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26 protocols using hibernate a

1

Isolation and Purification of Brain-Derived Extracellular Vesicles

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BDEs were isolated from P14 brains from the three treatment groups as described in our previous studies [13 (link),14 (link)]. Briefly, brain tissue was dissected and digested in 20 units/mL papain in Hibernate A (Life Technologies), followed by immediate addition of cold Hibernate A to stop the enzymatic digestion. Cell, debris, and other larger particles were removed by multiple centrifugations (300× g, 2000× g, 10,000× g) and filtration through a 0.22-μm filter. EVs were further concentrated by ultracentrifugation (100,000× g) at 4 °C, followed by its purification using density gradient separation technique. For the density gradient separation, sucrose concentrations ranging from 0.25 to 2 M were used, where the concentrated EVs pellet was resuspended in the 0.95 M layer and centrifuged at 200,000× g for 16 h at 4 °C. Fractions enriched with EVs were subjected to further ultracentrifugation at 100,000× g to obtain the EVs pellet.
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2

Isolation and Culture of Primary Neuronal Cells

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Primary neuron cultures were generated from postnatal day 4–10 WT, Nf1+/neo or Nf1+/1809 mice. Hippocampi were dissected in Hibernate-A (Gibco) and primary hippocampal neurons were established after papain dissociation, following the manufacturer’s instructions (Worthington). Hippocampal neurons were grown for 7 days prior to analyses. Retinae were dissected in Hibernate-A (Gibco), dissociated in papain (Worthington) and ovomucoid inhibitor (Worthington) before being filtered with CD11b magnetic beads (Miltenyi Biotech) to deplete microglia. The remaining RGCs were plated on poly-D-lysine (Sigma)-coated plates and incubated in neurobasal media supplemented with N2, T3, transferrin, BSA, progesterone, putrescine, sodium selenite, l-glutamine, insulin, N-acetyl cysteine, and forskolin. RGC neurons were grown for 4 days prior to analyses. DRG tissues were isolated in HBSS (Gibco), dissociated in papain (Worthington biochemical) and collagenase type I (STEMCELL Technologies), prior to being strained (70 µm), plated in fibronectin (Fisher)-coated plates, and incubated in 10% fetal bovine serum in DMEM (Gibco). DRG neurons were grown for 7 days.
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3

Amygdala Neuron RNA Isolation

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For each of three replicates where RNA was collected from isolated neurons three groups of three Thy1-eYFP mice and several control C57 mice were rapidly decapitated and bilateral 1 mm amygdala punches were taken within 2 min. To minimize RNA degradation each solution used was prepared with RNAse Out (Life Technologies Inc., Bedford, MA, USA) and kept on ice. Each pair of amygdala punches was homogenized with a razorblade on a cold glass Petri dish then transferred to cold Hibernate A (Life Technologies). Tissue was spun down and supernatant replaced with 1 ml Accutase (Innovative Cell Technologies, Inc., San Diego, CA, USA) and allowed to digest for 30 min while rotating at 4 °C. Digested tissue was spun down and resuspended in cold Hibernate A. Three sets of punches were combined (for a total of N=3 mice per sample) and tissue was manually dissociated by trituration using fire polished Pasteur pipettes with diameters 1.3, 0.8 and 0.4 mm in series, where supernatant was collected and volume restored between each step. Cell suspensions were spun down and cell pellet resuspended in Hibernate A. Cell suspensions were filtered through pre-wetted 100 and 40 μm filters (BD Biosciences, Inc., San Jose, CA, USA) in series.
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4

Harvesting Dorsal Root Ganglia from Rats

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All work with live animals was performed in full compliance with local and federal guidelines for the humane care and treatment of animals and in accordance with approval by the University of Illinois at Urbana–Champaign IACUC animal use protocol. Sprague-Dawley male rats were quickly decapitated using a sharp guillotine. Spine vertebrae were surgically cut on both side between pedicle and lamina in the area of the facet of superior articular process. This cut exposed the spinal cord, which was removed. Additional cuts on sides and in the middle of the ventral portion of the vertebral column created two chains of vertebra pieces with easily visualized DRGs. DRGs were removed using fine forceps and placed into the Hibernate A (Life Technologies) solution located on ice.
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5

Organotypic Brain Slice Culture with Pharmacological Treatments

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Mouse brains were isolated and transferred into chilled dissection buffer (Hibernate A with 2% B27 supplement [Life Technologies], 2 mM L-glutamine and 1% penicillin/streptomycin) on ice as described (Kim et al., 2013 (link)). Tissue was sectioned as published previously (Kleine Borgmann et al., 2013 (link)) in chilled dissection buffer using a vibratome. Sections (300 μm) were stored in dissection buffer on ice and transferred onto Millicell inserts (Millipore). Organotypic slices were cultured at 37°C and 5% CO2 in a serum-free medium (Kim et al., 2013 (link)) (Neurobasal A [Life Technologies] containing 2% B27 supplement, 2 mM L-glutamine, 1% penicillin/streptomycin, and 80 μM indomethacin [Sigma-Aldrich]). During the entire culture period slices were exposed to 25 μM silychristin (Sigma-Aldrich), 10 μM iopanoic acid (Sigma-Aldrich), 1 mM BCH (R&D Systems), or respective volumes of the solvents DMSO or culture medium as control. Culture medium was replaced every other day and slices were fixed for 1 h in 4% PFA.
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6

