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41 protocols using cd56 fitc

1

Multiparameter Flow Cytometry of Cell Subsets

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For staining of cell surface phenotyping markers, the following conjugated antibodies were used: CD3-PE, CD8-APC-H7, CD56-FITC, and CD107a-PE-Cy7, purchased from BD Biosciences (San Jose, CA, USA). For staining of exhaustion markers, the following conjugated antibodies were used: CD3-BV510, CD8-APC-H7, CD56-FITC, and PD1-BV650, purchased from BD Biosciences, as well as CD4-PE, purchased from Immunostep S.L. (Salamanca, Spain) and TIGIT-AlexaFluor700 purchased from Thermo Fisher (Waltham, MA, USA). Samples were acquired by using BD LSRFortessa X-20 flow cytometer with FACS Diva software v 6.0 (BD Biosciences, Franklin Lakes, NJ, USA) and then analyzed using FlowJo software v10.0.7 (Tree Star Inc., Ashland, OR, USA).
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2

Flow Cytometric Analysis of Immune Cells

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The cultures were collected, washed, incubated for 15 min with mouse mAbs against human CD3-PerCP, CD56-FITC, or PE, CD69-APC, CD16-PE (BD Biosciences, USA), and NKG2D-PE (BioLegend, USA). NK cells were incubated with CD158a-PE and CD158b-PE (BD Pharmingen, USA), CIK cells were incubated with CD4-PE and CD8-APC (BD Biosciences) and γδ T cells were incubated with Vγ9-FITC (BD Pharmingen), CD4-PE, and CD8-APC. Isotype-matched antibodies were used as controls. Perforin and granzyme B detection was performed according to the BD Cytofix/Cytoperm™ Kit manual (BD Biosciences). Briefly, NK, CIK, and γδ T cells were harvested and adjusted to 1 × 106 cells/mL in RPMI-1640 medium containing 10 % fetal calf serum, and incubated 0.1 % GolgiStop (BD Biosciences) for 4 h. After pre-incubation with 10 % normal human serum, cells were stained with mAbs to identify NK (CD3CD56+), CIK (CD3+CD56+), and γδ T cells (CD3+Vγ9+), followed by intracellular staining for perforin-PE and granzyme B-PE (BD Pharmingen), and the corresponding isotype antibodies to determine intracellular cytokine levels.
Flow cytometry data acquisition was performed on a BD FACS Calibur (BD Biosciences) with Cell Quest Pro software. Analysis was performed with FlowJo software (Tree Star, USA).
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3

Comprehensive NK Cell Profiling in Melanoma

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NK cell phenotype of melanoma patients enrolled in the trial was examined using fluorochrome-conjugated antibodies against the following cell-surface markers: CD56-FITC, CD3-PC7, CD16-APC, CD69-BV421, NKp30-BV711, CXCR3-BV421, CCR3-BV510 (BD Biosciences; San Diego, CA), NKp44-PerCP eFluor 710 (eBioscience; San Diego, CA), CXCR1-PE (R&D Systems; Minneapolis, MN), CCR7-BV711 (BioLegend; San Diego, CA), and matching IgG isotype controls from the same vendors. The immune checkpoint and NK cell activation receptor panel included the following markers: Zombie NIR Fixable Viability Dye (BioLegend; San Diego, CA), CD3-PE-Vio770 (Miltenyi Biotec; San Diego, CA), ANK-1-PE (Santa Cruz Biotechnology; Dallas, TX), TIGIT-PerCP eFluor 710 (eBioscience), CD45-BUV395, CD56-BV510, CD16-BUV737, NKG2D-APC, NKp46-BV711, CD69-BV421, and PD-1-BV650 (BD Biosciences).
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4

