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Ixon3

Manufactured by Oxford Instruments
Sourced in United Kingdom, Ireland, Japan

The IXon3 is a high-performance scientific camera designed for low-light imaging applications. It features a back-illuminated EMCCD sensor with a range of pixel sizes and sensor sizes to suit different requirements. The camera offers advanced features such as on-chip electron-multiplying gain, high quantum efficiency, and ultra-low noise operation to enable the detection of even the faintest signals.

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60 protocols using ixon3

1

Multimodal Imaging of Glioma Photodamage

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Fluorescence images of gliomas in experiments with IR700, LysoTracker and a pH indicator were obtained using an inverted microscope (IX-70, Olympus) equipped with a phase-contrast objective (Olympus, PLAPON 60XOPH), a spinning disk confocal unit (CSU-10, Yokogawa), EMCCD cameras and an incubator (TOKAI HIT Co., Ltd.) to control the temperature at 37 °C and the CO2 concentration at 5% in the glass-bottom dishes. For cell damage experiments, the cells were illuminated with a red laser (635 nm, 100 mW, EDMUND OPTICS) for 10 s and 30 s to photoactivate IR700. The fluorescence images of IR700 excited by the red laser were captured with an EMCDD camera (iXon 3, Andor Technology Ltd.) equipped with a 690–730 bandpass filter. After laser treatment, the cells were incubated with 5.0 nM EthD-1 and 1 μL Annexin-V-Cy5 to detect cell death. Epi-fluorescence images of EthD-1 and Annexin-V excited by the blue (20 mW, Showa Optronics) and green lasers (50 mW, Showa Optronics), respectively, were captured with EMCCD cameras.
Confocal images of LysoTracker and IR700 excited by the blue and red lasers were captured simultaneously by two EM-CCD cameras (iXon 3 and iXon+, Andor Technology Ltd.) at a rate of 10 frames/s. The confocal images of the pH indicator excited by the blue laser were observed with the EMCCD camera during irradiation of IR700 by the red laser.
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2

Actin Polymerization Imaging Protocol

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In a typical reaction, 1 μL of 2.5 mM MgCl2 and 10 mM EGTA were mixed with 5 μL of 9 μM 33% Oregon Green-labeled actin and incubated for 2 min. Four microliters of the actin solution were then added to 16 μL of a solution containing 1.25× TIRF buffer and any other proteins. Reactions were imaged on a Nikon TE2000 inverted microscope equipped with a 100 × 1.49 numerical aperture TIRF objective, 50 mW 488 nm and 561 nm Sapphire continuous wave solid state laser lines (Coherent), a dual band TIRF (zt488/561rpc) filter cube (Chroma C143315), and a 1× to 1.5× intermediate magnification module. Images were collected using an 512 × 512 pixel EM-CCD camera (iXon3, Andor). For two color reactions, typical imaging conditions were 50 ms exposures with the 488 nm laser (set to 5 mW) and 100 ms exposures with the 561 nm laser (set to 35 mW) for 1 s intervals. The camera EM gain was set to 200. The concentration of 568-Dip1 was kept in the low nanomolar range in all assays to prevent high backgrounds of nonspecifically adsorbed 568-Dip1 from obscuring Dip-Arp2/3 filament nucleation events.
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3

Live-cell Imaging of Developing Ovules

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Live-cell imaging of developing ovules was performed as previously described (Susaki et al., 2020 (link)). The ovules were dissected from stage 12 flowers of wild-type plants expressing GFP-GEX1 driven by the GEX1 promoter, and HISTONE H2B-tdTomato driven by the RPS5A promoter, and then mounted in a multi-well glass bottom dish containing 400 μL of ovule culture medium. Time-lapse confocal imaging was performed using an inverted microscope (IX-83; Olympus, Tokyo, Japan) equipped with a disk-scan confocal system (CSU-W1, Yokogawa Electric, Tokyo, Japan), 488 and 552 nm LD lasers (Sapphire; Coherent Japan, Tokyo, Japan), and an EM-CCD camera (iXon3, Andor Technology, Belfast, United Kingdom). Time-lapse images were acquired every 5 min with 21 z-planes at 1 μm intervals, using a silicone-immersion objective lens (UPLSAPO60XS2; Olympus, Tokyo, Japan). The images were analyzed using MetaMorph Version 7.8.10.0. (Molecular Devices Japan, Tokyo, Japan).
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4

