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8 protocols using eight well chambered cover glasses

1

Visualizing Amyloid-beta Uptake in Neuronal Cultures

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Mouse primary cortical neurons were cultured on eight-well chambered cover glasses (Nalge Nunc International, Rochester, NY). After incubation with FAM-Aβ42 (500 nM) at 37 °C for 6 h, together with or without apoE3 particles (200 nM) in the presence or absence of heparin (15 U/ml), fluorescence associated with Aβ was observed by confocal laser-scanning fluorescence microscopy (model LSM510 invert; Carl Zeiss, Jena, Germany). LysoTracker (50 nM; Invitrogen) was added to determine lysosome-Aβ colocalization 30 min before confocal imaging.
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2

Quantifying Nanoparticle Uptake Kinetics in Live Cells

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Cells were grown on eight-well chambered coverglasses (Nunc, Langenselbold, Germany) overnight (37 °C, 96% humidity and 5% CO2). After washing with PBS, cell membranes were stained with 0.25 µg/mL CellMaskTM DeepRed (Invitrogen) in PBS for 5 min and washed twice with PBS. For observing NP uptake kinetics, cells were incubated with PBS containing NPs at specified concentrations (QDs, 10 nM; anionic and CPS, 75 µg/mL; cationic and NPS, 7.5 µg/mL). AuNCs were suspended in serum-free DMEM at 20 µg/mL. Live cell imaging was performed for up to 2 h with our spinning disk laser scanning confocal microscopy systems [29 (link),31 (link)]. Images were acquired in two separate color channels. NP emission was collected through a bandpass filter (AHF, Tübingen, Germany). Detailed information on the experimental conditions is given in Table 3. Suitable control experiments were performed to ensure negligible crosstalk between the two channels. Images were quantitatively analyzed using the software ImageJ [51 ]. The fluorescence intensity of NPs in each cell was obtained by normalizing the integrated intensity by the cell area. The cell membrane and the intracellular region were identified based on the membrane staining.
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3

Fluorescence Correlation Spectroscopy Protocol

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Eight-well chambered coverglasses (Nunc, Rochester, NY) were prepared by plasma cleaning followed by incubation over night with polylysine-conjugated polyethylene glycol (PEG-PLL), prepared using a modified Pierce PEGylation protocol (Pierce, Rockford, IL). PEG-PLL coated Chambers were rinsed with and stored in Milli-Q water until use. FCS measurements were done on a lab-built instrument based on an Olympus IX71 microscope with a continuous emission 488 nm DPSS 50 mW laser (Spectra-Physics, Santa Clara, CA). All measurements were done at 20 °C. The laser power entering the microscope was adjusted to 4.5 μW. Fluorescence emission collected through the objective was separated from the excitation signal through a Z488rdc long pass dichroic and an HQ600/200 m bandpass filter (Chroma, Bellows Falls, VT). Emission signal was focused through a 50 μm optical fiber. Signal was amplified by an avalanche photodiode (Perkin Elmer, Waltham, MA) coupled to the fiber. A digital autocorrelator (Flex03Q-12, correlator.com, Bridgewater, NJ) was used to collect 30 autocorrelation curves of 30 seconds for each measurement. Fitting was done using MATLAB (The MathWorks, Natick, MA).
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4

Multispecies Biofilm Growth on Saliva-coated Surfaces

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Biofilms were grown in eight-well chambered coverglasses (Nunc, Rochester, NY) pre-coated with 100μl of 50% saliva diluted in ddH2O that was centrifuged for 5 min at 10,000 x g to remove debris. The chambers were UV sterilized for 1hr before inoculation. Overnight cultures of F. nucleatum (~107 cells), S. sanguinis and S. gordonii (~105 cells) were inoculated into the growth chamber wells containing 400μl of filter-sterilized BHI saliva broth (BHIS: 25% BHI and 25% saliva). Samples were incubated overnight under anaerobic conditions (5% H2, 5% CO2, 90% N2) at 37°C. After 22–24hrs samples were fluorescently labeled with the nucleic acid staining dye SYTO9 (Invitrogen, Carlsbad, CA) and visualized using a PASCAL 5 confocal laser scanning microscope (CLSM) (Zeiss, Jena, Germany). The scanning module of the system was mounted onto an inverted microscope (Axiovert 200M) and samples were viewed through a 40x oil-immersion objective (Achroplan/N.A. 1.3). Excitation of 488nm with an argon laser in combination with a 505–530nm bandpass emission filter was used for SYTO9 fluorescence imaging.
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5

