Capillary Electrophoresis System Research Articles

Internal validation of the GA118-24B Genetic Analyzer, a stable capillary electrophoresis system for forensic DNA identification.

The GA118-24B Genetic Analyzer (hereafter, "GA118-24B") is an independently developed capillary electrophoresis instrument. In the present research, we designed a series of validation experiments to test its performance at detecting DNA fragments compared to the Applied Biosystems 3500 Genetic Analyzer (hereafter, "3500"). Three commercially available autosomal short tandem repeat multiplex kits were used in this validation. The results showed that GA118-24B had acceptable spectral calibration for three kits. The results of accuracy and concordance studies were also satisfactory. GA118-24B showed excellent precision, with a standard deviation of less than 0.1 bp. Sensitivity and mixture studies indicated that GA118-24B could detect low-template DNA and complex mixtures as well as the results generated by 3500 in parallel experiments. Based on the experimental results, we set specific analytical and stochastic thresholds. Besides, GA118-24B showed superiority than 3500 within certain size ranges in the resolution study. Instead of conventional commercial multiplex kits, GA118-24B performed stably on a self-developed eight-dye multiplex system, which were not performed on 3500 Genetic Analyzer. We compared our validation results with those of previous research and found our results to be convincing. Overall, we conclude that GA118-24B is a stable and reliable genetic analyzer for forensic DNA identification.

An open source 3D printed autosampler for capillary electrophoresis

BackgroundIn-house built capillary electrophoresis (CE) systems represent a significant share of laboratory instrumentation. In most of these instruments, sample injection is effected manually with low to moderate precision and requires skilled operators. Although few automated samplers have been previously developed, typically only one sample at a time can be injected. If a series of samples is to be analyzed, manual intervention is required. In the present work, we developed and constructed a fully automated, open source, CE autosampler, able to handle up to 14 different samples that can be used as a modular component of any in-house built CE instrument. ResultsAn inexpensive, 3D printed, open source, autosampler for CE was developed. The autosampler consists of two parts: an injection unit with carousel containing sample and electrolyte vials and a flushing unit, containing a miniature pressure/vacuum pump. The autosampler is operated by an Arduino Mega microcontroller and an Arduino code written in the laboratory. The injection sequence is entered through a keypad and LCD display by the user. The instrument can operate autonomously for extended periods of time. It was used for fully automated analysis and/or calibration of up to 14 samples with excellent injection repeatability reaching less than 2.7% RSD for peak areas. The sampler performance was tested with two independently built CE instruments, a CE system with contactless conductivity detection (C4D) and a CE system with laser induced fluorescence (LIF) detector. Significance and noveltyA novel, 3D printed, Arduino-based autosampler for CE was developed. The autosampler allows autonomous hydrodynamic injection of up to 14 different samples with fully programmable injection sequence, including capillary flushing and high voltage and data acquisition control. It provides the missing instrumental sampling setup for laboratory made CE instruments. It can be simply constructed based on the open-source blueprints in any laboratory and be a useful and time-saving add-on to any modular CE instrument.

Measurement of sweat lactate levels in exercise and non-exercise activities using capillary electrophoresis system with contactless conductivity detection and cyclodextrin-modified buffer

