Effect of ionic strength on PNA-DNA hybridization on surfaces and in solution

Park, Hye-Young; Germini, Andrea; Sforza, Stefano; Corradini, Roberto; Marchelli, Rosangela; Knoll, Wolfgang

doi:10.1116/1.2746871

Cited by 41 publications

(55 citation statements)

References 44 publications

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“…5,8 Target single stranded DNA (ss-DNA) detection via an optical biosensor possessing a selective surface is crucial. Surface density of the probe, 9−12 surface diverseness, 12 nonspecific interactions, 12 probe/target length, 13 and ionic strength of the hybridization buffer 14 can affect the yield of hybridization on the surface and kinetics of target capture. Likewise, tethered ss-DNA conformation 15 and configuration 13 plays a vital role in the hybridization process.…”

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confidence: 99%

Real-Time and Selective Detection of Single Nucleotide DNA Mutations Using Surface Engineered Microtoroids

2015

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Mictoroids, as optical biosensors, can provide beneficial biosensing platforms to understand DNA alterations. These alterations could have significant clinical importance, such as the case of Pseudomonas aeruginosa, which is a commonly found pathogen in Cystic Fibrosis (CF) patientscausing poor prognosis by undergoing mutations during disease steps, gaining virulence and drug resistance. To provide a preliminary diagnosis platform for early-stage bacterial mutations, biosensing with a selective microtoroid surface was suggested. For this purpose, microtoroids with high quality factors were fabricated. The microtoroid surfaces were coated with (3-aminopropyl) triethoxysilane (APTES)/trimethylmethoxysilane (TMMS) mixed silane solution followed by EDC/NHS chemistry for covalent conjugation of DNA probes. Ethanolamine capping was applied to avoid unspecific interactions. The confocal studies confirmed homogeneous functionalization of the microtoroid surface. The DNA hybridization was demonstrated to be affected from the probe length. The optical biosensors showed a significant response (∼22 pm) to the complementary strand of the mutated type P. aeruginosa DNA, while showing substantially low and late response (∼5 pm) to the point mismatch strand. The limit of detection (LOD) for the complementary strand was calculated as 2.32 nM. No significant response was obtained for the noncomplementary strand. The results showed the microtoroids possessed selective surfaces in terms of distinguishing DNA alterations.

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confidence: 99%

Real-Time and Selective Detection of Single Nucleotide DNA Mutations Using Surface Engineered Microtoroids

2015

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“…30 An advanced technology for the detection of transgenic DNA using fluorescence detection was described by Knoll and coworkers using Surface Plasmon enhanced Fluorescent Spectroscopy (SPFS), which enables us to measure selectively the fluorescence of molecules captured on the sensor surface by excitation through an evanescent field generated in the SPR experiment. 31 High sensitivity and excellent mismatch recognition was demonstrated in these studies. 32 Sandwich hybridization assays with gold nanoparticles and Surface Plasmon Resonance Imaging (SPRI) readout were used for improving detection sensitivity for oligonucleotide hybridization down to low femtomolar concentrations.…”

Section: Gmo Determinationmentioning

confidence: 85%

Food analysis and food authentication by peptide nucleic acid (PNA)-based technologies

et al. 2011

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This tutorial review will address the issue of DNA determination in food by using Peptide Nucleic Acid (PNA) probes with different technological platforms, with a particular emphasis on the applications devoted to food authentication. After an introduction aimed at describing PNAs structure, binding properties and their use as genetic probes, the review will then focus specifically on the use of PNAs in the field of food analysis. In particular, the following issues will be considered: detection of genetically modified organisms (GMOs), of hidden allergens, of microbial pathogens and determination of ingredient authenticity. Finally, the future perspectives for the use of PNAs in food analysis will be briefly discussed according to the most recent developments.

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“…Nominally, PNAs are neutral; hence, upon the binding of the charged target DNA strands from solution such a hybridization event has a maximum change in the surface charge density at the device surface resulting in a significant change of the source-drain current, ΔI DS .The nucleotide sequences of the PNA probe strands and the corresponding DNA target strands with sequences being either fully complementary to the probe sequence (MM0) or carrying one (MM1) or two (MM2) mismatches, respectively, are shown in Table 2. The target sequences used for the optical detection (and in some test cases also for the electronic recordings) carried in addition a chromophore, Cy 5, at their 5' end [11].…”

Section: Issn: 2090-4886 Sndc An Open Access Journal Sensor Netw Datmentioning

confidence: 99%

A Review on Security Issues in Wireless Sensor Network

Khan¹,

Knoll²

2017

Int J Sens Netw Data Commun

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Effect of ionic strength on PNA-DNA hybridization on surfaces and in solution

Cited by 41 publications

References 44 publications

Real-Time and Selective Detection of Single Nucleotide DNA Mutations Using Surface Engineered Microtoroids

Real-Time and Selective Detection of Single Nucleotide DNA Mutations Using Surface Engineered Microtoroids

Food analysis and food authentication by peptide nucleic acid (PNA)-based technologies

A Review on Security Issues in Wireless Sensor Network

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