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34 protocols using biocytin

1

Whole-cell Recordings and Neuronal Visualization

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Whole-cell recordings were obtained using Axopatch 200B amplifier (Axon Instruments) with pipettes pulled from borosilicate glass tubing (2 mm outer diameter, 1 mm wall thickness). Pipettes were filled with an internal solution containing (in mM) 135 K gluconate, 20 KCl, 0.1 EGTA, 10 Hepes, 2 MgCl2, and 2 ATP (disodium salt) with 0.1% biocytin (Molecular Probes) added and had a resistance of 2–3 MΩ. EGFP-expressing neurons were visually identified using epifluorescent illumination and selected neurons were approached under visual control by infrared-differential interference contrast (IR-DIC) videomicroscopy. Neurons were filled for at least 15 min in the whole-cell configuration and an outside-out patch was obtained when withdrawing the electrode. Following overnight immersion fixation (4% PFA in 0.1 M phosphate buffer), biocytin-filled neurons were visualized using avidin conjugated Cy-3 (1:500; Life Technologies).
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2

Binding Affinity Assay of SpCBM to 3'SL

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The binding affinity assay of SpCBM to 3’SL was performed using the ForteBio Octet RED384 system (ForteBio). Assays were performed in black 96 wells plates (Nunc™ F96 MicroWell™ plate, Thermo Scientific) using PBS containing 0.002 % Tween-20 as running buffer at 25 °C. Super streptavidin-coated (SSA) biosensor tips (ForteBio) were pre-hydrated in 200 μl running buffer for 10 min followed by equilibration in PBS for 60 s. Tips were non-covalently loaded with a 25 μg/ml solution of a multivalent biotinylated 3’SL-polyacrylamide (Glycotech) in running buffer for 300 s followed by a wash of 60 s in the same buffer. All sensors, including reference sensors (no ligand), were blocked with biocytin (Life Technologies) for 60 s, to prevent non-specific interactions of protein to the sensor surface, followed by a further wash for 60 s. Association of biotinylated ligand with SpCBM (5-fold dilution series using a 10 μM stock in running buffer) was performed for 150 s before dissociation of binding was performed using running buffer for 150 s. All experiments were performed in triplicate. Data were processed to calculate kinetic and affinity parameters using the ForteBio software.
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3

Dendritic Morphology Characterization

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Dendritic morphology was measured by filling neurons with a fluorescent dye (AF488, 100 μM, Life Technologies, Inc.) and biocytin (2 mg/ml, Life Technologies, Inc.) during the whole-cell recording. Sholl analysis is performed using concentric radii step intervals of 20 μm and dendritic crossings at each radius are counted.
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4

Chemical Reagents and Drug Handling

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All chemicals were obtained from either Sigma Aldrich (Munich, Germany) or Carl Roth (Karlsruhe, Germany). Biocytin was obtained from Life Technologies (Dunfermline, UK). Pharmacological agents were obtained from Abcam Biochemicals (Cambridge, UK) or Tocris Bioscience (Bristol, UK). Drugs were stored as 1000-fold concentrated stocks at −80°C until used. Working solutions were prepared fresh on the day in normal ACSF at final concentrations given in the text.
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5

ACSF Solution Preparation Protocol

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All chemicals were obtained from either Sigma Aldrich (Munich, Germany) or Carl Roth (Karlsruhe, Germany). Biocytin was obtained from Life Technologies (Dunfermline, UK). Working solutions (ACSF) were prepared fresh on each experimental day.
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6

Pharmacological Manipulation of Synaptic Transmission

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Chemicals were obtained from either Sigma Aldrich (Munich, Germany) or Carl Roth (Karlsruhe, Germany). Biocytin was obtained from Life Technologies (Dunfermline, UK). Drugs were obtained from Abcam Biochemicals (Cambridge, UK) or Tocris Bioscience (Bristol, UK). Drugs were stored as 1000-fold concentrated stocks at –80°C. Working concentrations were prepared fresh on the day in normal ACSF: DNQX 10 μM, DL-APV 50 μM, gabazine (SR-95531)10 μM, Rubi-GABA 20 μM, CGP-55845 5 μM, and baclofen 10 μM.
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7