High-resolution TIRF Microscopy Setup

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TIRF measurements are performed with a Nikon Eclipse Ti microscope equipped with a 60x oil immersion objective (Plan Apo TIRF, Nikon). The fluorescence is excited by a 473 nm Argon ion laser (Shanghai Dream Laser Technologies) and imaged with an electron-multiplying CCD camera (Ixon3, Andor). In the TIRF recording, the full field of view is 150 μm × 150 μm. Parameters such as the exposure time, EM gain and the binning size are optimized to achieve the best S/N ratio for each recording. The highest recording rate that has been tested is 2 ms per frame.
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5

Dark-field Microscopy for Hyperspectral Imaging

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All tissue samples were imaged with a modified dark-field microscopy setup as shown in Figure 1—figure supplement 1. Light from a broadband halogen lamp was coupled via an optical fiber into a custom dark-field condenser (CytoViva, Auburn, AL), which produced a light cone for sample illumination. Light scattered from the sample was collected using either a 40x magnification dark-field air objective lens (Olympus UPlanFLN 40x, 0.75 NA) or a 100x magnification oil immersion objective lens (Olympus UPlanFLN 100x, 1.3 NA) and directed to one of two cameras depending on detection mode. Conventional dark-field and hyperspectral images were collected for all samples in this study. Conventional dark-field images were collected with a Dagexcel-M cooled camera (Dage-MTI, Michigan City, IN). Hyperspectral images were collected with a hyperspectral camera (iXon3, Andor, Belfast, UK). Each image has 509 × 512 pixels. With a 40x lens, the sampling resolution is 410 × 408 nm, which produces a 209 × 209 µm field of view. With a 100x lens, the sampling resolution is 163 × 160 nm. Only Figure 5 shows images acquired at 100x magnification. The spectrum from each pixel was acquired with 361 uniform samples at wavelengths ranging from 400 nm to 1000 nm. The acquired raw spectra of each pixel were lamp-normalized using the Cytoviva software package (ENVI 4.8) and exported after normalization.
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6

Imaging and Analysis of Drosophila Embryo

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Unless otherwise indicated, all crosses were performed at 25°C. Stage 10 or 11 embryos were staged and aligned in Halocarbon oil 27 (Sigma-Aldrich) and then imaged at 25°C or 32°C with a spinning disk (Leica), with a 20× dry objective (numerical aperture: 0.4) and a camera (iXon3; Andor Technology) using the acquisition software MetaMorph (Molecular Devices). brkM68/FM7 females were crossed with Jupiter::GFP males. In addition, wild-type females were crossed with Jupiter::GFP males as controls. Brk mutant embryos were identified by the absence of spontaneous movements at stage 17 and confirmed by the absence of hatching. For every sample, the length and width over time were normalized with the maximal length or maximal width, respectively.
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7

Super-resolution imaging of His-mEGFP Lamin A27

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A custom-built microscope was used for super-resolution imaging of trisNTAATTO655-labelled His10-mEGFPLamin A27 (link). Samples were illuminated with 488 nm (Sapphire 488 LP, Coherent) and 643 nm (iBeam smart, Toptica Photonics) laser beams in total internal reflection fluorescence mode. The excitation light was focused on the back focal plane of a 100 × oil objective (PLAPO 100 × , total internal reflection fluorescence mode, numerical aperture 1.45, Olympus) mounted on an inverted microscope (Olympus IX71). The emission was recorded using an electron multiplying charge-coupled device camera (Ixon3, Andor) with frame-transfer mode, 5.1 × pre-amplifier gain and electron multiplying (EM) gain set to 200. For every sample, 40,000 images were recorded at a frame rate of 33 Hz and image reconstruction was performed with rapidSTORM28 (link). The localization (σloc) precision of the dSTORM images was calculated to 16.4±3.1 nm and a resolution of ≤40 nm (for dSTORM image see Fig. 3d). Calculations were performed according to Mortensen et al.29 (link)
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8

