Two-color excitation system for fluorescence detection in DNA sequencing by capillary array electrophoresis

Two computer-controlled galvanometer scanners are adapted for two-dimensional step scanning across a 96-capillary array for laser-induced fluorescence detection. 488 nm and 514 nm laser lines from the same Ar(+) laser were alternately coupled for two-color excitation in each capillary. The signal at a single photomultiplier tube is temporally sorted to distinguish among the capillaries and the excitation wavelengths. Based on the differences in absorption spectra for the dyes, the peak-height ratios in the 488 nm and 514 nm excitation electropherograms were used for peak identification for multiplexed capillary electrophoresis. Successful base calling for 24-capillary DNA sequencing was achieved to 450 bp with 99% accuracy. Advantages include the efficient utilization of light due to the high duty-cycle of step scan, good detection performance due to the reduction of stray light, ruggedness due to the small mass of the galvanometer mirror, low cost due to the simplicity of components and flexibility due to the independent paths for excitation and emission.     

Sensitive absorption detection for micro-column liquid chromatography by ultraviolet forward-scattering degenerate four-wave mixing

The performance of forward-scattering degenerate four-wave mixing (F-D4WM) in the mid-ultraviolet (UV) region (351 nm) as a detection technique for micro-column liquid chromatography (μLC) is studied, using nitro-substituted polycyclic aromatic hydrocarbons (NO₂-PAHs) and amino-substituted anthraquinones (AAQs) as test compounds. When using round capillaries, the concentration limits of detection (LOD) for the NO₂-PAHs were 20–70-fold better compared with absorption detection using a U-shaped detector cell. The final result is influenced by photochemical degradation during 351 nm F-D4WM detection. Furthermore, it is demonstrated that the use of recently commercially available square capillaries (i.e., capillaries with both a square cross section and a square bore) instead of round ones is quite suitable for F-D4WM detection. The square capillary (internal dimensions, 75×75 μm²; external dimensions 300×300 μm²) did not cause significant chromatographic band broadening in μLC. The angle of incidence of the laser light should be 56°, thus fulfilling the Brewster condition at the air–quartz boundary. Using this approach for the AAQs, compounds not prone to significant photodegradation under the experimental conditions, a further 4-fold improvement was achieved. As a result, the overall gain in concentration LOD for 2-amino-9,10-anthraquinone (molar absorptivity 4000 M⁻¹ cm⁻¹ at 351 nm) was from 4 to 0.05 μM, and baseline irregulations were reduced.     

Improving detection in capillary electrophoresis with laser induced fluorescence via a bubble cell capillary and laser power adjustment

Bubble cells have been frequently employed in capillary electrophoresis (CE) to increase the light path length with UV detection to provide an increase in the observed sensitivity of CE; however this approach has not been commonly used for laser-induced fluorescence detection (LIF) with CE. In this paper we study the influence of laser power on the sensitivity of detection in using conventional and enlarged fused silica capillaries for CE with LIF. When using the bubble cell capillary, the laser power must be decreased relative to use of the conventional capillary to reduce the effects of photodegradation of the species being illuminated by the laser. Even though the light intensity was decreased, an increase in sensitivity of detection was observed for most compounds when a bubble cell was used. This increase ranged from a factor of 8 for riboflavin (410 nm excitation) to 3.2 for most aromatic compounds (266 nm excitation), when using a 3x bubble cell compared with a conventional capillary. The bubble cell capillary was used for native detection of IgG by LIF at 266 nm. A limit of detection of 60 ng mL(-1) was obtained from a 20 pg injection, which was 40 times more sensitive than silver staining in conventional SDS/PAGE.     

Side-entry excitation and detection of square capillary array electrophoresis for DNA sequencing.

In high throughput DNA sequencing based on capillary electrophoresis, efficient coupling of the laser to each capillary is a challenge. Our group previously reported two multiple point irradiation schemes. The present work describes a more efficient excitation and detection method in which the laser light propagates through the capillary array without undergoing a serious reduction in power. An array of square capillaries (340 microns O.D. x 75 microns I.D.) was sandwiched between two fused-silica plates with an index-matching solution in between. The light was directed into the channel across the capillary array from the side. DNA sequences of PGEM/U from 24 capillaries were obtained even with a relatively low-power laser. The excitation scheme can be scaled up to hundreds of capillaries to achieve high-speed, high-throughput DNA sequencing, genetic typing and drug screening.     

