Measurement of Low-Frequency DNA Breaks Using Nucleoid Flow Cytometry

1999 ◽  
pp. 519-526
Author(s):  
Andrew T. M. Vaughan ◽  
Scott Walter ◽  
Anne E. Milner
2003 ◽  
pp. 519-526
Author(s):  
Andrew T. M. Vaughan ◽  
Scott Walter ◽  
Anne E. Milner

Blood ◽  
2007 ◽  
Vol 110 (11) ◽  
pp. 3214-3214
Author(s):  
James W. Smith ◽  
Kristen Chamberlain ◽  
Diana Moffatt ◽  
Aurelio Santos ◽  
Denise Neutel ◽  
...  

Abstract Background: Neonatal alloimmune thrombocytopenia (NAT) is caused by maternal alloantibodies that cross the placenta and cause increased clearance of fetal platelets. The alloantibodies are directed to incompatible human platelet antigens (HPA) inherited from the father and expressed on fetal platelet glycoproteins. Most cases of NAT are caused by HPA-1a, -5a, -5b, -15a, or -15b. Some are associated with immunization to a low frequency antigen found only in the paternal lineage. We investigated the incidence of the low frequency antigen HPA-9b in a population with suspected NAT, and compared the frequency to that found in a normal control population. HPA-9b is caused by a Val837Met polymorphism on alpha-IIb and is expressed only in a rare subset of individuals with a corresponding serine at position 843 that defines the HPA-3b antigen. Methods: We used PCR-SSP for HPA-9b genotyping. Antibody studies were performed by incubating maternal serum with intact platelets using flow cytometry, monoclonal antigen capture enzyme immunoassay, and radioimmunoprecipitation. Results: Of 294 normal control blood donors, 4 typed positive for HPA-9b, yielding a gene frequency of 0.0068. However, if only HPA-3b positive donor controls are considered (n=177) the gene frequency for HPA-9b is 0.011. Archived DNA from HPA-3b positive (HPA-3a3b or -3b3b) fathers of children with NAT were tested for HPA-9b. Of 94 fathers, 3 (3.2%) typed HPA-9a9b, yielding a gene frequency for HPA-9b of 0.016, not significantly different from the frequency for HPA-9b found in the HPA-3b-positive healthy controls (p>0.1). Similarily, when DNA from HPA-3b positive mothers was tested in tandem, 3 of 60 were positive for HPA-9b, yielding a gene frequency of 0.026. Of the 3 cases of suspected NAT (platelet count range 15,000 to 63,000) in which the mother and father were incompatible for HPA-9b, 2 had no other platelet antigen incompatibility, and one was incompatible for HPA-15b. None of the 3 maternal sera was positive for anti-platelet reactivity using radioimmunoprecipitation and paternal platelets as a target, and no anti-platelet antibody was detected either by flow cytometry or by GPIIb/IIIa antigen capture immunoassay with platelets from a HPA-9a9b donor. Interpretation: These results support the findings that HPA-9b is distributed in the general population at a frequency higher than initially suspected. However, we also found that the frequency of HPA-9b in fathers of children with suspected NAT was similar to that in the normal control population when only HPA-3b-positive (HPA-3a3b or -3b3b) targets were analyzed. Therefore, in the absence of a positive anti-platelet antibody, the significance of a maternal/paternal incompatibility for HPA-9b alone is not predictive of an increased risk of NAT.


Blood ◽  
2016 ◽  
Vol 128 (22) ◽  
pp. 3898-3898
Author(s):  
Valentina Giudice ◽  
Xingmin Feng ◽  
Lin Zenghua ◽  
Maria del Pilar Fernandez Ibanez ◽  
Keyvan Keyvanfar ◽  
...  

