Comparative study of non-porous anion-exchange chromatography, capillary gel electrophoresis and capillary electrophoresis in polymer solutions in the separation of DNA restriction fragments

Dynamic coating capillary electrophoresis for separation of humic acid using mixture solution of non-ionic polymers both as coating agent and separation medium

A simple, rapid, and precise dynamic coating capillary electrophoretic separation method for water-soluble humic substances is proposed. An aqueous solution containing hydroxyethyl cellulose (HEC), polyethylene glycol (PEG), and pH buffer component was employed for both the dynamic coating agent and the separation medium. The procedure for the coating of the capillary inner wall was simply filling the buffered polymer mixture solution into the capillary that had been treated with 1 M aqueous HCl solution. The solution for the capillary coating was directly used as the electrophoretic buffer solution for CE separation. Excellent performance for the separation of humic acid was obtained using the solution containing 0.5% (w/v) HEC, 1.0% (w/v) PEG 10000, and 0.1% (w/v) PEG 8000000. Excellent reproducibility and durability were obtained even at slightly alkaline conditions at pH levels above 8. The separation of 0.1 - 2 kbp of DNA ladder by the proposed method showed was also achieved.

Separation of oligonucleotides with single-base mutation by capillary electrophoresis using specific interaction of metal ion with nucleotide

A unique tactic for the separation of single-base sequential isomers of oligomeric single-stranded DNA by a CE separation system employing the specific interaction of metal ion with nucleotide was demonstrated, enabling the separation of the mixture of a 12-mer oligonucleotide and its single-base mutants, as well as their positional isomers.

Miniaturised isotachophoresis of DNA

This paper presents the findings of a feasibility study investigating the behaviour of DNA under conditions of miniaturised isotachophoresis. An electrolyte system comprising a leading electrolyte of 5mM perchloric acid at pH 6.0 and a terminating electrolyte of 10mM gallic acid was devised and used to perform isotachophoresis of DNA containing samples on a miniaturised poly(methyl methacrylate) device. Under such conditions it was found that no separation of DNA fragments was observed with the substance migrating instead as a single isotachophoretic zone. Whilst such a result shows the method is unsuitable for analysis DNA it offers significant potential as a means of sample preparation for subsequent analysis using another method. This is because the single zone of DNA formed is preconcentrated to a constant concentration governed by the leading ion and is separated from all species with different effective electrophoretic mobilities.

Homogeneous gels for capillary electrochromatography

Homogeneous gels represent a new type of (electro)chromatographic media possessing unique separation properties unmatched with any other chromatographic beds. It is important to emphasize that they principally differ from continuous beds, polymer rods (better known as monoliths), which are particulate separation media with pores permitting hydrodynamic flow through the columns. Monoliths, thus, are more similar to beds conventionally packed with beads, although the particles building up monolithic columns are usually smaller in size (few submicometers) and covalently linked together. Consequently, homogeneous gels deserve better the term "monoliths" having a non-particulate structure formed by crosslinked free polymer chains (according to a dictionary a monolith is a non-modularized column). The goals of this minireview are to clarify the position of homogeneous gels among the separation media (including polymer solutions), to explain and to exemplify their outstanding (electro)chromatographic properties. This review gives hopefully a complete list of references to homogeneous gels developed for capillary electrochromatography.

Stable homogeneous gel for molecular-sieving of DNA fragments in capillary electrophoresis

A polyacrylamide gel crosslinked with allyl-beta-cyclodextrin can be used repeatedly for several weeks for the separation of DNA fragments, since bubbles are not generated during a run. Allyl-beta-cyclodextrin can easily be synthesized in one step from allylglycidylether and beta-cyclodextrin. The plate numbers for DNA fragments, up to about 1500 bp, are high: for the separation of pBR322/HaeIII fragments they were in the range 450,000-1,600,000 m(-1). The resolution was almost independent of the concentration of the crosslinker (allyl-beta-cyclodextrin)--in sharp contrast to gels crosslinked with N,N'-methylenebisacrylamide.

Enhanced separation of DNA sequencing products by capillary electrophoresis using a stepwise gradient of electric field strength

The effect of the electric field strength gradient on the separation of DNA sequencing fragments was investigated. We demonstrate that the stepwise gradient of electric field improves the separation of DNA sequencing fragments more than 500 bases in size and diminishes the analysis time for DNA sequencing of lager DNA fragments. The use of the electric field strength gradient induces an increase in the theoretical plate number as predicted by the theoretical formulation discussed in this paper.

High-performance capillary electrophoresis of hyaluronic acid: determination of its amount and molecular mass

The amount and the molecular mass of hyaluronic acid (HA) were determined by high-performance capillary electrophoresis. HA was observed at around 15 min by using an untreated fused-silica capillary (75 microns I.D.) of 58 cm length (effective length, 50 cm) at 20 kV in 50 mM phosphate buffer (pH 4.0). Calibration curves showed good linearity from 0.01 mg/ml to 3.3 mg/ml for all HA samples examined. The lower limit of detection by monitoring the absorbance at 185 nm was 1.0 microgram/ml at the signal-to-noise ratio of 5. HA samples were examined in a buffer containing pullulan (PU) as an additive for the matrix formation material. The HA samples showed marked peak-broadening when analyzed in the buffer solution containing PU with a specified molecular mass. The peak broadening was based on the dispersion of the molecular mass of the HA sample analyzed.