Fluorescent Neuron Morphology Quantification

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Dendritic morphology was measured by filling neurons with a fluorescent dye (AF488, 100 µM, Life Technologies, Inc.) and biocytin (2 mg/ml, Life Technologies, Inc.) during the whole-cell recording. Sholl analysis is performed using concentric radii step intervals of 20 µm and dendritic crossings at each radius are counted.
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8

Biocytin Labeling in Whole-Cell Recordings

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In some recordings, the electrode solution (aCSF) contained (0.2% w/v) biocytin (B-1592, Life Technologies) to confirm the localization of the recorded cell.
After the loose-patch recordings, the cells were filled for 3-4 min with biocytin in the whole-cell configuration and the slices incubated in 4% PAF in PBS overnight at 4°C.
The following day the slice was washed 3x for 10min with PBS, then washed with PBS-T for 10min and incubated for 1h in a streptavidin incubation buffer (0.4% Triton X-100 in PBS). Slices were then incubated 4h at room temperature with 1/500 Streptavidin-Alexa Fluor® 488 conjugate (see antibodies table for reference) in incubation buffer and later washed 3x for 10min in PBS and mounted using Fluoromount.
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9

In Vivo Patch Clamp Recording Technique

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Patch clamp pipettes filled with internal solution were used to obtain blind in vivo patch clamp recordings. Pipettes were pulled from borosilicate capillaries (1B120F-4, World Precision Instruments, Inc., Sarasota, FL, USA) with a horizontal puller (Model P-87, Sutter Instrument Co., Novato, CA, USA). Electrode resistances were 5–7 MΩ when filled with internal solution and measured in cerebrospinal fluid. The internal solution contained (in mM) 115 K gluconate (Sigma); 4.42 KCl (Fisher); 10 Na2 phosphocreatine (Sigma); 10 HEPES (Sigma); 0.5 EGTA (Sigma); 4 Mg-ATP (Sigma); 0.3 Na-GTP (Sigma); and 0.1–0.2% biocytin (Invitrogen). pH was brought to 7.30 with KOH (Sigma) and osmolality to 300 mmol/kg with sucrose (Sigma). A patch clamp amplifier (BC-700A; Dagan, Minneapolis, MN, USA) was used to obtain membrane potential recordings, where the analog signal was low-pass filtered (cut-off frequency 5 kHz) and digitized at 50–100 kHz (ITC-18, HEKA, Ludwigshafen/Rhein, Germany; RX8, Tucker-Davis Technologies, Alachua, FL, USA). Series resistance was 61.3 ± 3.3 MΩ (mean ± SEM; N = 23, excluding one outlier with a series resistance >100 MΩ). Opening resting membrane potential was −56.3 ± 0.69 mV (mean ± SEM, N = 23).
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10

Patch Clamp Recordings of Neuronal Membranes

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Patch clamp electrodes were pulled from borosilicate glass capillaries (1B120F-4, World Precision Instruments, Inc., Sarasota, FL, USA) with a horizontal puller (Model P-87, Sutter Instrument Co.). The electrode resistances were 5–8 MΩ when filled with the solution. The internal solution contained 115 mM K gluconate (Sigma), 4.42 mM KCl (Fisher), 10 mM Na2 phosphocreatine (Sigma), 10 mM HEPES (Sigma), 0.5 mM EGTA (Sigma), 4 mM Mg-ATP (Sigma), 0.3 mM Na-GTP (Sigma) and 0.1 or 0.2% biocytin (Invitrogen), with pH 7.30 (adjusted with KOH, Sigma) and osmolality 300 mmol/kg (adjusted with sucrose, Sigma) (Roberts et al., 2014 (link)). Patch clamp recordings were obtained using the blind in vivo method as described before (Margrie et al., 2002 (link); Franken et al., 2015 (link)). Membrane potential recordings were obtained in current clamp using a patch clamp amplifier (BVC-700A; Dagan, Minneapolis, MN, USA). The analog signal was low-pass filtered (cut-off frequency 5 kHz), digitized at 50–100 kHz and saved using scripts in MATLAB (The Mathworks) or IgorPro (WaveMetrics). Series resistance was 51.7 ± 10.8 MΩ (mean ± SEM; N = 8; excluding one outlier with a series resistance >100 MΩ). Initial resting membrane potential was –54.6 ± 1.95 mV (mean ± SEM; N = 10).
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