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12 protocols using polybead carboxylate microspheres

1

Characterizing Pancreatic Cancer-Derived EVs

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Pancreatic cancer-derived EVs were incubated with polybead carboxylate microspheres (Polyscience, Niles, Illinois, USA) in PBS overnight at 4 °C. Samples were blocked with 2% BSA in PBS and centrifuged at 350× g for 2 min. The supernatants were discarded. The pellets were washed with PBS twice and resuspended in PBS. EVs were incubated with the anti-CD63 antibody at 4 °C for 20 min in the dark. The samples were analyzed by CytoFlex (Beckman Coulter, Indianapolis, IN, USA).
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2

Culturing Chlamydomonas reinhardtii with Polystyrene Colloids

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Cultures of CR strain CC-125 were grown axenically in a Tris-Acetate-Phosphate medium76 at 21 °C under periodic fluorescent illumination (16h light/8h dark cycles, 100 μEm−2 s−1, OSRAM Fluora). Cells were harvested at ~5 × 106cells/ml in the exponentially growing phase, then centrifuged at 10 × g for 10 min and the supernatants replaced by DI-water containing the desired concentration of polystyrene colloids (Polybead® Carboxylate Microspheres, radius a = (5 ± 0.5) μm, Polysciences).
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3

Lipid Bilayer Formation and Characterization

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Lipids including 1,2-dioleoyl-sn-glycero-3-phosphocholine (DOPC), 1,2-dioleoyl-3-trimethylammoniumpropane (DOTAP) were purchased from Avanti Polar Lipids (Alabaster, AL). Lipid dyes BODIPY FL DHPE, triethylammonium salt, and Texas Red DHPE, triethylammonium salt were purchased from Invitrogen (Carlsbad, CA). Glass beads with diameter of 10-30 μm and Polybead carboxylate microspheres with a diameter of 1 μm were obtained from Polysciences, Inc. (Warrington, PA). D-sucrose, dextrose (D-glucose) anhydrous, phosphate buffered saline concentrate powder, and chloroform were purchased from Fisher Scientific (Hampton, NH). Poly-L-lysine 1 mM solution and bovine serum albumin were purchased from Sigma-Aldrich.
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4

Fabrication and Characterization of Doxorubicin-Loaded Polymer Microspheres

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Polybead® carboxylate microspheres of various sizes (0.5 μm, 6.0 μm and 10 μm) were purchased from PolySciences, Inc. (Warrington, PA, USA). Poly (vinyl alcohol) (PVA-fully hydrolyzed) was obtained from Sigma Aldrich (St. Louis, MO, USA). Doxorubicin hydrochloride (DOX) was procured from LC laboratories (Woburn, MA, USA). Phosphate buffered saline (PBS) pH 7.4, dimethyl sulfoxide (DMSO), and HPLC grade solvents (acetonitrile and water) were purchased from Fisher Scientific (Hampton, NH, USA). Various other assay kits and molecular biology grade reagents were obtained from several sources which have been listed along with their respective methods.
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5

Investigating Immune Responses to Glycine-Coated Microspheres

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Polybead carboxylate microspheres (unlabeled, nominally 0.05 mm; no. 15913; Polysciences, Warrington, PA, USA) were glycine coated, as described (25 (link)) and referred to as PS50G. To investigate the long-term effects of PS50G on the innate immune response, mice received saline or PS50G (200 µg/50 µl) intratracheally on day 0 and lymph nodes (LN) and lungs were collected on days 1, 3, 7, and 30 post instillation. In some experiments, 10 µg lipopolysaccharide derived from Escherichia coli (Sigma-Aldrich, St. Louis, MO, USA) were used as a positive “inflammatory” control. The effects of PS50G on acute allergic asthma were investigated by intratracheally instilled PS50G (200 µg/50 µl) into mice on days 0 and 2 prior to intraperitoneal sensitization with ovalbumin (OVA) (50 µg; Sigma-Aldrich, St. Louis, MO, USA) in aluminum hydroxide (General Chemical, Parsippany, NJ, USA) on days 12 and 22 and intranasal OVA challenge (25 µg) on days 32, 34, 37, and 39. Tissue sampling was performed 24 h after the final lung allergen challenge (day 40) as described (8 (link), 9 (link)).
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6