This study presents the analysis of lactate in sweat using capillary electrophoresis with contactless conductivity detection. Two cyclodextrin (CD) compounds, carboxymethyl-β-cyclodextrin sodium salt (CM-β-CD) and heptakis (2,3,6-tri-O-benzoyl)-β-cyclodextrin (TRIME-β-CD), were evaluated as buffer modifiers for the separation of chloride, nitrate, sulfate, oxalate, maleate, acetate, lactate, and phosphate anions. The concentrations of these modifiers were tested at 0.05, 0.1, and 0.5 mM for eight anions separation. The buffer was 40.0 mM MES/L-His (pH 6.0) with 0.05 mM CTAB, resulting in anodic separation. Due to separation efficiency in resolving lactate and phosphate peaks, TRIME-β-CD at a concentration of 0.1 mM was selected as the suitable buffer additive for sweat lactate analysis. The calibration of the developed method, using maleate as an internal standard, resulted in the linear ranges of 0.1–5.0 mM, r2 of 0.9999, and an instrumental LOD of 0.042 mM. The intra-day and inter-day precisions of the relative migration time (RMT) were 0.3–0.4% and 3–4% RSD, respectively. Lactate levels in sweat samples from the same group of volunteers were measured after two distinct activities: exercise (after running) and non-exercise (after sauna). For non-exercise activities, lactate concentrations ranged from 15 ± 1 mM to 36 ± 2 mM. While, after exercise, the concentrations were between 26 ± 1 mM and 136 ± 1 mM. Further evaluation of the stability of sweat storage for monitoring lactate contents, it was found that the changes in lactate levels were insignificant when stored for up to 24 weeks at 4 °C. This was confirmed by paired t-tests (t-stat ragnes from -0.59 to 2.49; t-critical = 2.57, P = 0.05). The measured lactate concentrations from volunteers were significantly higher, approximately 2–6 times, in exercise activities compared to non-exercise activities. This substantial difference in lactate secretion indicates a clear distinction in the factors that stimulate sweat lactate production. To evaluate the intensity of exercise based on lactate levels in sweat, a proposed cut-off level of 36.0 mM, with a decision limit of 40.0 mM, can be proposed.

Capillary electrophoresis in the analysis of therapeutic peptides-A review.

Therapeutic peptides are a growing class of innovative drugs with high efficiency and a low risk of adverse effects. These biomolecules fall within the molecular mass range between that of small molecules and proteins. However, their inherent instability and potential for degradation underscore the importance of reliable and effective analytical methods for pharmaceutical quality control, therapeutic drug monitoring, and compliance testing. Liquid chromatography-mass spectrometry (LC-MS) has long time been the "gold standard" conventional method for peptide analysis, but capillary electrophoresis (CE) is increasingly being recognized as a complementary and, in some cases, superior, highly efficient, green, and cost-effective alternative technique. CE can separate peptides composed of different amino acids owing to differences in their net charge and size, determining their migration behavior in an electric field. This review provides a comprehensive overview of therapeutic peptides that have been used in the clinical environment for the last 25 years. It describes the properties, classification, current trends in development, and clinical use of therapeutic peptides. From the analytical point of view, it discusses the challenges associated with the analysis of therapeutic peptides in pharmaceutical and biological matrices, as well as the evaluation of CE as a whole and the comparison with LC methods. The article also highlights the use of microchip electrophoresis, nonaqueous CE, and nonconventional hydrodynamically closed CE systems and their applications. Overall, the article emphasizes the importance of developing new CE-based analytical methods to ensure the high quality, safety, and efficacy of therapeutic peptides in clinical practice.

РЕАКЦИЯ СОРТА КИШМИШ СТОЛЕТИЕ НА НАГРУЗКУ КУСТОВ ПОБЕГАМИ И ГРОЗДЯМИ В УСЛОВИЯХ ЦЕНТРАЛЬНОЙ АГРОЭКОЛОГИЧЕСКОЙ ЗОНЫ ВИНОГРАДАРСТВА ПО КАЧЕСТВЕННЫМ КРИТЕРИЯМ

The presence of organic acids and cations, amino acids, sugars and other substances in grapes and products of its processing affects their taste and nutritional properties. The pools of these substances were studied in grapes of the Centennial Seedless variety with different bush load with shoots and bunches. To determine the composition and content of these substances in grape juice, classical instrumental methods and a capillary electrophoresis system, “Kapel-104T” and “Kapel-105M”, OOO NPF “LUMEX”, were used. Tartaric, acetic and malic acids have been identified in the juice. Significant contents of resveratrol, ascorbic, chlorogenic, nicotinic, orotic acids, proline, valine, and α-alanine were also found. The highest concentrations were observed in the variant with an average bush load with shoots and bunches.

