Gold nanoparticle based signal enhancement liquid crystal biosensors for DNA hybridization assays

A novel signal enhanced liquid crystal biosensor based on using AuNPs for highly sensitive DNA detection has been developed. This biosensor not only significantly decreases the detection limit, but also offers a simple detection process and shows a good selectivity to distinguish perfectly matched target DNA from two-base mismatched DNA.     

Nanoparticle based enhancement of electrochemical DNA hybridization signal using nanoporous electrodes

A novel nanoparticle-based enhanced methodology for the detection of ssDNA using nanoporous alumina filter membranes, containing pores of 200 nm in diameter, is reported. The blockage of the pores due to the hybridization is detected by measuring the decrease in the differential pulse voltammetric response of the [Fe(CN)(6)](4-/3-) redox indicator and using screen-printed carbon electrodes as transducing platform. Furthermore, 20 nm gold nanoparticle (AuNPs) tags are used in order to increase the sensitivity of the assay. The enhancement mechanism of DNA detection is due to an additional blocking effect induced by hybridization reaction by bringing AuNPs inside the pores. The developed methodology can be extended to other biosensing systems with interest not only for DNA but also for proteins and cells. The developed nanochannel/nanoparticle biosensing system would have enormous potential in future miniaturized designs adapted to mass production technologies such as screen-printing technology.     

DNA hybridization electrochemical biosensor using a functionalized polythiophene

A simple and label-free electrochemical sensor for recognition of the DNA sensor event was prepared by electrochemical polymerization of 4-hydroxyphenyl thiophene-3-carboxylate. Poly(4-hydroxyphenyl thiophene-3-carboxylate) (PHPT) was synthesized electrochemically onto glassy carbon electrode and characterized by cyclic voltammetry, FTIR and AFM measurements. An ODN-probe was physisorbed onto PHPT film and tested on hybridization with complementary ODN segments. A biological recognition can be monitored by comparison with electrochemical signal (cyclic voltammogram) of single and double strand state oligonucleotide. The oxidation current of double strand state oligonucleotide is lower than that of single strand, that is corresponding to the decrease of electroactivity of PHPT with the increase of stiffness of polymer structure. Physisorbed ODN-probe and its hybridization were observed morphologically onto ITO electrodes using AFM. The sensitivity of the electrochemical sensor is 0.02 μA/nmol, detection limit is 1.49 nmol and it has good selectivity.     

A DNA hybridization assay using nanogold-streptavidin,electro-microchip and silver enhancement to analyze impedance signals

This paper reports a novel DNA hybridization detection method using gold-streptavidin conjugates as a reporter, the silver enhancement reaction to magnify the detection signal, a commercial LCR meter to detect the hybridization signal. The relationships between sample concentration and detection signal are discussed and the detection limit for the DNA sample is 0.825 ng/mL. Moreover, the probe specific tests are discussed for different species of bacteria, for same species but different strains, and for same genus but different species.     

Sensing DNA hybridization via ionic conductance through a nanoporous electrode

We show that nanoporous alumina modified with covalently linked DNA can be used to detect target DNA by monitoring the increase in impedance at the electrode upon DNA hybridization, which resulted from blocking the pores to ionic flow. Using cyclic voltammetry, direct current conductance, and impedance spectroscopy we confirm the importance of pore size: the effect is observed with 20-nm-diameter pores and is absent for 200-nm pores.     

Flow of electrolyte through porous piezoelectric medium: macroscopic equations

The aim of this contribution is to elaborate a general framework for modelling flows of two-ionic species electrolytes through porous piezoelectric media.By using the method of two-scale asymptotic expansions, the macroscopic phenomenological equations describing electrokinetics of such a structure are derived and the formulae for the effective mechanical and nonmechanical coefficients are given. Natural jump conditions are assumed on the interfaces between the piezoelectric skeleton and conductive fluid.     