Isolation of Spinal Cord Leukocytes

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Mouse spinal cords were obtained at the peak of the 2nd attack, 5 days after onset of treatment. Spinal cords were mechanically disrupted in Hibernate A (Life Technologies, Grand Island, NY) using a stainless steel sieve, which was followed by enzymatic dissociation in 1 mL of Trypsin LE (Life Technologies) for 30 min at 37 °C. Cells were washed and resuspended in 10 mL of Percoll of ρ = 1.03 which was underlain in Percoll of ρ = 1.095 and centrifuged for 30 min at 500μg and 4 °C with slow acceleration and no brake. The top layer containing myelin was discarded, and leukocytes were collected from the interface between ρ = 1.03 and ρ = 1.095. After washing, cells were treated with Fc block (BD Bioscience, San Jose, CA), stained with the indicated anti-mouse antibodies [anti-CD45-v500 and 7-AAD (obtained from BD Bioscience), anti-CD3e-FITC, anti-CD4-PE, anti-CD19-efluor450 and anti-CD11b-APC (all obtained from eBioscience, San Diego, CA)] for 30 min at 4 °C, and analyzed on a BD FACS Canto II flow cytometer. Spinal cord-derived cells were stained and analyzed by pooling two to three mouse spinal cord cells per tube. Gating was determined by fluorescence-minus-one (FMO) with isotype-matched immunoglobulin control. Flow cytometry data analysis was performed using FlowJo software (Tree Star, Inc., Ashland, OR).
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7

Transgenic Tau Tauopathy Mouse Model

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Animal experimentation was approved by the Animal Ethics Committee of the University of Queensland (approval nos. QBI/027/12/-NHMRC and QBI/412/14/NHMRC). For this study, we used female transgenic rTg4510 mice that express human four-repeat tau with the P301L mutation that is linked to hereditary tauopathy (25 (link)). Transgenic mice and gender-matched wild-type littermate controls were anesthetized and culled at 4–6 months of age. Following decapitation, brains were collected and transferred to a flask containing 5 ml of Hibernate-A (A12475-01, Life Technologies).
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8

Isolation and Culture of MnPO Neurons

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The MnPO was punched out of a brain slice and incubated in Hibernate A (Invitrogen, Temecula, CA) and papain (Worthington, Lakewood, NJ) (1 mg/ml) for 10 min at room temperature. After washing out the enzyme with Hibernate-A the cells were dissociated by gentle trituration with a fire-polished Pasteur pipette. The cell suspension was pelleted (1000 g for 2 min) and resuspended in Neurobasal medium (supplemented with 2% B27, 0.5 mM Glutamax and 10 mg/ml gentamycin) and then plated on poly-D-lysine/laminin coated coverslips (Biocoat, BD Biosciences, Bedford, MA). Cells were kept in culture for 5–10 days before being used for experiments.
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9

Retinal Cryosectioning and Immunostaining

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All experiments were carried out in accordance with the guidelines for the welfare of experimental animals issued by the U.S. Public Health Service Policy on Human Care and Use of Laboratory Animals and the University of California-Los Angeles (UCLA) Animal Research Committee. Adult Sprague-Dawley rats (100–300 g, Charles River, Wilmington, MA, RRID:RGD_734476), and wild-type C57BL/6 mice (20–30 g; Jackson Laboratory, Bar Harbor, ME, RRID:IMSR_JAX:000664) of both sexes were used for these studies. Animals were 2-3 months old at the time of the experiments.
Animals were deeply anesthetized with 1–3% isoflurane (Abbott Laboratories, North Chicago, IL), and killed by decapitation or cervical dislocation. The eyes were removed and dissected in Hibernate A (Invitrogen, Carlsbad, CA). For vertical cryosections of the retina, the eyecups were fixed in 4% paraformaldehyde (PFA) in 0.1 M phosphate buffer (PB), pH 7.4, for 15–60 minutes at room temperature (RT). Eyecups were then transferred to 20% sucrose in PB for an hour or 30% sucrose in PB overnight at 4°C. The eyecups were embedded in optimal cutting temperature medium (Sakura Finetek Inc., Torrance, CA) and sectioned at 12–14 μm using a Leica CM3050S or Leica CM 1900 cryostat (Leica Microsystems, Buffalo Grove, IL) and tissue sections were mounted onto gelatin-coated slides. Sections were stored at −20°C until immunostaining.
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10

Rat Cortical Neuron Spheroid Culture

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Spheroid preparation proceeded as described in a previous study (Dingle et al., 2015). In brief, cortex was isolated from male or female rats (Charles River) at postnatal Day 0-2, diced, and enzymatically digested in 2 mg/mL solution of papain (BrainBits, LLC) in Hibernate A sans Ca 2+ (BrainBits, LLC) for 30 minutes at 30°C. The papain solution was removed, and cells were mechanically separated with a fire-polished Pasteur pipette in Hibernate A buffer supplemented with 1 x B27 (Invitrogen) and 0.5 mM GlutaMAX (Invitrogen). The cell solution was then centrifuged and resuspended in cortical media consisting of Neurobasal A (Invitrogen) supplemented with B27, 0.5 mM GlutaMAX, and Penicillin-Streptomycin (Invitrogen). The cell suspension was washed again by centrifuging and resuspending the pellet in cortical media. Cortical cells were placed in 2% agarose microarrays created by 400 µ m diameter round silicon peg molds (Microtissues, Inc) at a density of 4-8,000 cells/microwell. The cell suspension was allowed to settle in the microwells for 30-40 minutes, after which 1 mL of cortical media was added to each well of a 24-well plate. Spheroids were incubated at 37º C in 5% CO 2 , and the cortical media was changed every 2-3 days.
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