A glycerol assisted light-emitting diode-induced fluorescence detector for capillary flow systems

A glycerol assisted light-emitting diode (LED)-induced fluorescence detector (IF) for capillary flow systems was constructed and evaluated. A blue LED was used as the excitation source, and optical fibers (OF) were used to transmit the excitation light and collect the fluorescence. A commercial available 5-port manifold was used as detection cell, where the capillary tube and the OF were fixed into the manifold. The precision of the holes on the manifold ensured a self-alignment of optical path. A refractive index matching fluid (RIMF)-glycerol was used to eliminate the interfaces between the OF and the LED, as well as between the fused silica capillary and the transmitting/collecting fiber. The enhancement of excitation light led to 2.8-folds improvement on the signal-to-noise ratio. The use of RIMF also eliminates focusing effect of the capillary wall and reduces both the excitation light directed to the detection cell and background signal, resulting in reduction in the fluorescence intensity and noise level. The intensity was reduced to 47-63% for laser and 60-77% for LED, respectively, for capillaries with i.d. from 50 to 250 microm; while the noise level was reduced to 1/3 when RIMF was used for both laser and LED on the tested capillaries. About 5.6-fold enhancement in signal-to-noise ratio was obtained in total. The detection limit of the LED-IF for fluorescein isothiocyanate (FITC) was 4 nM. Application of the LED-IF for the analysis of FITC-labeled amino acids by electrophoresis was demonstrated.     

Simultaneous operation of plural separation modes in capillary electrophoresis with a chemiluminescence detector possessing a micro-space area for reaction/detection

Analysis of alpha-amino acids, proteins, and phenolic compounds was simultaneously performed using three capillaries in capillary electrophoresis with chemiluminescence detection, taking advantage of the micro-space area for reaction/detection at the tip of the capillary. The three capillaries included usual, polymer-containing, and sodium docley sulfate (SDS)-containing migration buffers for separation. The eluted samples from the capillaries, which were inserted into the chemiluminescence detection cell, were mixed with chemiluminescence reagent at the tips of the capillaries to generate visible light. The specific micro-space area for reaction/detection at the tips of the capillaries enabled the simultaneous operation of the three separation modes in the present system.     

A liquid core waveguide fluorescence detector for multicapillary electrophoresis applied to DNA sequencing in a 91-capillary array

A new laser-induced fluorescence (LIF) detector for multicapillary electrophoresis is presented. The detection principle is based on waveguiding of the emitted fluorescence from the point of illumination to the capillary ends by total internal reflection (TIR) and imaging of the capillary ends. The capillaries themselves thus act as liquid core waveguides (LCWs). At the illumination point, the capillaries are arranged in a planar array, which allows clean and efficient illumination with a line-focused laser beam. The capillary ends are rearranged into a small, densely packed two-dimensional array, which is imaged end-on with high light collection efficiency and excellent image quality. Wavelength dispersion is obtained with a single prism. Intercapillary optical crosstalk is less than 0.5%, and rejection of stray light is very efficient. The detector is applied to four-color DNA sequencing by gel electrophoresis in a 91-capillary array, with simple fluorescein and rhodamine dyes as fluorophores. Since the imaged two-dimensional array is so compact, the detector has a high potential for very large-scale multiplexing.     

Electrophoretic separation and confocal laser-induced fluorescence detection at ultralow concentrations in constricted fused-silica capillaries

Laser-induced fluorescence detection of labeled amino acids in a flowing stream at femtomolar (10(-15)M) concentrations was achieved by using a fused-silica capillary flow-cell comprising a constricted thin-walled detection region with inner diameters (IDs) ranging from 2 to 8 microm. The diameter of the constricted region was made to match a diffraction-limited focus of a uniphase transverse electromagnetic mode (TEM(00)) laser beam. Optimization of capillary dimensions and geometries (i.e., curvature, wall thickness, and outer-inner diameter ratio were performed in order to minimize cylindrical lensing of the focused laser beam. The fluorescence was collected in a confocal optical setup using a 1.3 numerical aperture (NA), 100x oil-immersion objective and a single-photon-counting avalanche diode (SPAD). Under conditions of fluid flow, the constriction in the capillary forces all analytes to traverse across the laser probe volume, resulting in a high sampling efficiency. Fluorescein isothiocyanate-labeled glutamate (FITC-Glu) was electrophoretically separated and detected in capillaries having an ID of 2 microm at the constricted region with detection limits of 250 fM (signal-to-noise ratio (S/N) = 3) in the injected solution.     