Flow-injection determination of nonylphenol in liquid media using a piezoelectric immunosensor

A piezoelectric flow immunosensor for the rapid determination of nonylphenol in aqueous solutions was developed. An aminophenol-protein conjugate (4-AP-GA-BSA) immobilized on the presilanized surface of a silver electrode was used as a bioreceptor coating of the sensor. The effects of the nature and concentration of monoclonal and polyclonal antibodies on the analytical signal of the sensors were studied; the activity of immunoreagents was evaluated based on the binding constants K _b. The cross reactions of various phenols with antibodies were studied and the cross reaction percentages were found. A procedure for the flow-injection determination of nonylphenol in liquid media was developed using a piezoelectric immunosensor as a detector. The calibration graph was linear over the concentration range 1–20 ng/mL; the detection limit for nonylphenol was 0.8 ng/mL.     

Specific liquid DNA hybridization kinetics measured by fluorescence polarization

The kinetics of specific DNA hybrid formation were monitored directly in solution. Detection was based on fluorescence polarization measurements of labelled oligonucleotides at different stages during the hybridization. The effect of mismatched base pairs on the kinetics was measured. Significant differences could be observed in the kinetics when as few as three mismatches were introduced by the polymerase chain reaction technique in the target DNA sequences.     

Analysis of DNA hybridization regarding the conformation of molecular layer with piezoelectric microcantilevers

Lead Zirconate Titanate (PZT)-embedded microcantilevers were fabricated with dimensions of 30 × 90 × 3 μm(3) (width × length × thickness). A thicker PZT layer improved the actuation and enabled long-term data acquisition in common aqueous buffers with a frequency resolution of 20 Hz. A quantitative assay was conducted in the range of 1-20 μM and the resonant frequency was found to increase with the concentration of target DNAs and the probe DNAs were almost saturated at 20 μM. Back-filling with ethyleneglycol-modified alkanethiol was shown to facilitate the hybridization efficiency and stabilize the surface reaction, resulting in a signal enhancement of 40%. We report for the first time how secondary structures in oligonucleotide monolayer change the surface property of a dynamic mode microcantilever and subsequently affect its oscillating behavior. Using fabricated microcantilevers, the real time changes in resonant frequency upon hybridization were measured by utilizing different probe and target sets. The results revealed that the microcantilevers experienced a resonant frequency upshift during the hybridization with complementary DNAs if a dimer structure was present between DNA probes. A resonant frequency downshift was observed for DNA probes that did not contain any complex secondary structures. In addition, the results demonstrate the potential of using these microcantilevers to extract structural information of oligonucleotides.     

离子液体耦合有机过氧化物脱除二苯并噻吩的研究

以12-磷钨酸为催化剂,研究了离子液体耦合有机过氧化物脱除二苯并噻吩(DBT)。研究结果表明,单独使用离子[bmim]BF4、[bmim]PF6液体为萃取剂,脱硫率为27.78%~38.76%。以由等体积的H2O2与甲酸制成有机过氧化物为氧化剂,不使用催化剂和离子液体,温度70℃,反应时间6 h,DBT氧化为二苯并噻吩砜的比例为76.6%。在催化剂作用下,将离子液体与氧化剂耦合使用时,脱硫率明显提高。当催化剂与DBT的摩尔比为0.20∶1,氧化剂与DBT的体积比为10∶1,[bmim]PF6离子液体与DBT的体积比为1∶1,在70℃反应6 h后,脱硫率可达98.60%。耦合体系重复使用五次后,氧化脱硫活性没有明显降低。     

Liquid crystal-based detection of DNA hybridization using surface immobilized single-stranded DNA

The authors have investigated (a) the self-assembly of single-stranded DNA (ssDNA) on glass surfaces, and (b) the interaction of DNA with liquid crystals (LCs) on solid surfaces. The results suggest that ssDNA (compared to dsDNA) on the solid interface causes particularly different orientations in LCs. The LC molecules assume a uniform homeotropic orientation on the surface with a typical surface ssDNA coverage of ~2.4 × 10¹² molecules per square cm. Once complementary DNA is hybridized on the surface, the homotropic orientation of the LCs becomes disrupted. This orientation transition can be visually observed by using a crossed polarizer. The findings were exploiting to design an assay for target DNA (= analyte DNA) that has an ~0.1 nM detection limit. The assay is highly selective and can easily differentiate target DNA from single-base mismatch and non-complementary DNA. In our perception, it represents a powerful, label-free and portable DNA detection scheme.

