Kinetic Control of Hybridization in Surface Immobilized DNA Monolayer Films

Peterson, Alexander W.; Heaton, and R. J.; Georgiadis, R.

doi:10.1021/ja0015489

Cited by 117 publications

(124 citation statements)

References 13 publications

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“…Modeling studies with thiolated DNA have demonstrated that efficient hybridization occurs in the well-controlled condition of surface-attached probes with large interprobe distances and upright conformations. [13][14][15][16][17][18][19][20][21][22][23][24] However, constructing a reproducible DNA recognition layer with both of these properties is a critical challenge owing to unexpected surface adsorptions, disordered conformations, inconsistencies in grafting density and the flexibility of probe molecules. It is thus imperative to obtain an in-depth understanding of the factors that influence the structure of immobilized DNA layers.…”

Section: Introductionmentioning

confidence: 99%

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Scaffolded biosensors with designed DNA nanostructures

et al. 2013

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In addition to its fundamental function as a genetic code carrier, the utilization of DNA in various material applications has been actively explored over the past several decades. DNA is intrinsically an excellent type of self-assembly nanomaterial owing to its predictable base-pairing, high chemical stability and the convenience it possesses for synthesis and modification. Because of these unparalleled properties, DNA is widely used as excellent recognition elements in biosensors and as unique building blocks in nanodevices. A critical challenge in surface-based DNA biosensors lies in the reduced accessibility of target molecules to the DNA probes arranged on heterogeneous surfaces, especially when compared to probe-target recognition in homogeneous solutions. To improve the recognition abilities of these heterogeneous surface-confined DNA probes, much effort has been devoted to controlling the surface chemistry, conformation and packing density of the probe molecules, as well as the size and geometry of the surface. In this review, we aim to summarize the recent progress on the improvement of the probetarget recognition properties by introducing DNA nanostructure scaffolds. A range of new strategies have proven to provide a significantly enhanced range in the spatial positioning and the accessibility of the probes to the surface over previously reported linear structures. We will also describe the applications of DNA nanostructure scaffold-based biosensors. INTRODUCTIONDetection of nucleic acids (DNA or RNA) is an integral step in many applications, including in clinical diagnosis, environmental monitoring and antibioterrorism. 1 With these applications in mind, significant efforts have been made to develop sensitive, selective, rapid and cost-effective DNA (or RNA) biosensors. In parallel, DNAbased devices have also attracted a significant, recent interest owing to their promising applications in nanoelectronics, 2,3 biomolecular computations, 4-8 cellular imaging 9 and drug delivery. [10][11][12] In a typical design of DNA biosensors and nanodevices, oligonucleotides are often used as the molecular recognition layer. Because DNA is comprised of only four bases with A-T and G-C pairing, DNA hybridization processes are highly predictable and can be finely tuned with a rational design of the sequence. In addition, DNA oligonucleotides are usually easy to design, chemically stable and cost-effective.Understanding the physical structure of a DNA probe immobilized on a surface is critical in applications using DNA as a molecular recognition element. The properties of the DNA molecular recognition layer (such as selectivity, sensitivity and reproducibility) highly depend on the structure of the self-assembled DNA film. Modeling studies with thiolated DNA have demonstrated that efficient hybridization occurs in the well-controlled condition of surface-attached probes with large interprobe distances and upright conformations. [13][14][15][16][17][18][19][20][21][22][23][24]

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Section: Introductionmentioning

confidence: 99%

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Scaffolded biosensors with designed DNA nanostructures

et al. 2013

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“…Moreover, the different molecular compositions of the hybridization solution might play a role. Depressed melting temperatures for surface bound DNA-DNA duplexes have been reported elsewhere (26).…”

Section: Discussionmentioning

confidence: 99%

SNP genotyping using microsphere‐linked PNA and flow cytometric detection

Rockenbauer

Petersen²,

Vogel

et al. 2005

Cytometry Pt A

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Background: Single nucleotide polymorphisms (SNPs) represent the most frequent form of genetic variations. Some of the most sensitive methods for SNP genotyping employ synthetic oligonucleotides, such as the peptide nucleic acid (PNA). We introduce a new method combining allele-specific hybridization, PNA technology, and flow cytometric detection. We tested the design by genotyping a Danish basal cell carcinoma cohort of 80 individuals for an A/C SNP in exon 6 of the XPD gene. Methods: Genomic DNA was amplified by a two-step polymerase chain reaction (PCR) in the presence of fluorescein-dyed primers and fluorescein-12-dUTP. The allelespecific PNA molecules were covalently coupled to carboxylated microspheres with and without rhodamine. Allele-specific hybridization between PCR products and

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“…They are considered to have many advantages over traditional enzyme linked immunosorbent assays (ELISAS) which are considered tedious, time consuming, and rely on the use of toxic and unstable fluorescent dyes and quantum dots (QDs) [282,[315][316][317]. It is known that SERS has equal or in some cases a greater enhancement of Raman signal when compared to fluorescent markers and that SERS metal substrates produce spectral line widths which are 10-100 times narrower compared to fluorescence [64,318,319]. This means the technique can be used where high selectivity and multiplexing (targeting two analytes at once) is called for since the resolution between peaks will be well defined [320][321][322][323][324][325][326][327][328][329][330][331][332].…”

Section: Sers Immunoassaysmentioning

confidence: 99%

“…Solution based immunoassays overcome the slow diffusion kinetics and poor limit of detection (LOD) associated with conventional assays [73,319,320]. For example, the lung cancer carcinoembryonic antigen (CEA) was targeted using HGNs as a probe [325].…”

Section: Sers Immunoassaysmentioning

confidence: 99%

Controllable Cobalt Oxide/Au Hierarchically Nanostructured Electrode for Nonenzymatic Glucose Sensing

2016

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By electrodeposition and galvanic replacement reaction, we developed a facile, time-saving, cost-effective, and environmentally friendly, two-step synthesis route to obtain a controllable cobalt oxide/Au hierarchically nanostructured electrode for glucose sensing. The nanomaterials were characterized by transmission electron microscopy, scanning electron microscopy, Raman spectroscopy, energy-dispersive spectrometry, and X-ray photoelectron spectroscopy, meanwhile, the sensing performance was investigated by cyclic voltammetry and amperometric response. The results revealed that this novel electrode exhibited excellent electrocatalytic performance toward glucose oxidation, with a wide double-linear range from 0.2 μM to 20 mM and a low detection limit of 0.1 μM based on a signal-to-noise ratio of 3, which was mainly attributed to the ability of loading a small amount of Au with good electron conductivity on the surface of cobalt oxide nanosheets with large active surface area and synergistic electrocatalytic activity of Au and cobalt oxide toward glucose electrooxidation. This facile, sensitive, and selective glucose sensor is also proven to be suitable for the detection of glucose in human serum.

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Kinetic Control of Hybridization in Surface Immobilized DNA Monolayer Films

Cited by 117 publications

References 13 publications

Scaffolded biosensors with designed DNA nanostructures

Scaffolded biosensors with designed DNA nanostructures

SNP genotyping using microsphere‐linked PNA and flow cytometric detection

Controllable Cobalt Oxide/Au Hierarchically Nanostructured Electrode for Nonenzymatic Glucose Sensing

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