Immobilized acetylcholinesterase in magnetic nanoparticles for in-line inhibition studies using a capillary electrophoresis system

Enzyme assays can be performed with the capillary electrophoresis technique (CE) in many approaches, such as the immobilized enzyme micro-reactor. Acetylcholinesterase is a promising enzyme to be used when pursuing such a method, as it has already been explored in the proposal of similar methods of miniaturizing enzyme assays. The present work proposes a novel enzyme micro-reactor, based on the anchorage of the enzyme on magnetic nanoparticles of MnFe2O4, with chitosan and glutaraldehyde as the cross-linker in the capillary by means of an arrange of neodymium magnets. The calculated Km of the enzyme evaluated by this method was 1.12 mmol L−1, comparable to other studies in the literature that utilizes immobilized enzymes. Also, IC50 for neostigmine was assessed in 3 different micro-reactors, with an average of 29.42 ± 3.88 μmol L−1. In terms of the micro-reactor stability, it was possible to perform at least 25 experiments with assembled micro-reactor. The method was applied to hydroalcoholic extracts of 7 plant species. Plinia cauliflora had the best result, with 42.31 ± 6.81% of enzyme inhibition in a concentration of 100 mg L−1.

EVALUATION OF THE AMINO ACID AND BIOCHEMICAL COMPOSITION OF FRUITS OF ROSA L. AND RIBES AUREUM PURSH. SPECIES IN ARID ZONE

The article presents the data of the biochemical composition of the fruits of wild roses species, laboratory studies of which were conducted for the first time in Volgograd. Special attention is paid to the fact that wild roses is the one of the most important genera in the world and has an economic value in the biological, floriculture, pharmaceutical and cosmetic industries. It has been established that the difficulties of seed propagation of wild roses in arid conditions are primarily related to the peculiarities of their physiology, biochemistry and morphology. The objects of research were species with different areas of natural distribution: R. rugosa Thunb., R. cinnamomea L., R. spinosissima L., R. canina L., Ribes aureum Pursh., growing in collection areas of the Federal Research Centre for Agroecology, Complex Reclamation and Protective Afforestation. The article analyzes the indicators of weather conditions. The degree of demand for soil fertility and light revealed the most low-demand species: R. aureum, R. cinnamomea, R. rugosa and R. spinosissima. The authors found that all the studied species had good growth and development during the observation period. The amino acid composition of wild roses and currant fruits was determined using the capillary electrophoresis system "Drops" at a wavelength of 250 nm and allowed us to identify the most valuable species in terms of their biochemical composition. Analysis of the biochemical value of fruits found that the highest amount of protein, calcium, raw fiber, iodine and phosphorus differs type R. cinnamomea from the section of high-vitamin species and R. canina.

Submersible Capillary Electrophoresis Analyzer: A Proof-of-Concept Demonstration of an In Situ Instrument for Future Missions to Ocean Worlds

We report here the first fully automated capillary electrophoresis (CE) system that can be operated underwater. The system performs sample acquisition and analysis by coupling CE to contactless conductivity detection. Using 5 M acetic acid as the background electrolyte (BGE), inorganic cations and amino acids at concentrations as low as 5.2 μM can be separated and identified. This technology could be augmented to include a variety of other detection modes. This system serves as an early prototype for potential future underwater explorers on ocean worlds of the outer solar system such as Europa or Enceladus. This work documents the first step in the development of this general-purpose technology platform.

Separation and quantification of the urinary enantiomers of 2-hydroxyglutaric acid by capillary electrophoresis with capacitively coupled contactless conductivity detection: Application to the diagnosis of D- and L-2-hydroxyglutaric aciduria.

