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6 protocols using alexa fluor 405 goat anti rabbit igg h l

1

Localization of EYFP-B2 and Drp1 in GF-1 Cells

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GF-1 cells were seeded in 6-well plates with 2.5 mL of medium (105 cells/mL) for 20 h and then transfected with EYFP, EYFP-B2 and EYFP-B2Δ for 48 h. The cells were washed with cold PBS, fixed in 4 % formaldehyde for 30 min at room temperature, washed with PBS twice and then permeabilized with PBST buffer (0.1 % Triton X-100 in PBS) for 15 min at room temperature. After the cells were washed with PBS twice, they were blocked with 1 % BSA for 60 min at RT, and then incubated overnight at 4 °C with antibodies against Drp1 (1:50, Aviva Systems Biology, San Diego, CA, USA) overnight. After cells were washed with PBST buffer twice, they were incubated for 60 min with Alexa Fluor® 405 Goat Anti-Rabbit IgG (H+L) (1:500, Invitrogen) in 1 % BSA and washed with PBST twice. Immunofluorescence was examined using an Olympus IX70 fluorescence microscope (Tokyo, Japan) at 488-nm excitation and 515-nm long-pass filter for detection EYFP-B2 protein (with green fluorescence); 330-nm excitation and 420-nm long-pass filter was used for detection of the blue florescence (with Drp1) in the mitochondria.
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2

Characterization of Neuronal and Astrocytic Cell Populations by FACS

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Fluorescence activated cell sorting (FACS) was performed to characterize neuronal and astrocytic NuTRAP cassette expression. Whole hippocampal tissue from Emx1-NuTRAP mice was isolated and single-cell suspensions were immunostained for cytometric analysis89 . We used antibodies for THY-1 (OX7) AlexaFluor™ 647 (Santa Cruz Biotechnology, sc-53116 AF647, Lot: F2716; concentration: 1:50) and S100β (Abcam, ab41548, Lot:GR3326165-1; concentration: 1:200) with an AlexaFluor™ 405 goat anti-rabbit IgG (H + L) (Invitrogen, A31556, Lot: 2273716; concentration:1:800) secondary antibody. FACS analysis was performed using a BD FACSAria™ Fusion Flow Cytometer (BD Biosciences) at the University of California, Irvine Stem Cell Core. Samples and single-stain controls were analyzed using the FlowJo v10.8.1 software (BD Biosciences). Samples and controls were positively gated for live cells (SSC-A and FSC-A) and single cells (FSC-H and FSC-A), and negatively gated for autofluorescence (Comp-Alexa Fluor 647-A (Thy1) and Comp-BV421-A (S100β)). Fraction of GFP + neuronal cells was determined using quartile analysis of Thy-1 and Comp-GFP-A (GFP). Fraction of GFP + astrocytic cells was determined using quartile analysis of S100β and Comp-GFP-A (GFP).
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3

Immunofluorescence and RNA FISH Assay

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For immunofluorescence (IF), cells were fixed on coverslips and permeabilized with 0.1% Triton-X in PBS at room temperature for 10 min, and blocked with 5% normal goat serum in PBS at room temperature for 10 min. Cells were then incubated with primary antibodies at room temperature for 1 h, followed by incubating with secondary antibodies at room temperature for 1 h. The samples were then processed using the RNA FISH protocol, as described above. Primary antibodies and the dilution used for IF were anti-RNA polymerase II CTD repeat YSPTSPS (phospho S2) (Abcam; ab5095) (1:100), anti-Nanog (Abcam; ab80892) (1:100), and anti-EZH2 (Active Motif; 39933) (1:100). Secondary antibodies and the dilution used for IF were Alexa Fluor® 405 goat anti-rabbit IgG (H+L) (Life Technology; 1575534) (1:100) and Alexa Fluor® 488 F(ab’)2 fragment of goat anti-rabbit IgG (H+L) (Life Technology; 1618692) (1:100).
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4

Immunofluorescence and RNA FISH Assay

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For immunofluorescence (IF), cells were fixed on coverslips and permeabilized with 0.1% Triton-X in PBS at room temperature for 10 min, and blocked with 5% normal goat serum in PBS at room temperature for 10 min. Cells were then incubated with primary antibodies at room temperature for 1 h, followed by incubating with secondary antibodies at room temperature for 1 h. The samples were then processed using the RNA FISH protocol, as described above. Primary antibodies and the dilution used for IF were anti-RNA polymerase II CTD repeat YSPTSPS (phospho S2) (Abcam; ab5095) (1:100), anti-Nanog (Abcam; ab80892) (1:100), and anti-EZH2 (Active Motif; 39933) (1:100). Secondary antibodies and the dilution used for IF were Alexa Fluor® 405 goat anti-rabbit IgG (H+L) (Life Technology; 1575534) (1:100) and Alexa Fluor® 488 F(ab’)2 fragment of goat anti-rabbit IgG (H+L) (Life Technology; 1618692) (1:100).
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5

Immunofluorescence Staining of Zebrafish Embryos

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Embryos at 72 hpf were fixed overnight at 4°C in 4% PFA in 1× PBS and processed according to a published protocol for immunofluorescence staining (Verduzco and Amatruda, 2011 (link)). Zebrafish embryos were stained with primary antibodies directed against Phospho-p44/42 MAPK (Erk1/2) Thr202/Tyr204 (4370 S, Cell Signaling) at 1:200, GFP (4B10) (2955, Cell Signaling) at 1:300, or Phospho-Histone H3 (Ser10) (D7N8E) (53348, Cell Signaling) at 1:500. The secondary antibodies used were Goat anti-Mouse IgG (H + L) Alexa Fluor Plus 488 (# A32723, Thermo Fisher), Donkey anti-Rabbit IgG (H + L) Alexa Fluor 546 (A10040, Thermo Fisher), and Goat anti-Rabbit IgG(H + L) Alexa Fluor 405 (A31556, Thermo Fisher) at 1:500. The staining was repeated at least three times.
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6

Immunostaining of Chondrocyte Transcription Factors

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Primary cell cultures were fixed for 15 min at room temperature with 3% formaldehyde/PBS. The fixed cultures were washed and permeabilized with 0.1% Triton X‐100/PBS at room temperature for 10 min, incubated with primary antibodies diluted in PBS at room temperature for 1 hr, washed with PBS, and then incubated with regular secondary antibodies conjugated to Alexa 405 (Life Technologies) for 1 hr at room temperature. The following primary and secondary antibodies were used: Anti‐SOX9 antibody (Merck Millipore, AB5535), Anti‐SOX5 antibody (Abcam, ab94396), Anti‐SOX6 antibody (Abcam, ab30455), Anti‐p21 antibody (Cell Signaling Technology, 2946), Goat anti‐Rabbit IgG H + L Alexa Fluor 405 (Thermo Fisher, A‐31556), Goat anti‐mouse IgG H + L Alexa Fluor 405 (Abcam, ab175660).
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