Quantifying Neuronal Transport Dynamics

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L4 larvae were immobilized using 10% agarose pads, 50 mM muscimol and 0.5 μm Polybead® Carboxylate Microspheres (Polysciences). VA::GFP::UNC-9 was captured using 488 nm excitation 5 frames/sec for three-minutes on a Nikon Spinning Disk microscope with a 100X SR Apo TIRF (1.49 NA) objective. Movies were obtained from a single plane and were deconvolved with Nikon 2D deconvolution software. A 5-pixel line was drawn through the VA process to create a kymograph in Nikon elements. The kymograph was then analyzed using KymoButler Premium (Jakobs et al., 2019 ). The number of GFP::UNC-9 puncta was determined based on fluorescence intensity and size. Puncta were considered motile if they moved at a speed > 0.4 μm/sec for three consecutive frames. The percentage of puncta that moved in a given VA was calculated and velocity, direction, and displacement were calculated for each punctum with directed locomotion. A Mann-Whitney was used to determine significance between groups.
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7

Characterization of Soluble CD30 and CD30-Containing Extracellular Vesicles

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HMC 1.2 or EoL-1 cells (5 × 105/ml) were incubated for 1 h on ice with sCD30, ultracentrifugation-enriched CD30-containing EVs or HBSS buffer alone. After washing with PBS containing 1% albumin and 0.1% sodium azide, cells were incubated for another 30 min on ice with FITC-coupled SGN-35 (0.1 μg/ml). After washing in the above PBS, cells were evaluated by flow cytometry. Vesicles alone were incubated overnight with polybead carboxylate microspheres (4.5 μm; Polysciences INC, Warrington, PA). The beads were blocked with 1% BSA (v/w) in PBS. Then, aliquots were incubated with unlabeled or fluorescence-labeled antibodies. Aliquots with unlabeled antibody were in a second step labeled with fluorescence-labeled anti-mouse IgG (Dianova, Hamburg, Germany). Beads were evaluated by flow cytometry.
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8

Preparation of Giant Vesicle Membrane

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1,2-Dioleoyl-sn-glycero-3-phosphocholine (DOPC) and TexasRed® tagged 1,2-dihexadecanoyl-sn-glycero-3-phosphoethanolamine, triethylammonium salt (TexasRed® DHPE), were purchased from Avanti Polar Lipids (AL, USA) and Invitrogen (CA, USA), respectively. The GV membrane composition was DOPC: TexasRed® DHPE = 99.7:0.3 (mol%). Polybead® carboxylate microspheres (R = 1.00 μm; 2.5 vol%; 1.05 g/cm3) and Fluoresbrite® yellow green carboxylate microspheres (R = 1.00 μm; 2.5 vol%; 1.05 g/cm3; λex, 441 nm; λem, 486 nm) were purchased from Polysciences, Inc. (PA, USA). D-Glucose, sucrose, and liquid paraffin were purchased from Wako Pure Chemical Industries (Osaka, Japan). The Tris-HCl buffer stock solution (100 mM, pH 7.5, 1.34 g/cm3) was prepared by adjusting pH of Tris (hydroxymethyl)-aminomethane (6.057 g, 50 mmol) aqueous solution to 7.5 with 1 M HCl.
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9

Generation of P-selectin-Coupled Beads

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For the generation of P-selectin-coupled beads polybead-carboxylate-microspheres (2 µm, 2.7% solids (w/v) Polysciences), polylink protein coupling kit (Polysciences), and recombinant human P-selectin protein (carrier free, Catalog no. ADP3-050, R&D Systems) were used. Coupling was performed according to the manufacturer’s protocol. About 3.1 mg microparticles were centrifuged (1000g, 10 minutes) resuspended in polylink coupling buffer twice before 21-mg carbodiimide was added for activation. After 15 minutes, 50-µg P-selectin was added and incubated for 120 minutes. Then, beads were centrifuged (1000g, 10 minutes) and washed in storage buffer twice and stored at 4 °C in 100-µL storage buffer. As controls uncoupled beads (without protein incubation) and L-selectin-coupled beads were generated using recombinant human L-selectin (R&D Systems).
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10

Inhibitor Assays with Antibody Conjugates

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Ibrutinib, acalabrutinib, entospletinib, idelalisib and dyngo-4A (SelleckChem), and cyctochalasin D (Merck) were dissolved in dimethyl sulfoxide (DMSO). The antibodies used were goat F(ab’)2 anti-human IgM, control goat F(ab’)2 and mouse F(ab’)2 κ anti-IgM (all Cambridge Biosciences). These were used as soluble antibodies or after covalent binding to 2.8 μm epoxy-coated M-280 Dynabeads (ThermoFisher) or 3 μm carboxylate-coated latex beads (Polybead® Carboxylate Microspheres; PolySciences) using the manufacturers’ instructions.
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