2-hydroxyglutaric aciduria is an inherited neurometabolic disorder with two major types: D-2-hydroxyglutaric aciduria and L-2-hydroxyglutaric aciduria. An easy and fast capillary electrophoresis system combined with a capacitively coupled contactless conductivity detection method was developed for the enantioseparation and determination of D- and L-2-hydroxyglutaric acid in urine. D- and L-2-hydroxyglutaric acids were separated using vancomycin as the chiral selector. The optimal separation conditions for enantiomers were achieved by the use of a buffer containing 50mM 4-(N-morpholino) butane sulfonic acid solution (pH 6.5), an electroosmotic flow modifier (0.001% [w/v] polybrene), and 30mM vancomycin as chiral selector. The analysis time was 6min under optimal conditions. The optimized and validated method was successfully implemented for quantifying D- and L-2-hydroxyglutaric aciduria in patients' urine, without any pretreatment step. The linearity of the method was determined to be in the range of 2-100mg/L for D- and L-2-hydroxyglutaric acid in urine. The precision (relative standard deviation%) was obtained at about 7%. For D- and L-2-hydroxyglutaric acids, the limits of detection were 0.567 and 0.497mg/L, respectively.

Internal validation study to assess the SeqStudio™ for human identification’s performance

The SeqStudio™ for human identification (HID) is a new benchtop capillary electrophoresis (CE) platform recently developed by Applied Biosystems for genotyping and sequencing short tandem repeat (STR) fragments. Compared to the previous series of CE systems developed by this maker, it is more compact and easier to use. Moreover, by allowing the detection of 4 to 8 fluorescent dyes, it seems to be fully compatible with the different kits of autosomal and gonosomal STR markers usually used in forensic genetics, which are available in trade and supplied by various manufacturers. However, being a new CE model, before its routine use in forensic genetics applications, it should undergo appropriate analytical validation studies in its own laboratories to understand its potential and limitations. A series of experiments on DNA samples coming from cell line controls, using the GlobalFiler™ IQC Amplification Kit, were carried out to meet this purpose. The SeqStudio™ Genetic Analyzer for HID’s findings on genotyping reproducibility (precision and accuracy of sizing), sensitivity, signal variability between dyes (intra- and inter-color channel balance), and stutter ratios are reported. These findings confirm the validity of this new CE system and its capability to generate reliable results.

High concordance rate of capillary electrophoresis workflow for microsatellite instability analysis and mismatch repair (MMR) immunostaining in colorectal carcinoma.

Microsatellite instability (MSI) is the primary predictive biomarker for therapeutic efficacies of cancer immunotherapies. Establishment of the MSI detection methods with high sensitivity and accessibility is important. Because MSI is mainly caused by defects in DNA mismatch repair (MMR), immunohistochemical (IHC) staining for the MMR proteins has been widely employed to predict the responses to immunotherapies. Thus, due to the high sensitivity of PCR, the MSI-PCR analysis has also been recommended as the primary approach as MMR IHC. This study aimed to develop a sensitive and convenient platform for daily MSI-PCR services. The routine workflow used a non-labeling QIAxcel capillary electrophoresis system which did not need the fluorescence labeling of the DNA products or usage of a multi-color fluorescence reader. Furthermore, the 15 and 1000 bp size alignment markers were used to precisely detect the size of the DNA product. A cohort of 336 CRC cases was examined by MSI-PCR on the five mononucleotide MSI markers recommended by ESMO. The PCR products were analyzed in the screening gels, followed by high-resolution gel electrophoresis for confirmation if needed. In the MSI-PCR tests, 90.1% (303/336) cases showed clear major shift patterns in the screening gels, and only 33 cases had to be re-examined using the high-resolution gels. The cohort was also analyzed by MMR IHC is, which revealed 98.5% (331/336) concordance with MSI-PCR. In the five discordant cases, 4 (3 MSI-L and 1 MSS) showed MSH6 loss. Besides, one case exhibited MSI-H but no loss in the MMR IHC. Further NGS analysis, in this case, found that missense and frameshift mutations in the PMS2 and MSH6 genes occurred, respectively. In conclusion, the non-labeling MSI-PCR capillary electrophoresis revealed high concordance with the MMR IHC analysis and is cost- and time-effective. Therefore, it shall be highly applicable in clinical laboratories.

