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39 protocols using nunc lab tek chamber slide system

1

Melanoma Cell Lines and Inhibitor Treatments

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NIH 3T3 (NIH 3T3 wt), NIH 3T3 BRAFV600E (NIH 3T3 V600E), A375, M238, and M238R cells were cultured in T75 flasks containing 20 mL of Dulbecco's modified Eagle's medium (DMEM; Lonza, Basel, Switzerland) with 10% FBS (PAA Laboratories, Coelbe, Germany), 1× penicillin–streptomycin (5000 U·mL−1; Thermo Fisher Scientific, Waltham, MA, USA) at 37 °C in a humidified 5% CO2/95% air mixture. A375, M238, and M238R are melanoma cell lines which carry the BRAFV600E mutation. M238R cells have been rendered nonresponsive to PLX4032 treatment (Nazarian et al., 2010). For microscopic analyses of cells, an 8‐well Nunc Lab‐Tek chamber slide system was used (Thermo Fisher Scientific). The following small‐molecule inhibitors were applied: MEK1/2, AZD6044 (AZD; Axon Medchem, Groningen, NL, 20 μm); BRAFV600E, PLX4032 (PLX; Selleckchem, Munich, Germany, 20 μm); and JNK1/2, SP600125 (SP; Selleckchem, Munich, Germany, 20 μm). DMSO was used as solvent, and an equal amount of DMSO without inhibitor was added to the controls. For knockdown of p66Shc, the plasmids pRetro‐SUPER p66 shRNA (Marco Giorgio, Department of Experimental Oncology, Institute of Oncology, Milan, Italy) and pRetro‐SUPER scrambled (DSL) were used. Cells were seeded in six‐well plates, and up to 1 μg of plasmid DNA was transfected using Lipofectamine (Thermo Fisher Scientific) according to the manufacturer's instructions.
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2

Quantifying Protein-Protein Interactions using In Situ PLA

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In situ PLA was used to assess protein-protein interactions. Cells grown on 8-well culture slides (Nunc Lab-Tek chamber Slide System, ThermoFisher scientific), were immediately fixed and subjected to in situ PLA using the Duolink detection kit (Sigma-Aldrich, St. Louis, MO) according to the manufacturer’s instructions and described previously [22 (link)]. After blocking, slides were incubated with mouse anti-Emmprin (1:100; R&D) or rabbit anti-CD73 (1:100; GeneTex, Irvine, CA) primary antibodies. For isotype controls, the primary antibody was substituted with either mouse (emmprin) or rabbit (CD73) IgG. To analyze the results, we used a Duolink ImageTool to obtain objective quantification of PLA signals.
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3

Histological Analysis of Liver Tissues

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For HE staining, paraformaldehyde‐fixed liver tissue was embedded in paraffin and sliced into 6‐μm sections. The slides were baked at 60°C and dewaxed by dimethylbenzene. After alcohol treatment with an inverse concentration gradient, the slides were stained by HE with HE Stain Kit according to established protocols. Finally, the slides were examined by routine light microscopy (DM6 M LIBS, Leica).
For Oil red O staining, paraformaldehyde‐fixed tissues were embedded in optimal cutting temperature compound and sliced into 10‐μm sections. The cells were cultured in a Nunc Lab‐Tek Chamber Slide System (Thermo Fisher Scientific). The slides were treated with isopropanol for 5 min. Oil Red O staining, hematoxylin staining, and slide sealing were performed with an Oil Red O Stain Kit according to established protocols. Finally, the slides were examined by routine light microscopy (DM6 M LIBS, Leica).
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4

Visualizing GJ-EV Uptake in ASF-4 Cells

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ASF-4 cells were seeded in a 4-chamber slide (Nunc™ Lab-Tek™ Chamber Slide System, Thermo Fisher Scientific Inc., Waltham, MA, USA) at a concentration of 0.5 × 105/mL in each chamber on the day before exposure to GJ-EVs. GJ-EVs were dyed with SYTOR RNASelectTM green fluorescent cell stain (Invitrogen, Carlsbad, CA, USA) for 3 h and then observed with a laser microscope (Leica TCS SP8, Leica MYCROSYSTEMS, Wetzlar, Germany). PBS was used instead of EVs for control samples.
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5

Immunofluorescence Staining of Cells

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For immunofluorescence staining, cells were seeded on a Matrigel precoated 8-well Nunc Lab-Tek Chamber Slide system (C7182, Thermo Fisher Scientific) at 4 × 104 cells/well. After a 72-hour to 144-hour incubation, cells were fixed with 4% paraformaldehyde (30525-89-4, Santa Cruz Biotechnology) for 15 minutes, washed with 1% BSA in PBS for 5 minutes, and permeabilized with 1% Triton X-100 for 20 minutes at room temperature. After 1 hour of blocking in 5% BSA-PBS, cells were incubated at room temperature for 2 hours with the primary antibody anti-KRT19 (Atlas Antibodies, catalog no. HPA002465, RRID:AB_1079179) or anti-HepPar1 (Novus, catalog no. NBP3-08970, RRID:AB_2909615) diluted 1:200 in blocking buffer. Cells were then incubated for 1 hour with a secondary anti-rabbit antibody (Jackson ImmunoResearch Labs, catalog no. 711-035-152, RRID:AB_10015282) diluted at 1:400 in blocking buffer, washed twice with 1% BSA PBS, and incubated with 4′,6-diamidino-2-phenylindole (DAPI; D9542, Sigma-Aldrich) in PBS for 5 minutes. Slides were then mounted with Fluoromount-G (0100-01, SouthernBiotech). Slides were stored at 4°C until analysis. Images were acquired with a Nikon confocal microscope C2+ equipped with an LU-N4S laser unit, using the NIS-Elements software (Nikon).
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6

