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40 protocols using cd19 apc

1

Multiparametric Flow Cytometry Profiling of Hematopoietic Lineages

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Blood lymphoid. CD4-Fitc (BioLegend), CD8-PE-Cy7 (BD), B220–Pacific blue (BD), CD11b-PerCpCy5,5 (BD), CD3-APC (BioLegend); Blood myeloid and erythroid: CD3-Fitc (BD), CD19-Fitc (BD), B220-Fitc (BD), Gr1-PE (BD), F4/80-Pacific blue (BioLegend), CD11b-APC (BD);
BM lymphoid. IgD-Fitc (BD), CD25-PE (BioLegend), CD11b-PerCpCy5,5 (BD), IgM-PECy7 (Southern Biotech), B220-Pacific blue (BD), cKit-APC (BD); BM myeloid: Gr1-PE (BD), CD11b-PerCpCy5,5 (BD), Ter119-PECy7 (BD), F4/80–Pacific blue (BioLegend), CD19-APC (BioLegend); BM megakaryocyte: CD3-Fitc (BD), CD41-PE (BioLegend), CD11b-PerCpCy5,5 (BD), B220–Pacific blue (BD), CD19-APC (BioLegend); HSPC and CLP: Strep-APC/CY7 (Southern Biotech), cKit-APC (BD), SCA1-PacBlue (BioLegend), CD34-FITC (eBioscience), CD135-PE (BioLegend), CD150-PECy7 (BioLegend), CD127-PErCpCy5,5 (BioLegend); Hematopoietic progenitors: Strep-APC/CY7 (Southern Biotech), cKit-APC (BD), SCA1-PacBlue (BioLegend), CD34-FITC (eBioscience), CD16/32-PerCpCy5,5 (eBioscience), CD127-PE (eBioscience).
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2

Quantifying Somatic Hypermutation in Murine B Cells

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Single-cell suspensions from Peyer’s patches of 30-31 weeks old mice were first incubated with anti-mouse CD16/32 (BioLegend) and then labeled with B220-FITC– (BioLegend), CD19-APC– (BioLegend), CD38-Alexa700– (Thermo Scientific), and CD95/Fas-PE– (BD-Biosciences) conjugated antibodies. Non-germinal center (CD38+ Fas) and germinal center B cells (CD38 Fas+) were sorted on an Aria BD sorter. Genomic DNA was extracted and the 5′ portions of JH4 (Igh) and JK5 (Igk) introns were amplified by PCR using Phusion High-Fidelity DNA Polymerase (Thermo Scientific). The 800 bp JH4 and 700 bp JK5 PCR products were gel extracted, cloned into a pCR2.1 vector using the TOPO TA Cloning Kit (Invitrogen) and sequenced. Mutations were quantified over 510 bp downstream JH4 and 536 bp downstream JK5 gene segments. Primers used for SHM analysis (Rouaud et al., 2013 (link), Sander et al., 2015 (link)) are listed in Table S5.
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3

Comprehensive Immune Cell Profiling in BAL

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Absolute cell counts in BAL were determined by flow cytometry with Precision Count Beads (BioLegend) by staining 100 μL of BAL fluid with pre-titrated amounts of CD45 FITC (clone HI30), CD14 PerCP-Cy5.5 (clone M5E2), CD3 PE-Cy7 (clone UCHT1), CD8 BV421 (clone RPA-T8), CD4 APC-Cy7 (clone OKT4) and CD19 APC (clone HIB19). 1 mL of FACS Lysing Solution (BD Biosciences) was added to each sample. 100 μL of Precision Count Beads were added immediately prior to flow cytometry to allow quantification of absolute volume analyzed on the cytometer.
In a separate experiment, fresh BAL cells were analyzed using a panel of antibodies directed against the following antigens: CD3 FITC (clone UCHT1), CD4 APC-Cy7 (clone OKT4), CD8 BV421 (clone RPA-T8), CD14 APC (clone M5E2), CD16 BV570 (clone 3G8), CD19 BV750 (clone HIB19), CD20 Pacific Blue (clone 2H7), CD38 PE-Cy7 (clone HIT2), CD45 Alexa Fluor 532 (clone HI30), CD56 PE/Dazzle 594 (clone HCD56), and HLA-DR BV605 (clone L243). 500,000–1,000,000 fresh BAL cells were stained in BD Brilliant Buffer (BD Biosciences) with Zombie NIR Fixable Viability Marker (BioLegend). Samples were run on a Cytek Aurora spectral flow cytometer using SpectroFlo software (version 2, Cytek) before final analysis in FlowJo software (version 10, BD Biosciences).
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4

Characterization of Activated T Cells in RA

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Previously frozen PBMCs from RA subjects were cultured at 5 × 106 total cells/well within a 24 well plate in RPMI-1640 + 10% pooled human serum with 10 µg/ml of peptide. IL-2 (Novartis) was added at 325 IU/ml on day 6. After 14 days cells were stained for expression of CD25 FITC (BD), CD4 PerCP (BioLegend), Annexin V APC (BD), CD14 APC (BioLegend), CD19 APC (BioLegend), and tetramer before being run on a FACSCalibur. The data was analyzed by FlowJo software version 9.6.2 (Tree star).
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5

