
An oscillation was defined as when [Ca2+]i elevated
above a threshold level until dropping below it. The threshold level
for each experiment was determined as the average free [Ca2+]i during the nadirs of oscillations during the 20 mM
glucose period before treatment plus ten times the standard deviation.
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5

Astrocyte Calcium Dynamics: Pharmacological Modulation

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Astrocyte [Ca2+]i concentration dynamics were evaluated using Ca2+ sensitive fluorescent dye Fluo-4/AM (Molecular Probes). Cells were stimulated pharmacologically with ATP (Sigma Aldrich, Poole, United Kingdom) at 50 uM concentration. Prior to recording, cells loaded with Fluo-4/AM (2.5 μM) for 30 min at 37°C, 5% CO2 (Molecular Probes) (Neary et al., 1999 (link); Gee et al., 2000 (link); James and Butt, 2001 (link)). Subsequently, cells were thoroughly rinsed three times, with Hank’s Balanced Salt Solution (HBSS) to remove extracellular traces of the dye and to complete de-esterification. In separate experiments 100 μM Suramin/10 μM MRS2179 was applied for 30 min before imaging. In one culture, 10 μM of phospholipase C (PLC) inhibitor U73122 was applied for 30 min prior to imaging. All compounds were rinsed thoroughly three times with HBSS before imaging. Excitation and emission wavelengths were 494 nm and 516 nm, respectively. All fluorescence measurements were made at 37°C (Warner Instruments). Changes in [Ca2+]i were detected with an inverted Nikon Eclipse TE2000-S microscope (Nikon) equipped with a xenon arc lamp (Sutter Instruments).
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6

Quantifying Fluorescence Probe Quenching

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Fluorescence measurements of the probes in solution were performed with a microscope (the same microscope as described for imaging DNA origami structures) under widefield illumination provided by a xenon arc lamp (Sutter Instruments, Lambda LS). Fluorescence intensity was measured ~10 μm deep past the coverslip. Buffer-only blanks were measured for background correction. Samples were prepared in a high ionic strength PBS-based buffer (PBS, 500 mM NaCl) in channel slides (ibidi USA, μ-Slide VI, 80607).
To measure quenching efficiency, fluorophore-conjugated strands were prepared at 0.2 μM, and saturated with adapter strands at 0.3 μM and quencher-conjugated strands at 0.45 μM (Suppl. Table 2 and Suppl. Fig. 3b).
‘Unbound probes’ samples contained only the imager probe (0.2 μM), and ‘bound probes’ samples were prepared with the probe and its complementary sequence in excess (20 μM) (Fig. 1b and Suppl. Fig. 3c).
All oligonucleotides were ordered from Integrated DNA Technologies.
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7

Fura-2 Ratiometric Calcium Imaging

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Ratiometric calcium imaging experiments were conducted with the fluorescent indicator Fura-2AM (Fura-2, Thermo Fisher Scientific). Cells were loaded with 5 µM Fura-2 for 45 min and incubated at 37°C in a 5% CO2 atmosphere. Recordings were performed in a low-volume chamber continuously perfused. Bath solution contained (in mM) 140 NaCl, 3 KCl, 2.4 CaCl2, 1.3 MgCl2, 10 HEPES and 10 glucose adjusted to pH 7.4 with NaOH. Fluorescence measurements were made with a Leica inverted microscope (Leica DMI 3000B, Leica Microsystems). Fura-2 was excited using a xenon arc lamp (Sutter Instruments) at 340 and 380 nm wavelengths, switching between both with a computer-controlled filter wheel (Lambda 10-2; Sutter Instruments), and the emitted fluorescence was long-pass filtered at 510 nm. Images were acquired using an ORCA ER CCD camera (Hamamatsu Photonics K.K.) at a frequency of 0.33 Hz and analysed with Metafluor software (Molecular Devices). Cytosolic Ca2+ increases are presented as the ratio of the emission intensities after excitation at 340 and 380 nm (F340/F380). Measurements in DRG neurons were performed at 33 ± 1°C. Unless indicated otherwise, calcium measurements in cells lines were performed at 24 ± 1°C, controlled by a homemade temperature feedback device.
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8

