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117 protocols using scmos camera

1

Zyla 5.5 sCMOS Camera Protocol

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Three identical Zyla 5.5 scientific complementary metal oxide semiconductor (sCMOS) cameras were used in this work (Andor Technology Ltd., Belfast, UK). sCMOS offers relatively lower read noise (< 2.9 e root mean square at the fastest pixel readout speed, 560 MHz), better resolution, and wider dynamic range over interline charge-coupled device technology that was previously used for earlier detector prototypes. The sCMOS cameras were each equipped with a 5.5-megapixel sensor (2560 × 2160 pixels) with an individual pixel size of 6.5 μm. They supported a full-frame transfer speed of 30 frames per second (fps) using a 16-bit data range. The imaging sensors were thermoelectrically cooled to 0° C to suppress dark current. The cameras were fitted with identical fixed focal length objective lenses.
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2

High-Content Automated Imaging of Cells

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Opera Phenix confocal spinning-disk high content screening microscope (PerkinElmer, Inc., Waltham, MA, USA) was used for imaging of 384-well plates for automated IFA-assay (High Content Imaging and Analysis Unit, FIMM, HiLIFE, University of Helsinki, Finland). Screening was conducted with a 20x water immersion objective (NA 1.0, working distance 1.7 mm, depth of focus 1.8 μm, effective xy resolution 0.66 μm) and four excitation lasers (405 nm with emission band-pass filter 435/480; ex 488, em 500/550; ex 561, em 570/630; ex 647, em 650/760). Nine fields-of-view with 5% overlap were imaged per well using two predetermined Z focus planes with laser-based autofocusing. The images were captured with two Andor Zyla sCMOS cameras (16-bit, 2160 x 2160 px, 6.5 μm pixel size).
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3

Mapping Thalamic Projections onto TRN

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300 μm live sections centered on the somatosensory sector of TRN (−1.4 mm from bregma) were imaged using Nikon or Zeiss upright microscopes with 2.5–5X objectives and Andor Zyla sCMOS cameras. Both epifluorescent and transmitted light (brightfield) images were obtained to characterize the topographical positions of the TRN cell types and their connections with thalamic relay nuclei.
To generate the group maps showing the average VP and POM projections to TRN (Fig. 2b), the TRN of each live slice was first outlined using either tdTomato expression driven by SOM-Cre (n=6 for POM, n=4 for VP) or bright field images (n=3 for POM, n=4 for VPM). Those outlines were then used to warp the slice images to a common reference TRN (with the bUnwarpJ plugin in ImageJ - described for the immunohistochemical analysis above), allowing precise alignment across mice for averaging. The central/edge boundaries were drawn at 20% and 80% of the medial-lateral distance across the TRN.
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4

Mapping Thalamic Projections onto TRN

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300 μm live sections centered on the somatosensory sector of TRN (−1.4 mm from bregma) were imaged using Nikon or Zeiss upright microscopes with 2.5–5X objectives and Andor Zyla sCMOS cameras. Both epifluorescent and transmitted light (brightfield) images were obtained to characterize the topographical positions of the TRN cell types and their connections with thalamic relay nuclei.
To generate the group maps showing the average VP and POM projections to TRN (Fig. 2b), the TRN of each live slice was first outlined using either tdTomato expression driven by SOM-Cre (n=6 for POM, n=4 for VP) or bright field images (n=3 for POM, n=4 for VPM). Those outlines were then used to warp the slice images to a common reference TRN (with the bUnwarpJ plugin in ImageJ - described for the immunohistochemical analysis above), allowing precise alignment across mice for averaging. The central/edge boundaries were drawn at 20% and 80% of the medial-lateral distance across the TRN.
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5

Multiview Lightsheet Imaging of Embryos

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consisted of four identical water-dipping Olympus UMPLFLN 10×/0.3 objectives, two for illumination and two for detection. Two Toptica iBeam smart lasers were externally triggered for alternating double-sided illumination. The laser beam was split 50/50 and directed onto a continuous running galvanometric mirror (1 kHz, EOPC), which pivoted the light sheet and reduced shadowing effects in the excitation paths due to absorption of the specimen37 (link),38 . Light sheets were generated with cylindrical lenses and projected with telescopes and the illumination objectives onto the focal plane of both detection lenses. The focal planes of the two detection objectives were imaged onto two Andor Zyla sCMOS cameras. The whole embryo was imaged from several angles with a z-stack spacing of 2 μm every 30 s up to 5 min for up to 36 h. A custom LabVIEW (National Instruments) program was implemented to adjust stage positions, stack coordinates and various parameters for time-lapse acquisition. A custom fusion program was used for visualization and generation of maximum intensity projections42 .
For long-term time-lapse acquisition, embryos were embedded in 0.1% low-melting-point agarose inside fluorinated ethylene propylene (FEP) tubes as described in43 (link)–45 . 0.016% tricaine was used in the E3-filled-imaging chamber only when α-bungarotoxin mRNA was not co-injected with DNA constructs.
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6

