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10 protocols using anti neurofilament

1

Analyzing JNK and Opsin Expression

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TPA and SP600125 were purchased from Beyotime Biotechnology. Papain was purchased from Sigma Aldrich (St. Louis, MO, USA). DNase I was purchased from Roche. The following antibodies were used: anti-JNK1 (sc-136205, Santa Cruz Biotechnology, Santa Cruz, CA, USA), anti-JNK2 (sc-271133, Santa Cruz Biotechnology), anti-S-opsin (ab229786, Abcam, Cambridge, UK), anti-M-opsin (NB110-74730, Novus, Centennial, CO, USA), anti-Rhodopsin (NB120-3267, Novus), anti-Notch1 (D6F11, Cell Signaling), anti-neurofilament (ab223343, Abcam), anti-c-Jun (60A8, Cell Signaling), anti-c-Jun (sc-74753, Santa Cruz Biotechnology), anti-p-c-Jun ser63 (54B3, Cell Signaling), anti-p-c-Jun ser73 (D47G9, Cell Signaling), anti-β-actin (A5316, Sigma Aldrich), normal mouse IgG (sc-2025, Santa Cruz Biotechnology), anti-JNK (sc-7345, Santa Cruz Biotechnology), and anti-p-JNK (81E11, Cell Signaling).
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2

Imaging Neuromuscular Junctions in Mice

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Teased muscle fibers from gastrocnemius of 14 days old mice were labeled with α-BTX (Invitrogen) for AChRs, anti-neurofilament (Abcam), and antivesicular acetylcholine transporter (VAChT; synaptic system) antibodies for nerve terminals. Fluorescently labeled NMJs were observed with confocal microscopy and quantified as previously described [20 (link), 27 (link)].
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3

Immunocytochemical Analysis of Neurotransmitter Receptors

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Bungarus caeruleus venom was supplied by Latoxan (France) and the lyophilized samples were kept at –20°C and reconstituted in phosphate-buffered saline solution (PBS) prior to use. The following primary antibodies were employed: anti-VAMP1 (1:200) [54 (link)], anti-Neurofilament (Abcam, cat. Ab 4680, 1:800), mAb-A06 (MT1) provided by Prof. M. Solimena [55 (link)], α-bungarotoxin Alexa555-conjugated (α-BTX555) (cat. B35451, 1:200) and secondary antibodies Alexa-conjugated (1:200) were from Life Technologies. Agomelatine (cat. A1362), Ramelteon (cat. SML2262), and melatonin (cat. M5250) were purchased from Sigma-Aldrich. Unless otherwise stated, all other reagents were from Sigma.
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4

Immunohistological Evaluation of Axonal Reinnervation

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For immunohistological evaluation, femoral nerves were harvested 5 days and 2 weeks after surgery and fixated in 4% buffered formaldehyde (VWR, Radnor, PA, United States) overnight. Subsequently, nerves were washed (distilled water) and transferred into 30% sucrose in phosphate buffered saline (PBS). 25 μm thick longitudinal sections were cut using a cryostat and mounted on gelatine-coated glass slides.
In order to evaluate axonal reinnervation, sections were blocked with 5% skim milk and subsequently stained with anti-Neurofilament (rabbit monoclonal; Abcam, United Kingdom) overnight at 4°C. After washing with PBS, sections were incubated with secondary antibody (anti-rabbit Alexa Fluor 488 Life Technologies, MA, United States) mounted for microscopical evaluation using glycerol.
Cresyl violet staining was performed as follows: cryosections were rinsed in distilled water and stained with 1% w/v Cresyl Violet solution pH 4 (Sigma-Aldrich) for 5–10 min. Samples were mounted with DPX mounting media (Sigma-Aldrich).
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5

Quantifying Tumor Nerve Density

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Untreated or irradiated MC38-luc tumor bearing mice were sacrificed on day 14. Tumors were excised, fixed in 10% neutral buffered formalin (Azer Scientific), paraffin embedded, and sectioned into 5-micron slices. IHC was performed using anti-neurofilament (Abcam), or anti-B2AR (Bioss) primary antibodies (Supplemental Table 4) and counter stained with hematoxylin. Nerve density was quantified by a board-certified surgical pathologist and normalized to tumor area determined by Aperio Image Scope.
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6

