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21 protocols using sulforhodamine 101

1

In Vivo Ca2+ Imaging of Cortical Layers

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Cortical layer 2/3 neurons were loaded with the Ca2+-indicator Oregon green 488 BAPTA-1 AM (Thermo Fischer, MA, USA) and astrocytes with sulforhodamine 101 (Sigma Aldrich, MO, USA) as described previously39 (link),40 (link).
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2

Quantitative Analysis of Lipophilic Drug Transport

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Dimethyl sulfoxide (DMSO), insulin, 1,6-diphenyl-1,3,5-hexatriene (DPH), stearic acid, oleic acid, tamoxifen, valspodar (PSC833), calcein-am, sulforhodamine 101, Ko143, MK571, and mitoxantrone were purchased from Sigma-Aldrich (St Louis, MO, USA). Hydrocortisone hemisuccinate was obtained from Santa Cruz Biotechnology (Dallas, TX, USA). Penicillin/streptomycin, fetal bovine serum (FBS) were purchased from Biochrom (Berlin, Germany). 7-β-NBD-taurocholate was custom-synthesized as described by Schneider et al. [34 (link)] PPC and PI were obtained from Lipoid (Ludwigshafen am Rhein, Germany). EPL (Essentiale Forte 300 mg) was obtained from Sanofi. All other chemicals were purchased from commercial sources and were of the highest purity available.
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3

Fluorescent Dye Characterization in ICS

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In this study, we used several different charged (negative, positive, and neutral) molecules of fluorescent dyes. Alexa-488-biocytin, Alexa-568, and sulforhodamine-101 were purchased from Molecular Probes. Lucifer Yellow, sulforhodamine-B, 1,1-Diethyl-2,2-cyanine iodide (decynium22, D22) 2-NBD-glucose, and 4-(4-(dimethylamino)-styryl)-N-methylpyridinium, (ASP+) were obtained from Sigma Chemical Co., Ltd. (St. Louis, MO, USA). For testing the compounds, one of these negatively or positively charged, or polar molecules, was added to the ICS at the following concentrations: 2 mg/mL (~3.6 µM) 2-NBD-Glucose [59 (link)]; 2 µM ASP+ [72 ]; 1 µM D-22 [72 ,73 (link)]; 1 µM sulforhodamine-101 [74 (link),75 (link),76 (link)]; 100 µM Alexa 488-biocytin [65 ]; 1 mM Lucifer Yellow [24 (link),77 (link)]; 200 µM Alexa 568 [65 ]; and 2 mM sulforhodamine-B [57 (link)].
Carbenoxolone (200 µM CBX), a gap junction uncoupler, used in this study to block fluorescent dye propagation was purchased from Sigma Chemical Co., Ltd. (St. Louis, MO, USA).
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4

Reagent Sourcing for Cellular Assays

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HC-067047 was obtained from Hello Bio (Princeton, NJ), GSK2193874 from Tocris (Minneapolis, MN), 9AC and sulforhodamine 101 from Sigma Aldrich (St. Louis, MO), BTS from TCI America (Portland, OR), and 4-Di-2-ASP from Molecular Probes (Eugene, OR).
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5

Cytochrome P450 Enzyme Inhibition Assay

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CypExpressTM 2C19, 2D6 and 3A4 human kits, quercetin (Q), ticlopidine hydrochloride, quinidine, testosterone, 6β-hydroxytestosterone, ketoconazole, fetal bovine serum (FBS), glutamine, penicillin, streptomycin, pyranine (trisodium 8-hydroxypyrene-1,3,6-trisulfonate), bromosulfophthalein, sulforhodamine 101, sodium orthovanadate, probenecid, 5(6)-carboxy-2′,7′-dichlorofluorescein (CDCF), lucifer yellow (LY), and benzbromarone were purchased from Sigma-Aldrich (St. Louis, MO, USA). Nicotinamide adenine dinucleotide phosphate sodium salt (NADP+), and glucose-6-phosphate barium salt (G6P) were from Reanal (Budapest, Hungary). S-mephenytoin, 4-hydroxymephenytoin, dextromethorphan, and dextrorphan were obtained from Carbosynth (Berkshire, UK). Isorhamnetin (IR) and Ko143 were purchased from Extrasynthese (Genay Cedex, France) and Tocris Bioscience (Bristol, UK), respectively. Quercetin-3′-sulfate (Q3′S), quercetin-3-glucuronide (Q3G), and isorhamnetin-3-glucuronide (I3G) were synthetized as described previously [46 (link)].
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6

