Pyrroloquinoline quinone maintains redox activity when bound to a DNA aptamer

RSC Advances ◽  
2015 ◽  
Vol 5 (10) ◽  
pp. 7450-7453 ◽  
Author(s):  
Ismaila Emahi ◽  
Isabel M. Mulvihill ◽  
Dana A. Baum
Keyword(s):  
Redox Chemistry ◽  
Pyrroloquinoline Quinone ◽  
Dna Aptamer ◽  
Redox Activity ◽  
Dna Aptamers

Newly identified DNA aptamers for PQQ provide an environment in which PQQ is still accessible for redox chemistry.

A single-round selection of selective DNA aptamers for mammalian cells by polymer-enhanced capillary transient isotachophoresis

The Analyst ◽  
2017 ◽  
Vol 142 (21) ◽  
pp. 4030-4038 ◽  
Author(s):  
Kazuki Hirose ◽  
Maho Tsuchida ◽  
Hinako Asakura ◽  
Koji Wakui ◽  
Keitaro Yoshimoto ◽  
...  
Keyword(s):  
Capillary Electrophoresis ◽  
Mammalian Cells ◽  
Dna Aptamer ◽  
Dna Aptamers ◽  
Aptamer Selection ◽  
Selection For ◽  
First Time ◽  
Selection Of

A single-round DNA aptamer selection for mammalian cells was successfully achieved for the first time using a capillary electrophoresis (CE)-based methodology.

scholarly journals Rapid acquisition of high-affinity DNA aptamer motifs recognizing microbial cell surfaces using polymer-enhanced capillary transient isotachophoresis

2016 ◽  
Vol 52 (3) ◽  
pp. 461-464 ◽  
Author(s):  
Shingo Saito ◽  
Kazuki Hirose ◽  
Maho Tsuchida ◽  
Koji Wakui ◽  
Keitaro Yoshimoto ◽  
...  
Keyword(s):  
Microbial Cell ◽  
Dna Aptamer ◽  
Dna Aptamers ◽  
Cell Surfaces ◽  
Rapid Acquisition ◽  
High Affinity ◽  
Selection Methodology

A polymer-enhanced capillary transient isotachophoresis selection methodology was developed for rapid acquisition of high affinity DNA aptamers recognizing microbial cell surfaces.

scholarly journals Biophysical Characterization of Novel DNA Aptamers against K103N/Y181C Double Mutant HIV-1 Reverse Transcriptase

Molecules ◽  
2022 ◽  
Vol 27 (1) ◽  
pp. 285
Author(s):  
Siriluk Ratanabunyong ◽  
Supaphorn Seetaha ◽  
Supa Hannongbua ◽  
Saeko Yanaka ◽  
Maho Yagi-Utsumi ◽  
...  
Keyword(s):  
Reverse Transcriptase ◽  
Double Mutant ◽  
Binding Pocket ◽  
Drug Binding ◽  
Dna Aptamer ◽  
Hek293 Cells ◽  
Dna Aptamers ◽  
Ic50 Values ◽  
Methionine Residues ◽  
Hiv 1

The human immunodeficiency virus type-1 Reverse Transcriptase (HIV-1 RT) plays a pivotal role in essential viral replication and is the main target for antiviral therapy. The anti-HIV-1 RT drugs address resistance-associated mutations. This research focused on isolating the potential specific DNA aptamers against K103N/Y181C double mutant HIV-1 RT. Five DNA aptamers showed low IC50 values against both the KY-mutant HIV-1 RT and wildtype (WT) HIV-1 RT. The kinetic binding affinity forms surface plasmon resonance of both KY-mutant and WT HIV-1 RTs in the range of 0.06–2 μM and 0.15–2 μM, respectively. Among these aptamers, the KY44 aptamer was chosen to study the interaction of HIV-1 RTs-DNA aptamer complex by NMR experiments. The NMR results indicate that the aptamer could interact with both WT and KY-mutant HIV-1 RT at the NNRTI drug binding pocket by inducing a chemical shift at methionine residues. Furthermore, KY44 could inhibit pseudo-HIV particle infection in HEK293 cells with nearly 80% inhibition and showed low cytotoxicity on HEK293 cells. These together indicated that the KY44 aptamer could be a potential inhibitor of both WT and KY-mutant HIV-RT.

Light-up fluorophore–DNA aptamer pair for label-free turn-on aptamer sensors

2016 ◽  
Vol 52 (21) ◽  
pp. 4041-4044 ◽  
Author(s):  
Teru Kato ◽  
Ippei Shimada ◽  
Ryota Kimura ◽  
Masumi Hyuga
Keyword(s):  
Dna Aptamer ◽  
Dna Aptamers ◽  
Label Free ◽  
Turn On

A DNA aptamer binding to the environment-sensitive fluorophore, dapoxyl, which increased the fluorescence upon binding, was selected and used to construct aptamer sensors by fusion with analyte-binding DNA aptamers.

