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34 protocols using dcc1545m

1

Oocyte Deformability Measurement by Micropipette

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Oocytes, placed in individual drops of modified human tubal fluid media, were measured, and individually tracked for outcomes. A micropipette was placed on the zona pellucida directly opposite to the location of the polar body (see Fig 3) to standardize the location of measurement in an area, a procedure performed similarly to the previous study [15 (link)]. Given the larger size of a human oocyte (~110 μm) as compared to that of a mouse embryo (~80 μm), 50-μm inner diameter of micropipettes (custom-made by Origio) and an applied pressure (-0.1 p.s.i.), which was modified to be slightly larger than the 40-μm inner diameter of micropipettes in Yanez et. al [15 (link)] and the applied pressure of ~0.5 kPa (~0.073 p.s.i.) in Young’s modulus for mouse embryo [17 (link)], were used and applied. The pressure was applied through a micropipette for 2 seconds and the movement of the zona pellucida inside the micropipette was recorded at 70 frames per second with a CMOS camera (Thorlabs DCC1545M). The pressure was regulated back to the balance pressure after each measurement to release the oocyte from the micropipette tip. The operator could easily navigate through the measurement steps displayed on the computer screen or pressure log file. This included monitoring pressure values both before and during measurements, allowing them to assess the success of each measurement.
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2

Bacterial Motility Tracking via Microscopy

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All experimental observations were performed on a homemade inverted bright-field microscope enclosed in a custom-made environmental chamber (Okolab) with temperature control (T = 22 ± 0.5 °C). The microscope was mounted on a floated optical table for vibration dampening. The bacteria were tracked by digital video microscopy using the image projected by a microscope objective (×20, NA = 0.5, Nikon CFI Plan Fluor) on a monochrome CMOS camera (1280 × 1024 pixels, Thorlabs DCC1545M) at 10 f.p.s.57 (link). The magnification of our imaging path allowed us to achieve a conversion of 0.22 μm per pixel, corresponding to a field of view of ≈280 × 225 μm2. The incoherent illumination for the tracking of the bacteria was provided by a red LED (λ = 660 nm, Thorlabs M660L3-C2) employed in a Köhler configuration to control and improve coherence and contrast of the illumination at the sample plane. The typical duration of an experiment was ≈60 min before bacteria motility started to decrease considerably. In total, we recorded over 3500 individual bacterial trajectories of variable duration. The data shown in the figures are obtained from the analysis of segments of these trajectories.
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3

Membrane Deformation Mechanics Quantification

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Videos of the experiments were captured
using a CMOS camera (DCC1545M, Thorlabs GmbH) at 10 fps with a spatial
resolution of 11.5 px/μm. The videos were synchronized to the
force measurements with respect to the onset of motion of the piezostage.
Using an open-source tracking software (Tracking by Douglas Brown, http://physlets.org/tracker/), the membrane angle θ and its radial distance δ from
the center of the bead were measured on the videos. Therefore, each
force measurement F was attributed to a membrane
angle θ and radial distance δ. For each trial, 10 measurements
from the video were taken when the maximum, or overshoot, force occurs.
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4

Cytocompatible Autofocus System for Z-Stability

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We ensured the z-position stability of our sample by building a cytocompatible autofocus system with a weak infrared laser (850nm, 3,5mW) (Thorlabs, CPS850). A CMOS camera (Thorlabs, DCC1545M) detected the infrared light totally reflected by the glass-water interface and a LabView software computed the correction of the drift providing real-time adjustment of the z-position of the stage through a piezo actuator.
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5

Printing Setup for Controlled-Atmosphere Deposition

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The main components of the printing setup were (Supplementary Fig. 16): a power source (B2962A, Keysight) for biasing the electrodes; mechanical relays (HE751, Littlefuse) for switching the high voltage between different electrodes; a printing nozzle; an electrically grounded substrate mounted on a three-axis piezo translation stage (QNP60XY-500-C-MP-TAS, QNP60Z-500-C-TAS, Aerotech); an optical microscope to observe the printing process. The piezo axes were mounted on an additional long-range axis (M112-1VG, PI) to enable stage translations larger than 500 μm. The nozzle was fixed to a manual three-axis micromanipulator-stage (HS 6, Märzhäuser Wetzlar GmbH) for coarse positioning. The mechanical relays were computer-controlled and interfaced with an Arduino UNO microcontroller board. The microscope was built from a ×50 objective-lens (LMPLFLN, Olympus), a CMOS camera (DCC1545M, Thorlabs), and a blue LED light source (LEDMT1E, Thorlabs). The optical axis of the lens was inclined 60° to the substrate normal. To print at low oxygen levels (200–1000 ppm), an acrylic chamber enclosing the printer was flushed with argon gas (4.8, PanGas). Oxygen- and humidity-levels were monitored with a gas sensor (Module ISM-3, PBI Dansensor) and a humidity sensor (SHT31, Sensirion). Usual relative humidity and temperature during printing were 30–50% and 20–25 °C, respectively.
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6