Abstract The character of oligoclonal expansion of CD8+CD28- lymphocytes in aplastic anemia (AA), described by Risitano et al. (Blood, 2002 and Lancet, 2004), strongly suggests an antigen driving mechanism of T cell activation leading to destruction of hematopoietic stem and progenitor cells. In this study, we focused on a subset of CD8+CD28- T lymphocytes termed effector memory cells because of their high antigen-affinity and ability to be rapid activated after antigen stimulation. We investigated the frequency and oligoclonal expansion of effector CD28-CD57+ memory cells in CD4+ and CD8+ T subsets and the T cell receptor (TCR) Vβ repertoire by flow cytometry, and next-generation sequencing (NGS). Peripheral blood mononuclear cells from 20 AA patients and 14 healthy controls were evaluated for Vβ usage by flow cytometry. At the time of sampling, none of the patients had yet received immunosuppressive therapy. CD28+CD57- and CD28-CD57+ cells in CD4+ and CD8+ populations were assessed using the IOTest Beta Mark and a LSRII Fortessa cytometer for acquisition. The mean + 3SD of each Vβ group in controls was used as a cut-off to determine Vβ skewing in patients. When the frequencies of CD28+ and CD57+ cells in CD4+ and CD8+ subsets were compared, no differences were found between patients and controls (p=0.6125). Polyclonal expansion was described in CD8+CD28+, CD4+CD28+ and CD4+CD57+ T cells in 60%, 45% and 70% of patients, respectively. Using the mean of CD8+CD57+ cell frequency in controls as a cut-off, 12 of 20 patients displayed expansion of effector memory CD8+ cells and 11 of them (55% of all patients) showed expansion in 1 to 6 Vβ families with 1 to 4 immunodominant clones, while only 4 of 14 (29%) healthy controls displayed expansion of two Vβ families in expanded CD8+CD57+ cells without polyclonal expansion of CD8+CD28+ cells. In four cases (20% of all cases) of the remaining 8 patients whose cells did not display expanded CD8+CD57+ cells, there was expansion of 1 to 3 Vβ families with 1 dominant clone. These findings suggest activation of the immune response, polyclonal expansion of effector CD28+ compartments, and oligoclonal activation of effector memory CD8+ cells, regardless of frequency in peripheral blood. The frequency of CD8+CD57+ cells modestly correlated with the mean Vβ expansion in each patient (r2=0.5831, p<0.001). Also, we analyzed VDJ combinations and complementary region 3 (CDR3) sequences in CD4+ and CD8+ cells from 8 AA patients with CD8+CD57+ expansion in the ILLumina Hiseq 2000 sequencer. For the CD4+ compartment, patients were similar to healthy control CD4+ cells: frequencies of the most abundant clones less than 6%, CDR3 size profiles with Gaussian distribution and low degree of diversity (Simpson's indexes range 0-1: 0 means infinite diversity, and 1 means no diversity). For CD8+ cells, 6 of 8 patients displayed a "skyscraper" Vβ/Jβ plot due to the presence of 1 to 3 dominant clones, with frequency greater than 10%, predominant classes in CDR3 size profile, and Simpson's index similar to the CD8+CD57+ subset (p=0.1914). Analyzing CDR3 amino acid sequences for homology, we found that all the dominant sequences from patients were present at very low frequency in a healthy donor CD8+ cell pool (range, 0.12% - 53.6% vs 0.01% - 1.64%, p=0.0037), but no matches were described for the healthy CD8+CD57+ CDR3 repertoire. Only three CDR3 sequences were shared between patients. One of these CDR3 sequences (CSARDPPVSGTRGTDTQYF) was present in all patients and controls at very low frequency (mean expression, 5.01%), and it was the dominant clone in one patient, carried by TRBV20-1/TRBJ2-3 rearrangement at a frequency of 53.6%. Shared sequences were not found in reported viral TCR repertoires, nor in T cells recognizing peptide of myelin basic protein in multiple sclerosis, or synovial T cells from rheumatoid arthritis patients, nor matches were identified in T-large granular lymphocyte leukemia, AA, cancer or melanoma-derived TCR repertoires. Our data support the hypothesis of autologous immune-mediated attack leading to bone marrow destruction, likely triggered by autoantigens. Our results highlight the role of effector memory CD8+CD57+ T cells in sustaining an aberrant immune response during active disease. CD8+CD57+ cell expansion mirrors Vβ oligoclonal expansion, and Vβ flow cytometry should be useful in diagnosis and periodic evaluation of AA patients. Disclosures Fernandez Ibanez: GSK/Novartis: Research Funding. Young:Novartis: Research Funding.