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Graphical abstract Schematic illustration of the mechanism for orientation behavior of a liquid crystal film supported on different surfaces. The homeotropic orientation of LC molecules was induced by ssDNA with appropriate surface coverage and was disrupted by ssDNA with lower or higher surface coverage or P1/T1 complex. 5CB: 4-Cyano-4′-pentylbiphenyl. TEA: Triethoxysilylbutyraldehyde.

     

Detection of fragmented genomic DNA by PCR-free piezoelectric sensing using a denaturation approach

Label-free and real-time DNA sequence detection in PCR-amplified DNA samples can now be achieved by different approaches. On the contrary, only few works have been reported dealing with direct sequence detection in nonamplified genomic DNA. Here, a piezoelectric biosensor for direct detection of sequences in nonamplified genomic DNA is described. The system relies on real-time and label-free detection of the hybridization reaction between an immobilized probe and the complementary sequence in solution. The DNA probe is immobilized on the sensing surface (10 MHz quartz crystals), while the complementary sequence is present in the genomic DNA, previously fragmented with restriction enzymes.     

Sensitive electrochemical monitoring of nucleic acids coupling DNA nanostructures with hybridization chain reaction

Methods based on metal nanotags have been developed for metallobioassay of nucleic acids, but most involve complicated labeling or stripping procedures and are unsuitable for routine use. Herein, we report the proof-of-concept of a novel and label-free metallobioassay for ultrasensitive electronic determination of human immunodeficiency virus (HIV)-related gene fragments at an ultralow concentration based on target-triggered long-range self-assembled DNA nanostructures and DNA-based hybridization chain reaction (HCR). The signal is amplified by silver nanotags on the DNA duplex. The assay mainly consists of capture probe, detection probe, and two different DNA hairpins. In the presence of target DNA, the capture probe immobilized on the sensor sandwiches target DNA with the 3′ end of detection probe. Another exposed part of detection probe at the 5′ end opens two alternating DNA hairpins in turn, and propagates a chain reaction of hybridization events to form a nicked double-helix. Finally, numerous silver nanotags are immobilized onto the long-range DNA nanostructures, each of which produces a strong electronic signal within the applied potentials. Under optimal conditions, the target-triggered long-range DNA nanostructures present good electrochemical behaviors for the detection of HIV DNA at a concentration as low as 0.5 fM. Importantly, the outstanding sensitivity can make this approach a promising scheme for development of next-generation DNA sensors without the need of enzyme labeling or fluorophore labeling.     

Spectroscopic investigation of cationic comb-type copolymers/DNA interaction: interpolyelectrolyte complex enhancement synchronized with DNA hybridization

We have demonstrated that cationic comb-type copolymers consisting of a polycation backbone and abundant grafts of water-soluble polymers stabilize DNA hybrids. Furthermore, the copolymers were found to accelerate strand exchange reaction between a double-stranded DNA and its complementary single-stranded DNA. In this article, we investigated the effects of PLL-g-Dex on base pairs of a self-complementary DNA octamer, d(GGAATTCC). The soluble interpolyelectrolyte complex (IPEC) between the DNA and copolymer allowed us to characterize the complex by using spectroscopic methods under physiological ionic condition. Chemical shifts of nucleobase proton signals were not changed by PLL-g-Dex. Furthermore, the copolymer slightly changed the von't Hoff DeltaH accompanying the helix-coil transition of the octamer. These results indicated that the base pairs of the duplex DNA in the IPEC were not perturbed by the polycationic copolymer. It was obviously shown by temperature dependencies of proton and phosphorus NMR spectra that DNA/copolymer interaction was considerably enhanced in response to ds DNA formation. An increase in the density and total number of DNA negative charges upon hybrid formation likely caused the higher affinity of the copolymer with the ds form over that of the copolymer with the ss form. The IPEC formation of CCCs with DNA, however, seems highly sensitive to the coil-helix transition of the DNA.     

Rapid DNA hybridization analysis using a PDMS microfluidic sensor and a molecular beacon.