Multicolor Flow Cytometry Analysis of Adipose Cells

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Multicolor flow cytometry measurements were performed and analyzed as described previously [23 (link),25 (link)]. Briefly, cells isolated from the SVF, which were obtained following collagenase digestion and lysis of red blood cells, were stained for flow cytometry using two antibody cocktails. Cocktail 1 included CD45-PE-Cy7 (BD 557748), CD3-fitc (BD 561807), CD19-fitc (BD 555412), CD56-fitc (BD 562794), CD66b-fitc (BD 555724), CD11b-BV421 (Biologend 301324), and CD11c-APC-Cy7 (Biolegend 337218). Cocktail 2 included CD45-PE-Cy7 (BD 557748), CD3-V500 (BD 561416), CD4-PerCP (Biolegend 300528), CD8 APC-H7 (BD 641400), CD19-BV421 (Biolegend 302234), and CD56-APC (Biolegend 318310). Samples were measured with a FACS-Canto II (BD Biosciences, Gurugram, India). Results were analyzed with FACSdiva (BD Biosciences) and FlowJo software version 10. Since weight of the adipose tissues was unavailable, data are expressed as % of cells relative to total cells (based on forward and side scatter plot).
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5

Characterization of NK Cell Activation

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To assess proliferation and further characterisation of the differentiation of NK cells, PBMC were permeabilised and stained with anti-Ki67-PE (eBioscience, Hatfield, UK), Granzyme-B-FITC and Perforin-Cy5.5/PerCP (Biolegend, London, UK) directly ex-vivo. For intracellular staining for IFNγ production; PBMC were incubated with rhIL12 and rhIL15 (10ng/ml) (R&D systems, Abingdon, UK), for 19 hours at 37°C. 1mM monensin (Sigma-Aldrich, Gillingham, UK) was added for the final 3 hours. Cells were then stained with anti-CD3-Cy5.5/PerCP or CD3/Pe-Cy7, CD16-APCy7, CD56-FITC, and subsequently fixed and permeabilised, followed by intracellular staining for IFNγ-v450 (BD Biosciences, Oxford, UK). Dead cells were excluded by fixable live dead stain.
For degranulation, PBMCs were incubated with K562 cells (5:1 E:T ratio) for 3 hours following overnight stimulation with a combination of 50ng/ml rhIL12 and rhIL18 (Miltenyi Biotech). Anti-CD107a-PE mAb (BD Biociences, Oxford, UK) was added at the time of stimulation with target-cells and monensin (1mM) added during the last 2 hours of incubation prior to staining and acquisition.
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6

Flow Cytometry Analysis of Lung Tissue Immune Cells

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To validate results from the GSVA immune enrichment in the LTRC, we used flow cytometry, a non-mRNA related method. Fresh lung tissue samples of IPF patients undergoing bilateral lung transplant at the University of Pittsburgh (USA) were washed with PBS and enzymatically digested as previously described [34 (link)]. Lung homogenates included multiple areas of the same lung lobe, ensuring the representability of the sample to address patient’s heterogeneity. Lung tissue homogenates (106 cells) were then stained 5 min with the viability staining (Fixable viability-Alexa600, BD, USA) and 30 min at 4ºC in the dark with the following conjugated monoclonal antibodies CD3-PECy5.5, CD45-Alexa700, CD16-BV412, CD56-FITC, CD8-V500, CD4-APC-Cy7, CD19-BV650 (BD, USA) and CD14-PE (BioLegend, USA). A minimum of 5 × 105 cells per sample were acquired in a FACS LSRII (BD Biosciences, USA), and data was analyzed using FlowJo v10 (FlowJo LLC, USA). Immune cell populations were determined using the gating strategy depicted in Additional file 1: Fig. S1.
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7

HIV-1 Infection Assay Using Antibodies

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Antibodies for surface staining CD4-PerCP, CD25-PE, CD69-FITC, CD3-BV510, CD56-FITC, CD16-PercP, and CD8-APC-H7 were purchased from BD Biosciences (San Jose, CA). Antibody for surface staining TCRγδ-PE was obtained from BioLegend (San Diego, CA). Antibodies for intracellular staining of SAMHD1 phosphorylated at Thr592 (pSAMHD1) conjugated with PE and IFNγ conjugated with PE were purchased from Cell Signaling (Cell Signaling Technology Europe, Leiden, The Netherlands) and Beckman Coulter (Indianapolis, IN), respectively.
Vector pNL4–3 wild-type that contains HIV-1 complete genome and induces an infectious progeny after transfection was kindly provided by Dr M.A. Martin [31 (link)]. Vector pNL4–3_Renilla was obtained by replacing nef gene of HIV-1 proviral clone pNL4–3 with Renilla luciferase (LUC) gene [32 (link)].
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8