2008 ◽  
Vol 2008 ◽  
pp. 1-8 ◽  
Author(s):  
Panagiotis Skendros ◽  
Alexandros Sarantopoulos ◽  
Konstantinos Tselios ◽  
Panagiota Boura

Chronic brucellosis patients display a defective Th1 response to PHA. We have previously shown that heat-killed B. abortus (HKBA) can downregulate the PHA-induced increase of CD4+/CD25+ and CD14+/CD80+ cells of brucellosis patients. In the present study, we investigate the effect ofE. coliLPS, as a potent stimulant of monocytes and autologous T-lymphocytes, on the PHA-cultured PBMCs of the same groups of patients. Thirteen acute brucellosis (AB) patients, 22 chronic brucellosis (CB) patients, 11 “cured” subjects, and 15 healthy volunteers were studied. The percentage of CD4+/CD25+ and CD4+/CD28+ T-lymphocytes as well as CD14+/CD80+ monocytes were analyzed by flow cytometry after PBMCs culture with PHA plusE. coliLPS. A significant decrease in the percentage of CD4+/CD25+ and CD4+/CD28+ T-lymphocytes was observed in CB compared to AB. In HKBA cultures, compared toE. coliLPS-cultures, there was a significant reduction of CD4+/CD25+ T-lymphocytes in all groups and CD14+/CD80+ in patients groups. We suggest that Brucella can modulate host immune response, leading to T-cell anergy and chronic infection.


2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Ayman Rezk ◽  
Rui Li ◽  
Amit Bar-Or

Abstract The ability to functionally characterize cytokine-secreting immune cells has broad implications in both health and a range of immune-mediated and auto-immune diseases. Low-frequency cytokine-defined immune-cell subsets can play key immune-regulatory roles, yet their detailed study is often hampered by limited clinical sample availability. Commonly used techniques including intracellular cytokine staining require cell fixation, precluding subsequent functional interrogation. The cytokine-secretion assay (CSA) can overcome this limitation, though has mostly been used for detection of relatively high-frequency, single-cytokine secreting cells. We examined how adaptation of the CSA in combination with multiparametric flow-cytometry (CSA-Flow) may enable simultaneous isolation of multiple, low-frequency, cytokine-secreting cells. Focusing on human B cells (traditionally recognized as harder to assay than T cells), we show that single-capture CSA-Flow allows for isolation of highly-purified populations of both low-frequency (IL-10+; GM-CSF+) and high-frequency (TNF+) cytokine-defined B cells. Simultaneous detection and isolation of up to three viable and highly-purified cytokine-secreting B-cell subpopulations is feasible, albeit with some signal loss, with fractions subsequently amenable to gene expression analysis and in vitro cell culture. This multiplexing CSA-Flow approach will be of interest in many human cellular immunology contexts aiming to functionally characterize cytokine-secreting immune cells, especially when sample volumes and cell numbers are limited.


Blood ◽  
1992 ◽  
Vol 80 (12) ◽  
pp. 3022-3035 ◽  
Author(s):  
N Debili ◽  
C Issaad ◽  
JM Masse ◽  
J Guichard ◽  
A Katz ◽  
...  

