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36 protocols using plan apochromat 20x 0.8 m27 objective

1

GFP Imaging on Zeiss LSM 780

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Green fluorescent protein images were acquired using a Zeiss LSM 780 microscope using Plan-Apochromat 20x/0.8 M27 objective (Carl Zeiss, Jena, Germany). The excitation wavelength was 488nm with a pixel dwell time of 1.58 μs. We used the frame size of 512 × 512 pixels and each pixel is 0.42 μm.
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2

Immunohistochemistry of En1::cre; Tau.lsl.nLacZ Mice

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Immunohistochemistry was performed as in Bikoff et al, 2016 . Briefly, p0 En1::cre; Tau.lsl.nLacZ mice were transcardially perfused with 4% paraformaldehyde in 0.1M phosphate buffer, followed by a 2 hour postfixation. Tissue was then washed, cryoprotected by equilibration in 30% sucrose in 0.1M phosphate buffer, embedded in OCT and cryostat-sectioned in the transverse plane at 20 μm. Immunohistochemistry was performed on tissue through sequential exposure to primary antibodies (overnight at 4°C) and fluorophore-conjugated secondary antibodies (1 hour at room temperature). Sections were mounted using Fluoromount-G (SouthernBiotech) and coverslipped for imaging. Confocal images were obtained on an LSM 710 Meta Confocal microscope (Carl Zeiss) at 1024×1024 resolution, using a Plan-Apochromat 20x/0.8 M27 objective. See Bikoff et al, 2016 for a description of antibodies used.
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3

Calcium Imaging of Pancreatic Islets

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Islets from GKKI and control mice were left to recover overnight in Islet Medium (RPMI 1640, 11mM Glucose, 10% FBS, with Penicillin-Streptomycin 100 IU-μg/ml). On the day of the experiment, 8 islets per group were transferred to a Petri dish with Krebs-Ringer Bicarbonate buffered medium + 10 mM HEPES (KRBH) at pH 7.40, supplemented with + 0.1 % Bovine Serum Albumin and 1 mM glucose. The cell permeant calcium indicator Cal-590 AM (AAT Bioquest, Inc.) was added to the dish at a concentration of 4 μM, and the dish was set on a shaker at room temperature for 30 minutes. Next, the islets were transferred to a 4-chamber glass bottom dish (D35C4–20-1.5-N, Cellvis) containing KRBH with 0.1 % BSA and 1 mM glucose, and the dish was placed in a stage-top incubator set at 37°C, 5% CO2, 100% humidity for the duration of the experiment. Imaging was performed using a Zeiss LSM880 microscope with a Plan-Apochromat 20x/0.8 M27objective, with the following settings: 561 nm laser excitation, 570–695 nm bandpass filter, pixel size 1.661 μm, pixel dwell time 33.0 μs. After each glucose concentration was added, we waited 6 minutes before starting the 5-minute time-course with one image every 5 seconds. For the study of calcium waves across islets, we employed a pixel size of 1.371 μm and a pixel dwell time of 3.45 μs to acquire images every 42 ms.
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4

Quantifying Neuronal Populations in Stellate Ganglia

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To examine cell counts and distribution, confocal images were taken of whole stellate ganglia (SG). Images were acquired using a Zeiss LSM 900 confocal microscope with a Plan‐Apochromat 20x/0.8 M27 objective in the Advanced Light Microscopy Core (ALMC) at OHSU. Six 1024 × 1024 pixel frames were stitched together in post‐image processing of 25 µm Z‐stacks with optical sections at 1.5 µm intervals to detect AF 488, AF 555, and/or AF 647. Counts of tracer‐ or antibody‐labeled neuron groups within the SG were obtained using Imaris 9.7 software (Bitplane, Oxford Instruments, UK). Images were pre‐processed using a set threshold cutoff filter to reduce background on all channels, and somas with an estimated 20 µm diameter were identified and marked via the automated Spots wizard, then reviewed visually for accuracy.
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5

Histological Analysis of Brain Tissue

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Left brain hemispheres were sliced into 35 μm sagittal sections and placed directly onto superfrost microscope slides (Thermo Scientific). Nuclear staining was performed with DAPI (4′,6-diamidino-2-phenylindole). Images were acquired with Zeiss Axio Imager Z2 microscope (Carl Zeiss Microimaging), equipped with a High Resolution Monochromatic Camera and with Plan-Apochromat 20X/0.8 M27 objective.
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6