Confocal Microscopy Imaging of Micropatterned Proteins

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Imaging was performed on a Zeiss LSM 880 confocal microscope [equipped with a unique scan head incorporating a high-resolution galvo scanner along with two photomultiplier tubes (PMTs) and a 32-element spectral detector as well as a transmitted light PMT for differential interference contrast imaging] or a Nikon spinning disk confocal microscope (equipped with a Yokagawa CSU-X1 variable speed Nipkow spinning disk scan head, Andor Zyla sCMOS cameras, and a light-emitting diode–based DMD (Deformable Mirror Device) system for ultrafast photostimulation). Images were taken using a 10× objective for micropatterns with a single protein and using a 60× or 100× oil-immersive objective for other images.
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7

Immunofluorescence Imaging of Cell-Cell Junctions

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HCT116 and SW480 cells plated on glass coverslips were fixed with paraformaldehyde, and permeabilized with Triton X prior to blocking in milk solution. Primary antibodies including anti-E-cadherin (610181, BD Biosciences), anti-α-catenin (C2081, Sigma-Aldrich), anti-ZO-1 (617300, ThermoFisher), and anti-STK17A (ab111963, Abcam) were incubated for 30 minutes in milk solution. After washing, species-specific Alexa Fluor 488 or 568 secondary antibodies (Life Technologies) or ActinGreen/ActinRed ReadyProbes (Life Technologies) were applied for 30 minutes. Coverslips were mounted on glass slides with ProLong Gold antifade reagent with DAPI (P36931, Life Technologies) and visualized with a Nikon Eclipse E800 microscope and Zyla SCMOS camera. Images were processed in Nikon NIS-Elements Basic Research software. For tumoroid staining, glass coverslips were coated with a 1:1 mixture of media and growth factor reduced Matrigel (356231, Corning) prior to cell seeding.
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8

Microscopic Imaging of Fluorescent Cells

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Cell images of fluorescently labelled cells were obtained using an upright microscope (Nikon eclipse Ni-U) with a water immersion objective ( × 60 magnification, NA=1.0) and an Orca Flash 4.0 camera (Hamamatsu). To obtain three-dimensional stacks, an inverted microscope (Nikon Eclipse Ti) with a spinning disk confocal unit (CSU-W1, Yokogawa), a Zyla sCMOS camera (Andor) and a × 60 objective was used. This objective was either of oil immersion (NA=1.42) or of water immersion (NA=1.0) for experiments involving stretch, as viscous oil droplets dragged the flexible PDMS membrane used for stretch and precluded proper focusing.
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9

Dark-Field Microscopy of Microsphere Films

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A dried film of polystyrene or silica microspheres with various diameters (Polysciences) was formed on cover glass and was then placed on the sample stage of an inverted microscope (OLYMPUS IX71) with the microsphere film side oriented downwards (Fig. S1). A dry dark-field condenser (U-DCD: NA 0.8-0.92) with a 405 nm LED or a halogen lamp as a light source and a long-working-distance 60x objective (NA 0.7) were used for the transmission DF mode. A patterned stop with three symmetric open apertures, each of which span an angle of 60°, was added to the U-DCD condenser for the partial DF illumination. The images were captured using a sCMOS camera (Andor, NEO).
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10

Quantifying Protein Recruitment Dynamics

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Cells stably-expressing the corresponding GFP- or mCherry-tagged proteins were seeded on 24-wells glass bottom plates (Cellvis) and transfected with the corresponding siRNA. Cells were imaged 48 hours later using 100x oil-immersion objective equipped Nikon Eclipse Ti-E inverted CSU-X1 spinning disk confocal microscope with attached environmental chamber. Images were acquired every 15 seconds for HCT116 cells or every 10 seconds for Hela cells using an Andor Neo sCMOS camera using 2x2 binning. The quantification of the time-lapse images was performed using Fiji (Schindelin et al., 2012 (link)). Briefly, GFP fluorescence around chromatin was selected by manually adjusting the threshold of the green channel. Then a binary mask was created and the total intensity (mean intensity x mask area) of GFP-tagged proteins was quantified for every time point. The curve corresponding to the recruitment of GFP-tagged proteins was represented as mean ± SEM and the beginning of the furrow ingression was set as t0. The area under the curves was quantified using Prism (GraphPad Software).
To compare the timing of GFP-CC2D1B versus CHMP4B-L-GFP recruitment, the first (Ti) and the last (Tf) frames showing GFP accumulation in the perinuclear area were manually scored in every movie and the data were represented as 5-95 percentile boxes using Prism (GraphPad Software).
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