A gravity-independent single-phase electrode reservoir for capillary electrophoresis applications.

Capillary electrophoresis (CE) holds great promise as an in situ analytical technique for a variety of applications. However, typical instrumentation operates with open reservoirs (e.g., vials) to accommodate reagents and samples, which is problematic for automated instruments designed for space or underwater applications that may be operated in various orientations. Microgravity conditions add an additional challenge due to the unpredictable position of the headspace (air layer above the liquid) in any two-phase reservoir. One potential solution for these applications is to use a headspace-free, flow-through reservoir design that is sealed and connected to the necessary reagents and samples. Here we demonstrate a flow-through HV reservoir for capillary electrophoresis that is compatible with automated in situ exploration needs, and which can be electrically isolated from its source fluidics (in order to prevent unwanted leakage current). We also demonstrate how the overall system can be rationally designed based on the operational parameters for CE to prevent electrolysis products produced at the electrode from entering the capillary and interfering with the CE separation. A reservoir was demonstrated with a 19 mm long, 1.8 mm inner diameter channel connecting the separation capillary and the HV electrode. Tests of these reservoirs integrated into a CE system show reproducible CE system operation with a variety of background electrolytes at voltages up to 25 kV. Rotation of the reservoirs, and the system, showed that their performance was independent of the direction of the gravity vector. This article is protected by copyright. All rights reserved.

Determination of carbamazepine and its main metabolite in human hair by capillary electrophoresis and liquid chromatography techniques, both coupled with mass spectrometry

The aim of the research was to determine carbamazepine (CBZ) and its main metabolite 10,11-epoxy-10,11-dihydro-carbamazepine (CBZ-E) in human hair using the capillary electrophoresis (CE) system coupled with mass spectrometry detection (MS) and to compare the obtained results with the liquid chromatography (LC) technique, also coupled with the MS detector. Hair samples were prepared using microwave-assisted extraction (MAE) at 60 °C for 10 min in an alkaline solution (pH = 10) with ethyl acetate as the extraction solvent. In the frame of this study, the procedure for the separation of CBZ and CBZ-E using the CE-MS technique was developed. The best results were achieved using 10 mM ammonium acetate (pH=6.8) as the background electrolyte (BGE), after filling the capillary with 1% highly sulfonated β-cyclodextrin (HSβCD) in 10 mM ammonium acetate. Then, the validation parameters of the MAE/CE-MS and MAE/LC-MS methods such as: limit of detection (for CBZ are: 0.36 and 0.22 ng/mg, respectively; for CBZ-E 0.38 and 0.17 ng/mg, respectively), limit of quantification (for CBZ are: 0.86 and 0.72 ng/mg, respectively; for CBZ-E 0.94 and 0.56 ng/mg, respectively), precision (6.91–14.5% and 2.16–15.6%, respectively), recovery (87.7–102.7% and 88.9–105.5%, respectively), and matrix effect (99.5–111.0% and 98.9–115.1%, respectively) were defined and compared. Finally, the validated methods were applied to identify and quantify carbamazepine and its metabolite in hair in patients who received CBZ for medical reasons.

