Gene quantification by the NanoGene assay is resistant to inhibition by humic acids.

NanoGene assay is a magnetic bead and quantum dot nanoparticles based gene quantification assay. It relies on a set of probe and signaling probe DNAs to capture the target DNA via hybridization. We have demonstrated the inhibition resistance of the NanoGene assay using humic acids laden genomic DNA (gDNA). At 1 µg of humic acid per mL, quantitiative PCR (qPCR) was inhibited to 0% of its quantification capability whereas NanoGene assay was able to maintain more than 60% of its quantification capability. To further increase the inhibition resistance of NanoGene assay at high concentration of humic acids, we have identified the specific mechanisms that are responsible for the inhibition. We examined five potential mechanisms with which the humic acids can partially inhibit our NanoGene assay. The mechanisms examined were (1) adsorption of humic acids on the particle surface; (2) particle aggregation induced by humic acids; (3) fluorescence quenching of quantum dots by humic acids during hybridization; (4) humic acids mimicking of target DNA; and (5) nonspecific binding between humic acids and target gDNA. The investigation showed that no adsorption of humic acids onto the particles' surface was observed for the humic acids' concentration. Particle aggregation and fluorescence quenching were also negligible. Humic acids also did not mimic the target gDNA except 1000 µg of humic acids per mL and hence should not contribute to the partial inhibition. Four of the above mechanisms were not related to the inhibition effect of humic acids particularly at the environmentally relevant concentrations (<100 µg/mL). However, a substantial amount of nonspecific binding was observed between the humic acids and target gDNA. This possibly results in lesser amount of target gDNA being captured by the probe and signaling DNA.

Inhibitor resistance and in situ capability of nanoparticle based gene quantification.

We have demonstrated the preliminary results of the in situ monitoring capability of an inhibitor resistant gene quantification assay using magnetic bead (MB) and quantum dot (QD) nanoparticles (hereafter "MB-QD assay") for the detection of E. coli O157:H7 in environmental samples. The selectivity of the MB-QD assay was demonstrated via the discrimination of the target bacteria in the presence of nonspecific microbial populations. The effect of temperature on the assay was examined to evaluate the necessity of elevated temperature incubation. The reagents (i.e., particle complex and particle-DNA conjugate) were also shown to have a stability of at least 10 days without refrigeration, therefore enabling prior preparation and the subsequent storage of these reagents. In addition, it was found that the MB-QD assay was resistant to the presence of naturally occurring inhibitors (i.e., humic acids, Ca(2+)) and residual reagents from DNA extraction (i.e., surfactant, ethanol). Overall the results indicated that the MB-QD assay is potentially suitable for further development as an in situ bacteria monitoring method for working with inhibitor laden samples without requiring additional purification steps and elevated temperature processes.

Optimized coverage of gold nanoparticles at tyrosinase electrode for measurement of a pesticide in various water samples.

Gold nanoparticles (AuNPs) were electrodeposited onto a glassy carbon (GC) electrode to increase the sensitivity of the tyrosinase (TYR) electrode. By controlling the applied potential and time, the coverage of AuNPs at the TYR electrode was optimized with respect to the current response. The voltammetric measurements revealed a sensitive enzymatic oxidation and electrochemical reduction of substrate (phenol and catechol). The quantitative relationships between the inhibition percentage and the pesticide concentration in various water samples were measured at the TYR-AuNP-GC electrode, showing an enhanced performance attributed by the use of AuNPs.

Electroenzymatic degradation of azo dye using an immobilized peroxidase enzyme.

Azo dyes are largely resistant to biodegradation and persist in conventional wastewater treatment processes. Combining enzymatic catalysis and the electrochemical generation of hydrogen peroxide (H2O2), an electroenzymatic process was developed, which is a potential alternative to traditional processes. In this study, an electroenzymatic method that uses an immobilized horseradish peroxidase enzyme (HRP), was investigated to degrade orange II (azo dye) within a two-compartment packed-bed flow reactor. To evaluate the electroenzymatic degradation of orange II, electrolytic experiments were carried out with 0.42 U/mL HRP at -0.5 V. It was found that removal of orange II was partly due to its adsorption to the graphite felt. The overall application of the electroenzymatic led to a greater degradation rate than the use of electrolysis alone. Also the by-products formed were found to consist primarily of an aromatic amine, sulfanilic acid, and unknown compounds.

An integrated passive micromixer-magnetic separation-capillary electrophoresis microdevice for rapid and multiplex pathogen detection at the single-cell level.

Here we report an integrated microdevice consisting of an efficient passive mixer, a magnetic separation chamber, and a capillary electrophoretic microchannel in which DNA barcode assay, target pathogen separation, and barcode DNA capillary electrophoretic analysis were performed sequentially within 30 min for multiplex pathogen detection at the single-cell level. The intestine-shaped serpentine 3D micromixer provides a high mixing rate to generate magnetic particle-pathogenic bacteria-DNA barcode labelled AuNP complexes quantitatively. After magnetic separation and purification of those complexes, the barcode DNA strands were released and analyzed by the microfluidic capillary electrophoresis within 5 min. The size of the barcode DNA strand was controlled depending on the target bacteria (Staphylococcus aureus, Escherichia coli O157:H7, and Salmonella typhimurium), and the different elution time of the barcode DNA peak in the electropherogram allows us to recognize the target pathogen with ease in the monoplex as well as in the multiplex analysis. In addition, the quantity of the DNA barcode strand (∼10(4)) per AuNP is enough to be observed in the laser-induced confocal fluorescence detector, thereby making single-cell analysis possible. This novel integrated microdevice enables us to perform rapid, sensitive, and multiplex pathogen detection with sample-in-answer-out capability to be applied for biosafety testing, environmental screening, and clinical trials.

