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1 075 protocols using 4 6 diamidino 2 phenylindole (dapi)

1

Autophagy Induction in PGCs

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Approximately 1 × 106 cells/well were seeded in 24-well plates. After being attached, PGCs were treated with 10 nM 1α,25(OH)2D3, chloroquine (10 μM), and NAC (4 mM) for 24 h. MDC (monodansylcadaverine) was used as a tracer of autophagic vesicles. The autophagosomes are marked as clear green dots under the fluorescence microscope. After treatment, the cells were treated with MDC (0.05 mM) (Kaiji Biotechnology Co., Ltd., Nanjing, China) and DAPI (1 μg/mL) (4′,6-diamidino-2-phenylindole) (Solarbio) following the manufacturer’s protocol. Briefly, the cells were grown with MDC and DAPI at 37 °C for 15 min and fixed immediately with paraformaldehyde (4%) in PBS for 20 min, then observed under a fluorescence microscope (Olympus Corporation). LED intensity, integration time, and camera gain were fixed while taking pictures. Image J software was used to process the images, a total of 200 cells in each sample were analyzed, and the percentage of cells with green spots indicates the percentage of autophagy.
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2

Immunofluorescence Staining of HUVECs and Tissue Sections

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HUVECs were cultivated to confluence on glass slipcovers before their fixation with 4% paraformaldehyde for 10 min. Fluorescent labeling antibodies were applied to monolayer cells after blocking with 3% BSA for 30 min at room temperature. Afterwards, sections were incubated with DAPI (Solarbio, China), a nucleus-specific anti-fluorescence agent.
Tissues embedded in paraffin were sectioned and placed on glass transparencies. Sections were immersed in 3% H2O2 and serum albumin to inhibit endogenous peroxidase activity and nonspecific binding, respectively. After that, primary antibodies and secondary antibodies conjugated with Alexa Fluor 488 or 594 (Abcam, USA) were added, and the sections were incubated at 4 °C for 24 h. Anti-fluorescence quenching agent DAPI (Solarbio, China) was used to counterstitch nuclei. Image acquisition was performed using a Zeiss LSM510 Meta (Zeiss, Germany).
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3

Visualizing mEXO Internalization and miR-31-5p Uptake

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mEXOs were incubated with a red fluorescent dye (Dil, Biotium, USA) for 30 min, and then were centrifuged to remove contaminating dye and to obtain the labeled mEXOs. For internalization assay, HUVECs were seeded in 24-well culture plates (30,000 cells per well) for 12 h, and co-cultured with Dil-labeled mEXOs for 24 h. After incubation, cells were washed twice with PBS and fixed in 4% paraformaldehyde for 10 min; thereafter, the nucleic was stained with DAPI (Solarbio, Beijing, China) and the cytoskeleton was stained with FITC phalloidin (Yeasen Biotech Co., Shanghai, China) according to the manufacturer’s instructions. The mEXO uptake by cells was observed by using the laser scanning confocal microscope. For cell miR-31-5p uptake assay, FAM-labeled miR-31-5p mimics were obtained from Ribobio company (Guangzhou, China) and were encapsulated into Dil-labeled mEXOs through electroporation. HUVECs were seeded in 24-well culture plates (30,000 cells per well) for 12 h, and co-cultured with PBS, FAM-labeled miR-31-5p mimics, Dil-labeled mEXOs, and FAM-Dil-labeled mEXO-31, respectively for 24 h. After incubation, cells were washed twice with PBS and fixed in 4% paraformaldehyde for 10 min; thereafter, the nucleic was stained with DAPI (Solarbio, Beijing, China). The cell miR-31-5p uptake was observed by using the laser scanning confocal microscope.
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4

Immunofluorescence Staining of Schwann Cells and Regenerated Nerves

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After culture for 5 days, Schwann cells were fixed with paraformaldehyde, washed with PBS, and incubated for 2 h at 37°C with rabbit anti-S100 antibody (S2644; Sigma-Aldrich). After rinsing with PBS, samples were incubated with goat anti-rabbit IgG H+L (Alexa Fluor 594) (ab150084; Abcam) in the dark for 1 h at room temperature. The samples were then rinsed with PBS and counterstained with 4′,6-diamidino-2-phenylindole (DAPI; Solarbio) for 10 min. Regenerated sciatic nerves were cut after 4 weeks, fixed with paraformaldehyde, washed with PBS, incubated for 2 h at 37°C with mouse anti-NF200 antibody (N0142; Sigma-Aldrich) and rabbit anti-CD31 antibody (ab182981; Abcam), and incubated with goat anti-rabbit IgG H+L (Alexa Fluor 594) (ab150084; Abcam) and goat anti-mouse IgG H+L (Alexa Fluor 488) (ab150117; Abcam) in the dark for 1 h at room temperature. The samples were then rinsed with PBS and counterstained with DAPI (Solarbio) for 10 min.
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5

