Understanding the electronic properties of single- and double-stranded DNA

Daraghma, Souhad M. A.; Talebi, Sara; Periasamy, Vengadesh

doi:10.1140/epje/i2020-11965-8

Cited by 10 publications

(6 citation statements)

References 36 publications

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“…4B ). The dsDNA samples were consistently found to be more conductive than ssDNA samples corroborating with the existing literature 32 .…”

Section: Resultssupporting

confidence: 88%

Impedance-based assay for pan-cancer early and rapid detection of cell-free DNA

Dube,

Prasad,

Swami

et al. 2024

Preprint

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Aberrant DNA methylation is a hallmark of cancer, and plasma cell-free DNA (cfDNA) containing these abnormal methylation patterns has emerged as a promising non-invasive biomarker for pan-cancer detection. However, intrinsic challenges remain that continue to limit its broad clinical application. Here we show a simple and rapid impedance biosensor called AsimaTM Rev that can detect cancer cfDNA in under 5 min without the need for any molecular labelling, electrode modification, signal amplification, or target enrichment steps. Using 216 clinical samples (50 healthy) from 15 different cancer types (all stages) we show an overall sensitivity and specificity of 96.4% and 94.0%, respectively. Differences in methylation content between cancerous and healthy cfDNA lead to distinct solvation behaviour and electro-physicochemical property that remain consistent across cancer types regardless of the distribution patterns of methyl cytosine. Our test exploits this inherent difference.

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“…4B ). The dsDNA samples were consistently found to be more conductive than ssDNA samples corroborating with the existing literature 32 .…”

Section: Resultssupporting

confidence: 88%

Impedance-based assay for pan-cancer early and rapid detection of cell-free DNA

Dube,

Prasad,

Swami

et al. 2024

Preprint

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“…[5] used the [bmim][PF 6 ] alone to dissolve dried ssDNA pellet and produced [bmim][PF 6 ]‐bound ssDNA (IL‐ssDNA) [51, 64]; whereas, in this study, 3% of water was added to [bmim][PF 6 ] to facilitate the dissolution of ssDNA pellet, producing water‐bound ssDNA (H 2 O‐ssDNA) [65]. As a result, the water molecules bound to ssDNA increased the ssDNA's molecular conductivity and amplified the electrical signals of nucleobases in consequence [66–69]. Based on the literature, ssDNA molecular conductivity is exponentially related to its hydration ratio of ssDNA.…”

Section: Resultsmentioning

confidence: 99%

Detection of nucleotides in hydrated ssDNA via 2D h‐BN nanopore with ionic‐liquid/salt–water interface

et al. 2021

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Accomplishing slow translocation speed with high sensitivity has been the most critical mission for solid‐state nanopore (SSN) device to electrically detect nucleobases in ssDNA. In this study, a method to detect nucleobases of ssDNA using a 2D SSN is introduced by considerably reducing the translocation speed and effectively increasing its sensitivity. The ultra‐thin titanium dioxide coated hexagonal boron nitride nanopore was fabricated, along with an ionic‐liquid 1‐butyl‐3‐methylimidazolium hexafluorophosphate/2.0 M KCl aqueous (cis/trans) interface, for increasing both the spatial and the temporal resolutions. As the ssDNA molecules entered the nanopore, a brief surge of electrical conductivity occurred, which was followed by multiple resistive pulses from nucleobases during the translocation of ssDNA and another brief current surge flagging the exit of the molecule. The continuous detection of nucleobases using a 2D SSN device is a novel achievement: the water molecules bound to ssDNA increased the molecular conductivity and amplified electrical signals during the translocation. Along with the experiment, computational simulations using COMSOL Multiphysics are presented to explain the pivotal role of water molecules bound to ssDNA to detect nucleobases using a 2D SSN.

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“…These findings compare well with recently observed current doubling in the (gold)-semiconductor (DNA) Schottky junctions containing 0.5 mm thick layers of single stranded or double stranded DNA. 51 Three distinct MJ configurations (H, M, L) were observed for both single stranded and double stranded DNA irrespective of the anchoring group used. Thiolate anchoring led to longer MJ configurations upon hybridization in all three states compared to NH 2 groups, where the tendency was just the opposite.…”

Section: Discussionmentioning

confidence: 95%