Megakaryocyte (MK) progenitors express the CD34 antigen, but the precise stage along the MK differentiation at which the CD34 is turned off is not known. Purified marrow CD34+ cells give rise within 4 days in culture to rare mature MK, suggesting that some MK precursors bear the CD34 antigen. By multiparameter flow cytometry, CD34+ cells bearing platelet glycoproteins (GP) could be detected, but at a low frequency (less than 2% of the marrow CD34+ cells). We used an in vitro liquid suspension culture to selectively amplify MK differentiation. CD34+ cells were isolated after 6 days before a wave of mature MK. These cells gave rise within another 4 days in culture to numerous MK (up to 50%), showing that these CD34+ cells were greatly enriched in MK precursors. This was confirmed by ultrastructural studies that showed the presence of typical promegakaryoblasts. By flow cytometry, three populations of small cell size could be defined: CD34+ GPIIIa-, CD34+ GPIIIa+, and CD34- GPIIIa+ cells. The two GPIIIa+ populations were almost pure immature blastic MK. alpha-Granules were rare in the CD34+ GPIIIa+ cells, whereas they were more developed in the CD34- GPIIIa+ cells, which also exhibited demarcation membranes. Approximately 45% of the two GPIIIa+ cell populations were capable of undergoing at least one cell division and of giving rise to a polyploid progeny. However, proliferation and polyploidization capacities were higher in the CD34+ GPIIIa+ than in the CD34- GPIIIa+ cells. A small fraction of GPIIIa+ cells (about 10%) were able to give rise to MK colonies containing a maximum of 16 cells for the double-positive cells. GPIb was expressed on about sixfold less cells than GPIIIa, but was detected on a few CD34+ cells. Most double-stained (CD34+ GPIb+) cells were polyploid. CD34- GP+ cells (more mature) contained less polyploid MK than the CD34+ GP+ fraction. Altogether, these findings show that CD34 is still expressed on a polyploid transitional immature MK and that GPIIIa is present on some MK progenitors with low proliferative capacities. They also suggest that the expression of CD34 is related to the ability of the MK precursors to accomplish DNA synthesis (either cell division or endomitosis). Such a characterization will facilitate the investigation of the role of the different cytokines on MK differentiation.


Blood ◽  
2016 ◽  
Vol 128 (22) ◽  
pp. 2021-2021
Author(s):  
Cuc Hoang Do ◽  
Karen M. Lower ◽  
Cindy C. Macardle ◽  
Bryone Jean Kuss

Abstract Novel gene mutation discovery has resulted in the increasing utility of targeted therapies. This is of particular relevance where traditional therapies have failed, resulting in increasing drug resistance and genetic instability. The incremental rise of subclonal populations of drug resistant cells is well recognized in CLL, however exactly how these subclones contribute to the overall disease course of the patient is unknown. Critical to further understanding the relevance of early minor subclones is the determination of the genetic profiles of these subclones and the identification of potential driver mutations. While a high level of resolution of genetic mutations can be revealed using ultra-deep next generation sequencing of CLL cells, this method does not determine which actual subclone contain the mutations, and requires approximately 2000 fold coverage. One of the most important prognostic markers in CLL is a deletion of the short arm of chromosome 17 (del17p), which includes deletion of TP53 gene. Whilst del17p is uncommon at diagnosis (only 5%-10% of all CLL patients), this proportion significantly increases to rougly 40-50% of chemo-refractory CLL. Therefore, we hypothesise that there are specific mutations in the del17p cells, including but not limited to TP53, which drive these subclones through clonal evolution, creating genetically unstable cells which are then refractory to treatment. We are particularly interested in those cases of CLL that carry a low frequency del17p subclone (<20% CLL cells), as these patients represent the greatest challenge to clinicians to decide the most appropriate course of treatment. Current methods to detect these 17p-deleted cells, such as microscopy-based fluorescence in situ hybridization (FISH) and karyotyping, have restrictions on their lower limit of detection due to the low number of cells targeted. We have developed a sensitive method of detecting and flow sorting del17p cells to facilitate specific subclone analysis. FISH in suspension (FISH-IS) incorporates a flow cytometry-based imaging approach with automated analysis of thousands of cells, and is highly applicable to detecting del17p in CLL samples. Methods: The FISH-IS workflow was used with 17p locus-specific identifier (LSI) probes in CLL samples. A fluorescently labelled contig of multiple BAC clones covering the TP53 region was hybridised to CLL cells in suspension. Data was collected through the Image Stream X flow cytometer (Amnis) and IDEAS software was used to carry out the analysis. Results: In preliminary experiments CLL cells were mixed in fixed ratios with wild type 17p cells (wt 17p). We have shown that FISH-IS is able to accurately enumerate the 17p allele status (monoallelic vs biallelic) based on fluorescence intensity. Furthermore, the sensitivity of detection of del17p cells amongst 20,000 analysed cells was precisely identified to a 5% limit (Figure 1). The second phase involved developing a methodology capable of enriching del17p low-frequency subclones in CLL samples by standard flow cytometry. Flow cytometry was used to sort cells based on their mean fluorescence intensity. Analysis of common polymorphisms within TP53 were used to demonstrate enrichment by collecting predefined fractions from the flow cytometer, based on fluorescence intensity and predicted 17p deletion status. We confirmed this method on CLL samples carrying high-frequency del17p clones due to sample availability. Our data clearly shows that this method is able to enrich for the low frequency clone as evidenced by analysis of targeted heterozygous SNPs located in the deleted region of 17p (Figure 2). Further sample analysis and exome sequencing is underway to determine sub-clonal mutation architecture. Original findings in this specific and novel approach to sub-clone analysis will be presented. Conclusion: This is the first time the genomic landscape of these low-frequency subclones has been interrogated in an unbiased manner. This data will enable a specific and in-depth genetic analysis of the untreated low-frequency del17p subclone, with a view to being able to identify the mechanisms of development of a chemorefractory and aggressive CLL phenotype. Figure 1 Sensitivity of FISH-IS with a predictable mixing model. Figure 1. Sensitivity of FISH-IS with a predictable mixing model. Figure 2: Successful enrichment of low frequency CLL subclones based on 17p status. (A) FISH-IS images. (B) Flow sorting. (C) Validation of enrichment by SNPs within TP53. Figure 2: Successful enrichment of low frequency CLL subclones based on 17p status. (A) FISH-IS images. (B) Flow sorting. (C) Validation of enrichment by SNPs within TP53. Disclosures No relevant conflicts of interest to declare.


