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11 protocols using axiocam mr digital camera

1

In Vitro Endothelial Cell Spheroid Assay

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Endothelial-cell spheroids were generated as described previously (36 (link)–39 (link)). Briefly, HUVEC were suspended in culture medium containing 0.2% (w/v) carboxymethylcellulose (Sigma-Aldrich) and seeded in round-bottom 96-well plates (Greiner, Germany) to form spheroids. When siRNA transfection was performed, spheroids were formed 24 h after the transfection of HUVEC with Del-1 siRNA or control siRNA. The following day, spheroids were embedded into rat collagen I (BD Biosciences, Germany) containing gels; after gel polymerization, cells were treated with bFGF-containing medium (bFGF, 30 ng/mL; PeproTech, Hamburg, Germany). After 24 h, images were acquired using an Axiocam MR digital camera with an Axiovert 100M inverted microscope using as objective a Plan-NEOFLUAR (at 10x/0.30) and were processed using AxioVision Rel 4.5 digital imaging software (all from Carl Zeiss, Jena, Germany). In vitro capillary sprouting was quantified by measuring the cumulative sprout length of each spheroid using a computer-assisted microscope (AxioVision 4.5 software, Carl Zeiss) and the mean cumulative sprout length of 10 spheroids/condition was calculated.
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2

Investigating Epigenetic Changes in HEK-293T Cells

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HEK (human embryonic kidney)-293T cells were purchased from the A.T.C.C. (Manassas, VA, U.S.A.) and maintained in Dulbecco’s modified Eagle’s medium/nutrient mixture F-12 (Gibco) supplemented with 10 % FBS. Cells (5 × 105) were seeded in each well of a six-well plate in 2 ml of medium. Inhibitors were added to each well at a final concentration of 0.2, 1, 5, 10 or 15 μM in the presence of 1 % DMSO. For the control sample only 1 % DMSO was added to the well. Cells were trypsinized after 48 h and deposited on to microscope slides by cytospin (200 rev./min for 10 min). For GFP visualization, cells were transfected using Lipofectamine 2000 according to the manufacturer’s protocol (Invitrogen). Transfected HEK-293T cells were FACS-sorted on the basis of GFP intensity (BD FACSAria II). Cytospinning, fixation and immunofluorescence were performed as described previously [27 (link)]. The primary antibodies used for immunofluorescence include anti-H3K9me3 (catalogue number 07-523; Millipore), anti-H4K20me3 (histone H4 trimethylated at Lys20; catalogue number 39180; Active Motif) and anti-HP1γ (catalogue number MAB3450; Millipore). Images were collected on a Zeiss Axiovert 200 imaging system equipped with an Axiocam MR digital camera controlled by AxioVision software or on a Zeiss LSM Pascal confocal microscope.
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3

Immunostaining of Serotonergic Cortical Neurons

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Mice were anesthetized by intraperitoneal injection of Avertin (400 mg/kg) prior to transcardial perfusion with phosphate-buffered saline (PBS) followed by 4% paraformaldehyde (PFA) in 0.1 M phosphate buffer. The brains were removed, post-fixed overnight in 4% PFA, and sectioned in the coronal plane at 40 μm thickness. To obtain tangential sections of sensory cortices, the neocortical sheets were flattened between two glass slides, post-fixed, and sectioned tangential to the pial surface at 50 μm thickness. Free-floating sections were used for immunostaining with the following antibodies: rabbit α-5-HT (1:50, Dr. W.M. Steinbusch, University of Limburg, the Netherlands), mouse α-Satb2 (1:1000, Abcam), rabbit α-SERT (1:1000, Millipore), and guinea pig α-Vglut2 (1:2000, Millipore). Immunostaining of the proteins and 5-HT was visualized by using Alexa Fluor 488 or 568 conjugated secondary antibodies. Sections were counterstained with DAPI to detect cell nuclei. Fluorescence images were captured using an Axiocam MR digital camera attached to an AxioImager Z1 microscope (Zeiss). For all the experiments, SERT mutant and control littermates were always analyzed in parallel.
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4

Telomere Dynamics by Simultaneous FISH and IF

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Simultaneous FISH against hTR and telomeric DNA, with or without immunofluorescence for TRF1, was performed as previously described (Stern et al., 2012 (link)), with the exception that cells were fixed in 2% paraformaldehyde. Antibodies used for immunofluorescence were Myc-tag antibody (Cell Signaling, cat. no 2276; diluted 1:1,000) and polyclonal rabbit anti-TRF1 antibody (#370, de Lange lab; diluted 1:2,000). Staining was visualized on a Zeiss Axio Imager M1 microscope, with a Plan-Apochromat 63× oil objective (numerical aperture, 1.4), and an AxioCam MR digital camera (Carl Zeiss). Exposure times between treatments were consistent. For presentation purposes, pixel intensity histograms were adjusted in ZEN (Carl Zeiss), equally across all figure panels, and images were cropped in Adobe Photoshop. Colocalizing hTR and telomere foci were manually counted in >100 cells per treatment, and data were analyzed by Student t test for pairwise comparison.
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5

