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36 protocols using csu x1

1

Visualizing TONDU Peptide Internalization

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Drosophila S2R+ cells were grown to confluence in Schneider's medium (GIBCO) supplemented with 10% heat-inactivated FBS (Sigma-Aldrich) and 5% Pen-Strep (GIBCO) at 25°C in 24-well plates. TAMARA-tagged TONDU peptide was added to the medium to a final concentration of 100 nM and cells were incubated for 6 h. Next, the medium was discarded and cells were washed three times with 1× PBS. Cells were then added to lysine-coated slides, fixed with 4% formaldehyde in 1× PBS and counterstained with 4′,6-diamidino-2-phenylindole (DAPI). Cells were imaged with a Nikon Ti, CSU-X1 spinning disk confocal microscope and the images were processed using Fiji image processing software (https://imagej.net/Fiji).
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2

Imaging Mitochondrial Morphology in C2C12 Cells

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C2C12 cells were seeded on 2-cm diameter coverslips in a multi-well plate. For immunostaining, cells were fixed in 3.7% paraformaldehyde for 20 min at 37°C and permeabilized in 0.5% Triton X-100 for 10 min at room temperature. A 2-h incubation in primary rabbit polyclonal anti-TOM20 (Santa Cruz Biotechnology: FL-145) and mouse monoclonal anti-tubulin antibodies (Abcam: A44928) both diluted at 1:500 was followed by incubation in solution containing the secondary antibodies Alexa Fluor 488-conjugated goat anti-rabbit (Invitrogen: A11008) and Alexa Fluor 568-conjugated goat anti-mouse (Invitrogen: A11004) for 1 h at room temperature. The coverslips were mounted onto a cover glass using Prolong mounting medium (Invitrogen: P36934). Images were acquired using a Yokogawa CSU-X1 spinning disk confocal on an inverted Nikon Ti fluorescence microscope equipped with a 63× or 100× oil immersion objective. Image analysis and processing were performed using the NIS Elements software on 0.2-μm z-stack images acquired with the 100× objective. To quantify mitochondrial area, the maximum-intensity projections labeled with TOM20 on each acquired z-stack image were used.
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3

Confocal Imaging of Fixed Intestine Tissues

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Images of fixed tissue were taken either with a Yokogawa CSU-W1/Zeiss 3i Marianas spinning disk confocal microscopy system or a Andor CSU-X1/Nikon Ti-E spinning disk confocal microscopy system. Intestines were imaged using a ×40 PlanFleur objective or, for gut size measurements, ×10 PlanFleur objective. Images were analyzed and processed using ImageJ (NIH, Bethesda, MD) and Adobe Photoshop. Figures were composed in Adobe Illustrator. Except for quantification of PH3+ cells and gut length, which was performed in the entire gut, only the R4 region of the posterior midgut was analyzed for consistency.
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4

Quantitative Analysis of Cytoskeletal Dynamics

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Stills of the actin and microtubule networks in epidermal pavement cells were taken by a Zeiss LSM880 microscope with a Plan-Apochromat 40 x/1.2 W objective and 488-nm argon laser for excitation, videos were taken by an inverted spinning disc confocal microscope (Yokogawa CSU-X1 on a Nikon Ti-E platform, laser box Agilent MLC400, camera Andor Ixon) with 100 x/1,45 O plan apochromatic objective, excitation laser line set at 488 nm, and image interval 1 s as described previously (Rosero et al., 2016 (link)). Cytoskeleton bundling and density were quantified as described previously (Higaki et al., 2010 (link)) with minor modifications (Rosero et al., 2013 (link); Rosero et al., 2019 (link)).
Cytoskeletal dynamics measurements were done in two biological replicates: with at least 40 cells from at least 20 videos analyzed using the QuACK method (Cvrčková and Oulehlová, 2017 (link)).
Actin networks in developing trichromes were visualized using an inverted spinning disc confocal microscope (Zeiss Axio Observer 7 microscope with a vertical stage equipped with a Yokogawa CSU-W1 spinning disk unit and Photometrics Prime 95B camera) with Zeiss Plan Apochromat 40 x/1.2 W objective and 488-nm laser excitation line.
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5