1995 ◽  
Vol 181 (6) ◽  
pp. 2049-2058 ◽  
Author(s):  
A K Ajmani ◽  
M Satoh ◽  
E Reap ◽  
P L Cohen ◽  
W H Reeves

The Ku autoantigen is a heterodimer of 70- and 80-kD proteins recognized by autoantibodies from patients with systemic lupus erythematosus and related diseases that is the DNA-binding component of a DNA-dependent protein kinase. The catalytic activity of DNA-dependent protein kinase is carried by a 350-kD subunit (p350). In light of the recently described role of Ku in repairing double-strand DNA breaks, we investigated the regulation of Ku and p350 levels in neutrophils, a terminally differentiated cell type destined to undergo apoptosis. Since the appearance of double-strand DNA breaks is characteristic of apoptosis, we were interested in the possibility that Ku might oppose programmed cell death. Analysis of peripheral blood cells by flow cytometry using anti-Ku and anti-p350 monoclonal antibodies revealed that neutrophils were unstained, whereas resting (G0) lymphocytes were positive. The absence of Ku in mature neutrophils was confirmed by Western blotting and enzyme-linked immunosorbent assay for Ku antigen. In contrast, the human promyelocytic leukemia line, HL-60, which undergoes differentiation toward neutrophils after dimethylsulfoxide treatment, was positive for Ku and p350. In view of the short lifespan of neutrophils and the prolonged half-life of Ku and p350 (&gt; 5 d), these data suggested that Ku was actively degraded during myeloid differentiation. Analysis of HL-60 cells by flow cytometry revealed that Ku staining was bimodal. Cells in G1/G0, S, or G2/M were all stained positively, whereas cells with a subdiploid DNA content characteristic of apoptosis were Ku negative. Similar results were obtained with phytohemagglutin-stimulated human lymphocytes. These data suggest that the Ku antigen is actively degraded in both myeloid cells destined to undergo apoptosis and apoptotic lymphocytes, raising the possibility that degradation of Ku may help to prevent the inappropriate repair of fragmented nuclear DNA during apoptosis.


Blood ◽  
1992 ◽  
Vol 80 (12) ◽  
pp. 3022-3035 ◽  
Author(s):  
N Debili ◽  
C Issaad ◽  
JM Masse ◽  
J Guichard ◽  
A Katz ◽  
...  