Sparse Labeling of Olfactory Neurons

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To sparsely label a few ORNs from any types using the FLPout reporters we generated in this study for time-lapse imaging (Figure 2), we collected hsFLP/pebbled-GAL4;;UAS-FRT100-stop-FRT100-mCD8-GFP/+ pupae at 0h APF and heat shocked at 37°C for 40 min at 0h APF. These pupae were then aged at 25°C for 30h before explant dissection and two-photon imaging. To sparsely label a few ORNs with membrane targeting Halo-tag using MARCM (Figure 4), we heat shocked pebbled-GAL4, FRT19A/tub-GAL80, hsFLP, FRT19A;;UAS-3xHalo7::CAAX/+ at 37°C for 30 min 2 days before puparium formation. We then collected these pupae at 0h APF and aged them at 25°C for 28h, followed by explant dissection, incubation with 2 μM Halo-JF-646 (Grimm et al., 2017 (link)) in 1 ml oxygenated culture media for 1h at room temperature. These explants were then incubated with 1µM Sulforhodamine 101 (Sigma) in 1ml culture media for 5 min at room temperature followed by two time washing in culture media before AO-LLSM based imaging in 50 ml culture media at room temperature. To induce DL1 PN clones, we heat-shocked yw, UAS-mCD8-GFP, hsFLP; FRTG13, GH146-FLP, UAS-mCD8-GFP/FRTG13, tubP-GAL80 at 37°C for 1 hour at approximately 0–4 hours after larval hatching (Jefferis et al., 2004 (link)).
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7

Electrophysiological Recording of Retinal Ganglion Cells

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Borosilicate glass microelectrodes were filled with intracellular solution containing (in mm): 120 Cs-methanesulfonate, 5 TEA-Cl, 10 HEPES, 10 BAPTA, 3 NaCl, 2 QX 314-Cl, 4 ATP-Mg, 0.4 GTP-Na2, and 10 phosphocreatine-Tris2 (pH 7.3, 280 mOsm), and a red fluorescent dye (Sulforhodamine 101; Sigma-Aldrich). Voltage-clamp recordings were performed at the reversal potential for chloride and cations, respectively, −67 and +15 mV. Membrane potential recordings were obtained in current clamp mode (I = 0 nA). Cs-based solution suppressed potassium channel activity to improve voltage-clamp recordings. While Cs likely also altered the resting potential and amplitude of the recorded membrane voltage response, this was not expected to substantially alter the timing of the stimulus evoked response. Post hoc assessment of dendritic morphology from dye fills was used to confirm α-type identity of all electrophysiologically recorded ganglion cells. To test for inhibitory circuit contributions to phase advancing in ganglion cells we used a loss-of-function approach. Glycine receptors were blocked with strychnine (1 μm; Tocris); GABAa receptors were blocked with SR95531 (gabazine, 50 μm; Tocris); GABAa-ρ (former GABAc) receptors were blocked with the selective, competitive antagonist TPMPA (50 μm; Tocris).
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8

Dye Diffusion Measurement in Microwell Arrays

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For testing diffusion, a polar fluorescent dye (10 μM sulforhodamine 101, 607 Da, Sigma-Aldrich) was printed together with test compounds (in alginate hydrogel) in a subset of microwells. Dye diffusion following array attachment to a glass plate or cell layer was measured by fluorescence confocal microscopy using a 4× lens.
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9

Fluorescent Polymer Nanoparticle Synthesis

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PLGA (poly(lactic-co-glycolic acid), Resomer® RG503H, 50:50 lactide/glycolide) was obtained from Boehringer Ingelheim (Ingelheim, Germany). PEMA (poly(ethylene-alt-maleic anhydride)), fluorescein sodium salt, sulforhodamine 101, and albumin bovine fraction V (BSA) were bought from Sigma Aldrich (Vienna, Austria). Wheat germ agglutinin (WGA) from Triticum vulgare was purchased from Vector laboratories (Burlingame, USA). BODIPY® 493/503 (4,4-difluoro-1,3,5,7,8-pentamethyl-4-bora-3a,4a-diaza-s-indacene) was from Invitrogen (Eugene, USA). All other chemicals were of analytical purity.
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10

Synthesis of Gold and Silver Nanoparticles

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The metals, Au and Ag (purity 99.999%), poly(vinylalcohol) (PVA, MW 13000-23000) and Sulforhodamine 101 (S101) were purchased from Sigma-Aldrich. Glass microscope slides were obtained from VWR.
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