Spinning Disk Confocal Microscopy

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Microscopy was performed on spinning disk confocal microscope (Yokogawa CSU-X1) set up on a Nikon Eclipse Ti inverted microscope with a 100× ApoTIRF 1.4 NA objective (Nikon) in line with 2× amplification. BODIPY 493/503 fluorophore was exited on 561 nm laser line. Fluorescence was detected by an iXon Ultra 897 EMCCD camera (Andor). Acquired images were processed using FIJI software (http://fiji.sc/Fiji).
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6

Immunofluorescence Staining of S2 Cells

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Transfected S2 cells were fixed with 3.7% formaldehyde in PBS, permeabilized with 0.2% Triton X-100 in PBS, and then blocked in blocking solution (0.2% fish skin gelatin in PBS). Primary and secondary antibodies were applied in blocking solution at room temperature for 1 h each. Nuclei were stained with DAPI. The glass coverslips were mounted in ProlongGold (Life Technologies). Primary antibodies: mouse anti-β-tubulin (E7, Developmental Studies Hybridoma Bank) and rabbit anti-Halo (G9281, Promega). Secondary antibodies: 594 nm anti-rabbit and 680 nm anti-mouse (Jackson ImmunoResearch Laboratories). Images were collected on an inverted spinning disk confocal microscope (Nikon CSU-X1) equipped with a 100x, 1.49 numerical aperture (NA) oil-immersion objective, four diode lasers (405nm, 488 nm, 561 nm and 647 nm), and an EMCCD detector (iXon Ultra 888, Andor). Z-step series were acquired with a z step per image of 500 nm. A focal plane through the mid-nucleus was chosen for display and to directly compare protein localization.
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7

Labeling Confluent Monolayers for Confocal Imaging

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Confluent monolayers were labeled for two hours with SPY650-FastAct (Cytoskeleton Inc) by adding 1x of the probe to growth medium. Immediately prior to imaging, DAPT (10 μM) was added to the culture medium. For the epithelial ducts, 1x SPY650-FastAct (Cytoskeleton Inc) was applied for four hours prior to imaging. All images were acquired on a Yokogawa CSU-X1 spinning disk confocal on a Nikon Ti-E microscope equipped with an imaging chamber equilibrated to 37 °C in 5% CO2 humidified air.
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8

Visualizing Yeast Sec4p Localization

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Yeast cells were grown to an OD600 of 1.0–1.5 in Leu- synthetic complete medium at 25 °C and harvested by centrifugation at 3000 rpm for 1 min. 2 µl of cell suspension was processed for fluorescence microscopy with a Nikon ECLIPSE Ti confocal fluorescence microscope equipped with an Apo TIRF 100×/1.49 oil immersion objective lens. Images were collected with a digital camera (CSU-X1, Nikon) operating with NIS-Elements AR 4.60.00 software (Nikon). Rabbit anti-Sec4p polyclonal antibody diluted to 1:2000 was used for immunofluorescence microscopy.
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9

Imaging Chlamydia-Infected HeLa Cells

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HeLa cells were grown on glass coverslips, infected with Chlamydia, fixed, stained with the indicated primary and fluorophore-conjugated secondary antibodies, and mounted with Vectashield containing DAPI (Vector Laboratories). Images were acquired using Yokogawa CSU-X1 spinning disk confocal mounted on a Nikon Eclipse Ti inverted microscope equipped with an Andora Clara digital camera. Images were acquired and processed using NIS-Elements software 4.10 (Nikon). Quantitations of tubule number/length and colocalization were performed using Nikon Elements. Inclusions were quantified using the Spot function in Imaris. Statistics were performed using Instat software; p-values less than 0.05 were considered statistically significant.
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10

Imaging Macropinosome Dynamics in Migrating Dendritic Cells

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Myosin IIA-GFP knock-in DCs migrating into 5 × 5 μm microchannels coated with 20 μg ml−1 fibronectin were imaged using a spinning disk microscope consisting of Yokagawa CSU-X1 spinning head mounted on an Eclipse Ti inverted microscope (Nikon) equipped with a Coolsnap HQ2 camera (Photometrics) with a × 60 differential interference contrast 0.75 NA taking one image every 10 s. Only the cell middle plan was imaged. Macropinosome velocity was measured over 2 min post formation by detection of its initial and final positions. During the same time frame, myosin IIA enrichment was determined in a region surrounding macropinosomes. To take only into account myosin IIA enrichment above background, myosin IIA patches were considered as clusters bigger than 10 pixels above the mean GFP intensity of the cell front GFP cytoplasmic signal.
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