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8 protocols using celltracker red cmptx dye

1

Zymosan-Induced Peritoneal Macrophage Isolation

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In addition, we observed the above phenomena using confocal microscopy (TiEA1R, NIKON INSTECH Co. Ltd., Tokyo Japan) under the conditions of with or without AIM coating. Debris was stained with FVD520 (eBioscience). The peritoneal cells derived from the zymosan model mice were stained with APC anti-mouse F4/80 antibody (BioLegend, San Diego, CA) and incubated with Anti-APC microbeads (Miltenyi Biotec). F4/80 positive cells were separated using a MACS LS column (Miltenyi Biotec) stained with CellTracker™ Red CMPTX Dye (10 µM) (Thermo Fisher Scientific).
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2

Cell Migration Assay with FluoroBlok Inserts

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For migration assays, Corning® FluoroBlok™ Cell Culture Inserts with a pore size of 8 μm combined with 24‐well cell culture plates were used. Before start of the migration assay, the cells were serum‐starved overnight in RPMI with 1% BSA. Cells were then stained with CellTracker™ Red CMPTX dye (Thermo Fisher) at a final concentration of 10 µM for 30 minutes in serum‐free RPMI without phenol red. Cells were pelleted and again incubated in serum‐free RPMI for 30 minutes without phenol red to remove the surplus dye. Cells were seeded in duplets onto the insert membrane at a density of 3 × 105 cells/300 µL per insert. The bottom compartment was filled with 1.0 mL of the same medium. After 30 minutes rest period, cells were placed into wells containing the specified chemoattractant and were allowed to migrate through the membrane for 48 hours. Migration was quantified from the bottom of the wells by fluorescence measurement using the CLARIOstar microplate reader (BMG; Extinction: 577 nm; Emission: 607 nm) every 10 minutes within the first two hours and then every 30 minutes for 46 hours. Cell migration was displayed as signal compared to the measurement at 4 hours.
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3

Staining Staphylococcus Species for Fluorescence

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S. aureus (ATCC 6538, Sigma Aldrich, Saint Louis, MO, USA) and S. epidermidis (ATCC 12228, Sigma Aldrich) were plated on agar plates (Columbia agar with 5% sheep blood, BD) and incubated at 37 °C overnight. Single colonies were scraped and suspended in 2 mL sterilized rich medium (Bacto Tryptone 15g/L, BD) for 2 h. Bacterial suspensions were then stained using a CMPTX red dye (Cell Tracker red CMPTX dye, ThermoFisher, Waltham, MA, USA). Specifically, a 10 mM stock solution of the dye was prepared diluting the lyophilized product with dimethyl sulfoxide (DMSO, HPLC grade, 99.9+%, Thermoscientific, Waltham, MA, USA). The stock solution was then diluted to a working concentration of 2 mM in the final bacterial suspension volume. The suspension was then vortexed and incubated for 30 min at 37 °C. After incubation, the suspension was centrifuged at 4000 rpm for 15 min to recover the stained bacteria. Finally, the supernatant was discarded and the bacterial cells were suspended in RPMI medium without antibiotics.
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4

Evaluating Combination Therapies on Myeloma Cells

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Myeloma cell lines (5×104 per well) were incubated with CPI203 (kindly provided by Constellation Pharmaceuticals, Cambridge, MA, USA) and/or lenalidomide (Selleck Chemicals LLC, Houston, TX, USA) plus dexamethasone (Merck, S.L., Darmstadt, Germany) at indicated doses in triplicates. MTT [3-(4,5-dimethylthiazolyl-2)-2,5-diphenyltetrazolium bromide] assay (Sigma-Aldrich, St Louis, MO, USA) was used to evaluate the effect of the drugs on cell proliferation.
Primary cells were labeled with CellTracker™ Red CMPTX dye (Thermo Fisher) following the manufacturer’s protocol and co-cultured with the mesenchymal stromal cell line stromaNKtert in the presence of 10 ng/mL IL-6 (RnD Systems, Minneapolis, MN, USA). Cell proliferation was analyzed in an Attune acoustic focusing cytometer using Attune software (Thermo Fisher).
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5