Nuclei Fixation and Confocal Imaging

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Isolated nuclei were transferred to 2% PFA diluted in “5:1” buffer (83.0 мМ KCl, 17.0 мМ NaCl, 6.5 мМ Na2HPO4, 3.5 мМ KH2PO4, 1.0 мМ MgCl2) and incubated for 15 min for fixation. PFA was quenched by incubating nuclei for 15 min in a 0.125M solution of glycine diluted in a “5:1” buffer. Fixed nuclei were transferred to individual wells of the 96-well black microplate (Eppendorf, Hamburg, Germany) and kept in 45 µL of PBS. Prior to microscopy, SYTOX Green stain (Invitrogen, Waltham, MA, USA) was added to a final concentration of 0.07 µM.
Confocal laser scanning microscopy was performed by using LSM 780 (Zeiss, Jena, Germany) inverted confocal system supplied with a 488 mm argon laser and Plan-Apochromat 20x/0.8 M27 objective. A Series of optical slices was captured with 1024 × 1024 format followed by 3D reconstruction and image maximum projection views in ZEN Black software (Zeiss, Jena, Germany). Additional processing of digital images was performed by using ImageJ 1.53 (National Institutes of Health, Bethesda, MD, USA) and Photoshop CC 2021 (Adobe, San Jose, CA, USA) software.
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7

Time-lapse Microscopy of Serum-stimulated MEFs

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After 24 hours of serum starvation with 0.5% serum MEFs were restimulated with a final concentration of 10% serum. 6 hours after restimulation the recording was initiated and performed for 42 hours in intervals of 15 minutes. For this an Axiovert Observer Z.1 microscope with an AxioCam MRm camera controlled by the Axiovision software (Zeiss) was used. Movies were recorded with a Plan-Apochromat 20x/0.8 M27 objective (Zeiss) at 37°C and 5% CO2.
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8

Cryopreserved Optic Nerve Head Imaging

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Cryopreserved images were produced on the Zeiss LSM 710 microscope (Carl Zeiss Microscopy, LLC, Thornwood NY) using the Plan-Apochromat 20x/0.8 M27 objective, 40x Plan Apochromat, or the 63x 1.40 NA Plan Apochromat with individual tracks for each laser line (405, 488, 555, 568 and/or 647 nm). Images of the ONH in longitudinal or cross section were collected as tiles or as individual frames using the optimal resolution setting of 1940 x 1940 per frame. Tiles were stitched using Zeiss Zen software.
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9

Quantification of Extravascular Fibrinogen in Murine Cerebellum

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Extravascular fibrinogen in the mice cerebella was quantified by measuring the percentage of surface area positive for fibrinogen staining outside blood vessels, as previously described by Drouin-Ouellet et al. [13 (link)]. Briefly, images of one section per animal corresponding to a similar cerebellar region per animal stained with primary antibodies against CoIV and fibrin were acquired with Plan-Apochromat 20X/0.8 M27 objective in Zeiss Axio Imager Z2 microscope. Subsequently, a magenta mask for CoIV and a yellow mask for fibrinogen staining were obtained with Image J 1.51 h. The masks were then merged in Adobe Photoshop 2017 (Adobe Systems Incorporated) showing the co-localization of CoIV and fibrinogen, which appeared in white (resulting from the merge of magenta and yellow). After removing magenta and white from the image, leaving only extravascular fibrinogen staining in yellow, the percentage of surface area was measured using Image J 1.51 h. Percentage of CoIV surface area was measured using also Image J 1.51 h. Cerebellum sections of 4 MJD and 4 wild-type mice with 16–17.5 months old were analyzed.
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10

Immunohistochemistry Analysis of Smurf2 and KAP1

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These analyses were performed as we previously described [33 (link),38 (link),44 (link)], with some modifications. In brief, the tissues obtained from Smurf2KO (Smurf2−/−) and littermate WT control mice were fixed in 4% paraformaldehyde, embedded in paraffin blocks, and sectioned using Leica RM2235 microtome to prepare 5 μm tissue sections. Human normal and breast cancer TMAs (FDA999m and BR804a, respectively) were purchased from US Biomax, Inc (Rockville, MD, USA). Immunohistochemical staining was conducted using anti-KAP1 (A300-274A, Bethyl laboratories, Montgomery, TX, USA, 1:1000) and anti-SMURF2 (sc-25511, Santa Cruz, 1:100) antibodies. All comparable samples were layered on the same slide and all staining procedures were carried out on horizontally positioned samples. Images were captured using Axio Scan.Z1 (Zeiss) through Plan-Apochromat 20x/0.8 M27 objective. The comparative images were acquired under identical settings. TMAs were scored for staining intensity and percentage of positively-stained cells by an experienced pathologist—Biagio Paolini (Istituto Nazionale dei Tumori, Milan, Italy)—using the standard scoring system: 0 ≤ 10%; 1 = 10–24%; 2 = 25–49%; 3 = 50–74%; 4 = 75–100%.
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