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49 protocols using axiocam icm1

1

Fluorescence Microscopy Imaging Protocol

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All samples were observed under a fluorescence microscope (Axioscope A1 with phase contrast and epi-fluorescence, Zeiss) equipped with a camera (AxioCam ICm1, Zeiss), using three different filters: Filter Set 49 DAPI (Excitation G 365, Emission BP 420/470); Filter Set 10 FITC/GFP (Excitation BP 450–490, Emission BP 515–565); and Filter Set 15 Rhodamine (Excitation BP 540–552, Emission LP 590).
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2

Tissue Sectioning and Histological Analysis

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BATs were embedded in O.C.T. compound and flash frozen with liquid nitrogen. The specimens were sectioned into 5 µm and fixed in 10% buffered formalin followed by H&E (hematoxylin and eosin) staining. The stained sections were micrographed using a digital camera (AxioCam ICm 1, Zeiss, Germany) attached to a microscope (Axio Observer.A1, Zeiss, Germany).
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3

Evaluating Endothelial Viability in MOx Assemblies

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In general, for our MOx assembly, one in vitro endothelialized HFM patch was sandwiched between multiple silicone and steel frames under ambient air exposure (Figure 1E) until the MOx was closed and gently filled with culture medium. In accordance with our experiences, endothelialized HFM patches were exposed to ambient air for 1, 5 and 10 min to assess the effect of air exposure on EML viability caused by the time needed for single- or rather multi-layer MOx assembly. Afterwards, HFM patches were directly placed into new dishes for fluorescence microscopical assessment of viable ECs using 1 µM calcein AM (Sigma-Aldrich, Taufkirchen, Germany) and 10 µg/mL Hoechst 33342 (Sigma-Aldrich, Taufkirchen, Germany) for 30 min at 37 °C in EGM-2. Images were acquired with a ZEISS SteREO Discovery V8 microscope (ZEISS, Jena, Germany) equipped with a camera (AxioCam IcM1, Zeiss, Jena, Germany).
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4

Phase Contrast Microscopy Sample Preparation

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For phase contrast microscopy 5 x 10⁶ events were sorted in 15 mL tubes coated with 5% BSA (Carl Roth, Germany). Sorted samples were transferred in 20 mL centrifugal concentrators of 30 kDa molecular cutoff and centrifuged at 3,400 x g for 5 min. Agarose pads were prepared on glass slides with 1% agarose standard (Carl Roth, Germany). Microscopy slides were prepared by pipetting 3 μL of the concentrated sample suspensions on top of the agarose pads placed on glass slides and covering with glass coverslips. Samples were observed with Axio Vert.A1 (Carl Zeiss) inverted microscope equipped with 100 x oil immersion objective and 10 x ocular magnification. Images were captured with AxioCam ICm1 (Carl Zeiss) camera using ZEN lite 2011 software (Carl Zeiss).
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5

Imaging membrane potential and Ca2+ dynamics

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Zeiss spinning disk confocal microscope (Axio Observer Z1, ×40 objective) was used for time courses of membrane potential (Arclight) and intracellular [Ca++] in H9c2 cells. For excitation, Yokogawa fibre was used at 488 nm, with emission collected at 506 nm.
Zeiss AxiovertC epifluorescent microscope (×40 objective) with a Zeiss AxioCam ICM1 was used for time courses of intramitochondrial [Ca++] (CEPIA and GECO) and membrane potential (Arclight or DIBAC4(3)) with excitation by a HBO50 mercury lamp with a 470 nm/515 nm Ex/Em filter block for green and a 546 nm/608 nm Ex/Em block for red fluorescence. Intensity was measured in ImageJ following background subtraction. For each measured field, one well, or one 20mm dish, was used. Each field was chosen at random. Visual fields measured 156μm×156μm (confocal) or 460μm×345μm (widefield). For each repeat, 2–5 fields were processed and the average normalised intensity measured (ImageJ). Data are presented as the mean and standard error of the mean (SEM) of at least 4 repeats.
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6

Bead Encapsulation Quantification Protocol

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The suspension hopper
is a modified pipet tip (L-200, Rainin Instrument,
Oakland, CA). The filter was excised from the tip, and a PDMS plug
(4 mm diameter) was cemented into the larger end with uncured PDMS.
Once filled with a bead suspension, the hopper was inserted into the
LIB inlet downstream from BUF inlet. Image acquisition utilized an
inverted fluorescence microscope (5×, 0.12 NA, AxioCam ICm1,
Zeiss). As the beads settled into the circuit, 10 images were captured
(1 Hz) every 10 min for up to 6 h (Figure S1, Supporting Information). Image data were analyzed (ImageJ,
NIH, Bethesda MD) to tally droplets encapsulating 0 beads, 1 bead,
2 beads, etc.
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7

Visualizing Viral Infection by Microscopy

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Virus infection was visualized by microscopy, and representative images (bright field and fluorescence) at 200× magnification were captured using an Axiovert 40 CFL microscope (Carl Zeiss, Oberkochen, Germany) with an AxioCam ICm1 attached to the microscope.
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8

Microscopic Imaging and Angiography Protocol

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Fixed specimens were mounted in glycerol, life embryos were mounted in low-melting agarose and bright field pictures were taken with a Leica MZ16 microscope equipped with a Leica DFC300FX camera. Images were processed with Gimp (http://www.gimp.org) without obstructing any original data. Movies were captured with a Zeiss Axiovert 40 equipped with a Zeiss Axiocam ICM1 and angiograms were calculated with ImageJ using a previously published protocol [17 (link)]. To avoid unspecific effects, tricaine was not added for angiogram experiments. Data are expressed as mean ± SD. Statistical significance was revealed using two-tailed Student’s T-test. *p < 0.05; **p < 0.005; and  ***p < 0.0005.
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9

Evaluating Vacuole Origin in Treated Cells

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Evaluation of the origin of the vacuoles observed in treated cells by phase contrast microscopy was carried out using various fluorescent probes, i.e., LysoTracker®, ER-Tracker® and MitoTracker® (Molecular Probes, Life Technologies (Merelbeke, Belgium), as described by Colin et al. [121 (link)]. Briefly, U373 cells were seeded on glass coverslips placed in 6-well plates (Sarstedt) at least 24 h prior to the experiment to allow them to adhere and grow. Cells were then treated with the MeOH extract (70 μg/mL) or the EtOAc subfraction (40 μg/mL). During the last hour of treatment, the probes were added to the culture medium as follows: LysoTracker® (75 nM), MitoTracker® (300 nM) or ER-Tracker® (0.5 µM). At the end of the incubation period, the coverslips were removed and washed in cold PBS before mounting them on microscope coverslips to take pictures of living cells with an Imager M2 fluorescence microscope coupled with the AxioCam ICm1 and AxioImager software (Carl Zeiss, Zaventem, Belgium).
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10

Endothelial Cell Viability Assay on HFM

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Endothelial monolayer confluence on the HFM was assessed by 25 µM cell tracker green staining (Thermo Fisher Scientific, Dreieich, Germany) in serum-free EBM-2 for 45 min. In order to assess EC viability on AH and FN coated HFM, samples were stained for 30 min in EGM-2 containing the DNA-intercalating dye Höchst33342 (10 µg/mL) and 1 µg/mL calcein-am, or rather calcein red (Sigma-Aldrich, Taufkirchen, Germany), if ECs were already labeled with cell tracker green. Images were acquired using the Fluorescence-Stereomicroscope (StereoDiscovery V8, Zeiss, Jena, Germany) equipped with the camera (AxioCam ICm1, Zeiss, Germany).
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