A biosensor for the detection of single base mismatches in microRNA

2015 ◽  
Vol 51 (78) ◽  
pp. 14597-14600 ◽  
Author(s):  
Jieon Lee ◽  
Ginam Park ◽  
Dal-Hee Min
Keyword(s):  
Graphene Oxide ◽  
Nucleic Acid ◽  
Nucleic Acid Detection ◽  
Single Base ◽  
Target Probe

Graphene oxide enables highly sequence specific nucleic acid detection by selectively removing the signal from a mismatched target/probe duplex.

scholarly journals Optical Graphene-Based Biosensor for Nucleic Acid Detection; Influence of Graphene Functionalization and Ionic Strength

2018 ◽  
Vol 19 (10) ◽  
pp. 3230 ◽  
Author(s):  
Diana Becheru ◽  
George Vlăsceanu ◽  
Adela Banciu ◽  
Eugeniu Vasile ◽  
Mariana Ioniţă ◽  
...  
Keyword(s):  
Electron Microscopy ◽  
Graphene Oxide ◽  
Ionic Strength ◽  
Nucleic Acid ◽  
Molecular Interaction ◽  
Rational Design ◽  
Nucleic Acid Detection ◽  
Fluorescence Signal ◽  
Main Challenge ◽  
Graphene Functionalization

A main challenge for optical graphene-based biosensors detecting nucleic acid is the selection of key parameters e.g. graphenic chemical structure, nanomaterial dispersion, ionic strength, and appropriate molecular interaction mechanisms. Herein we study interactions between a fluorescein-labelled DNA (FAM-DNA) probe and target single-stranded complementary DNA (cDNA) on three graphenic species, aiming to determine the most suitable platform for nucleic acid detection. Graphene oxide (GO), carboxyl graphene (GO-COOH) and reduced graphene oxide functionalized with PEGylated amino groups (rGO-PEG-NH2, PEG (polyethylene glycol)) were dispersed and characterized by scanning electron microscopy (SEM) and transmission electron microscopy (TEM). The influence of ionic strength on molecular interaction with DNA was examined by fluorescence resonance energy transfer (FRET) comparing fluorescence intensity and anisotropy. Results indicated an effect of graphene functionalization, dispersion and concentration-dependent quenching, with GO and GO-COOH having the highest quenching abilities for FAM-DNA. Furthermore, GO and GO-COOH quenching was accentuated by the addition of either MgCl2 or MgSO4 cations. At 10 mM MgCl2 or MgSO4, the cDNA induced a decrease in fluorescence signal that was 2.7-fold for GO, 3.4-fold for GO-COOH and 4.1-fold for rGO-PEG-NH2. Best results, allowing accurate target detection, were observed when selecting rGO-PEG-NH2, MgCl2 and fluorescence anisotropy as an advantageous combination suitable for nucleic acid detection and further rational design biosensor development.

Graphene Oxide-based Amplified Fluorescence Sensor for Nucleic Acid Detection through Target-catalyzed Hairpin Assembly

2015 ◽  
Vol 44 (10) ◽  
pp. 1353-1355 ◽  
Author(s):  
Yusuke Kitamura ◽  
Takaaki Miyahata ◽  
Hirotaka Matsuura ◽  
Kazuto Hatakeyama ◽  
Takaaki Taniguchi ◽  
...  
Keyword(s):  
Graphene Oxide ◽  
Nucleic Acid ◽  
Fluorescence Sensor ◽  
Nucleic Acid Detection ◽  
Catalyzed Hairpin Assembly

scholarly journals DNA-only, microwell-based bioassay for multiplex nucleic acid detection with single base-pair resolution using MNAzymes

2020 ◽  
Vol 152 ◽  
pp. 112017 ◽  
Author(s):  
Saba Safdar ◽  
Karen Ven ◽  
Julie van Lent ◽  
Benjamin Pavie ◽  
Iene Rutten ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Base Pair ◽  
Nucleic Acid Detection ◽  
Single Base ◽  
Single Base Pair

scholarly journals Ultrasensitive nucleic acid detection based on phosphorothioated hairpin-assisted isothermal amplification

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Yujin Jung ◽  
Jayeon Song ◽  
Hyun Gyu Park
Keyword(s):  
Nucleic Acid ◽  
Design Principle ◽  
Dynamic Range ◽  
Isothermal Amplification ◽  
Nucleic Acid Detection ◽  
Strand Displacement ◽  
Wide Dynamic Range ◽  
Single Base ◽  
Hairpin Probe ◽  
Target Nucleic Acid

AbstractHerein, we describe a phosphorothioated hairpin-assisted isothermal amplification (PHAmp) method for detection of a target nucleic acid. The hairpin probe (HP) is designed to contain a 5′ phosphorothioate (PS)-modified overhang, a target recognition site, and a 3′ self-priming (SP) region. Upon binding to the target nucleic acid, the HP opens and the SP region is rearranged to serve as a primer. The subsequent process of strand displacement DNA synthesis recycles the bound target to open another HP and produces an extended HP (EP) with a PS-DNA/DNA duplex at the end, which would be readily denatured due to its reduced thermal stability. The trigger then binds to the denatured 3′ end of the EP and is extended, producing an intermediate double-stranded (ds) DNA product (IP). The trigger also binds to the denatured 3′ end of the IP, and its extension produces the final dsDNA product along with concomitant displacement and recycling of EP. By monitoring the dsDNA products, the target nucleic acid can be identified down to 0.29 fM with a wide dynamic range from 1 nM to 1 fM yielding an excellent specificity to discriminate even a single base-mismatched target. The unique design principle could provide new insights into the development of novel isothermal amplification methods for nucleic acid detection.

Nucleic acid detection on DNA chips using highly reactive and stable diazo-biotins

2008 ◽  
Author(s):  
Alain Laurent ◽  
Arnaud Burr ◽  
Thibault Martin ◽  
Frédéric Lasnet ◽  
Sébastien Hauser ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acid Detection ◽  
Dna Chips

Ångström-scale chemical engineering: Multilabeled 2'-amino-LNA probes for nucleic acid detection in homogenous fluorescence assays

2005 ◽  
Author(s):  
Patrick J. Hrdlicka ◽  
B. Ravindra Babu ◽  
Mads D. Sørensen ◽  
Niels Harrit ◽  
Jesper Wengel
Keyword(s):  
Nucleic Acid ◽  
Chemical Engineering ◽  
Nucleic Acid Detection ◽  
Fluorescence Assays
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