Time-Lapse Microscopy of Compressed Cell Behavior

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Time-lapse microscopy was performed in a custom-built microscope inside a cell culture incubator. This microscope used an electrically shuttered green LED (Phillips Luxeon Rebel), a CMOS camera (DCC1545M, Thorlabs), and a 10 × 0.25 NA objective (Nikon) to perform bright-field microscopy. An encoded XY stage and a motorized z-focusing mechanism (Prior Scientific) were used to take measurements at multiple positions simultaneously. After compression, gels were placed in a custom-made 3D-printed ABS plastic holder and put into the time-lapse microscope. The system took approximately 1 hr to equilibrate, and then images were taken at every 10 min. Time-lapse microscopy was stopped after 50 hr. Blinded observers measured the time to first cell division and rotation direction of single cells and doublets. In each separate experiment, at least five fields of view and a minimum of 50 cells in total were measured for each condition. Statistical significance was determined by paired t-test, between compressed samples and matched controls.
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7

Polarimetric Metasurface Beam Characterization

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A Stokes polarimetric technique was used to measure the shifts of the beam transmitted through the dielectric metasurface. A horizontally polarized source with a specific wavelength of 800 nm and a beam waist of 4 mm was filtered using an acousto-optic tunable filter (AOTF) from a supercontinuum laser (YSL SC-Pro). The polarization state of the incident beam was rotated using a half-wave plate. The incident beam was focused to have a beam size less than the sample size (~500 μm × 500 μm) by a lens and illuminated to the dielectric metasurface at various tilt angles (from 1° to 10°, step: 1°). The beam passed through a quarter-wave plate (Thorlabs, AQWP10M-980) and a Glan–Tompson polarizer (Thorlabs, GL15) in sequence, then was captured by a charge-coupled device camera (Thorlabs, DCC1545M). To minimize errors due to laser fluctuation, ten images were taken sequentially, then averaged to produce one image. Five consecutive measurements were performed in all experiments.
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8

Laser-based Neutron Detection Protocol

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The beam from a compact laser diode with center wavelength λ of 635 nm and diameter φ of 2.9 mm is directed onto a superheated emulsion detector held by a mount capable of fine transverse motion. A 1280 × 1024 pixels CMOS monochrome sensor (Thorlabs DCC1545M with 5.2 µm square pixels) collects images resulting from the interaction of the laser with the detector. The apparatus is placed in a shielded irradiation canal. The detectors are exposed to 14-MeV neutron from a Thermofisher P-385 DT neutron generator. The resulting data are processed through a Gaussian pyramidal transform (gaussian blur and subsampling technique) implemented in sequence with a Gabor transform (similar to a Fourier transform used in features detection), as described in Pappu’s PhD thesis47 . Both functions are available through the scikit-image Python collection48 (link). The algorithm help stabilize the reproducibility of the response generation process by converting the output images into strings of 2(19−2n) bits with n representing the Gaussian pyramidal level.
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9

Hologram Fabrication and Characterization

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The CGHs adopted in this paper are Fresnel holograms calculated starting from black and white images as reported in the literature.35 (link)The calculated binary pattern was then transferred by means of a direct-laser writing machine36 equipped with visible lasers. The photochromic film is first completely converted to the coloured form by means of UV illumination, then the visible laser (638 nm, nominal power of 15 mW) is focused onto the film to convert it locally to the transparent form.
For the hologram reconstruction, a He–Ne laser (633 nm) was employed in case of amplitude reconstruction. The images were collected by a CCD camera (Thorlabs DCC1545M).
For the measurement of the diffraction efficiency of gratings, we used a tuneable Xenon light source (Newport TLS130B-300X). The wavelength was scanned from 500 to 1000 nm and sent through the grating at normal incidence. The diffracted light was measured by a silicon photodiode (Thorlabs S130VC) at the corresponding diffraction angle. The same measurement was performed without the grating to have the total intensity. The ratio of the two measurements was the efficiency.
Interferometry has been applied to measure the pattern distortion of the grating by means of a Zygo GPI interferometer.
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10

Pupil Tracking for Optogenetic Inhibition

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Pupil tracking was performed using a modified version of our previous set up7 (link),58 . A high-resolution CMOS camera (DCC1545M, Thorlabs) equipped with a 1.0× telecentric lens (Edmund Optics, #58–430) was pointed at either the left or right eye depending on the experimental set up. Infrared illumination at 780 nm was provided by a light-emitting diode array light source (Thorlabs, #LIU780A). Video acquisition of eye images (240 × 184 pixels) was performed at 20 Hz by a custom-made MATLAB script. Pupil diameter were calculated online during acquisition with a least square fit of ellipse of the binarized pupil image. Timing of laser activation was recorded using a microcontroller board (Arduino UNO Rev3) connected to the pupil tracking computer. The pattern of light activation was the same as for optogenetic inhibition of LC-NE activity during behavior (on for 2.5 s + 0.5s ramp down). As shown previously 6 (link),7 (link),59 , LC-NE photoinhibition causes pupil constriction. We thus included only mice displaying clear pupil constriction following optogenetic silencing of LC-NE activity.
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