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15 protocols using cell a imaging software

1

Assessing Neuro2a Cell Viability after Transfection

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To determine Neuro2a cell viability after transfection with α7 nAChR, the chaperone NACHO and a calcium sensor Case12-coding plasmids, cells were incubated with 20 nM tetramethylrhodamine ethyl ester (TMRE, Invitrogen, USA) for 20 min and then washed with the buffer containing 140 mM NaCl, 2 mM CaCl2, 2.8 mM KCl, 4 mM MgCl2, 20 mM HEPES, 10 mM glucose; pH 7.4. Identification of the non-viable cells was performed by staining with propidium iodide (50 ng/ml, BD Biosciences, USA) for 5 min followed by brief washing with the buffer. The bright field and fluorescent pictures were taken with an epifluorescence microscope (Olympus, Japan) and processed with CellA Imaging Software (Olympus Soft Imaging Solutions GmbH, Germany) and open-source applications CellX and Image J.
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2

Calcium Imaging of α7 nAChR Activation

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Cells transferred to poly-L-lysine covered glass slips were incubated for 2 h at 37 °C. The cells adhered to glass were further incubated with Fluo-4AM given at 2 mM and organic anion transporter inhibitor probenecid at 1.25 mM for 1 h at room temperature. After incubation, cells were washed out with extracellular solution (140 mM NaCl, 2 mM CaCl2, 2.8 mM KCl, 4 mM MgCl2, 20 mM HEPES, 10 mM glucose; pH 7.4). The last wash-out was supplied with 10 µM PNU 120,596 (an α7 nAChR positive allosteric modulator), and, then, Fluo-4 was excited at 485 nm and fluorescence registered at 535 nm. The measurements were performed on Olympus (Japan) epifluorescence microscope with a CAM-XM10 charge-coupled device (CCD). CellA Imaging Software (Olympus Soft Imaging Solutions GmbH, Germany) was used to record video further analyzed with ImageJ. PNU 282,987 (1 µM) was added directly to the cells preparations. The α7 nAChR inhibition was achieved by 10 µM α-bungarotoxin application 5 min before adding the agonist PNU 282,987. The calcium rise was measured relative to the fluorescence base level of each cell.
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3

Fluorescent Staining of Transfected nAChRs

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To assess cell expression of WT or mutant α7 and muscle nAChRs, the transfected Neuro2a cells plated on glass coverslips or on black 96-well plates with transparent glass or film bottom (Eppendorf, Germany) were stained with Alexa-Fluor 555-conjugated α-bungarotoxin (50 nM) for 20 min at room temperature. Cells were washed extensively with a buffer containing 140 mM NaCl, 2 mM CaCl2, 2.8 mM KCl, 4 mM MgCl2, 20 mM HEPES, 10 mM glucose; pH 7.4. to remove any unbound toxin. Fluorescent staining was observed with an epifluorescence microscope (Olympus, Japan). Controls were run simultaneously with 100-fold molar excess of unlabeled α-cobratoxin (purified from Naja kaouthia venom). Pictures were taken and processed with CellA Imaging Software (Olympus Soft Imaging Solutions GmbH, Germany) and open-source applications CellX and Image J.
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4

Fluorescence Labeling of α7 nAChR

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One day before the transfection, Neuro-2a cells were applied to coverslips and placed inside 35-mm cell culture dishes with 2 ml of Eagle’s medium. Transfection medium contained cDNA of human α7 nAChR (3 mg/ml) and the Lipofectamine 2000 transfection reagent (Invitrogen, Thermo Fisher Scientific). The cDNA-containing solution was replaced by cell culture medium 6–8 h after the transfection.
Cryostat 10 μm-thick sections of rat tongue were fixed with isopropanol for 10 min at 4°C, rinsed with PBS and distilled water, air dried for 1 h (all further procedures were carried out at room temperature) and incubated for 1 h with PBS, pH 7.4, containing 10 mg/ml BSA and 5 ml/L Tween 20 to block unspecific binding of toxins. The sections were pre-incubated for 1–2 h in buffer A (1 mg/ml BSA and 150 mM NaCl in PBS). Controls were run simultaneously by adding 300-fold excess of unlabeled α-CbTx (unless specified otherwise). Then, AF555–α-BgTx was added to the slides to reach 50 nM final concentration and they were incubated for 1–15 h. Sections were subsequently washed with PBS, fixed with 40 mg/ml paraformaldehyde for 10 min, rinsed with PBS again and coverslipped in carbonate-buffered glycerol at pH 8.6. The slides were analyzed using CellA Imaging Software (Olympus Soft Imaging Solutions, Germany) coupled to epifluorescent microscope with cooled CCD CAM-XM10 (Olympus, Japan).
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5

Monitoring Intracellular Calcium Dynamics in Neuro2a Cells

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For measurements of intracellular calcium concentration [Ca2+]i changes, transfected Neuro2a cells plated on glass coverslips were perfused at room temperature with the buffer containing 140 mM NaCl, 2 mM CaCl2, 2.8 mM KCl, 4 mM MgCl2, 20 mM HEPES, 10 mM glucose; pH 7.4. Expression of Case12, a fluorescent genetically encoded sensor of calcium ions (ex/em = 491/516 nm), allowed direct monitoring of changes in [Ca2+]i using an epifluorescence microscope with an appropriate filter combination and a CAM-XM10 cooled CCD camera (Olympus, Japan). Videos were made and processed using CellA Imaging Software (Olympus Soft Imaging Solutions GmbH, Germany), Image J, CellX, and OriginPro 7.5 software (OriginLab, MA, USA, for statistical analysis). The cells were exposed to acetylcholine iodide (Sigma, Germany), epibatidine (Tocris, UK), and α-cobratoxin purified from Naja kaouthia venom, and changes in Case12 fluorescence were recorded from each cell independently. To increase the registered changes, all ligand solutions contained the α7 nAChR positive allosteric modulator PNU120596 (10 μM, Tocris, UK). To allow recovery of the cells, the washing steps lasted 5–10 minutes. All recordings were made at room temperature.
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6