Immunostaining of Cochlear Tissues

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The cochlear explants were immediately fixed overnight in 4% paraformaldehyde at 4 °C, permeabilized and blocked by 1% PBST mixed with 10% donkey serum for an hour, then incubated with primary antibodies, including anti-parvalbumin (1:500 dilution, Abcam, 32895), anti-myosin 7a (1:500; Proteus Biosciences, 25-6790), anti-cleaved caspase-3 (1:500; Cell Signaling Technology (CST), 9664s), anti-HMGB1 (1:500, ab18256), anti-RAGE (1:500, ab37647), anti-C-terminal binding protein (CtBP2, 1:1000, BD Transduction Laboratories, BD Biosciences), anti-SOX2 (1:1000, R&D Systems, Minneapolis), and anti-neurofilament (1:1000, Abcam). Cochleae were incubated for 2 h with secondary antibodies at 37 °C. And DAPI (Sigma Aldrich, D9542) labeled the nuclei. All the images were taken by confocal laser scanning (Leica Microsystems, Germany). Photoshop (Adobe Systems Inc. USA) was used to assemble, examine, and manipulate these images.
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7

Characterization of Neurotoxic Venom Components

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The following primary antibodies were employed: anti-VAMP1 (1:200, generated as described in [23 (link)]), anti-CXCR4 (Abcam, cat. Ab 124824, 1:400, Cambridge, UK), and anti-Neurofilament (Abcam, cat. Ab 4680, 1:800). The α-bungarotoxin (α-BTx) (cat. B35451, 1:200) and Alexa-conjugated secondary antibodies (1:200) were from Life Technologies. Unless otherwise stated, all other reagents were from Sigma. NUCC-390 was synthesized as previously described in [20 (link)].
The M. nigrocinctus venom was a pool of more than 50 specimens collected in the central and Pacific regions of Costa Rica and kept at the Serpentarium of Instituto Clodomiro Picado (University of Costa Rica). Once obtained, the venom was freeze-dried and stored at −20 °C.
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8

Whole-mount and Sectioned Retinal Staining

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Whole-mount retinas were stained with the following primary antibodies: BSL-FITC (1:500, Vector Laboratories), BSL-rhodamine (1:750, Vector Laboratories), anti-Collagen IV (1:2000, Abcam), anti-cleaved Caspase 3 (1:500, Cell Signaling) and anti-NG2 (1:500, Millipore). Imaging of whole-mount retinas was performed with a Zeiss LSM700 confocal microscope. Sectioned retinas were stained with the following primary antibodies: anti-Caveolin-1 (1:2000, Abcam), anti-Sox17 (1:50, R&D Systems), anti-Islet-1 (1:5000), anti-Sox9 (1:1000, Millipore), anti-Neurofilament (1:1000, Abcam) and anti-Rhodopsin (1:500, Abcam). Sectioned retinas were imaged with a Zeiss Axioimager.
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9

Comprehensive Auditory Tissue Analysis

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Each cochlear was dissected into three turns (apex, middle, and base turn) and then blocked in 0.01 M PBS with 10% normal goat serum. Next, cochlear segments were incubated with primary antibodies, including anti-myosin 7a (25-6790; Proteus Biosciences, Ramona, CA, USA), anti-Tuj-1 (801202; BioLegend, San Diego, CA, USA), anti-neurofilament (ab72996; Abcam, Cambridge, UK), anti-parvalbumin (32895; Abcam), anti-cleaved caspase-3 (9664s; Cell Signaling Technology, Danvers, MA, USA), and anti-CtBP2 IgG1 (612044; BD Biosciences, Franklin Lakes, NJ, USA). After washing with PBS, samples were incubated with secondary antibodies (Invitrogen Corporation, Carlsbad, CA, USA) at 4 °C overnight. Image acquisition was performed using the TCS SP8 confocal microscope from Leica (Hamburg, Germany).
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10

Immunohistochemical analysis of CXCR4, syntaxin, and neurofilament

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The following primary antibodies were used at the indicated dilutions: anti-CXCR4 (Abcam, cat. Ab 124824, 1:400), anti-syntaxin (Synaptic System, cat. 110111.00, 1:200), anti-Neurofilament (Abcam, cat. Ab 4680, 1:800). α-bungarotoxin (α-BTx) (cat. B35451, 1:200) and secondary antibodies Alexa-conjugated (1:200) were from Life Technologies. Unless otherwise stated, all other reagents were from Sigma. NUCC-390 was synthesized as previously described [46 (link)]
Purified Taipoxin and Oxyuranus scutellatus total venom were from Venom Supplies (Tanunda, South Australia). We estimated that our batch of taipoxin has a mouse LD50 of about 2 μg/Kg and that the Taipan venom is about 8 μg/Kg closely similar to value reported in the literature [47 (link)].
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