CFSE-Labeled PBMC Proliferation Assay

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PBMCs were incubated with 1.25 μl/ml CFSE (Invitrogen) at 37°C. After 10 min, the cells were washed twice at 4°C with 5 ml Roswell Park Memorial Institute (RPMI) medium containing 10% fetal bovine serum (FBS). Cells were then resuspended in 600 μl of RPMI/10% FBS and seeded into 96-well plates along with 5 μg/ml phytohemagglutinin (PHA), 10 μg/ml lectin from pokeweed mitogen (PWM), and the same volume of RPMI for 72 h. After staining with CD3-PerCP (clone: HIT3a, BioLegend), CD4-PE-Cy7 (clone: RPA-T4, BioLegend), CD8-PE (clone: RPA-T8, BioLegend), and CD19-APC (clone: HIB19, BioLegend) antibodies, cells were analyzed and examined by flow cytometry (8 (link)).
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6

Multiparameter Single-Cell Profiling

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Samples were processed in batches of 6 or 8 for pooling in single-cell RNA sequencing runs. All cells were stained with a general panel: DAPI, CD3-APC (HIT3a), CD19-APC (HIB19), CD20-APC (2H7), CD56-APC (5.1H11), CD14-FITC (M5E2), CD16-AF700 (B73.1), CD45-PE-Cy7 (HI30), HLA-DR-PE (L243) (BioLegend). At the same time, 1 uL of cell hashing antibody (HTO) was added to each sample (BioLegend). Samples were run on a SH800 cell sorter (Sony) to obtain flow cytometry data and sort both live CD45+ cells and dendritic cells. For samples from subjects enrolled in the MGH ED, dendritic cells were enriched separately with a MACS human pan-DC enrichment kit (Miltenyi Biotec). For sorting MS1 cells, the following panel was used: DAPI, CD3-APC (HIT3a), CD19-APC (HIB19), CD20-APC (2H7), CD56-APC (5.1H11), CD14-FITC (M5E2), CD45-AF700 (HI30), HLA-DR-PE-Cy7 (L243) (BioLegend) and IL1R2-PE (34141, ThermoFisher Scientific).
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7

Murine Immune Cell Isolation and Culture

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All reagents and chemicals were purchased from Sigma-Aldrich unless stated otherwise. DMEM with 1 g/l glucose and FBS-qualified MSC were purchased from PAN Biotech (PAN-Biotech GmbH, Aidenbach, Germany), FavorPrep™ Tri-RNA Reagent was from Favorgen (Favorgen Biotech Corp, Vienna, Austria), PacI Fast Digest enzyme, SYBR™ Green master mix, Dynabeads mouse T-Activator CD3/CD28 and Lipofectamine 3000 were from Thermo Fisher (Thermo Fisher Scientific, Waltham, MA, USA). Antibodies, anti-mouse Sca-1(PE), CD73(Cy7), CD45(PE), CD4(BV421), CD8a(APCfire), and CD19(APC) were from BioLegend (San Diego, CA, USA), and CFSE (5(6)-Carboxyfluorescein diacetate N-succinimidyl ester) were from Invitrogen (Fisher Scientific, part of Thermo Fisher Scientific, Waltham, MA, USA). Polybrene was purchased from Santa Cruz Biotechnology (sc 134220; Dallas, TX, USA), TransFast was from Promega (E2431, WI, USA), Viromer Red was from Cambridge Bioscience (VR-01LB-00, Cambridge, UK), the K2 Transfection System—DNA & RNA Transfection was from Biontex Laboratories GmbH (München, Germany).
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8

Multicolor Flow Cytometry Immunophenotyping

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Cell suspensions were labeled with anti-human monoclonal antibodies (mAb) targeting the following cell-surface markers: CD45-FITC, CD3-PE, CD4-Pe Cy7, CD8-BV421 and CD19-APC (all from Biolegend). Washing and reagent dilutions were done with FACS buffer (PBS containing 2% fetal calf serum and 0.05% sodium azide (NaN3). All acquisitions were performed on a Cyan ADP (Beckman Coulter) flow cytometer. Data were analysed with FlowJo software (Ashland, OR). Cellular debris and dead cells were excluded by their light-scattering characteristics.
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9

Multiparametric Flow Cytometry of Murine and Human B-Cells

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Single‐cell suspensions were stained with a mixture of 5 to 6 fluorophores including and 7‐aminoactinomycin D (7‐AAD) for viability and acquired on the BD Verse flow cytometer with data analyzed using FlowJo software (BD Biosciences). Human B‐cell subsets were identified using the following antibodies: CD19‐APC, CD27‐BV510, CD38‐APC‐Cy7, CD24‐BV421, and IL‐10‐PE‐Cy7 (all from BioLegend). Mouse B‐cell subsets were identified using the following antibodies: B220‐PE, CD23‐APC, CD21‐PE‐Cy7, IgM‐BV421, CD138‐APC, CD86‐PE‐Cy7, CD69‐APC‐Cy7, and IL‐10‐APC‐Cy7 (all from BioLegend). Intracellular IL‐10 expression was detected as previously reported.33 Immunophenotype of human and murine B‐cell subsets analyzed are listed in Supplementary Table 1.
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10

Comprehensive Immune Profiling by Flow Cytometry

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For performing flow cytometry, we used fluorescent-labeled monoclonal antibodies to particular surface molecules: CD45-APC/Cy7, CD3-PerCP, CD3-PE/Cy7, CD4-APC, CD4-APC/Cy7, CD8-PE/Cy7, CD25-APC, CD127-PerCP/Cy 5.5, CD14-PE/Cy7, CD19-APC, CD16-PerCP, CD56-PE/Cy7 (all Biolegend, San Diego, CA, USA). CD25-PE and HLA-DR-APC/Cy7 antibodies (Biolegend, San Diego, CA, USA) were used for evaluating of the expression of activation markers. Flow cytometry analysis was performed on FACS Canto II (BD, Piscataway, NJ, USA) machine by using FACS Diva (BD, Piscataway, NJ, USA) software. We used non-stained controls, FMO controls, and isotypic controls.
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