Comprehensive Immune Cell Phenotyping

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The following antibodies were used for flow cytometry analysis: CD4-APC-Cy7, CD4-PerCP, CD127-PE, CD127-Alexa Fluor® 647, CD25-FITC, CD25-PE-Cy7, CD14-FITC, CD16-FITC, CD20-FITC, CD45RO-PE, CD56-FITC, CD11c-FITC, TCRγδ-FITC (all from BD Pharmingen). Anti-hOX40 antibodies were purchased from eBioscience (ACT35). Anti-Foxp3 staining antibodies (236A/E7, PCH101) were from eBioscience and staining was conducted using Foxp3 fixation-/permeabilization buffer according to manufacturer’s instructions. Flow cytometry was performed on a flow cytometer (FACS Calibur or LSRFortessa, Becton Dickinson). FACS sorting was conducted on a cell sorter (FACS Aria II, BD). Functional grade anti-CD3 (OKT3) was purchased from Centocor Ortho. Antibodies against TLRs 1 were from Abcam Inc (GD2-F4), and 2, 5, 9 from BD Biosciences (EB72-1665,).
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9

Multicolor Flow Cytometry of Stromal Vascular Fraction

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Multicolour flow cytometry measurements were performed and analysed as described previously27 (link). Briefly, isolated SVF cells, which were obtained following collagenase digestion and lysis of red blood cells, were stained for flow cytometry using two antibody cocktails. Cocktail 1 included CD45-PE-Cy7 (BD 557748), CD3-fitc (BD 561807), CD19-fitc (BD 555412), CD56-fitc (BD 562794), CD66b-fitc (BD 555724), CD11b-BV421 (Biologend 301324), and CD11c-APC-Cy7 (Biolegend 337218). Cocktail 2 included CD45-PE-Cy7 (BD 557748), CD3-V500 (BD 561416), CD4-PerCP (Biolegend 300528), CD8 APC-H7 (BD 641400), CD19-BV421 (Biolegend 302234), and CD56-APC (Biolegend 318310). Samples were measured with a FACS-Canto II (BD Biosciences). Results were analysed with FACSdiva (BD Biosciences) and FlowJo software. Since weight of the AT samples was unavailable, data are expressed as percentage of cells relative to total number of cells (based on forward and side scatter plot).
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10

Multiparametric Characterization of NK Cells

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One-step staining of cell-surface antigens was performed using fluorochrome-conjugated primary antibodies as previously described (10 (link), 18 (link), 33 (link)). For the analysis of blood NK cells two antibody panels were constructed around CD56-FITC, CD16-APC, and CD3-PE-Cy7 (BD Bioscience, San Jose, CA) antibodies. NK cell activation receptors were evaluated with CD69-BV421, NKp30-BV711 (BD Bioscience), and NKp44-PerCP eFluor 710 (eBioscience, San Diego, CA) antibodies. Chemokine expression levels were tested using CXCR1-PE (R&D Systems, Minneapolis, MN), CXCR3-BV421, and CCR7-BV510 (BD Bioscience) antibodies. For the TINK analysis, Zombie NIR (BioLegend), CD45 BUV395, CD56 BV510, CD16 BUV737 (BD Bioscience), and CD3 PE-Vio770 (Miltenyi Biotec) antibodies were used. Suitable IgG controls were acquired from the same vendors. FACS analyses were performed using the BD LSRFortessa™ cell analyzer, and analyzed using FlowJo v10 (FlowJo, LLC; Ashland, OR) software.
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