In-column fiber-optic laser-induced fluorescence detection for CE

A highly sensitive in-column fiber-optic LIF detector for CE has been constructed and evaluated. In this detection system, a 457-nm diode-pumped solid-state blue laser was used as the excitation light source and an optical fiber (40 mum od) was used to transmit the excitation light. One end of the optical fiber was inserted into the separation capillary and was in situ positioned at the detection window. The other end of the fiber was protruded from the capillary to capture the excitation light beam from the blue laser. Fluorescence emission was collected by a 40 x microscope objective, focused on a spatial filter, and passed through a yellow color filter before reaching the photomultiplier tube. The present CE-fluorescence detection is a simple and compact optical system. It reduces the laser scattering effect from the capillary and fiber as compared to the conventional LIF detection for CE. Its utility was successfully demonstrated by the separation and determination of D-penicillamine labeled with naphthalene-2,3-dicarboxaldehyde. The detection limit was 0.8 nM (S/N = 3). The present detection scheme has been proven to be attractive for sensitive fluorescence detection for CE.     

A new method for the preparation of polyacrylamide gradient gel-filled capillaries with low UV detection background

A simple but reproducible method has been explored for the preparation of polyacrylamide gradient gel-filled capillaries with low UV detection background. The principle is to fill a capillary by plugging it into a wide tube already filled with gradient gelling solutions including a section of buffer. Void-free capillaries can be prepared with a full success for gels below 13%T+5%C (immobilised completely). For gels between 15%T and 25%T+5%C, the preparation success rate is 80-95%, depending on the gel immobilisation methods. The resulting capillaries allow the use of any available wave-length for sensitive detection and in the separation of polylysines, a great improvement of their detection sensitivity has been achieved, up to 10(3)-10(4) fold as compared to the common gel-filled capillaries. Unlabelled polysaccharides from the sacculi of Escherichiacoli can hence directly be detected at 200 nm. These capillaries can continuously be used for more than 2 months in separating the biological polysaccharides at -200 V cm(-1) and pH 7.8 while at pH 4.7, they can still be used for more than 400 injections ( approximately 1 month) of the polylysines at +180 V cm(-1). As expected by stacking effect, the gradient gels yield higher efficiency or running speed (1-fold) and even higher UV detection sensitivity (>2-fold) than the homogeneous gels.     

Capillary waveguide fluoroimmunosensor with improved repeatability and detection sensitivity

An optical capillary waveguide fluoroimmunosensor based on glass capillaries internally coated with an ultrathin poly(dimethylsiloxane) (PDMS) film is presented. The evaluation of the capillaries developed was done in comparison with aminosilanized [3-(aminopropyl)triethoxysilane, APTES] glass and poly(methylpentene) (PMP) capillaries by immobilizing rabbit γ-globulins on the internal capillary wall. Following reaction with (R)-phycoerythrin-labelled antibody, the capillary was scanned with a laser beam and the fluorescence waveguided through the capillary wall was detected by a photomultiplier placed at one of its ends. The capillaries developed provided considerably improved protein coating homogeneity (intracapillary coefficients of variation 2.9–6.6%) and repeatability (intercapillary coefficients of variation 2.1–5.0%) compared with APTES-treated ones (7.9–13.4 and 8.5–15.2%, respectively). With use of these capillaries in a sandwich-type immunosensor for the determination of rabbit γ-globulins, the assay detection limit was improved eightfold (4.4 ng/mL) compared with that obtained using PMP capillaries (35.3 ng/mL), whereas the assay repeatability was improved threefold (intra-assay coefficients of variation 5.9–13.1%) compared with APTES-treated capillaries (15.6–36%). Optoelectronic set-up used to scan the capillaries (left) and representative fluorescence scannings of dual-band poly(methylpentene) (PMP), PDMS-modified glass and APTES treated glass capillaries     