Single-Molecule FRET Microscopy Protocol

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The sample was immobilized on a BSA–biotin streptavidin-coated quartz coverslip for prism-based TIRF microscopy. Fluorescence was measured using an inverted wide-field optical microscope and alternate laser excitation at 514 and 630 nm of the donor and acceptor fluorophore, respectively. Fluorescence was divided into a red and blue spectral channel (corresponding to fluorescence from TAMRA and Alexa647, respectively) and movies were recorded with an EMCCD camera (Andor, iXON 3) using a 0.5 s integration time per image and a total length of 100 s. Measurements were performed in TAE (pH 8.0) buffer (20 mM Tris-acetate and 1 mM EDTA) containing 12.5 mM MgCl2 and supplemented with an oxygen-scavenging system composed of 2 mM Trolox (Sigma-Aldrich), glucose oxidase (Sigma-Aldrich, 0.92 mg ml−1), catalase (Sigma-Aldrich, 0.04 mg ml−1) and β-D-(+) glucose (Sigma-Aldrich, 4.5 mg ml−1). Data analysis was performed by the home-made software package iSMS53 (link).
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9

Automated Fluorescence Quantification of Transfection/Transduction

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Images of the cells were taken using an inverted microscope (IX83, Olympus) equipped with a charge-coupled device (CCD) camera (iXon3, Andor, Belfast, UK) using a 10× objective and suitable filters for the fluorescence wavelength. The microwell array was scanned with a motorized stage (MS-2000, ASI, Eugene, OR, USA) using a 4× objective. The transfection and the transduction efficiencies were calculated as the number of cells expressing the fluorescent protein genes over the total number of cells in the microwells. The number of fluorescent positive cells was counted manually. All quantification was performed by three researchers blinded to the conditions. The results are reported as mean + standard deviation. The total fluorescent intensity was measured using ImageJ. The images were first thresholded to identify the transfected or infected cells. The fluorescent signal from these cells were calculated as: Sc=SacAc×SwSacAwAc , in which Sc is the fluorescent signal from the transfected/transducted cells, Sac is the total signal from the thresholded cells, Sw is the total signal from the microwell, Aw is the total area of the microwell, and Ac is the total area of the thresholded cells [20 (link)]. The results were normalized to the area of the microwell (for the on-chip experiments) or the area of the image (for the macroscale experiments).
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10

Intracellular Calcium Dynamics in Transfected Islet Cells

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Transfected islet cells were washed with KRBH containing 2.8 mM glucose and incubated with 1 μM Fura-2 AM (Thermo Fisher) in KRBH at 37 °C for 30 min to measure intracellular Ca2+. The cells were then washed with KRBH and perfused with KRBH containing 70 mM K+ at a flow rate of 1 mL/min at 32 °C. Fura-2 AM fluorescence was monitored at 340 and 380 nm (excitation wavelengths) upon Ca2+ binding, and the emitted light signals were read at 510 nm. Polychrome V high speed switching monochromator on a Nikon microscope equipped with an Andor ER-BOB-100 trigger box, an Andor camera Ixon3, and the Andor iQ (2.5.1) software were used for imaging. The area under the curve (AUC) was calculated as AUC = Σ [0.5(Ratio340/380n + Ratio340/380n−1) × (tn−tn−1)] (1), in which tn represents the time intervals.
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