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7 protocols using cd45ra v450

1

Hematopoietic Stem Cell Profiling

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Human CD34+ cells (Lonza and AllCells) from all sources were obtained as viable frozen states. The age of the individuals used for the profiling and treatments are as follows: FL-CD34+ (17–20 weeks gestation); CB-CD34+ (newborns); BM-CD34+ (24–36 years old). For the generation of HSC/PROG transcriptional profiles, at least three distinct lot numbers, each corresponding to independent individuals or pools of distinct individuals (of random male or female samples), were utilized to attain maximal representation. For each biological replicate, HSC and PROG populations were sorted from the same pool of cells. Cells were stained and sorted using a BD FACS Aria II cell sorter for panels of cell surface markers and dyes as indicated below.
HSC panel: CD34 PE-Cy7 (8G12; BD), CD38 PE-Cy5 (HIT2; BD), CD90 PE (5E10; BD), CD45RA-FITC (HI100; BioLegend), DAPI
PROG panel: CD34 PE-Cy7 (8G12; BD), CD38 PE-Cy5 (HIT2; BD), DAPI
Stem Cell panel: CD34 PE-Cy7 (8G12; BD), CD38 PE-Cy5 (HIT2; BD), CD90 PE (5E10; BD), CD45RA-V450 (H100; BD), CD133/1-APC (AC133; Miltenyi Biotec)
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2

Multiparameter Flow Cytometry Analysis

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For analysis of surface markers, cells harvested using TrypLE Select (Thermo Fisher Scientific) were labeled with primary antibodies for 30 min at 4°C. The following fluorophore-conjugated antibodies were used: CD43-FITC (catalog #555475, clone 1G10), CD45RA-V450 (#560363, clone HI100), CD73-PE (#550257, clone AD2), anti-VE-cadherin-Percp-Cy5.5 (#561566, clone 55-7H1) (all from BD Biosciences), and CD34-PE.Cy7 (#343515, clone 581), CD38-APC (#303509, clone HIT2), CD90-PE (#328110, clone 5 × 1010), and CXCR4-BV421 (#306517, clone 12G5) (all from BioLegend). After incubation with the antibodies for 30 min, cells were washed, resuspended in 2% fetal bovine serum (Thermo Fischer Scientific) containing PBS, and acquired with BD FACSCanto (BD Biosciences). To detect oxidative stress, we used CellROX Deep Red (#C10422, Life Technologies) according to the manufacturer's instructions. For live/dead cell discrimination, 7-amino-actinomycin D (BD Biosciences) was applied to the cells before acquisition. Dot plots were derived from gated events based on size and scatter characteristics and doublet-exclusion, fluorescence-minus-one controls were used to identify gating boundaries. Acquired events were analyzed using FlowJo software.
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3

Phenotypic Analysis of Expanded T Cells

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To analyze the phenotype and purity of the fresh isolated products and expanded cells, they were stained with the ST-PE complex. Briefly, 0.75 μg of PE-labelled Strep-Tactin and 0.5 μg of antigen-specific MHC I-Strep (HLA-A*02:01/NLVPMVATV Streptamer) were incubated during 45 min at 4 °C in the dark to form the ST-PE complex. 0.2 μg of this reversible multimer were added to 1 × 106 cells. The incubation was carried out during 45 min at 4 °C in the dark and afterwards cells were stained with, CD8-FITC (BioLegend, San Diego, USA), CD3-PerCP, CD137-APC (Miltenyi Biotec), and CD4-APC-Cy7 (BD Biosciences, San Jose, USA).
During the culture period, specificity and phenotype of expanded cells were analyzed every 7 days by staining with the ST-PE complex and monoclonal antibodies as previously described, with the addition of CD69 PE-Cy7 and CD57 VioBlue (Miltenyi Biotec).
Furthermore, at the beginning and the end of the expansion the memory phenotype of the cells was analyzed by staining with CD45RA-V450 and CCR7-PE-Cy7 (both BD Biosciences) during 15 min at room temperature.
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4

Comprehensive T-cell Immunophenotyping by Flow Cytometry

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CD4 and CD8 T-lymphocyte phenotypes were determined on fresh whole blood, using combinations of the following antibodies: CD28-FITC, CD4-RD1, CD45RA-ECD, CD45RO-ECD, CD62L-PC5, CD27-PC5, CD4-PC7, and CD8-PC7 (Beckman Coulter, Villepinte, France), as described in [18 (link)]. CD4N levels were defined as the percentage of CD4 T lymphocytes that were CD45RA+CD62L+, CD8N levels as the percentage of CD8 T lymphocytes that were CD45RO-CD28+CD27+. For 57 patients, frozen PBMCs were available for the quantification of CD4RTE, with Live-Dead-Aqua (Life Technologies, Saint-Aubin, France) labeling of dead cells, and the following antibodies: CD3-ECD and CD31-FITC (Beckman Coulter), CD4-APC-efluor780 (e-bioscience, Paris, France), CD45RA-V450 and CD197-PC7 (BD Biosciences, Rungis, France). CD4RTE levels were defined as the percentage of naive CD45RA+CCR7+CD4+ T lymphocytes positive for CD31.
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5

