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5 protocols using a31573

1

Podocyte Identification Protocol

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Previously reported protocols were applied (5 (link), 6 (link)). To identify podocytes, we used a combination of WT1 (Agilent Technologies; IS05530-2) and DACH1 (Sigma-Aldrich; HPA012672) (32 (link)) as primary antibodies; Alexa-Fluor 488, -555, and/or -647 as secondary antibodies (Invitrogen; A21202, A31572, A31571, and A31573, respectively) depending on the experiment; and a DNA marker to identify single nuclei — either DAPI (Sigma-Aldrich; D9542) or DRAQ5 (Abcam; ab108410). Optical images were obtained using inverted laser confocal microscopes (Nikon and LSM800, Zeiss), stored in 1024 × 1024 pixel frames. Each image contained 1 glomerulus.
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2

Immunohistochemical Analysis of Cardiac Tissue

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The SV tissues and frozen sections were permeabilized in 0.5% Triton X-100 (Sigma-Aldrich) for 1 hour and immunoblocked with 1% fish gelatin solution (G7765, Sigma) for another 1 hour. The specimens were incubated with different primary antibodies: ZO-1 (1 : 1000; 61-7300, Thermo Fisher), Cx26 (1 : 200; LS-B6429-50, Life Technologies), Cx43 (1 : 400; Ab135763, Abcam), laminin (1 : 200; Ab30320, Abcam), collagen IV (1 : 200; Ab6586, Abcam), alpha-smooth muscle actin (α-SMA, 1 : 200; Ab5694, Abcam), and CD68 (1 : 100; Ab53444, Abcam), diluted in 1% bovine serum albumin- (BSA-) PBS, respectively, at 4°C overnight. The next day, cells were incubated with secondary antibodies (Invitrogen, A21202, A21206, A31571, A31573, and A10040) along with DAPI (D9542, Sigma-Aldrich, USA) at room temperature for 1 h. Coverslips were then mounted, and the samples were observed under a laser scanning confocal microscope (Leica SP8; Leica, Germany).
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Antibody Validation for Immunofluorescence and Western Blotting

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The following antibodies were used for immunofluorescence or western blotting: Primary rabbit polyclonal: anti-actin (Sigma-Aldrich, A5060), anti-Daxx (Upstate, 07–471), anti-ATRX (Santa Cruz, H300), anti-PML (Bethyl Laboratories, A301-167A; Jena Biosciences, ABD-030), anti-Sp100 (GeneTex, GTX131569), anti-Mx1 (Santa Cruz, sc-50509; ProteinTech, 13750-1-AP), anti-ISG15 (ProteinTech, 15981-1-AP), anti-ISG54 (IFIT2, proteinTech, 12604-1-AP), and anti-histone H3 (abcam, ab1791). Primary mouse monoclonal: anti-HIRA (Millipore, 04–1488), anti-ICP0 (11060, [114 (link)]), anti-ICP4 (58s, [115 (link)]), anti-VP5 (DM165, [116 (link)]) anti-UL42 (Z1F11; [117 (link)]), and anti-PML (abcam, ab96051). Primary antibodies were detected using the following secondary antibodies: DyLight-680 or -800 conjugated goat anti-rabbit or -mouse (Thermo; 35568 and SA5-35571), Alexa -488, -555, or -647 conjugated donkey anti-rabbit or -mouse (Invitrogen; A21206, A21202, A31572, A31570, A31573, A31571), or HRP conjugated goat anti-mouse (Sigma-Aldrich, A4416).
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Immunohistochemical Analysis of Cochlear Cells

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After culturing or cryosectioning, the cochlear explants or tissue sections were fixed with 4% paraformaldehyde, permeabilized with 1% Triton X-100 (Sigma-Aldrich, T8787) in PBS (Thermo Fisher Scientific, 10,010,023), and immersed in blocking solution (0.1% Triton X-100, 8% donkey serum (Sigma-Aldrich, D9663), 1% bovine serum albumin (Sigma-Aldrich, A1933), 0.02% sodium azide in PBS) at room temperature for 1 h. After blocking, the samples were incubated with primary antibodies against TUBB3/Tuj1 (1:1,000 dilution; Neuromics, MO15013), LC3B (1:400 dilution; Cell Signaling Technology, 3868), SQSTM1 (1:500 dilution; Abcam, ab91526), and RBFOX3/NeuN (1:500; Cell Signaling Technology,12,943), 4-HNE (1:500; Abcam, ab48506), cleaved-CASP3 (1:400 dilution; Cell Signaling Technology, 9664), PRDX1 (1:500 dilution; GeneTex, GTX101705), or MYO7A (1:800 dilution; Proteus Biosciences, 25–6790) diluted in blocking solution at 4°C overnight. The next day, cells were incubated with secondary antibodies (Invitrogen, A21202, A21206, A31571, A31573, A10040) along with DAPI (Sigma-Aldrich, D9542) at room temperature for 1 h. Coverslips were then mounted and the samples were observed under a laser scanning confocal microscope (Leica SP8; Leica, Germany).
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5

Antibody panel for protein detection

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The following antibodies were used for immunofluorescence or western blotting: Primary rabbit polyclonal: anti-actin (Sigma-Aldrich, A5060), anti-Daxx (Upstate, 07–471), anti-ATRX (Santa Cruz, H300), anti-PML (Bethyl Laboratories, A301-167A; Jena Biosciences, ABD-030), anti-Sp100 (GeneTex, GTX131569), anti-SUMO2/3 (Abcam, ab22654), anti-Mx1 (Santa Cruz, sc-50509;ProteinTech, 13750-1-AP), anti-ISG15 (ProteinTech, 15981-1-AP), and anti-ISG54 (IFIT2, proteinTech, 12604-1-AP). Primary mouse monoclonal: anti-ICP0 (11060, [92 (link)]), anti-ICP4 (58s, [93 (link)]), anti-VP5 (DM165, [94 (link)]), anti-SUMO2/3 (Abcam, ab81371), anti-PML (abcam, ab96051), anti-IFI16 (abcam, ab55328; Santa Cruz, sc-8023). Primary antibodies were detected using the following secondary antibodies: DyLight-680 or -800 conjugated anti-rabbit or -mouse (Thermo; 35568 and SA5-35571), Alexa -488, -555, or -647 conjugated anti-rabbit, or -mouse (Invitrogen; A21206, A21202, A31572, A31570, A31573, A31571), HRP conjugated anti-mouse (Sigma-Aldrich, A4416).
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