Identification of a Novel 7-bp Deletion in the α-Globin Gene Cluster in One Chinese Family

Deletional α-thalassemia is characterized by reduced hemoglobin A2 and involves the deletion of a few nucleotides, which is a rare hereditary disease. However, the detection of rare mutations using commonly used genetic tests is highly challenging. In the present study, next-generation sequencing (NGS) was used to identify a novel 7-bp deletion α-thalassemia in one individual from a Chinese family. Hematological parameters of the family members were determined using an automated cell counter, and hemoglobin electrophoresis was performed using a capillary electrophoresis system. Subsequently, NGS was performed on the genomic DNA of the patient and her family members. The 7-bp deletion (named Hb Honghe [HBA1: c.401_407delGCACCGT]) of α-thalassemia in the α-globin gene was confirmed using Sanger sequencing. The patient’s father was also a heterozygous carrier of HBA1: c.401_407delGCACCGT deletion, but not her mother or sister. The application of the combined molecular approach is essential for the accurate diagnosis of rare thalassemia. This study reports a novel case of α- thalassemia. The characterization of the mutation might provide new insights into genetic counseling and accurate diagnosis of thalassemia.

The Case Report of Hemoglobin Hamadan: HBB:c.169G>C (B 56 (D7) Gly-Arg) in İstanbul

27-year-old case with hemoglobin (Hb) Hamadan was presented. During premarital thalassemia screening an unidentified Hb peak; retention time (RT): (5.55 min, 46.2%) was determined with cation-exchange high-performance liquid chromatography (CE-HPLC) at premier resolution (Trinity-Biotech) system. Variant Hb was eluted with Hb A2 (RT): 3.76 min, 45%) at Variant II Turbo (Bio-Rad), while it was 45.7% and detected at S zone at capillary zone electrophoresis system (CZE) Sebia (Lisses, France). She didn't show any clinical symptoms or hematological abnormality. Hemoglobin A1c (HbA1c) results by Boronate affinity, CE-HPLC and CZE methods were 5.7%, 4.7%, and 5.3% respectively. Beta globin gene sequencing revealed a heterozygote codon (c.169G>C (P.Gly57Arg) identical with Hb Hamadan. Hb Hamadan does not cause clinical complaints, but may be important in prenatal examination and cause interference in HbA1c measurements.

Characterization of bispecific antigen-binding biotherapeutic fragmentation sites using microfluidic capillary electrophoresis coupled to mass spectrometry (mCZE-MS).

Fragmentation of therapeutic proteins is a potential critical quality attribute (CQA) that can occur in vivo or during manufacturing or storage due to enzymatic and non-enzymatic degradation pathways, such as hydrolysis, peroxide mediation, and acid/metal catalysis. Characterization of the fragmentation pattern of a therapeutic protein is traditionally accomplished using capillary gel electrophoresis with UV detection under both non-reducing and reducing conditions (nrCGE and rCGE). However, such methods are incompatible with direct coupling to mass spectrometry (MS) due to the use of anionic surfactants, e.g., sodium dodecyl sulfate (SDS). Here, we present a novel method to characterize size-based fragmentation variants of a new biotherapeutic kind using microfluidic ZipChip® capillary zone electrophoresis (mCZE) system interfaced with mass spectrometry (MS) to determine the molecular masses of fragments. A new modality of immuno-oncology therapy, bispecific antigen-binding biotherapeutic, was chosen to investigate its fragmentation pattern using mCZE-MS for the first time, according to our knowledge. Bispecific antigen-binding biotherapeutic samples from different stages of downstream column purification and forced degradation conditions were analyzed. The results were cross-validated with denaturing size-exclusion chromatography-mass spectrometry and conventional rSDS-CGE. In this study, we demonstrated that mCZE-MS could separate and characterize 12-40 kDa bispecific antigen-binding biotherapeutic fragments rapidly (within ≤12 minutes), with higher resolution and better sensitivity than traditional LC-MS methods.

Capillary Electrophoresis Plasma Fractionation for Lipids Analysis.

Extraction of lipids has mainly used density liquid phase separation techniques; however, these methods are limited by their broad extraction and lack specificity. Complex mixtures like blood plasma contain multiple lipid classes, whose distribution in the body are mediated by protein-lipid interactions and integration of lipids in larger lipoprotein complexes. The capillary electrophoresis system separates complex mixtures by electrokinetic forces that preserve protein-lipid complexation and allow for the fractionation of samples. Here we present a methodology for fractionating plasma using the capillary electrophoresis system.