Quantitative Histopathological Analysis of Demyelination and Axonal Damage

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Tissue sections were viewed with an Olympus BX-50 microscope and images captured with an Olympus DP71 microscope digital camera using cell^A imaging software (Soft Imaging System GmbH).
Quantitative histopathological analysis was performed in midline corpus callosum, unless otherwise stated using Image J software. Demyelination was measured as loss of LFB staining in coronal sections of whole corpus callosum using a semi quantitative method, as described [11, 12] , and loss of CNPase immunostaining in the midline corpus callosum by densitometry. Axonal damage was measured as the numbers of positive APP-stained spheroids per mm 2 tissue, and loss of SMI 31 immunostaining by densitometry. Microglia and astrocyte responses were measured as the area covered by Iba1-and GFAPimmunoreactivity, respectively. AIF levels were measured as the area covered by AIF-immunoreactivity, and CD3 + T lymphocytes were counted as cells/mm 2 . Autophagy induction was measured as the numbers of LC3 puncta/LC3-immunoreactive cell in (lateral) corpus callosum area as previously described [38], using a macro developed in Fiji software. Fifty LC3-immunoreactive cells were analyzed for each condition (CPZ0 and CPZ5 control and nTNFR1KO mice).
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7

Histological Analysis of Liver and Pancreatic Tissues

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Liver histology was analyzed from formalin-fixed samples embedded in paraffin, sectioned (5 µm) every 200 µm on microscopic slides, stained with hematoxylin and eosin (H&E) or periodic acid-Schiff (PAS), and analyzed under a standard light microscope. Hepatosteatosis was graded according to (Cabezas et al. 2012) . Liver cryosections (10 µm) were stained with Oil Red O (ORO) to visualize the lipid droplets. Pancreatic sections were stained with H&E. The areas of the islets of Langerhans (n = 69-115/group) were measured using the Cell*A imaging software (Soft Imaging System, Münster, Germany). Rabbit anti-insulin (sc-9168, Santa Cruz Biotechnology, Inc.) polyclonal antibody (1:500 dilution) was used for immunohistochemical staining of the beta cells. The average area of the stained islets (n = 5-15/slide) was analyzed with ImageJ 1.48v (National Institute of Health, USA). The number of islets in a representative slide was calculated, and the islets were grouped according to their size.
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8

Quantifying Neuronal Growth Cone Collapse

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Fluorescent images were captured on an upright BX51 fluorescent microscope (Olympus, Japan) equipped with cell^A Imaging software (Olympus, Japan). For the quantification of collapsed growth cones, 10 DRG explants from each experimental group (in which at least 40 single identifiable growth cone per DRG had been analyzed) were scored as collapsed (growth cones without lamellipodia or with <2 filopodia or bullet-shaped) and non-collapsed (growth cones with the presence of lamellipodia and or ≥2 filopodia) as described by Kapfhammer, Xu, and Raper (2007) (link). Data are presented as the percentage of the collapsed growth cones to the total number of scored growth cones per DRG.
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9

Immunohistochemical Analysis of CRTH2 and CD4+ T Cells in Colon Tissues

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Paraffin-embedded sections of human colon from CD patients and controls were cut (5 μm) and deparaffinized. For immunohistochemistry, sections were microwaved for 2 × 5-min cycles in 10 mM citrate buffer, and processed by ABC method according to the manufacturer’s protocol (Vectastain ABC kit; Vector Laboratories, Burlingname, CA, USA). Sections were incubated with rabbit anti-CRTH2 (1:200; Acris Antibodies, Herford, Germany) 11 (link), visualized with 3-3′-diaminobenzidine (DAB) and counterstained with hematoxylin. CD4+ T cells were stained with a monoclonal mouse anti-human CD4 (clone 4B12; dilution 1:20; Labvision, Fremont, USA) as recommended by the suppliers. Images were taken with a high resolution digital camera (Olympus DP 50) and analyzed by Cell^A imaging software (Olympus, Vienna, Austria). Only contrast and brightness of images were adjusted. Sirius Red (Direct Red 80®, Sigma) was used to stain eosinophils in deparaffinized sections.
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10

Immunohistochemical and RNA Detection in Colon

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Colon sections were stained as described previously8 (link). The following antibodies were used: COX-2 (ab15191, 1:2000), STAT3 (CST 4904, 1:500), and CD3 (ab5690, 1:1000). Antibody binding was visualized with ImmPACT NovaRed (Vector Laboratories) and sections were counterstained with hematoxylin. Images were taken with a high resolution digital camera (Olympus DP 50) and analyzed by Cell^A imaging software (Olympus, Vienna, Austria). Only contrast and brightness of images were adjusted.
For cellular detection of GPR55 mRNA in colonic sections, RNAscope® 2.5 Chromogenic Assay with RNAscope® mouse GPR55 probe (#318231; ACD Advanced Cell Diagnostics, Hayward, CA, USA) was used according to the manufacturer’s instructions.
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