Single-Molecule DNA Hybridization on Tetrahedral DNA Framework-Modified Surfaces

IF 9.1 1区材料科学 Q1 CHEMISTRY, MULTIDISCIPLINARY

Nano Letters Pub Date : 2025-05-31 DOI:10.1021/acs.nanolett.5c0150710.1021/acs.nanolett.5c01507

Yao Xie, Xiaodong Xie, Hui Lv*, Zheze Dai, Xiaoliang Chen, Zhaoshuai Gao, Lifeng Xu, Jiang Li, Fei Wang*, Chunhai Fan and Qian Li*,

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Abstract

Tetrahedral DNA frameworks (TDFs) have been extensively utilized in biosensing systems. At the macroscopic level, it has been well established that TDFs, when employed as probe scaffolds, significantly enhance the interfacial DNA hybridization efficiency between target single-stranded DNA (ssDNA) and probe ssDNA at the solid–liquid interface. However, a molecular-level understanding of how TDF scaffolds facilitate this interfacial hybridization remains elusive. In this study, we employed single-molecule total internal reflection fluorescence microscopy (SM-TIRFM) to monitor the hybridization processes between freely diffusing target ssDNA and probe ssDNA with or without TDF scaffolds. Statistical analysis of interfacial hybridization kinetics at single probe sites revealed that TDF scaffolds significantly accelerate the interfacial hybridization kinetics, reducing the target dissociation time by 0.5-fold and increasing the association constant (K_a) by nearly 4-fold. This study offers new insights for the development of DNA nanostructure-based biosensors.

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四面体DNA框架修饰表面上的单分子DNA杂交

四面体DNA框架在生物传感系统中得到了广泛的应用。在宏观层面上，tdf作为探针支架可以显著提高靶单链DNA （ssDNA）与探针ssDNA在固液界面上的界面DNA杂交效率。然而，分子水平上对TDF支架如何促进这种界面杂交的理解仍然难以捉摸。在这项研究中，我们使用单分子全内反射荧光显微镜（SM-TIRFM）监测自由扩散的靶ssDNA和探针ssDNA在有或没有TDF支架的情况下的杂交过程。单探针位点的界面杂交动力学统计分析表明，TDF支架显著加速了界面杂交动力学，使靶解离时间缩短了0.5倍，结合常数（Ka）提高了近4倍。该研究为基于DNA纳米结构的生物传感器的发展提供了新的见解。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Nano Letters 工程技术-材料科学：综合

CiteScore

16.80

自引率

2.80%

发文量

1182

审稿时长

1.4 months

期刊介绍： Nano Letters serves as a dynamic platform for promptly disseminating original results in fundamental, applied, and emerging research across all facets of nanoscience and nanotechnology. A pivotal criterion for inclusion within Nano Letters is the convergence of at least two different areas or disciplines, ensuring a rich interdisciplinary scope. The journal is dedicated to fostering exploration in diverse areas, including: - Experimental and theoretical findings on physical, chemical, and biological phenomena at the nanoscale - Synthesis, characterization, and processing of organic, inorganic, polymer, and hybrid nanomaterials through physical, chemical, and biological methodologies - Modeling and simulation of synthetic, assembly, and interaction processes - Realization of integrated nanostructures and nano-engineered devices exhibiting advanced performance - Applications of nanoscale materials in living and environmental systems Nano Letters is committed to advancing and showcasing groundbreaking research that intersects various domains, fostering innovation and collaboration in the ever-evolving field of nanoscience and nanotechnology.