Capillary electrophoretic separation of sugars in fruit juices using on-line mid infrared Fourier transform detection

Fourier Transform infrared spectroscopy has been coupled to on-line capillary electrophoresis (CE) for the separation and detection of natural sugars in orange fruit juices. The CE separation electrolyte comprised 50 mM sodium carbonate buffer adjusted to pH 12.3 with NaOH. Galactose was selected as an internal standard. To ensure tight connections between the custom-made IR-transparent flow cell (optical path length was 15 [micro sign]m) and the fused silica capillaries, commercially available O-rings were used. The scanner of the spectrometer was operated at a HeNe laser modulation frequency of 320 kHz, recording interferograms in a double-sided, forward-backward mode with 8 cm(-1) spectral resolution. For each spectrum 64 interferograms (512 for the background) were co-added and a Blackman-Harris 3-term apodization function was performed. A low-pass filter at 1828 cm(-1) was inserted in the IR beam to increase the light throughput in the spectral region of interest (1800 cm(-1)-900 cm(-1)). Using these features a new spectrum could be obtained every two seconds. Sucrose, glucose and fructose were structurally identified and quantified in orange juice samples. The limits of detection (3S/N) for all analytes were in the low millimolar range (0.7-1.9 mM) or, in absolute amounts, the low nanogram range (1.5-3.2 ng). The resolution ranged between 1.14 to 3.15 and the RSD of the proposed method was 1.8-4.4%.     

Preparation of polyacrylamide gel-filled capillaries with step gradients and low UV-detection background

Polyacrylamide- filled capillaries with step gradients were designed and prepared with a newly established method,which is also suitable for producing other sorts of capillaries.The resulting capillaries allow the use of any UV light to approach the most sensitive detection and have the features of fast running speed and high separation efficiency In addition,the capillaries can he used continuously for more than two weeks.     

A capillary-array electrophoresis system using side-entry on-column laser irradiation combined with glass rod lenses

We have developed a simple and high-throughput capillary-array electrophoresis system that uses side-entry on-column laser irradiation. The number of capillaries in an array is generally limited by laser-power attenuation along the array due to reflection and divergence. We overcame these problems by placing the capillaries in water and adding glass rod lenses between the capillaries. As a result, up to 45 capillaries could be simultaneously irradiated with a single laser beam and the fluorescence from all the capillaries could be detected with high sensitivity. We demonstrated the high throughput of 12 kbp/h with a 45 capillary array using this system.     

Capillary scale light emitting diode based multi-reflection absorbance detector

We describe a light emitting diode (LED) based multi-reflection capillary scale absorbance detector based on both square and round capillaries and compare their performance with a conventional single-pass on-tube detector. The optical path length is extended by silver coating, the external surface of the capillary. The reflective geometry has been reported to be less prone to artifacts induced by refractive index changes; we do find this to be true. Although the detection volume/illuminated volume is increased some, a multi-reflection cell based on a 180 μm bore capillary with a ∼2-cm long illuminated volume shows over a 50-fold gain in signal-to-noise (S/N) compared to a single-pass on-tube configuration with the same capillary. The limit of detection (LOD) is 4.4 fmol (2.6 pg, 1 μL of 22.0 nM injected dye) BTB under pulseless (pneumatic) flow conditions. The cells behave as multipath devices where the effective path lengths are greater at low absorbance values. In our experiments, where non-coherent light is launched through optical fibers that are large compared to capillary bore dimensions, increase in the effective path length of the cell do not occur in a predictable fashion with the angle of incidence of the light beam. Although the effective path length almost linearly increases with increasing distance between the light entry and exit windows, the absolute values of the effective path lengths are always lower than this physical distance, suggesting that after some passage through the solution, light largely travels through or along the glass wall. Square capillaries have better light transmission and offer some performance advantages. Multi-reflection cells can indeed be of value for sensitive detection in microflow systems.     