Microscopic Analysis of Nematode Response

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40–60 WT L4 worms were grown on NGM plates seeded with Bcc or E. coli OP50 propagated in standard growth conditions. Plates were incubated at 20°C, and after 4 and 24 h, the nematodes were inspected using a Zeiss Axioskop microscope equipped with Differential Interference Contrast (DIC) employing 10x, 20x, 40x, 63x and 100x objectives and 10X eyepiece. Images were collected with a Zeiss Axiocam MR digital camera.
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6

Antifungal Activity Assay of Recombinant Proteins

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For testing the antifungal activity of the recombinant produced proteins, A. niger was used as a sensitive test organism. Susceptibility tests were carried out in 96-well, flat-bottom microtitre plates (Nunclon Delta, Thermo Scientific, Waltham, MA, USA) as described before [55 (link)]. Briefly, 5 × 103 conidia/mL were incubated in 0.05 × PDB with increasing concentrations of APs (0–800 µg/mL) in a total volume of 200 µL. The plates were incubated at 30 °C for 48 h and the growth was monitored microscopically using an inverted microscope (Leica DM IL Led, Leica Microsystems, Vienna, Austria) equipped with an AxioCam MR digital camera (Zeiss, Jena, Germany) for imaging. The images were processed with AxioVision software (Zeiss, Jena, Germany). The MIC was defined as the minimal protein concentration that inhibited fungal growth by ≥90%. Experiments were prepared in triplicates and performed at least three times.
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7

Transfection and Immunofluorescence of HEK293T Cells

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HEK293T cells were purchased from ATCC and maintained in DMEM/F12 medium (Gibco) supplemented with 10% FBS. Cells were transfected using Lipofectamine 2000 according to the manufacturer’s protocol (Invitrogen). Transfected 293T cells were FACS sorted based on GFP intensity (BD FACSAria II), and immunofluorescence was performed as described (Musselman et al., 2012b (link)). Images were collected on a Zeiss Axiovert 200 imaging system equipped with an Axiocam MR digital camera controlled by AxioVision software.
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8

Immunostaining of GATA3 in Cells

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Cells were grown on glass coverslips in six-well tissue culture dishes. They were fixed with 4% formaldehyde in PBS for 10 min, washed with PBS, and permeabilized with 0.1% Triton X-100 for 2 min, washed with PBS, and blocked with 5% BSA in PBS. The coverslips were incubated with the anti-GATA3 antibody (Cell Signaling Technology) for one hour, washed with PBS, incubated with the secondary antibody (Alexa Fluor 568, Life Technologies, Grand Island, NY, USA) for one hour, washed with PBS, and mounted on glass slides with mounting medium containing 4′,6-diamidino-2-phenylindole (DAPI). The slides were examined and photographed using a Zeiss Axiovert 200 M microscope equipped with an Axiocam MR digital camera controlled by AxioVision software (Zeiss, Thornwood, NY, USA).
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9

Corneal Epithelial Cell Wound Healing

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In-vitro wound healing scratch assay was performed using confluent monolayer corneal epithelial cells. Primary human corneal epithelial cells were grown to confluence on collagen coated plates. For migrating group of cells, a linear scratch a cell free area (abrasion 1 mm) was made using a sterile 200-lL pipette tip33 (link) while unscratched cells (non-migrating) were used as control group. Immediately after the scratch at 0, 6, 12, 18, 24, 36, 42 and 48 hours images of the scratch area were captured using the Zeiss AxioCam MR digital camera on a Zeiss Axioskop2 light microscope (Carl Zeiss). The remaining wound area was measured using ImageJ software, provided in the public domain at http://rsb,info.nih.gov/ijnih.gov, Bethesda, MD.
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10

Wound Closure Assay with miR-639

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C666-1 and NPC/HK1 cells were grown in RPMI-1640 supplemented with 10% FBS to 70–80% confluence. Following transfection with miR-639 mimics, antagomir or scramble control for 24 h, a 200-µl pipette tip was used to make a straight scratch on the culture, followed by washing with Hanks medium (Beyotime Institute of Biotechnology, Haimen, China) until no floating cells were present. The scratched cultures were then maintained in serum-free RPMI-1640 media (Thermo Fisher Scientific, Inc.). Images were captured immediately and at 24 h using the Zeiss AxioCam MR digital camera on a Zeiss Axioskop2 light microscope (magnification, ×200; Carl Zeiss AG, Oberkochen, Germany). The remaining wound area was measured using ImageJ 1.50 g software (National Institutes of Health, Bethesda, MD, USA) and normalized to the original wounds.
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