A feasibility study on the use of hydrophobic eutectic solvents as pseudo-stationary phases in capillary electrophoresis for chiral separations

A critical challenge in using deep eutectic solvents (DESs) in capillary electrophoresis (CE) is to develop separation systems in which a DES can really work as a single entity. To achieve this, the authors recently demonstrated a novel strategy that takes advantage of the aqueous dispersibility of hydrophobic DESs (or more accurately hydrophobic eutectic solvents (HESs)). However, the previous work was limited only to the separation of achiral analytes, e.g., analogues, homologues, and isomers. The present study was designed as a follow-up study in order to explore the feasibility of employing HES-type pseudo-stationary phases (PSPs) in CE for chiral separations. By using carboxymethyl-β-cyclodextrin (CM-β-CD) as a model chiral selector, we provide the first evidence that there is a potential synergistic effect between HESs and traditional chiral selectors. Specifically, the combined use of HES (−)-menthol:octanoic acid and CM-β-CD allowed excellent enantioseparations of several basic drugs which were not able to be resolved in the single CM-β-CD system. The enantioresolutions were significantly improved while the migration times of the enantiomers were also shortened due to the hydrophobic mechanism of the HES-type PSP. Critical factors influencing the novel chiral CE system were systematically investigated. Since HESs are considered as “designer” solvents with highly tunable properties, this study demonstrates the potential of employing HESs (or HDES)-type PSPs in CE for chiral separations.

Downregulation of the Mutated WT1 Alleles in Malignant Hematopoietic Cells Via Nonsense-Mediated mRNA Decay Contradicts Their Prognostic Impact

Background The Wilms Tumor 1 (WT1) gene is highly expressed in almost all types of malignancies including acute myeloid leukemia (AML). It is also mutated in up to 20% of AML blasts in pediatric and adult patients. Both, the increased expression and also the presence of mutations are correlated negatively with chance of survival in different AML patient cohorts. We and others have previously showed devastating survival outcomes in children with AML blasts harboring WT1 mutations in combination FLT3-ITD and NUP98-NSD1 (Niktoreh et al., 2019). As WT1 can act as both, oncogene and tumor suppressor gene, this study was designed to analyze the WT1 genomic locus mutations in acute leukemia blasts. Methods and Results Screening for WT1 sequence alterations. Using the TruSight Myeloid Sequencing PanelTM (Illumina), we initially screened 35 leukemia and lymphoma cell lines for genomic alterations in 54 genes. This panel allowed us to detect even low variant-allele-frequency (VAF) alterations in the mutational hotspots of WT1, exons 7 and 9. In addition to a known WT1 mutation in CTS cells (AML M1), we discovered novel alterations in three other malignant cell lines. KASUMI-6 cells (AML M2) harbored the identical mutation as CTS cells, a 2-bp deletion in WT1 exon 7 leading to frameshift with a premature termination codon (c.1202_1203delGA, p.Arg401IlefsTer3). The U937 histiocytic lymphoma cells carried the known TP53 mutation and also an unknown heterozygous nonsense mutation in WT1 exon 7, changing the arginine 369 into a premature stop codon (c.1105C>T, p.Arg369Ter). Interestingly, MOLM-1 cells (CML in blast crisis) harbored a p.Arg462Gln alteration. Next, we performed Sanger sequencing for the complete coding region of WT1, including the upstream promoter as well as the 5'UTR and 3'UTR regions, all 10 exons and the adjacent 150 bp intronic sequences at the exon-intron boundaries. Sanger sequencing confirmed the mutations discovered via NGS and revealed single bp alterations in the WT1 promoter region of CTS cells and in the 5'UTR of K-562 cells. We also detected a recurring variation in intron 3 of WT1 (c.872+16G>A) in the cell lines K-562, NB-4, M07e and UOC-M1; the functional implications of the alterations are yet to be determined. Functional impact of WT1 mutations. To understand the potential impact of the WT1 sequence alterations, we studied the WT1 mRNA expression in these cells in the presence of cycloheximide (CHX), an inhibitor of the nonsense-mediated mRNA decay (NMD) machinery. As shown in figure 1A, U937 cells were used as negative control cells, as they are known to have no expression of the WT1 mRNA. Despite the presence of mutations in CTS, KASUMI-6 and MOLM-1 cells, all three cell lines expressed elevated levels of WT1, well within the range of 30 other malignant cell lines without any alterations/mutations in the WT1 locus (data not shown). To differentiate the WT1 expression between the mutated and the wildtype allele, we performed a fragment length analysis on a capillary electrophoresis system using the complimentary DNA of CHX-treated cell lines. For these analyses, we employed a multiplex PCR strategy using ABL1 as housekeeping gene and a primer pair binding in exons 4 and 10 of WT1. As delineated in figure 1B, the mutated alleles in CTS and KASUMI-6 cells, which are 2-bps shorter, could be easily separated from the wildtypes (data for KASUMI-6 not shown). Additionally, since our primer pair also amplified the alternatively spliced exon 5 and the alternative splice donor at the end of exon 9, leading to inclusion or exclusion of three amino acids (KTS), we were able to separately analyze the four major WT1 isoforms from both alleles. As shown in figure 1B, the expression levels of the WT1 mutated alleles of CHX-treated cells increased 2- to 3-fold compared to DMSO-treated cells in CTS and 3- to 4-fold in KASUMI-6 (data not shown). Conclusion Careful analyses of the WT1 genomic locus in 35 malignant hematological cell lines revealed previously unknown heterozygous loss-of-function WT1 mutations in KASUMI-6, MOLM-1 and U-937 cells. mRNA expression analysis demonstrated that these mutations are strongly regulated by NMD machinery, leading to (almost) complete downregulation of the mutated WT1 allele. These results strongly question any direct effect of WT1 mutations in the leukemic blasts and therefore cannot explain the role of mutations in WT1 as a prognostic factor in AML. Figure 1View largeDownload PPTFigure 1View largeDownload PPT Close modal