A rapid DNA analysis has been developed based on a fluorescence intensity change of a molecular beacon in a PDMS microfluidic channel. Recently, we reported a new analytical method of DNA hybridization involving a PDMS microfluidic sensor using fluorescence energy transfer (FRET). However, there are some limitations in its application to real DNA samples because the target DNA must be labelled with a suitable fluorescent dye. To resolve this problem, we have developed a new DNA microfluidic sensor using a molecular beacon. By monitoring the change in the restored fluorescence intensity along the channel length, it is possible to rapidly detect any hybridization of the molecular beacon to the target DNA. In this case, the target DNA does not need to be labelled. Our experimental results demonstrate that this microfluidic sensor using a molecular beacon is a promising diagnostic tool for rapid DNA hybridization analysis.     

Mechano-transduction of DNA hybridization and dopamine oxidation through electrodeposited chitosan network

While microcantilevers offer exciting opportunities for mechano-detection, they often suffer from limitations in either sensitivity or selectivity. To address these limitations, we electrodeposited a chitosan film onto a cantilever surface and mechano-transduced detection events through the chitosan network. Our first demonstration was the detection of nucleic acid hybridization. In this instance, we electrodeposited the chitosan film onto the cantilever, biofunctionalized the film with oligonucleotide probe, and detected target DNA hybridization by cantilever bending in solution (static mode) or resonant frequency shifts in air (dynamic mode). In both detection modes, we observed a two-order of magnitude increase in sensitivity compared to values reported in literature for DNA immobilized on self-assembled monolayers. In our second demonstration, we coupled electrochemical and mechanical modes to selectively detect the neurotransmitter dopamine. A chitosan-coated cantilever was biased to electrochemically oxidize dopamine solution. Dopamine's oxidation products react with the chitosan film and create a tensile stress of approximately 1.7 MPa, causing substantial cantilever bending. A control experiment was performed with ascorbic acid solution. It was shown that the electrochemical oxidation of ascorbic acid does not lead to reactions with chitosan and does not change cantilever bending. These results suggest that chitosan can confer increased sensitivity and selectivity to microcantilever sensors.     

Microdroplet deposition under a liquid medium

An experimental and numerical study of the factors affecting the reproducibility of microdroplet depositions performed under a liquid medium is presented. In the deposition procedure, sample solution is dispensed from the end of a capillary by the aid of a pressure pulse onto a substrate with pillar-shaped sample anchors. The deposition was modeled using the convective Cahn-Hilliard equation coupled with the Navier-Stokes equations with added surface tension and gravity forces. To avoid a severe time-step restriction imposed by the fourth-order Cahn-Hilliard equation, a semi-implicit scheme was developed. An axisymmetric model was used, and an adaptive finite element method was implemented. In both the experimental and numerical study it was shown that the deposited volume mainly depends on the capillary-substrate distance and the anchor surface wettability. A critical equilibrium contact angle has been identified below which reproducible depositions are facilitated.     

Efficient relaxivity enhancement in dendritic gadolinium complexes: effective motional coupling in medium molecular weight conjugates

Enhancement of the relaxivities of Gd-based MRI contrast agents is achieved by placing the metal ion at the barycentre of the molecular complex in order to improve motional coupling.     

Acridine-viologen dyads: selective recognition of single-strand DNA through fluorescence enhancement

Tolylacridine-viologen dyads show distinct fluorescence emission changes in the presence of double-strand DNA (dsDNA) and single-strand DNA (ssDNA) depending on the position of the linkage. The para isomer shows fluorescence quenching in the presence of both dsDNA and ssDNA, while the ortho isomer interacts selectively with ssDNA with enhancement in fluorescence intensity.     

Detection of P. aeruginosa using nano-structured electrode-separated piezoelectric DNA biosensor

A DNA biosensor for detection of Pseudomonas aeruginosa was set up based on the modification of two membranes (nano-TiO₂ and nano-TiO₂-polyethylene glycol hybrid membrane) to the ESPS surface. These two membrane materials were synthesized by sol-gel method. The detection was accomplished by modifying ss-DNA on the sensitive membrane and then hybridizing with their complementary strands from the P. aeruginosa in liquid phase. UV spectrum was used to identify the purity and concentration of extracted DNA; IR spectrum and SEM were used to characterize the properties of the membrane. The detection was highly improved by adoption of nanotechnology and hybrid membrane. Less than 3 h was sufficient. The detection linear range was from 10⁻¹ to 10⁻³ g l⁻¹ and the limit of detection was 10⁻⁴ g l⁻¹.