Quantifying Fluorescence Probe Quenching

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Fluorescence measurements of the probes in solution were performed with a microscope (the same microscope as described for imaging DNA origami structures) under widefield illumination provided by a xenon arc lamp (Sutter Instruments, Lambda LS). Fluorescence intensity was measured ~10 μm deep past the coverslip. Buffer-only blanks were measured for background correction. Samples were prepared in a high ionic strength PBS-based buffer (PBS, 500 mM NaCl) in channel slides (ibidi USA, μ-Slide VI, 80607).
To measure quenching efficiency, fluorophore-conjugated strands were prepared at 0.2 μM, and saturated with adapter strands at 0.3 μM and quencher-conjugated strands at 0.45 μM (Suppl. Table 2 and Suppl. Fig. 3b).
‘Unbound probes’ samples contained only the imager probe (0.2 μM), and ‘bound probes’ samples were prepared with the probe and its complementary sequence in excess (20 μM) (Fig. 1b and Suppl. Fig. 3c).
All oligonucleotides were ordered from Integrated DNA Technologies.
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9

Calcium Imaging of Transfected Tas2r Receptors

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HEK-293 cells were transfected with Tas2r105- or Tas2r108-coding plasmids using Lipofectamine 2000, according to the manufacturer’s protocol. DNA and Lipofectamine were diluted in Opti-MEM and incubated with the cells overnight. Calcium imaging experiments were performed as described previously [18 (link)]. Briefly, coverslips seeded with transfected and non-transfected HEK293 cells were washed three times with Tyrode III buffer containing (in mM) 130 NaCl, 10 HEPES, 10 glucose, 8 CaCl2, 5 KCl, 10 sodium pyruvate, 5 NaHCO3, and 1 MgCl2. Then, cells were loaded with Fura-2-AM (5 µM, Invitrogen) and 0.04% pluronic (Sigma-Aldrich) for 30 min at 37 °C in Tyrode III buffer. Changes in [Ca2+]i levels to denatonium application were studied using an Eclipse FN1 microscope (Nikon Instruments, Amsterdam, The Netherlands). Cells were excited alternately at 340 and 380 nm using Lambda DG-4 high-speed wavelength switcher equipped with a xenon arc lamp (Sutter Instruments, Novato, CA, USA), and emission was detected at 510 nm using an Orca Flash 4.0 camera (Hamamatsu, Herrsching, Germany). Acquired values were processed using the NIS-Elements software (Nikon Instruments, Amsterdam, The Netherlands).
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10

Microfluidic Imaging of Calcium Dynamics

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Microfluidic devices were made from PDMS and fabricated using conventional soft lithography.21 The design used in this study was described in previous work.12 Imaging of Ca2+ was performed as previously described.12 Briefly, the microfluidic device was positioned on the stage of a Nikon Ti-S microscope equipped with a 10X, 0.5 NA objective (Nikon Instruments, Melville, NY). Excitation was achieved with a Xenon arc lamp equipped with an integrated shutter and filter wheel (Sutter Instruments, Novato, CA). Acquisition was performed on a charge coupled device (CCD) camera (Photometrics, Tucson, AZ). Nikon NIS Elements software was used to control the camera, shutter, and filter wheel. During imaging, excitation was performed sequentially at 340 ± 5.5 and 380 ± 5.5 nm (Chroma, Bellows Falls, VT). Emission was filtered through a 415 nm long pass dichroic mirror and a 510 ± 20 nm emission filter (Omega, Brattleboro, VT). The response of islets is given as a ratio of fluorescence emission generated from excitation at 340 and 380 nm (F340/F380). Imaging was performed every 30-s with 100-ms exposure per excitation channel.
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