Duplexed aptamers: history, design, theory, and application to biosensing

Munzar, Jeffrey D.; Ng, Andy; Juncker, David

doi:10.1039/c8cs00880a

Cited by 162 publications

(155 citation statements)

References 310 publications

Supporting

Mentioning

154

Contrasting

Order By: Relevance

“…Given the predictable hybridization and programmable design nature of nucleic acids, the output RNA transduced by PR can be further coupled with aptamers, dynamic DNA/RNA nanotechnology, and even a CRISPR/Cas system. [57][58][59][60] Therefore, aside from the elds of bioassay and biosensing, the potential applications of the proposed signal amplier in intelligent response-type molecule recognition, nucleic acid circuits and gene editing, are also worth exploring.…”

Section: Discussionmentioning

confidence: 99%

Target-activated transcription for the amplified sensing of protease biomarkers

Liu

Yang

et al. 2020

Chem. Sci.

View full text Add to dashboard Cite

Signal amplification is an effective way to achieve sensitive analysis of biomarkers, exhibiting great promise in biomedical research and clinical diagnosis. Inspired by the transcription process, here we present a versatile strategy that enables effective amplification of proteolysis into nucleic acid signal outputs in a homogeneous system. In this strategy, a protease-activatable T7 RNA polymerase is engineered as the signal amplifier and achieves 3 orders of magnitude amplification in signal gain. The versatility of this strategy has been demonstrated by the development of sensitive and selective assays for protease biomarkers, such as matrix metalloproteinase-2 (MMP-2) and thrombin, with sub-picomole sensitivity, which is 4.3 Â 10 3 -fold lower than that of the standard peptide-based method. Moreover, the proposed assay has been further applied in the detection of MMP-2 secreted by cancer cells, as well as in the assessment of MMP-2 levels in osteosarcoma tissue samples, providing a general approach for the monitoring of protease biomarkers in clinical diagnosis.

show abstract

Section: Discussionmentioning

confidence: 99%

Target-activated transcription for the amplified sensing of protease biomarkers

Liu

Yang

et al. 2020

Chem. Sci.

View full text Add to dashboard Cite

show abstract

“…RT-ELISA employs two different bead-based target capture strategies to detect both insulin and glucose in parallel. For glucose, we used aptamer probes and a strand displacement strategy [22][23][24] .…”

Section: Rt-elisa Detection Strategymentioning

confidence: 99%

Continuous detection of glucose and insulin in live animals

Poudineh¹,

Maikawa²,

Yue³

et al. 2020

Preprint

View full text Add to dashboard Cite

Real-time biosensors that can continuously measure circulating biomolecules in vivo would provide valuable insights into a patients’ health status and their response to therapeutics even when there is considerable variability in pharmacokinetics and pharmacodynamics across patient populations. Unfortunately, current real-time biosensors are limited to a handful of analytes (e.g. glucose and blood oxygen) and are limited in sensitivity (high nanomolar). In this work, we describe a general approach for continuously and simultaneously measuring multiple analytes with picomolar sensitivity and sub-second temporal resolution. As exemplars, we report the simultaneous detection of glucose and insulin at picomolar concentrations in live diabetic rats. Using our system, we demonstrate the capacity to resolve inter-individual differences in the pharmacokinetic responses to insulin and discriminate profiles from different insulin formulations at a high temporal resolution. Critically, our approach is general and could be readily modified to continuously and simultaneously measure other circulating analytes in vivo by swapping the affinity reagents, thus making it a versatile tool for biomedical research.

show abstract

“…Aptamers are DNA or RNA fragments that recognize their targets with high sensitivity and selectivity due to their unique three-dimensional structures that can be tuned using systematic evolution of ligands by exponential enrichment (SELEX) [1][2][3][4][5]. They have several advantages over antibodies, such as high stability, lack of immunogenicity, low molecular weight, simplicity of synthesis and chemical modification or conjugation.…”

Section: Introductionmentioning

confidence: 99%

Short Duplex Module Coupled to G-Quadruplexes Increases Fluorescence of Synthetic GFP Chromophore Analogues

Zaitseva

Балеева

Zatsepin

et al. 2020

Sensors

View full text Add to dashboard Cite

Aptasensors became popular instruments in bioanalytical chemistry and molecular biology. To increase specificity, perspective signaling elements in aptasensors can be separated into a G-quadruplex (G4) part and a free fluorescent dye that lights up upon binding to the G4 part. However, current systems are limited by relatively low enhancement of fluorescence upon dye binding. Here, we added duplex modules to G4 structures, which supposedly cause the formation of a dye-binding cavity between two modules. Screening of multiple synthetic GFP chromophore analogues and variation of the duplex module resulted in the selection of dyes that light up after complex formation with two-module structures and their RNA analogues by up to 20 times compared to parent G4s. We demonstrated that the short duplex part in TBA25 is preferable for fluorescence light up in comparison to parent TBA15 molecule as well as TBA31 and TBA63 stabilized by longer duplexes. Duplex part of TBA25 may be partially unfolded and has reduced rigidity, which might facilitate optimal dye positioning in the joint between G4 and the duplex. We demonstrated dye enhancement after binding to modified TBA, LTR-III, and Tel23a G4 structures and propose that such architecture of short duplex-G4 signaling elements will enforce the development of improved aptasensors.

show abstract

Duplexed aptamers: history, design, theory, and application to biosensing

Abstract: A comprehensive review of oligonucleotide-duplexed aptamer biosensors, guided by a universal framework based on aptamer-complementary elements (ACEs).

Cited by 162 publications

References 310 publications

Target-activated transcription for the amplified sensing of protease biomarkers

Target-activated transcription for the amplified sensing of protease biomarkers

Continuous detection of glucose and insulin in live animals

Short Duplex Module Coupled to G-Quadruplexes Increases Fluorescence of Synthetic GFP Chromophore Analogues

Contact Info

Product

Resources

About