Immunostaining Fibrocytes with Antibodies and Aptamers

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Adherent fibrocytes were washed twice with PBS, fixed with paraformaldehyde for 30 min, washed and incubated with 0.5% Triton-100 for 10 min. Non-specific binding was blocked by incubation with bovine serum albumin (BSA) for 1 h. The fibrocytes were washed thrice with PBS and incubated with antibodies to CD45, collagen I, TSHR, and CD34 (each from Proteintech, Wuhan, China) for 24 h at 4°C. The fibrocytes were again washed thrice with PBS and incubated with anti-rabbit secondary antibody (Multi Sciences, China) for 1 h at room temperature. Nuclei were subsequently stained with DAPI (Solarbio) for 5 min.
For staining with aptamer, aptamer was denatured at 95°C for 10 min and renatured on ice for 10 min. Fibrocytes were washed with PBS three times and incubated with 250 nM aptamer for 30 min at room temperature. The cells were washed with PBS, and the nuclei were stained with DAPI (Solarbio) for 5 min. Fluorescence was evaluated using a fluorescence microscope.
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6

Immunofluorescence Assay for p65 Nuclear Localization

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The cells were seeded into 6-well plates and incubated for 24 h. After being fixed with 4% formaldehyde for 10 min, the cells were incubated with 1% BSA in PBS-tween for 1 h to block nonspecific protein-protein relationships. The cells were incubated with antibodies against p65 (1:100, ab32536, Abcam) at 4°C overnight, and then with green fluorescent-labeled secondary antibody (1:50, ab150077, Abcam) for 60 min at ambient temperature. 4’,6-diamidino-2-phenylindole (Solarbio, Beijing, China) was supplemented for a 15-min incubation at room temperature. Finally, an anti-fluorescence sealing solution (Solarbio) was added to prevent fluorescence decay, and the fluorescence of the cells was observed using a fluorescence confocal microscope (FV10i, Olympus).
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7

Immunofluorescence Staining of Pax7 and MyoD

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After cells climbing slides, the sample was fixed with 4% cold paraformaldehyde for 30 min and 0.1% Triton‐100 for 10 min to break the cell membrane. Then, 5% goat serum solution was added to block for 30 min. Immunofluorescence staining was performed with anti‐Pax7 (20570‐1‐AP; Proteintech, Wuhan, China) and MyoD (ab16148; Abcam, Cambridge, UK) antibodies. Secondary antibodies, anti‐rat (CW0102S; CWBIO, Taizhou, China) and anti‐rabbit (CW0103S; CWBIO), were added at 37 °C for 1 h. The sample was sealed with an anti‐fluorescence decay seal containing 4′,6‐diamidino‐2‐phenylindole (Solarbio) and observed under fluorescence microscope (Nikon, Tokyo, Japan).
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8

Cardiac Fibroblast Immunofluorescence Imaging

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Cardiac fibroblasts were divided into six groups as described in the Cardiac fibroblasts isolation and cultivation section and were then fixed with 4% paraformaldehyde for 20 min. CFs were incubated with rabbit polyclonal anti‐collagen I (1:100, Abcam) and anti‐Vimentin (1:100, CST, Beverly, MA, USA) primary antibodies overnight at 4°C and then with the DyLight 594 AffiniPure goat anti‐rabbit IgG secondary antibody (1:100, EarthOx, Millbrae, CA, USA) for 1 h at room temperature. Nuclei were stained with 4′,6‐diamidino‐2‐phenylindole (1 mg/mL; Solarbio, Tongzhou District, Beijing, China) for 5 min, and images were acquired using a Leica DMi8 (Buffalo Grove, IL, USA) inverted microscope (magnification: ×200).
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9

Immunofluorescence Analysis of PGC-1α in Brain Tissue

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The immunofluorescence analysis was performed according to the previous study [33 (link)]. The paraffin tissue blocks were cut in sections using a microtome. After washing three times with PBS, the brain sections were blocked in PBS at 37°C for 2 h using 10% goat serum (Solarbio, China) and 0.3% Triton X-100 (Solarbio, China). Then, the sections were incubated with primary antibodies (PGC-1α, ab106814, 1 : 300, Abcam) overnight at 4°C. After washing with PBS, the sections were incubated with secondary antibodies (4412, 1 : 1000, Cell Signaling Technology) for 1 h and with 4′,6-diamidino-2-phenylindole (Solarbio, China) for 5 min. Fluorescence was observed with a fluorescence microscope. The results were analyzed using Image-Pro Plus software. Investigators were blinded to the experimental groups.
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10

Fluorescent Actin Cytoskeleton Imaging

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For immunofluorescence, 1 × 104 cells in 100 μl of medium were placed in 96-well plates (6055300, PerkinElmer). Cells were fixed with 4% paraformaldehyde for 20 min, permeabilized, and blocked with 0.5% Triton X-100 (T8200, Solarbio) for 20 min. After incubation with Actin-Tracker Red-594 (C2205S, Beyotime) for 30 min, the cells were incubated further with 4′,6-diamidino-2-phenylindole (C0060, Solarbio) for 5 min at a 1:1000 dilution. Fluorescence images were captured using Opera Phenix Plus (PerkinElmer, HH14001000). Image analysis was performed with Harmony software (https://support.myharmony.com/en-cn/download).
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