Exosome Labeling and Incorporation

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In order to check the exosomes ability to incorporate to recipient cells the vesicles were labeled by fluorescent dye CellTracker™ Red CMPTX Dye (Thermo Fisher Scientific). After ultra-centrifugation exosomes were dissolved in PBS solution and stained by fluorescent dyes, according to the manufacturing protocols. Then thoroughly stained exosomes were washed in PBS twice by the ultracentrifugation 100,000× g. As a negative control the labeled exosomes were sonicated. In order to detect the non-specific labeling of cells we used the fluorescent dye which was spun alone. The precipitates were dissolved in PBS and incubated with MCF-7 cells. The efficiency of dyeing exosomes incorporation was checked with an Eclipse Ti-E fluorescence microscope (Nikon, Minato-ku, Tokyo, Japan) (Plan 10×/0.25; ORCA-ER camera by Hamamatsu Photonics, Minato-ku, Tokyo, Japan; NIS-Elements AR 2.3 software by Nikon). Exposure for fluorescence was 4 s.
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6

HT29 Cell Labeling with CellTracker Red

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Approximately 5 million HT29 cells were washed twice in DPBS. Cells were centrifuged at 300 g for 3 min each time. The cells were re-suspended in DMEM without fetal bovine serum but holding 1 μM CellTracker Red CMPTX dye (ThermoFisher, cat no. C34552). After 30 min in the CellTracker solution at 37°C, the cells were washed twice in complete growth media and kept in media until further use.
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7

Neutrophil Migration Assay with Chemoattractants

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Under agarose migration assay was performed following the protocol described elsewhere (36 (link)). Briefly, 0.5% SeaKem ME agarose (Lonza) in 50% each of DPBS and mHBSS was poured and allowed to solidify in 1% BSA-coated 35 mm glass bottom dish with 20 mm micro-well #1.5 cover glass (Cellvis). Using a metallic hole punching tool, three 1 mm diameter wells were carved out at a 2 mm distance from each other. Neutrophils were stained with 0.5 µM CellTracker Red CMPTX dye (Invitrogen) for 15 min at 37°C in rotation and re-suspended in mHBSS. In some experiments, cells were pre-treated with pertussis toxin (PT) for 2 hrs followed by staining in PT supplemented buffer. 7 μl (5×104 cells) of stained cells were added to the wells at the edges and cells were allowed to migrate towards the center well containing 7 μl of either fMLF (100 nM) or 50 μg/ml of GM-CSF for 2 hrs at 37°C/5% CO2. End point images of cells migrating towards the chemoattractant were acquired using a 10x objective lens (Zeiss Axiovert microscope).
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8

Lung Metastasis Quantification in Mice

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The lung-metastatic 4T1 derivatives (537 cell population) were injected into the tail veins of BALB/c mice. Mice were examined daily for signs of respiratory distress, and after the indicated time periods, cohorts were euthanized, and lungs subjected to histological and IHC analysis. For lung colonization assays, the indicated cell populations were stained in vitro with 1 μM of Cell Tracker Red CMPTX dye (Cat. #: C34552, Invitrogen) for 45 min in serum-free media. The cells were then washed twice in PBS prior to tail vein injection. The lungs were removed at 1 h or 24 h post-injection, and the left lobe from each animal was whole-mounted for imaging. Images were captured on the Zeiss Axiozoom.V16 microscope at × 50 magnification using 5 fields of view to cover the lung area. The auto-fluorescence in the green channel was used to obtain a topography image of the lung area. Cells were quantified using ImageJ by applying an Otsu threshold and scoring the number of signals with a square pixel size larger than 0.001.
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