Selective single molecule nanopore sensing of proteins using DNA aptamer-functionalised gold nanoparticles

Lin, Xiaoyan; Ivanov, Aleksandar P.; Edel, Joshua B.

doi:10.1039/c7sc00415j

Cited by 107 publications

(112 citation statements)

References 68 publications

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“…[14] Furthermore to enable selective single-molecule sensing with high sensitivity, Keyser et al developed a DNA carrier-based antibody detection technique using DNA nanostructures which combine antigen presentation alongside a unique barcode identifier made up of dumbbell hairpin protrusions. [17] Using a different approach, Long et al showed that nanopipettes can be employed for label-and carrier-free detection of individual immune-complexes. [17] Using a different approach, Long et al showed that nanopipettes can be employed for label-and carrier-free detection of individual immune-complexes.…”

Section: Introductionmentioning

confidence: 99%

Analysis of 2D DNA Origami with Nanopipettes

et al. 2018

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Nanopipettes are a useful tool for the detection and analysis of biological molecules at the single-molecule level. Here, we employ nanopipettes fabricated from glass capillaries to identify differently structured 2D DNA origami through the distinctive amplitude and dwell time of the ion current peak resulting from the translocation of the origami through the nanopipette pore. We demonstrate that the ion current peak originating from frame-like DNA origami comprises two individual peaks in contrast to solid tiles of similar size that only lead to a single peak in the ion current. Interestingly, the fine details of the shape of the double-peak characteristic of the translocation of DNA origami frames are correlated with the structural features of the DNA origami. In particular, the size of the central cavity governs the lag time between the two constituent peaks of the double-peak. This work demonstrates the ability of glass nanopipettes to identify and characterize differently structured DNA origami of similar size, advancing the potential of nanopipettes for high-sensitivity single-molecule studies.

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Section: Introductionmentioning

confidence: 99%

Analysis of 2D DNA Origami with Nanopipettes

et al. 2018

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“…[4,5] In the last two decades, nanoporebased single-entity sensing techniques have been developed into powerful methods to study different properties of various nanoscale entities. [9][10][11][12][13][14][15][16] To further improve the sensitivity and selectivity of the ionic current detection based nanopore technique, as well as add new functionalities to it, it is of great interest to bring new sensing modules to the resistive-pulse based detection method. [9][10][11][12][13][14][15][16] To further improve the sensitivity and selectivity of the ionic current detection based nanopore technique, as well as add new functionalities to it, it is of great interest to bring new sensing modules to the resistive-pulse based detection method.…”

Section: Introductionmentioning

confidence: 99%

Probing Dynamic Events of Dielectric Nanoparticles by a Nanoelectrode‐Nanopore Nanopipette

et al. 2018

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In recent years, various single-entity electrochemical methods have been developed to study the dynamic events of single nanoparticles (NPs) in solution. It has been demonstrated that the assembly, transport, and translocation of metallic NPs near a nanopore entrance can be detected based on the open-circuit potential change of a floating nanoelectrode placed near the nanopore. In this study, we applied the nanopore-nanoelectrode-based method to study polystyrene (PS) NPs with various sizes, which were used as the model dielectric NPs. Furthermore, by utilizing dielectrophoretic (DEP) force applied through the nanoelectrode, PS NPs can be efficiently preconcentrated to form large assemblies outside the nanopipette tip, enabling high-throughput single NP analysis. We revealed how the interactions between NPs and between the NP and the nanopore surface affected the current and potential signals. We investigated the dynamic structures and motions of PS NPs inside the large assembly based on the complementary and correlated the ionic current and potential signals from both the nanopore and the nanoelectrode. We also compared the difference in the dynamic events between polarizable metallic NPs and non-polarizable dielectric NPs during multi-NP structure formation and individual NP transport and translocation motions.

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“…For example, they have been applied to the detection of metabolites (Alsager et al, ), proteins (Billinge, Broom, & Platt, ; Billinge & Platt, ; Siwy et al, ), DNA sequencing (Branton et al, ; Majd et al, ; Yeh, Zhang, Qian, & Hsu, ), epigenetics (Healey, Rowe, Siati, Sivakumaran, & Platt, ; Rand et al, ) and cellular vesicles (Kamińska et al, ; Nizamudeen, Markus, Lodge, Parmenter, & Platt, ). An increasingly common strategy in RPS utilizes nanomaterials as carriers of recognition elements to selectively bind to the target (Ali, Nasir, & Ensinger, ; Billinge et al, ; Billinge & Platt, , ; Lin, Ivanov, & Edel, ; Mayne, Christie, & Platt, ; Rotem, Jayasinghe, Salichou, & Bayley, ; Sze, Ivanov, Cass, & Edel, ). The carrier acts as a support for multiple ligands enhancing the signal and facilitating multiplexed assays (Blundell, Mayne, Billinge, & Platt, ; Platt, Willmott, & Lee, ).…”

Section: Introductionmentioning

confidence: 99%

“…Once immobilized onto a carrier, the binding of the analyte can be monitored via two mechanisms. The first is a change in size or shape of the DNA (Lin et al, 2017). The second is a change in charge density around the carrier (Alsager et al, 2014;Billinge et al, 2014), measured through a change in translocation velocity, Figure 1, providing quantitative information (Billinge et al, 2014;Billinge & Platt, 2015a;Blundell, Mayne, Lickorish, Christie, & Platt, 2016).…”

mentioning

confidence: 99%

Incorporating peptide aptamers into resistive pulse sensing

Maugi

Salkenova²,

Platt

2020

Med Devices & Sens

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The use of nanocarriers within resistive pulse sensing, RPS, aids the detection and quantification of analytes. In the absence of convection, the signal strength and frequency can dependent upon the electrophoretic mobility of the nanocarrier/analyte. Here, we have developed a simple strategy to incorporate peptide aptamers onto RPS assays with enhanced electrophoretic signals. Using a hybrid DNA–Peptide nanocarrier, an existing peptide was incorporated into a rapid assay without having to engineer or modify the peptide sequence. The surface of a nanocarrier is coated with a mixture of peptide aptamers and a non‐binding DNA. The binding of the target to the peptide creates an “analyte corona” which shields the phosphate groups of the underlying DNA. This results in a change in electrophoretic mobility of the nanocarrier. The signal is concentration‐dependent and is illustrated using a peptide to a key biomarker of infection, C‐reactive protein, CRP. As a comparison, we also show the binding of the CRP to a DNA aptamer. This universal approach can be easily adapted to other peptides without the peptide itself to undergo any chemical modifications opening new opportunities and applications in RPS strategies.

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Selective single molecule nanopore sensing of proteins using DNA aptamer-functionalised gold nanoparticles

Abstract: DNA aptamer-modified gold nanoparticles that act as a molecular carrier through a nanopore sensor facilitate the selective detection of target proteins in mixed analyte populations with enhanced signal-to-noise ratio and event rate.

Cited by 107 publications

References 68 publications

Analysis of 2D DNA Origami with Nanopipettes

Analysis of 2D DNA Origami with Nanopipettes

Probing Dynamic Events of Dielectric Nanoparticles by a Nanoelectrode‐Nanopore Nanopipette

Incorporating peptide aptamers into resistive pulse sensing

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