Abstract Megakaryocyte (MK) progenitors express the CD34 antigen, but the precise stage along the MK differentiation at which the CD34 is turned off is not known. Purified marrow CD34+ cells give rise within 4 days in culture to rare mature MK, suggesting that some MK precursors bear the CD34 antigen. By multiparameter flow cytometry, CD34+ cells bearing platelet glycoproteins (GP) could be detected, but at a low frequency (less than 2% of the marrow CD34+ cells). We used an in vitro liquid suspension culture to selectively amplify MK differentiation. CD34+ cells were isolated after 6 days before a wave of mature MK. These cells gave rise within another 4 days in culture to numerous MK (up to 50%), showing that these CD34+ cells were greatly enriched in MK precursors. This was confirmed by ultrastructural studies that showed the presence of typical promegakaryoblasts. By flow cytometry, three populations of small cell size could be defined: CD34+ GPIIIa-, CD34+ GPIIIa+, and CD34- GPIIIa+ cells. The two GPIIIa+ populations were almost pure immature blastic MK. alpha-Granules were rare in the CD34+ GPIIIa+ cells, whereas they were more developed in the CD34- GPIIIa+ cells, which also exhibited demarcation membranes. Approximately 45% of the two GPIIIa+ cell populations were capable of undergoing at least one cell division and of giving rise to a polyploid progeny. However, proliferation and polyploidization capacities were higher in the CD34+ GPIIIa+ than in the CD34- GPIIIa+ cells. A small fraction of GPIIIa+ cells (about 10%) were able to give rise to MK colonies containing a maximum of 16 cells for the double-positive cells. GPIb was expressed on about sixfold less cells than GPIIIa, but was detected on a few CD34+ cells. Most double-stained (CD34+ GPIb+) cells were polyploid. CD34- GP+ cells (more mature) contained less polyploid MK than the CD34+ GP+ fraction. Altogether, these findings show that CD34 is still expressed on a polyploid transitional immature MK and that GPIIIa is present on some MK progenitors with low proliferative capacities. They also suggest that the expression of CD34 is related to the ability of the MK precursors to accomplish DNA synthesis (either cell division or endomitosis). Such a characterization will facilitate the investigation of the role of the different cytokines on MK differentiation.


mSphere ◽  
2019 ◽  
Vol 4 (6) ◽  
Author(s):  
Cheri L. Lamb ◽  
Emily Price ◽  
Kevin P. Field ◽  
Christopher Dayton ◽  
Eric R. McIndoo ◽  
...  

ABSTRACT The low frequency of circulating antigen-specific memory B cells is a considerable obstacle in the discovery and development of human monoclonal antibodies for therapeutic application. Here, we evaluate two solid-phase isolation methods to enrich the number of antigen-specific B cells from individuals naturally immunized against streptolysin O (SLO), a key virulence factor and known immunogen of group A streptococcus (GAS). Class-switched B cells obtained from individuals with a history of GAS infection were separated from peripheral blood mononuclear cells (PBMCs) by immunomagnetic methods. SLO-specific B cells were further enriched directly by binding to SLO monomers and captured by streptavidin-coated magnetic microbeads or indirectly by binding a fluorescently labeled SLO-streptavidin tetramer and captured by anti-fluorophore immunomagnetic microbeads. SLO-bound B cells were quantitated by flow cytometry and/or expanded in batch culture to determine IgG specificity. From individuals who have suffered a GAS infection ≥2 years prior, only the direct method enriched SLO-specific B cells, as determined by flow cytometry. Likewise, in batch culture, B cells isolated by the direct method resulted in an average of 375-fold enrichment in anti-SLO IgG, while no enrichment was observed for B cells isolated by the indirect method. The direct method established here provides a simple approach to increase low-frequency antigen-specific B cell populations supporting many downstream applications, such as immortalization of B cells, cloning of immunoglobulin genes, or purification of antibodies from supernatant for future study. Overall, this process is efficient, is inexpensive, and can be applied to many naturally immunogenic antigens. IMPORTANCE Bacteria called group A streptococci can cause a variety of skin and soft tissue infections ranging from mild pharyngitis (“strep throat”) to deadly necrotizing fasciitis (sometimes called “flesh-eating” disease). In each case, the development of disease and the degree of tissue damage are mediated by toxins released from the bacteria during infection. Consequently, novel therapies aimed at clearing bacterial toxins are greatly needed. One promising new treatment is the utilization of monoclonal antibodies delivered as an immunotherapeutic for toxin neutralization. However, current methods of antibody development are laborious and costly. Here, we report a method to enrich and increase the detection of highly desirable antigen-specific memory B cells from individuals previously exposed to GAS using a cost-effective and less-time-intensive strategy. We envision that this method will be incorporated into many applications supporting the development of immunotherapeutics.


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