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9 protocols using lsr 3

1

Apoptosis and Necrosis Detection

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Phosphatidyl-serine is located on the inner part of the plasma membrane facing the cytosol in normal, live cells, but during apoptosis it is translocated to the cell surface and can be labeled with Annexin V (AV). The vital dye propidium iodide (PI) was used to determine cell membrane injury in the single-cell suspension from neural tissue. The percentage of cells labeled as PI + AV+ (late apoptosis), PI + AV− (necrosis), PI − AV+ (early apoptosis) and PI − AV− (live cells) were quantified following flow on an LSR III (BD Biosciences, San Jose, CA, USA) and FlowJo (FlowJo LLC, Ashland OR, USA) analysis software.
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2

Multiparameter Flow Cytometry Analysis

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Cells were washed with FACS buffer (HBSS containing 0.2% BSA and 0.05% Azide) and treated with anti-FcR (24G2), then stained with specific Abs. Anti-CD3, CD4, CD8, CD25, CD122, CD132, pStat5, pAkt, isotype control Abs, and AnnexinV-FITC kits were purchased from BD Biosciences. Anti-p53 (1C12)-Alexa647 Ab was purchased from Cell Signaling. Propidium iodide (PI) was purchased from SIGMA. For pStat5 and pAkt staining, IL-2-stimulated cells were fixed and permeabilized with 4% paraformaldehyde and ice-cold methanol and acetone solution and incubated with Abs for 1 hr at room temperature. For p53 staining, cells were fixed and permeabilized with Foxp3 staining buffer (eBioscience) according to manufacturer’s instructions and incubated with Ab for 30 min at 4°C. Data were collected with FACS Calibur II, LSR III, or Fortessa (BD Biosciences) and analyzed with FlowJo software (Tree Star). Cell sorting was performed with FACS Aria III (BD Biosciences).
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3

Annexin V-FITC Apoptosis Assay

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The apoptosis assay was performed in cells using Annexin V-FITC Apoptosis Detection Kit (Beyotime Institute of Biotechnology, Shanghai, China) and assessed following flow on an LSR III (BD Biosciences, San Jose, CA, USA) and FlowJo (FlowJo LLC, Ashland, OR, USA) analysis software.
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4

Mitochondrial ROS Quantification

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Before treatment with Antimycin A, cells are incubated with 50 nM MitoTracker® Green FM (Invitrogen, M7514) diluted into Hank's Balance Salt Solution (HBSS) buffer containing calcium and magnesium (Gibco) for 30 min at 37°C. Cells are then washed with HBSS buffer and treated with 10 μM Antimycin A (Sigma-Aldrich, A8674-25MG). After washing in HBSS buffer, cells are treated with 5 μM MitoSOX (Molecular Probes, Carlsbad, CA, M36008) for 30 min at 37°C. Then cells are washed with HBSS buffer and fixed with 4% paraformaldehyde (PFA) for 20 min at room temperature and are stained with 1 mg/l DAPI for 10 min at room temperature. Labeled cells are visualized by fluorescence microscopy (Axio Imager Z2, Zeiss). Alternatively, results can also be analyzed by flow cytometry after staining for 30 min with 5 μM MitoSOX before analysis. Thereafter, cells are trypsinized and fluorescence intensity is measured by flow cytometry at an excitation wavelength of 488 nm and an emission wavelength of 575 nm (LSR III, BD Biosciences).
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5

Asparaginase and WNT3A/Rspo3 Effects on HCT15 Cells

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Briefly, HCT15 cells (100,000 per well) were plated in 1 ml of complete growth medium, containing a final concentration of 100 U/L asparaginase or 100 ng/ml WNT3A ligand and 75ng/ml Rspo3 ligand in a 12-well format. Indicated organoids were seeded in 250 μl of organoid growth medium supplemented with 100 U/L of asparaginase. After 48 hours of treatment, forward scatter height (FSC-H) was assessed by flow cytometry on a Beckton-Dickinson (BD) LSR-III or a BD FACS DIVA instrument.
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6