预聚合法制备聚丙烯酰胺毛细管凝胶柱

提出了一种温和条件下制备交联聚丙烯酸胺毛细管凝胶电泳柱的新方法──预聚合法.讨论了制备过程中的问题,获得了凝胶组成、毛细管内径及长度等不同的交联聚丙烯酸胺毛细管凝胶电泳柱.采用激光回射干涉检测技术,实现了蛋白质标准样品的毛细管凝胶电泳在柱分离检测.     

Comparison of the Possibilities of Thermal-Lens Detection in Capillaries and Microchips

The conditions of thermal-lens detection are compared for samples with small path lengths: capillaries and microchannels of chemical microchips. The optimum parameters of the optical configuration of a thermal lens spectrometer (beam diameters and their in-sample ratios, and the detector position) were calculated from the theory and confirmed experimentally. The limits of detection of a model chemical substance (ferroin) are estimated at 1 × 10^–8 M for microchips and 5 × 10^–8 M for capillaries. The absolute limits of detection are the same and equal to 3 × 10^–17 M. The advantages and disadvantages of thermal lens detection in capillaries and microchips are discussed.     

Construction and evaluation of a capillary array DNA sequencer based on a micromachined sheath-flow cuvette

A capillary array electrophoresis DNA sequencer is reported based on a micromachined sheath-flow cuvette as the detection chamber. This cuvette is equipped with a set of micromachined features that hold the capillaries in precise registration to ensure uniform spacing between the capillaries, in order to generate uniform hydrodynamic flow in the cuvette. A laser beam excites all of the samples simultaneously, and a microscope objective images fluorescence onto a set of avalanche photodiodes, which operate in the analog mode. A high-gain transimpedance amplifier is used for each photodiode, providing high duty-cycle detection of fluorescence.     

CZE with On-line Micellar Sample Stacking for Determination of Protein Concentration of Biopharmaceuticals

A capillary zone electrophoresis total protein assay was developed and validated in polyethylene oxide (PEO) dynamically coated capillaries. On-line large-volume sample stacking was employed. Protein samples were denatured using SDS and then injected into PEO-filled capillaries. Such treatment enabled injection of a sample volume of ??8% of the total capillary volume and stacking of protein-SDS molecules at the interface between the sample plug and the PEO plug. Results showed that SDS enhanced the sensitivity not only by protein denaturation but also by forming micelles, in which protein-SDS partitioned. Sensitivity of the method was further enhanced through using capillaries with (tenfold) extended detection pathlength. Such strategies resulted in a limit of detection of 0.26 ??g mL^?1 (3.64 nM BSA). A linear relationship between protein concentration and integrated peak area was obtained over a wide concentration range (8.49?C135.87 ??g mL^?1??R ² = 0.995). The method is particularly useful for determination of total protein concentration in chromatography fractions. It overcomes low UV absorptivity of proteins, presence of UV absorbing additives and high salt content. Contrary to conventional methods for determination of protein concentration, this method does not involve an interaction with a dye. Thus, variations due to differences in surface properties among proteins or due to differences in posttranslational modifications of the same protein are eliminated. The protocol was successfully applied for the determination of the concentration of a biopharmaceutical protein rhMBP in chromatography fractions. This protein has been previously produced in milk of transgenic cows and several charge isoforms were detected.     

New improvements in methane detection using a Helmholtz resonant photoacoustic laser sensor: a comparison between near-IR diode lasers and mid-IR quantum cascade lasers

Atmospheric methane was detected by combining a photoacoustic (PA) sensor with several lasers emitting in both the near- and mid-infrared spectral ranges to check the achievable detection limits. The PA spectrometer is based on differential Helmholtz resonance. Near-infrared telecommunication-type laser diodes of increasing power, from Sensors Unlimited Inc. and Anritsu, were first used to scan the 2 nu(3) band of CH(4) near 1.65 microm. The best achieved detection limit is 0.15 ppm of methane at atmospheric pressure and with a 1s integration time. The PA sensor was then operated in conjunction with a quantum cascade laser from Alpes Lasers emitting near 7.9 microm on the nu(4) band of CH(4). The achieved detection limit is then of 3 ppb. The dramatic improvement in the detection limit obtained with the QC laser is due to the stronger optical power as well as to the capability of reaching the fundamental bands of methane lying in the mid-infrared spectral range.