Development and characterization of a magnetic bead-quantum dot nanoparticles based assay capable of Escherichia coli O157:H7 quantification.

The development and characterization of a magnetic bead (MB)-quantum dot (QD) nanoparticles based assay capable of quantifying pathogenic bacteria is presented here. The MB-QD assay operates by having a capturing probe DNA selectively linked to the signaling probe DNA via the target genomic DNA (gDNA) during DNA hybridization. The signaling probe DNA is labeled with fluorescent QD(565) which serves as a reporter. The capturing probe DNA is conjugated simultaneously to a MB and another QD(655), which serve as a carrier and an internal standard, respectively. Successfully captured target gDNA is separated using a magnetic field and is quantified via a spectrofluorometer. The use of QDs (i.e., QD(565)/QD(655)) as both a fluorescence label and an internal standard increased the sensitivity of the assay. The passivation effect and the molar ratio between QD and DNA were optimized. The MB-QD assay demonstrated a detection limit of 890 zeptomolar (i.e., 10(-21) mol L(-1)) concentration for the linear single stranded DNA (ssDNA). It also demonstrated a detection limit of 87 gene copies for double stranded DNA (dsDNA) eaeA gene extracted from pure Escherichia coli (E. coli) O157:H7 culture. Its corresponding dynamic range, sensitivity, and selectivity were also presented. Finally, the bacterial gDNA of E. coli O157:H7 was used to highlight the MB-QD assay's ability to detect below the minimum infective dose (i.e., 100 organisms) of E. coli O157:H7 in water environment.

Investigation on removal of hardness ions by capacitive deionization (CDI) for water softening applications.

Capacitive deionization (CDI) for removal of water hardness was investigated for water softening applications. In order to examine the wettability and pore structure of the activated carbon cloth and composites electrodes, surface morphological and electrochemical characteristics were observed. The highly wettable electrode surface exhibited faster adsorption/desorption of ions in a continuous treatment system. In addition, the stack as well as unit cell operations were performed to investigate preferential removal of the hardness ions, showing higher selectivity of divalent ions rather than that of the monovalent ion. Interestingly, competitive substitution was observed in which the adsorbed Na ions were replaced by more strongly adsorptive Ca and Mg ions. The preferential removal of divalent ions was explained in terms of ion selectivity and pore characteristics in electrodes. Finally, optimal pore size and structure of carbon electrodes for efficient removal of divalent ions were extensively discussed.

Preparation of a highly sensitive enzyme electrode using gold nanoparticles for measurement of pesticides at the ppt level.

A highly sensitive enzyme electrode was prepared based on gold nanoparticles for measurement of pesticides. Gold nanoparticles of 25-30 nm were synthesized on a glassy carbon electrode by double-pulse technique while the coverage was controlled by applied potential and time. The gold nanoparticles were modified to form a self-assembled monolayer, followed by covalent binding of tyrosinase. The TYR-AuNP-GC electrode was compared with bare GC, AuNP-GC, and modified AuNP-GC and TYR-Au (plate type) electrodes in terms of cyclic voltammetry. The voltammograms well represent the sensitivity of enzymatic oxidation of catechol, substrates for the enzyme activity. The prepared electrode integrated into a continuous flow system and was tested to detect pesticides, such as 2,4-D, atrazine, and ziram. Under the optimized conditions of the flow system, the electrode performed reasonably according to the inhibition mechanism in the concentration range of 0.001-0.5 ng mL(-1). The enhanced performance was attributed to the favored microenvironment for the enzyme activity provided by SAM on gold nanoparticles.

Improvement of an enzyme electrode by poly(vinyl alcohol) coating for amperometric measurement of phenol.

A poly(vinyl alcohol) film cross-linked with glutaraldehyde (PVA-GA) was introduced to the surface of a tyrosinase-based carbon paste electrode. The coated PVA-GA film was beneficial in terms of increasing the stability and reproducibility of the enzyme electrode. The electrode showed a sensitive current response to the reduction of the o-quinone, which was the oxidation product of phenol, by the tyrosinase, in the presence of oxygen. The effects of the PVA and PVA-GA coating, the pH, and the GA:PVA ratio on the current response were investigated. The sensitivity of the PVA-GA-Tyr electrode was 130.56microA/mM (1.8microA/microM cm(2)) and the linear range of phenol was 0.5-100microM. At a higher concentration of phenol (>100microM), the current response showed the Michaelis-Menten behavior. Using the PVA-GA-Tyr electrode, a two-electrode system was tested as a prototype sensor for portable applications.