Microscale Quantification of the Inhibition of Neuraminidase Using Capillary Nanogel Electrophoresis.

Neuraminidase inhibitors modulate infections that involve sialic acids, making quantitative analyses of this inhibitory effect important for selecting and designing potential therapeutics. An automated nanogel capillary electrophoresis system is developed that integrates a 5 nL enzyme inhibition reaction in line with a 5 min separation-based assay of the enzymatic product to quantify inhibition as the half maximal inhibitory concentration (IC50) and inhibitor constant (Ki). A neuraminidase enzyme from Clostridium perfringens is non-covalently immobilized in a thermally tunable nanogel positioned in the thermally controlled region of the capillary by increasing the capillary temperature to 37 °C. Aqueous inhibitor solutions are loaded into the capillary during the nanogel patterning step to surround the enzyme zone. The capillary electrophoresis separation provides a means to distinguish the de-sialylated product, enabling the use of sialyllactose which contains the trisaccharide motif observed on serine/threonine-linked (O-linked) glycans. A universal nanogel patterning scheme is developed that does not require pre-mixing of enzymes with inhibitors when an automated capillary electrophoresis instrument is used, thus reducing the consumption of enzymes and enabling adaption of the method to different inhibitors. The universal approach is successfully applied to two classical neuraminidase inhibitors with different electrophoretic mobilities. The IC50 and Ki values obtained for N-acetyl-2,3-dehydro-2-deoxyneuraminic acid (DANA) are 13 ± 3 and 5.0 ± 0.9 μM, respectively, and 28 ± 3 and 11 ± 1 μM, respectively, for Siastatin B. These values agree with literature reports and reflect the weaker inhibition anticipated for Siastatin B in comparison to DANA.