Quantifying Hyphal Growth Kinetics

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The kinetics of the hyphal growth was examined by time-lapse video microscopy, as previously described [42 (link)]. In brief, 105 swollen conidia/mL were transferred to the 8-well Nunc™ Lab-Tek™ chamber slide system (Thermo Scientific, Vienna, Austria), and live imaging was performed in a cell incubator at 37 °C and 5% CO2 using an ioLight Portable Microscope (ioLight, Hampshire, UK) operated with the ioLight app (Vers.: 1.1.1.483) at 37 °C. Video sequences, tracking and quantification of the velocity of hyphal growth were prepared using Fiji software [48 (link)] and the “Manual Tracking” plug-in (developed at Institute Curie by F. Cordeli for ImageJ; Orsay, France). Figures were prepared using Fiji software (based on ImageJ 1.51n, maintained by the Laboratory for Optical and Computational Instrumentation at the University of Wisconsin-Madison, Madison, WI, USA) and Adobe Photoshop (Adobe Systems Incorporated, San José, CA, USA).
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7

Topical Antimicrobial Efficacy Evaluation

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General supplies, reagents, and growth media were purchased from Fisher Scientific (Hampton, NH). An 8-ply 100% cotton gauze was purchased from Kendall Curity®; Coviden (Mansfield, MA). Five clinically-relevant topical products were purchased via the pharmacy at the Department of Veterans Affairs in Salt Lake City: gentamicin sulfate ointment USP, 0.1% (Perrigo Company, Allegan, MI), mupirocin ointment USP, 2% (Glenmark Pharmaceuticals, Mahwah, NJ), silver sulfadiazine cream, USP 1% (Ascend Laboratories, Montvale, NJ), Neosporin® (400 U Bacitracin Zinc– 3.5mg Neomycin Sulfate– 5,000 U Polymixin B Sulfate; Johnson and Johnson, New Brunswick, NJ), Altabax® (retapamulin ointment) 1%, (GlaxoSmithKline, Barnard Castle, County Durham, United Kingdom). Hyaluronic acid (HA; 1.01 MDa– 1.8 MDa) was purchased from Lifecore Biomedical (Chaska, MN; catalog #HA15M-5). This HA is a bacterial fermentation product of Streptococcus pyogenes. Reagents and chemicals for synthesizing CZ-01179 were purchased from Sigma Aldrich (St. Louis, MO). Cellulose discs (6 mm) were purchased from BD (Sparks, MD), and collagen coupons were cut from HeliPlug® Collagen Wound Dressing (Integra LifeSciences, Plainsboro, NJ). BacLight™ Bacterial Viability kits were purchased from Molecular Probes (Eugene, OR). The Nunc™ Lab-Tek™ chamber slide system was purchased from ThermoScientific™ (Waltham, MA).
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8

Cellular Uptake of β-Nb2ZnO6 Nanoparticles

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MCF-7, HCT116, and HeLa cell lines were seeded in 8-well Nunc™ Lab-Tek™ Chamber Slide System (Thermo Fisher Scientific) at 35 × 104 cells/well together with 0.25, 0.5, and 1 mg/mL of each β-Nb2ZnO6 (A) and (B) nanoparticles for 48 h. The cells were fixed using cold absolute methanol for 10 min, then treated with ProLong™ Gold Antifade Mountant plus DAPI (4′,6-diamidino-2-phenylindole) from TFS. The illustrations were recorded with an LSM 700 confocal microscope (Zeiss, Jena, Germany).
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9

Isolation and Culture of Adult Mouse DRG Neurons

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Primary cultures of sensory neurons in the DRG of adult mice were prepared as previously described (5 (link)). Briefly, DRG from the cervical to the lumbar level were dissected and incubated with 2.0 mg/mL collagenase (CLS-3, Worthington Biochemicals) and 50 U/mL dispase (354235, Corning) and subjected to density gradient centrifugation (5 minutes, room temperature, 200g) with 30% Percoll PLUS (28-9038-34 AA, GE Healthcare Bio-Sciences Corp.) to eliminate the myelin sheath. Dissociated DRG neurons were suspended in DMEM: nutrient mixture F-12 (DMEM/F-12) (Fujifilm Wako Pure Chemical Corp.) with 10% FCS and 1% PS and seeded onto 10 μg/mL poly-L-lysine–coated (P1524, Merck) and 10 μg/mL laminin-coated (120–05751, Fujifilm Wako Pure Chemical Corp.) wells of 8-well chamber slides (Nunc Lab-Tek Chamber Slide System, 177402PK, Thermo Fisher Scientific). After being incubated in serum-containing medium for 16 hours, the neurons were maintained for 24 hours (for coculture experiments) or 32 hours (for monoculture experiments) in DMEM/F12 with 2% B-27 (A3653401, Thermo Fisher Scientific).
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10

Differential Staining of Intracellular and Extracellular Pneumococcus

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Cells (2 × 105 cells/well) were seeded on 4- or 8-well Permanox slides (Nunc Lab-Tek Chamber Slide System; Thermo Fisher Scientific). The following day, they were infected with S. pneumoniae at an MOI of 20 for 1 h, washed with phosphate-buffered saline (PBS) three times, and fixed with 4% paraformaldehyde in PBS for 10 min at 37 °C. To distinguish between intracellular and extracellular S. pneumoniae, extracellular and total bacteria were differentially stained as described previously (100 (link)). Immunostaining and image acquisition were performed as described in the SI Appendix, SI Materials and Methods.
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