Photodynamic Therapy and DOX Delivery in MCF-7 Cells

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MCF-7 cells were seeded onto Eight-well chambered coverglasses (Lab-Tek, Nunc, USA) with a density of 1 × 104/well. After overnight culturing at 37 °C, medium was replaced by fresh medium containing ICG-TSL (Containing 19.3 μg/mL ICG). After 4 h incubation and laser irradiation (808 nm, 1 W/cm2, 5 min), the cells were washed for thrice and stained by LysoTracker Green DND-26 (Life technologies, USA), Hoechst 33258 (Invitrogen, USA) and fixed with 4% paraformaldehyde. Finally, the subcellular localization were observed using CLSM (TCS SP5, Leica, Germany). Similarly, MCF-7 cells were seeded onto 24-well plates with a density of 4 × 104/well. After overnight culturing at 37 °C, medium was replaced and cells were respectively incubated with blank medium, medium containing 4 μg/mL free DOX, and medium containing DI-TSL (containing 4 μg/mL DOX). The DOX FL of MCF-7 cells with or without laser treatment was quantitatively evaluated by Flow cytometry.
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6

Live Confocal Imaging of Liver Tissue

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Liver wedge biopsies were taken during the back-table preparation. All biopsy samples were placed in HTK solution (Custodiol®, Dr. Franz Köhler Chemie GmbH, Bensheim, Germany) on ice for transportation prior to analysis.
Real-time live confocal microscopy assessment was performed using the following live stains: Wheat germ agglutinin conjugate (WGA; Molecular Probes, Eugene, OR, United States; 10 μg·mL−1 final concentration) visualizes the tissue morphology, SYTO®16 (Molecular Probes; final concentration 5 µM) visualizes all nuclei and propidium iodide (PI) (Molecular Probes; final concentration 500 nM) the nuclei of dead cells [20 (link)]. Incubation time was 15 min at 37°C. Real-time live confocal imaging was performed in eight-well chambered cover glasses (Nalge Nunc International). Images were acquired with a spinning disk confocal system (UltraVIEW VoX; Perkin Elmer, Waltham, MA) connected to a Zeiss Axio Observer Z1 microscope (Zeiss, Oberkochen, Germany) and visualized employing the Volocity software (Perkin Elmer) using a ×10 objective. Time for readout was approximately 5 min per sample.
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7

Imaging Mitochondria with Rho-bpy, Ir-Rho, and Ir-Rho-G2

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MCF-7 cells (5000 cells) were cultured in eight-well chambered coverglasses (Lab-Tek, Nunc, USA) for 24 h. Later, the cells were incubated with Rho-bpy, Ir-Rho, Ir-Rho-G2 (final concentration = 5 μM). After incubation for 30 min, the cells were treated with MitoTracker for 10 min to specifically stain the mitochondria (1 : 5000 dilution in PBS). After washing three times with PBS, confocal microscopy imaging was performed.
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8

Dissociated Hippocampal Neuron Culture

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Primary cultures of dissociated hippocampal neurons were prepared basically as previously described (Ichinose et al., 2015; Kaech and Banker, 2006) . The dissociated hippocampal neurons at E17.5 were plated onto eight-well chambered cover glasses (Nunc) precoated with polyethyleneimine and poly-L-lysine at a density of 1.5 3 10 4 cells/well in 0.3 mL of MEM (GIBCO) supplemented with 10% horse serum, 1 mM pyruvate, 0.6% glucose, and 2 mM GlutaMAX (GIBCO) in a 5% CO 2 atmosphere. After 3-4 h of incubation, the culture medium was substituted with MEM supplemented with 1 mM pyruvic acid, 0.6% glucose, 2 mM GlutaMAX, and 2% B27 (GIBCO). The pyramidal neurons were selected based on their morphology and by negative anti-Prox1 immunostaining and used for the analyses.
The primary culture of cortical neurons was performed as previously described (Ichinose et al., 2019) .
For pharmacological treatment, 500 mM betaine (Wako), 500 mM pyridoxamine (Sigma-Aldrich), and 200 mM glyoxal (Wako) were added to the culture media during the first 24-h period after plating.
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