Universal sensor array for highly selective system identification using two-dimensional nanoparticles (original) (raw)
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The Journal of Physical Chemistry B, 2006
A label-free two-dimensional colorimetric DNA sensor is reported. This sensor is based on the 2D aggregation of oligonucleotide-modified gold nanoparticle probes induced by the molecular hybridization of single-stranded oligonucleotide probes and their complementary single-stranded DNA targets. To detect the aggregation, we have developed a new detection method based on the selective desorption of nonaggregated nanoparticles. We will show here that this detection method is highly specific and allows the quantification of the DNA targets.
Biomolecular Detection using DNA Based Nanoparticle Arrays
Disease diagnosis often requires multiple time-consuming, labor-intensive methods. A quick and simple detection system for multiplexed analysis, using self-assembly of nanoparticle functionalized DNA tiles, is proposed. Severe Acute Respiratory Syndrome (SARS) was chosen as the prototype disease. Two potential approaches to biomolecular detection were examined: Surface Enhanced Raman Scattering assays and a computational DNA tiling system. Spectra of the dierent systems and enhancements of nanoparticle arrays were determined analytically. It was found that both detection schemes exhibit promise, and further experimental exploration is recommended.
Scanometric DNA array detection with nanoparticle probes
Science, 2000
A method for analyzing combinatorial DNA arrays using oligonucleotide-modified gold nanoparticle probes and a conventional flatbed scanner is described here. Labeling oligonucleotide targets with nanoparticle rather than fluorophore probes substantially alters the melting profiles of the targets from an array substrate. This difference permits the discrimination of an oligonucleotide sequence from targets with single nucleotide mismatches with a selectivity that is over three times that observed for fluorophore-labeled targets. In addition, when coupled with a signal amplification method based on nanoparticle-promoted reduction of silver(I), the sensitivity of this scanometric array detection system exceeds that of the analogous fluorophore system by two orders of magnitude.
Biosensors & Bioelectronics, 2007
A 2D colorimetric DNA sensor is reported based on the 2D aggregation of oligonucleotide-modified gold nanoparticle probes resulting from the molecular hybridization between these latest and their complementary single stranded DNA targets. To increase their mobility the nanoparticles are adsorbed on a fluid lipid bilayer, itself supported on a substrate. The hybridization between the target and the mobile nanoparticle probes creates links between the nanoparticles resulting in the formation of nanoparticle aggregates in the plane of the substrate. This aggregation is detected using a new method based on the selective desorption of non-aggregated nanoparticles. The addition of dextran sulfate induces the substitution of non-aggregated gold nanoparticles while aggregated ones are stable on the substrate. We show that this detection method is highly specific and allows the detection of DNA mismatches and damages.
Application of DNA-Nanosensor for Environmental Monitoring: Recent Advances and Perspectives
Current Pollution Reports, 2020
Purpose of Review Environmental pollutants are threat to human beings. Pollutants can lead to human health and environment hazards. The purpose of this review is to summarize the work done on detection of environmental pollutants using DNA nanosensors and challenges in the areas that can be focused for safe environment. Recent Findings Most of the DNA-based nanosensors designed so far use DNA as recognition element. ssDNA, dsDNA, complementary mismatched DNA, aptamers, and G-quadruplex DNA are commonly used as probes in nanosensors. More and more DNA sequences are being designed that can specifically detect various pollutants even simultaneously in complex milk, wastewater, soil, blood, tap water, river, and pond water samples. The feasibility of direct detection, ease of designing, and analysis makes DNA nanosensors fit for future point-of-care applications. Summary DNA nanosensors are easy to design and have good sensitivity. DNA component and nanomaterials can be designed in a controlled manner to detect various environmental pollutants. This review identifies the recent advances in DNA nanosensor designing and opportunities available to design nanosensors for unexplored pathogens, antibiotics, pesticides, GMO, heavy metals, and other toxic pollutant.
Sensing DNA - DNA as nanosensor: a perspective towards nanobiotechnology
Based on modern single molecule techniques, we devise a number of possible experimental setups to probe local properties of DNA such as the presence of DNA-knots, loops or folds, or to obtain information on the DNA-sequence. Similarly, DNA may be used as a local sensor. Employing single molecule fluorescence methods, we propose to make use of the physics of DNA denaturation nanoregions to find out about the solvent conditions such as ionic strength, presence of binding proteins, etc. By measuring dynamical quantities in particular, rather sensitive nanoprobes may be constructed with contemporary instruments.
Nucleotide detection mechanism and comparison based on low-dimensional materials: A review
Frontiers in Bioengineering and Biotechnology
The recent pandemic has led to the fabrication of new nucleic acid sensors that can detect infinitesimal limits immediately and effectively. Therefore, various techniques have been demonstrated using low-dimensional materials that exhibit ultrahigh detection and accuracy. Numerous detection approaches have been reported, and new methods for impulse sensing are being explored. All ongoing research converges at one unique point, that is, an impetus: the enhanced limit of detection of sensors. There are several reviews on the detection of viruses and other proteins related to disease control point of care; however, to the best of our knowledge, none summarizes the various nucleotide sensors and describes their limits of detection and mechanisms. To understand the far-reaching impact of this discipline, we briefly discussed conventional and nanomaterial-based sensors, and then proposed the feature prospects of these devices. Two types of sensing mechanisms were further divided into thei...
Counting ssDNA on a single nanoparticle
2008
This paper describes the immobilization and quantification of 15base ssDNA on 250 nm silica nanoparticles. 1 up to 2400 amine functionalized ssDNA are coupled to a carboxyl functionalized nanoparticle using EDC/NHS chemistry. The amount of ssDNA on the nanoparticles is quantified by bulk fluorescence measurements in a microtiterplate reader on both the nanoparticles in dense solution and the supernatant. To determine few molecules of ssDNA on each nanoparticle Single Molecule detection techniques were applied. Single molecule confocal microscopy focuses a laser on one nanoparticle and photobleaches fluorescent dyes stochastically, thus enabling a precise counting from 1 up to 6 molecules on a single nanoparticle. These measurements revealed 2/3th of the ssDNA present in comparison with the bulk measurements. Wide field total internal reflection fluorescence microscopy showed the 1/3th missing ssDNA which is immobilized perpendicular to the sample surface. Thus, this method suggests a precise, complete and oriented counting of molecules from single molecule up to bulk level on nanoparticles.
A DNA sensor based on upconversion nanoparticles and two-dimensional dichalcogenide materials
Frontiers of Chemical Science and Engineering
We demonstrate the fabrication of a new DNA sensor that is based on the optical interactions occurring between oligonucleotide-coated NaYF4:Yb3+;Er3+ upconversion nanoparticles and the two-dimensional dichalcogenide materials, MoS2 and WS2. Monodisperse upconversion nanoparticles were functionalized with single-stranded DNA endowing the nanoparticles with the ability to interact with the surface of the two-dimensional materials via van der Waals interactions leading to subsequent quenching of the upconversion fluorescence. By contrast, in the presence of a complementary oligonucleotide target and the formation of double-stranded DNA, the upconversion nanoparticles could not interact with MoS2 and WS2, thus retaining their inherent fluorescence properties. Utilizing this sensor we were able to detect target oligonucleotides with high sensitivity and specificity whilst reaching a concentration detection limit as low as 5 mol·L−1, within minutes.