PBMC Isolation and Characterization

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Cryopreserved aliquots of PBMCs were quickly thawed and stained with the following antibody combination: CD3-APC-Cy7 (Clone SK7), CD4-PerCP-Cy5.5 (Clone SK3), CD8-V500 (Clone RPA-T8), CD45RA-V450 (Clone HI100), CCR7-PE-Cy7 (Clone 3D12), and CD27-APC (Clone MT-271, all antibodies were from BD Biosciences). The combination was washed and immediately sorted in a FACSAria cell sorter (BD Biosciences). The gating strategy and a representative example of cell sorting is shown in Additional file 1 (Fig. S1). DNA extraction was performed immediately after cell sorting to avoid cell loss.
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6

PBMC Isolation and Immunophenotyping

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We performed immunophenotyping on whole-blood EDTA samples while cell sorting was performed on peripheral blood mononuclear cells (PBMCs) isolated from the whole blood by density gradient centrifugation using LymphoPrep (Sigma) after dextran sedimentation. For sorting, PBMCs were thawed in RPMI (10% FCS) pre-warmed with DNase 200 μl ml-1 (also used TexMACS 5% human AB serum). Cells were then washed, counted and stained on ice in 100 μl of PBS for every 5 × 106 cells. First, Fc block (BD 564220, 5 μl) was applied for 10 min and, without washing, an anti-idiotype CD19 CAT19 B12RIgG2a (Evitria) (2.5 μl or 3.5 μg) was added for 20 min. Then cells were washed and stained for 30 min with secondary antibody mix containing anti-rat IgG PE for CAR detection (Biolegend 405406, 0.5 μl), CD3 APC-Cy7 (Biolegend 300426, 5 μl), 7-AAD (BD 555816, 5 μl), CD95 BV711 (BD 563132, 5 μl), CD45RA v450 (BD 8053598, 2 μl) and CD62L APC (Biolegend 304810, 3 μl). Cells were washed, resuspended in sorting buffer (PBS (1% FBS) + 1 mM EDTA), passed through a cell strainer (30–40 μM) and then sorted using a FASCAriaIII cell sorter. Raw FACS data were collected using DIVA software (BD Biosciences) and analyzed with FlowJo (TreeStar). When feasible, an aliquot of the sorted cells was re-run through the cell sorter to check fraction purity.
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7

Flow Cytometry Immunophenotyping of HSPCs

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Flow cytometric immunophenotyping of HSPCs was done on stored frozen viable mononuclear cells (MNCs) from PB and/or BM samples obtained from individuals with SDS aged 4–33 years or from healthy/non-SDS donors aged 29–32 years (STEMCELL Technologies). MNCs from healthy (non-SDS) donors were stained with antibodies: CD3-FITC (clone HIT3a, BD #555339; dilution 1:500), CD90-PE (clone 5E10, Biolegend, #328114; 1:33), CD49f-PECy5 (clone GoH3, BD #551129; 1:100), CD38-PECy7 (clone HIT2, Biolegend, #303516; 1:100), CD33-APC (clone WM53, BD #571817; 1:200), CD19-A700 (clone HIB19, Biolegend #302226; 1:300), CD34-APCCy7 (clone 581, Biolegend #343514; 1:100), CD45RA-BV421 (clone HI100, Biolegend #304130; 1:100), and Zombie Aqua (Biolegend #423101; 1:2000). MNCs from individuals with SDS were stained with the following antibodies: CD38-FITC (clone HIT2, BD #555459; 1:12.5), CD34-PE-Cy7 (clone 8G12, BD #348811; 1:33), CD10-BV605 (clone HI10a, Biolegend #312222: 1:33), CD45RA-V450 (clone HI30, BD #560367; 1:100), CD90 APC (Clone 5E10, Biolegend #328110; 1:50), CD3-APC-Cy7 (clone SK7, Biolegend #344818; 1:50), and CD19-APC-Cy7 (clone HIB19, Biolegend #302218, 1:50). After gating for live singlets (7AAD or Zombie negative) and excluding CD3/CD19 positive cells, bulk CD34 positive progenitors were gated (Supplementary Fig. 1).
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