Exploration of solid-state nanopores in characterizing reaction mixtures generated from a catalytic DNA assembly circuit

Abstract

We adapt a solid-state nanopore for analyzing DNA assembly mixtures, which is usually a tougher task for either traditional characterization methods or nanopores themselves. A trigger induced nucleic acid amplifier, SP-CHA, is designed as a model. We propose an electrophoresis-gel like, but homogeneous, quantitative method that can comprehensively profile the “base-pair distribution” of SP-CHA concatemer mixtures.

A DNAzyme-amplified DNA circuit for highly accurate microRNA detection and intracellular imaging

“…19,20 The generated dsDNA products could be utilized as versatile nanocarriers by encoding various functional DNA sequences or small molecules. [21][22][23] CHA promotes the catalyzed hybridization of hairpins for assembling numerous dsDNA products without consuming the target. These approaches could be facilely conjugated with other amplication procedures to achieve an improved sensing performance.…”

Single molecule observation of hard–soft-acid–base (HSAB) interaction in engineeredMycobacterium smegmatisporin A (MspA) nanopores

“…Unlike biomacromolecules, 20 analytes such as monatomic ions or small molecules are too small to be directly examined by a nanopore. However, the introduction of a reversible analytepore interaction, which chemically connes the analyte so that a signal perturbation could be observed during single channel recording, forms the basis of sensing.…”

Selective Sensing of Proteins Using Aptamer Functionalized Nanopore Extended Field‐Effect Transistors

“…[6,7] Single molecules techniques, such as nanopore sensors are becoming popular due to their label-free operation, ease of fabrication, the ability of active transportation, and in some cases, the ability to tailor the sensor chemistry via surface modification. [8][9][10][11][12][13][14] Nanopores have been widely used for the detections of nucleic acids, DNA sequencing, [15] and protein sensing. [16][17][18][19][20][21][22][23] However, detection of proteins remains challenging due to fast analyte transport, low capture rates, and the need for relatively high protein concentration.…”