Murine Blood Cell Phenotyping

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Blood samples from each mouse were collected from the eyes by Sino-orbital puncture of mice using micro-capillary tubes. Blood samples were stored in clean and dry test tubes that contained ethylene diamine tetra acetic acid (EDTA). Red blood lysed with 1 ml of 1x BD FACS TM lysing solution (BD Bioscience, USA) for 10 minutes at room temperature and centrifuge at 500 x g for 5 minutes, discard the supernatant and re-suspend the pellet in 3 ml of PBS. We performed cell count and viability analysis with hemocytometer. Cells were transferred to FACS tubes (BD Bioscience, USA) and performed surface staining with 5 μl of mouse mAbs that are specific for mice epitopes: PerpCP anti-CD3 (BD Bioscience, USA) and FITC anti-CD56 (Abcam, UK) for 30 minutes in the dark at room temperature, following xed the cells with 100 μl of xation buffer and permeabilized with 100 μl of Intracellular staining perm buffer. We performed intracellular staining with 5 μl of APC anti-TNFα (BD Bioscience, USA) and PE anti-INF-g (BD Bioscience, USA) for 30 minutes in the dark at room temperature. Flow cytometry was executed on an LSR III (BD Biosciences, USA) using Diva Ó software.
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7

Isolation and Analysis of Adipose Stromal and Macrophage Populations

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Stromovascular cell (SVC) fractions from mouse gWAT were isolated, as previously described [6] (link). For EdU detection, fixed SVCs were processed for Click-it reaction first, followed by cell-surface marker staining. Antibodies used for flow cytometry analysis were the following: anti-PDGFRα-APC (Biolegend, cat # 135907) for ASCs, CD44-FITC (Biolegend, cat # 103021), and F4/80-APC (Biolegend, cat # 123115) for ATMs. Analytic cytometry was performed using BD LSR III (BD Biosciences) flow cytometers. Raw data were processed using FlowJo software (Tree Star). For gene expression analyses by qPCR or RNAseq, ATMs and ASCs were isolated by magnetic cell sorting (MACS) with anti-F4/80-FITC/anti-FITC-microbeads and anti-PDGFRα-PE/anti-PE-microbeads, respectively (Miltenyi Biotech).
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8

PBMC Immunophenotyping and ZIKV Infection

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Surface staining of PBMCs were performed with the following antibodies: CD45-BV421 (clone HI30, Biolegend), CD14-AF488 (clone M5E2, Biolegend), CD56-PerCP-Cy5.5 (clone 5.1H11, Biolegend), CD3-AF647 (clone HIT3a, Biolegend) and CD19-PerCP (clone HIB19, Biolegend). PBMCs specimens were either sorted based on surface markers expression using BD LSR III (BD) or proceed on to intracellular ZIKV staining for detection of ZIKV-infected cells. Indirect intracellular ZIKV staining was performed using pan flavivirus antibody (clone D1-4G2-4-15, EMD Millipore), followed by fluorescence-conjugated secondary antibody. For profiling of monocyte subsets, separate surface staining for CD45-BV421, CD14-AF488 and CD16-AF647 (clone 3G8, Biolegend) were performed on PBMCs. All fluorescence-conjugated antibodies were purchased from Biolegend. FACS acquisitions were performed on BD FACSCanto II (BD), using BD FACSDIVA software. All FACS data was analyzed using FlowJo software.
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9

PBMC Immunophenotyping and ZIKV Infection

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Surface staining of PBMCs were performed with the following antibodies: CD45-BV421 (clone HI30, Biolegend), CD14-AF488 (clone M5E2, Biolegend), CD56-PerCP-Cy5.5 (clone 5.1H11, Biolegend), CD3-AF647 (clone HIT3a, Biolegend) and CD19-PerCP (clone HIB19, Biolegend). PBMCs specimens were either sorted based on surface markers expression using BD LSR III (BD) or proceed on to intracellular ZIKV staining for detection of ZIKV-infected cells. Indirect intracellular ZIKV staining was performed using pan flavivirus antibody (clone D1-4G2-4-15, EMD Millipore), followed by fluorescence-conjugated secondary antibody. For profiling of monocyte subsets, separate surface staining for CD45-BV421, CD14-AF488 and CD16-AF647 (clone 3G8, Biolegend) were performed on PBMCs. All fluorescence-conjugated antibodies were purchased from Biolegend. FACS acquisitions were performed on BD FACSCanto II (BD), using BD FACSDIVA software. All FACS data was analyzed using FlowJo software.
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