A ZnS-Nanoparticle-Label-Based Electrochemical Codeine Sensor

2017 ◽  
Vol 872 ◽  
pp. 173-177 ◽  
Author(s):  
Wei Xiong ◽  
Su Fang Wu ◽  
Fu Sheng Liao ◽  
Nian Hong ◽  
Hao Fan ◽  
...  
Keyword(s):  
Electrochemical Sensor ◽  
Modified Electrode ◽  
Sedative Effect ◽  
Dna Aptamer ◽  
Dna Aptamers ◽  
Moderate Pain ◽  
Current Signal ◽  
Electrochemical Signal ◽  
Aptamer Probe

Codeine (3-methylmorphine) is an opiate that is widely used to treat mild or moderate pain and cough suppression. It is the second predominant alkaloid in opium with a mild sedative effect. In the present study, we describe an electrochemical sensor for codeine detection by using the DNA aptamers against codeine. In the sensing protocol, a dually-labeled DNA aptamer probe was designed to be labeled at one end with HS, and at its another end with dabcyl as an electrochemical tag to produce electrochemical signal via recognization occurrence. One special electrochemical marker was prepared by modifying ZnS nanoparticle with-cyclodextrins (ab. ZnS-CDs), which employed as electrochemical signal provider and would conjunct with the codeine probe modified electrode through the host–guest recognition of CDs to dabcyl. With codeine adding, aptamer folding allows the ZnS-CDs into soultion that caused an increase of current signal. This sensor has the ability to detect 37pM codeine. Our study demonstrates that the biosensor has good specificity and stability. It can be used to detect codeine.

scholarly journals Isolation of a fluorophore-specific DNA aptamer with weak redox activity

1998 ◽  
Vol 5 (11) ◽  
pp. 609-617 ◽  
Author(s):  
Charles Wilson ◽  
Jack W. Szostak
Keyword(s):  
Dna Aptamer ◽  
Redox Activity

scholarly journals Capture-SELEX: Selection of DNA Aptamers for Aminoglycoside Antibiotics

2012 ◽  
Vol 2012 ◽  
pp. 1-14 ◽  
Author(s):  
Regina Stoltenburg ◽  
Nadia Nikolaus ◽  
Beate Strehlitz
Keyword(s):  
Magnetic Beads ◽  
Selection Process ◽  
Aminoglycoside Antibiotic ◽  
Dna Aptamer ◽  
Dna Aptamers ◽  
Common Procedure ◽  
Aptamer Selection ◽  
Starting Point ◽  
Exponential Enrichment ◽  
Selection Of

Small organic molecules are challenging targets for an aptamer selection using the SELEX technology (SELEX—Systematic Evolution of Ligans by EXponential enrichment). Often they are not suitable for immobilization on solid surfaces, which is a common procedure in known aptamer selection methods. The Capture-SELEX procedure allows the selection of DNA aptamers for solute targets. A special SELEX library was constructed with the aim to immobilize this library on magnetic beads or other surfaces. For this purpose a docking sequence was incorporated into the random region of the library enabling hybridization to a complementary oligo fixed on magnetic beads. Oligonucleotides of the library which exhibit high affinity to the target and a secondary structure fitting to the target are released from the beads for binding to the target during the aptamer selection process. The oligonucleotides of these binding complexes were amplified, purified, and immobilized via the docking sequence to the magnetic beads as the starting point of the following selection round. Based on this Capture-SELEX procedure, the successful DNA aptamer selection for the aminoglycoside antibiotic kanamycin A as a small molecule target is described.

scholarly journals DNA Aptamers for the Functionalisation of DNA Origami Nanostructures

Genes ◽  
2018 ◽  
Vol 9 (12) ◽  
pp. 571 ◽  
Author(s):  
Yusuke Sakai ◽  
Md. Sirajul Islam ◽  
Martyna Adamiak ◽  
Simon Chi-Chin Shiu ◽  
Julian Alexander Tanner ◽  
...  
Keyword(s):  
Conformational Changes ◽  
Dna Origami ◽  
Dna Aptamer ◽  
Dna Aptamers ◽  
Surface Receptors ◽  
Protein Immobilisation ◽  
Disease Indicators ◽  
2D And 3D Nanostructures ◽  
Interest Target

DNA origami has emerged in recent years as a powerful technique for designing and building 2D and 3D nanostructures. While the breadth of structures that have been produced is impressive, one of the remaining challenges, especially for DNA origami structures that are intended to carry out useful biomedical tasks in vivo, is to endow them with the ability to detect and respond to molecules of interest. Target molecules may be disease indicators or cell surface receptors, and the responses may include conformational changes leading to the release of therapeutically relevant cargo. Nucleic acid aptamers are ideally suited to this task and are beginning to be used in DNA origami designs. In this review, we consider examples of uses of DNA aptamers in DNA origami structures and summarise what is currently understood regarding aptamer-origami integration. We review three major roles for aptamers in such applications: protein immobilisation, triggering of structural transformation, and cell targeting. Finally, we consider future perspectives for DNA aptamer integration with DNA origami.

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