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2 protocols using live dead fixablenear ir dead cell stain

1

T-cell Proliferation Assay with BMDCs

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Spleens
were isolated from OT-I and OT-II mice, passed through a cell strainer,
and treated with ammonium chloride to lyse red blood cells. The remaining
white blood cells were sorted for CD8a (Ly-2) and CD4 (L3T4) T-cells
with MicroBeads (Miltenyi, Bergisch Gladbach, Germany). The sorted
T-cells were stained with CFSE (Invitrogen) (20 μM). Then, they
were added to BMDCs activated for 24 h with either PBS, a mixture
of CpG (0.2 μM) and OVA (79 nM), a CpG–OVA conjugate
(equivalent to 0.2 μM CpG and 79 nM OVA), or activated for 3
h with SIINFEKL (2.6 μM) or OVA323-339 (1.4 μM) at a BMDC–T-cell
ratio of 1:10. After 72 h, the cells were stained with LIVE/DEAD Fixable
Near-IR Dead Cell Stain, treated with CD16/CD32 Fc-blocking antibody,
and then labeled with the following antibodies (BioLegend): CD3-PE-CF594
(clone 145-2C11) to distinguish T-cells and CD8α-APC (clone
53–6.7) or CD4-APC (clone RM4-5). Fluorescence was measured
using a Gallios flow cytometer and analyzed using FlowJo software
version 8.8.6 (TreeStar Inc., Ashland, OR). Percent proliferation
of T-cells was calculated using the “Proliferation”
feature in FlowJo, which assesses the proliferation peaks of CFSE-stained
cells. One-way ANOVA with Dunnett’s post hoc test was performed
using GraphPad Prism version 6.0b.
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2

Multiparametric Flow Cytometry Analysis

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Murine pre- and post-enrichment bone marrow cells were incubated with LIVE/DEAD™ Fixable Near-IR Dead Cell Stain (Thermo Fisher Scientific Inc., #L34975) and the anti-CD45-FITC (1:100, BioLegend, #103107), anti-mouse c-kit-APC (1:100, BioLegend, #105811) and anti-mouse CD11b-PErCP/Cy5.5 (1:100, BioLegend, #101227) primary antibodies. Samples were then analyzed in a NovoCyte flow cytometer (ACEA Biosciences Inc.). For zebrafish chimera cell analyses at 2 dpf, embryos were euthanized with tricaine in E3 medium (8-12 embryos per condition) and mechanically dissociated by sterile razor blades or 0.05% trypsin (Gibco™). A single-cell suspension was prepared by collecting dissociated tissue in 0.5 ml 0.9× PBS/2% FBS and passing the sample through a 40-µM nylon mesh. Samples were subjected to 3 nM DRAQ-7 Dead Cell Stain (Abcam, #ab109202) or LIVE/DEAD™ Fixable Near-IR Dead Cell Stain and incubated with the aforementioned antibodies or Ter119-APC (1:100, BioLegend, #116211), CD19-APC (1:100, BioLegend, #152409), CD3-APC (1:100, BioLegend, #100235), Gr1-APC (1:100, BioLegend, #108411), F4/80-APC (1:100, BioLegend, #123115) or CD11b-PE (1:100, BioLegend, #101207) and analyzed by flow cytometry on a BD FACSAria II (Becton Dickinson) or a NovoCyte flow cytometer. Data analysis was performed in FlowJo v10.
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