Application of capillary gel electrophoresis to the diagnosis of the aldehyde dehydrogenase 2 genotype

This study dealt with the application of capillary gel electrophoresis (CGE) to diagnosis of the aldehyde dehydrogenase 2 (ALDH-2) genotype. Electrophoresis was performed on a low cross-linked polyacrylamide gel ¿3% T [g acrylamide+g Bis (N,N'-methylenebisacrylamide)], 0.5% C (g Bis/% T)¿ in 100 mM Tris-borate buffer (pH 8.3) at -10 kV with on-column UV detection (260 nm). During the PCR reaction, DNA from the wild-type allele generated a MboII restriction site, which is an amplification created restriction site. This did not occur, however, with DNA fragments from the mutant allele. Therefore, determination of the heterozygous genotype, the coexistence of wild-type and mutant alleles, was easily possible. Analysis of the MboII restriction digests of the PCR products was completed in less than 20 min, showing two peaks corresponding to fragments of 125 (cleaved) and 135 (uncleaved) base pairs (bp), respectively. On the other hand, determination of the homozygous genotype, wild-type or mutant, was difficult in one electrophoresis run. The CGE of the MboII restriction digests gave a single peak and the identification, cleaved or uncleaved, was difficult under our experimental conditions. However, the addition of aliquots of the PCR reaction mixture to the restriction digests, followed by re-electrophoresis, allowed successful diagnosis, yielding two peaks (cleaved and uncleaved) for the wild-type and one peak (uncleaved) for the mutant allele. This study demonstrated that CGE offers a high-speed, high-resolution analytical tool for determining genetic types, as compared with the conventional slab gel methodologies.

High-performance field inversion capillary electrophoresis of 0.1-23 kbp DNA fragments with low-gelling, replaceable agarose gels

Field inversion capillary gel electrophoresis (FICGE) has been used for the separation of 0.1-23 kbp DNA fragments in a low-melting, low-gelling agarose gel. The influence of the amplitude of the voltage pulses, the pulse times and gel concentrations on the separation factor has been studied and found to be similar to that of polyacrylamide gels. Very high resolution can be obtained by altering continuously the pulse times and/or voltage according to a program tailor-made for the size of the DNA molecules to be separated (programmed FICGE). The advantage of these agarose gels in comparison with polyacrylamide gels is that they are nontoxic, easy to prepare and they have high UV transmission. They give a resolution that is equivalent to or better than that of polyacrylamide gels, and the risk of bubble formation in the gel is small. In addition, they are replaceable and, therefore, very convenient for automated analyses.

Rapid typing of variable number of tandem repeat locus in the human apolipoprotein B gene for DNA diagnosis of heart disease by polymerase chain reaction and capillary electrophoresis

The apolipoprotein B (apoB) variable number of tandem repeat (VNTR) alleles containing larger repeat units is a risk factor for coronary heart disease. Capillary electrophoresis (CE) in entangled polymer solution was applied to the analysis of polymerase chain reaction (PCR) amplified apoB VNTR locus for DNA diagnosis of heart disease. The CE separation gives an excellent resolution of two alleles differing by one or two 16 bp repeat units in the DNA size range up to 600 bp with high speed. The apoB alleles differing in length by 2 or 4 repeat units are readily distinguishable by CE in the DNA size range from 600 to 1000 bp. The plate number achieved was 1 million plates per meter. CE combining with PCR provides an excellent technique for accurate determination of the number of repeat units of apoB VNTR alleles and differentiation of heterozygous from homozygous individuals. Using the CE technique, the apoB VNTR loci from some individuals in genotyping were examined towards precise DNA diagnosis for coronary heart disease.

The use of coated and uncoated capillaries for the electrophoretic separation of DNA in dilute polymer solutions

We show that both uncoated and polyacrylamide-coated capillaries provide separation of large DNA restriction fragments (2.0-23.1 kbp) by capillary electrophoresis in dilute cellulosic polymer solutions. Uncoated capillaries, however, provide significantly better resolution of DNA fragments, particularly when ultra-dilute polymer solutions are used. This is because electroosmotic flow in uncoated capillaries increases the residence time of DNA in the capillary, without significantly contributing to band-broadening. At a given field strength and polymer concentration in the buffer, the electrophoretic mobilities of DNA restriction fragments in coated capillaries are virtually identical to those previously measured in uncoated capillaries. It is concluded that the fused silica surface of the capillary does not play a significant role in the mechanism of DNA separation by capillary electrophoresis in uncrosslinked polymer solutions. Thus, the separation of large DNA which has been observed to occur in ultra-dilute polymer solutions arises primarily from entanglement interactions between the cellulosic polymers and DNA restriction fragments which occur within the bulk of the polymer solution.

High-resolution separation of PCR product and gene diagnosis by capillary gel electrophoresis

High-resolution separation of a PCR product from a mixture of DNA restriction fragments was achieved using capillary gel electrophoresis. The capillary gel electrophoretic separation gives an excellent resolution of two fragments of the 500-bp PCR product and the 506-bp DNA fragment, which differs by only 6 bp, and the complete separation of a broader chain length range of DNA afragments up to 12 kbp within 20 min. The plate number of gel-filled capillary was achieved to be 2 million plates per meter. Capillary gel electrophoresis is applied to the gene diagnosis for heart disease through apolipoprotein E genotyping. The advantages and limitations of capillary gel electrophoresis in the application to PCR analysis and DNA diagnosis are discussed.