Review
Chemistry, Multidisciplinary
Zheze Dai, Xiaodong Xie, Zhaoshuai Gao, Qian Li
Summary: DNA-PAINT is a method that allows direct optical visualization of nucleic acid nanostructures and evaluation of the accessibility of addressable sites. This review introduces the working principle of DNA-PAINT, summarizes the recent advances in the characterization of various nucleic acid nanostructures using DNA-PAINT, and discusses the current challenges and prospects.
Article
Chemistry, Multidisciplinary
Seong Ho Kim, Isaac T. S. Li
Summary: DNA-PAINT achieves super-resolution imaging by transiently binding fluorescently-labelled single-stranded DNA imagers to target ssDNA. However, background fluorescence from imagers limits its performance, resulting in longer image acquisition and potential artifacts. To overcome this, we designed a molecular beacon (MB) as the PAINT imager, which reduces background fluorescence when unbound and becomes fluorogenic upon binding to target DNA. We demonstrated that MB-PAINT achieves similar localization precision as traditional linear imager DNA-PAINT and is ideal for fast super-resolution imaging of molecular tension probes in living cells, eliminating potential artifacts from free-diffusing imagers at the cell-substrate interface.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Chemistry, Analytical
Yeru Wang, Yu Wang, Su Liu, Wenyu Sun, Manru Zhang, Long Jiang, Minghan Li, Jinghua Yu, Jiadong Huang
Summary: A smart tripedal DNA walker is designed in this research, which can move freely on the electrode with improved walking efficiency, eliminating the drawbacks of high cost and instability, showing potential in OTA detection applications.
ANALYTICA CHIMICA ACTA
(2021)
Article
Chemistry, Physical
Ji-Hoon Lee, Joyce Han-Ching Chiu, Nicholas J. J. Ginga, Tasdiq Ahmed, M. D. Thouless, Yifan Liu, Shuichi Takayama
Summary: This study developed a three-layer tunable nanochannel system that enables non-electrophoretic linearization and immobilization of native chromatin. Through careful selection of self-blinking fluorescent dyes and nanochannel design, they achieved super-resolution imaging of the linearized chromatin using direct stochastic optical reconstruction microscopy (dSTORM). This work opens up a new avenue for collecting long-range and high-resolution epigenetic information as well as genetic information.
NANOSCALE HORIZONS
(2023)
Article
Engineering, Electrical & Electronic
Zicheng Feng, Wenlong Zhang, Shunkun Liang, Qifeng Yu
Summary: In this paper, a method for reconstructing high-resolution high-frame-rate videos using a hybrid video input is proposed. The method utilizes a low-resolution high-frame-rate video and a high-resolution low-frame-rate video as input, and applies a deep learning model for processing and aggregation, achieving excellent reconstruction results.
IEEE TRANSACTIONS ON CIRCUITS AND SYSTEMS FOR VIDEO TECHNOLOGY
(2023)
Article
Chemistry, Multidisciplinary
Jinbo Zhu, Niklas Ermann, Kaikai Chen, Ulrich F. Keyser
Summary: The text introduces a DNA nanostructure-based data storage method, which saves, encrypts, and recovers images using quaternary encoding. By attaching DNA multi-way junctions of different sizes to DNA carriers, the storage capacity is increased. This method avoids the involvement of proteins or enzymes, realizing a pure DNA storage system on a nanopore platform.
Article
Chemistry, Multidisciplinary
Kaikai Chen, Adnan Choudhary, Sarah E. Sandler, Christopher Maffeo, Caterina Ducati, Aleksei Aksimentiev, Ulrich F. Keyser
Summary: High-resolution analysis of biomolecules has greatly advanced biosensing, but there are limited methods available for high-resolution analysis of unlabeled single molecules in their native states. In this work, label-free electrical sensing of single molecules with nanometer resolution is demonstrated using a narrow solid-state nanopore. The super-resolution ability is attributed to the enhancement of the electric field at the tip of the nanopore induced by nanostructures. This work presents a general approach to improve the resolution of single-molecule nanopore sensing and has implications for label-free high-resolution DNA sequence mapping and digital information storage.
ADVANCED MATERIALS
(2023)
Article
Biochemistry & Molecular Biology
Chih-Hsiang Hu, Remi Veneziano
Summary: This study developed a responsive controlled release system using DNA nanotechnology tools and strand displacement circuit, allowing precise control over the release of biomolecules. The system was successfully incorporated within a gelatin hydrogel and demonstrated the ability to release multiple model cargos with temporal specificity.
Article
Engineering, Electrical & Electronic
Yue Sun, Yue Xiao, Zheng Gong, Xiaoling Zhong, Yifan Chen
Summary: DNA circuits with sequential logic gates based on DNAzymes have been developed to detect and visualize both the previous and current states of the biological micro-environment. This research provides a promising building block for performing more complicated tasks in molecular computing within the biological microenvironment.
IEEE TRANSACTIONS ON NANOTECHNOLOGY
(2022)
Review
Chemistry, Multidisciplinary
Wei Li, Gabriele S. Kaminski Schierle, Bingfu Lei, Yingliang Liu, Clemens F. Kaminski
Summary: Super-resolution imaging techniques have become popular for visualizing cellular structures with nanometric resolution. This review focuses on the use of fluorescent nanoparticles (NPs) as bright and photostable probes for super-resolution imaging. The review provides an overview of different super-resolution methods, discusses their demands on the properties of fluorescent NPs, and reviews the features, strengths, and weaknesses of each NP class. The future outlook and opportunities in material science for the development of probes for multiplexed subcellular imaging with nanometric resolution are also discussed.
Article
Chemistry, Multidisciplinary
Haipei Zhao, Xuehao Xiu, Mingqiang Li, Shaobo Dai, Mingyang Gou, Leyang Tao, Xiaolei Zuo, Chunhai Fan, Zhongqun Tian, Ping Song
Summary: Dynamic interactions of enzymes are important in regulating cellular metabolism. A super DNA-enzymes molecule was constructed for controlling and detecting metabolism. The programmable SDEM shows improved detection limit and reaction rate compared to free enzymes. The SDEM can be assembled and disassembled using a hairpin structure and a displacement DNA strand for multiple cycles. An entropically driven catalytic assembly enables quick switching between different SDEMs for detecting different metabolisms on demand.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Computer Science, Theory & Methods
Shankai Yan, Ka-Chun Wong
Summary: DNA computing is still in its early stages, with high data storage density and efficient random data access. However, its popularity is limited by accessibility, despite its potential for high-throughput parallel computing due to its natural double-helix structure. Its underlying rationale differs from existing electronic computing devices.
FUTURE GENERATION COMPUTER SYSTEMS-THE INTERNATIONAL JOURNAL OF ESCIENCE
(2021)
Article
Chemistry, Multidisciplinary
Lixue Shi, Aleksandra Klimas, Brendan Gallagher, Zhangyu Cheng, Feifei Fu, Piyumi Wijesekara, Yupeng Miao, Xi Ren, Yongxin Zhao, Wei Min
Summary: MAGNIFIERS is an emerging imaging technique that combines SRS microscopy with ExM technology, providing sub-50 nm resolution and multiplexed chemical-specific nanoscale imaging. It can be used to observe nanoscale features in various biological samples, visualizing the vibrational characteristics of proteins, lipids, and DNA in a label-free manner.
Article
Geochemistry & Geophysics
Xuejun Huang, Jinshan Ding, Zhong Xu
Summary: This letter presents an unsupervised CNN-based framework for super-resolution ISAR imaging, which can directly produce high-resolution ISAR images in real time and is suitable for practical applications.
IEEE GEOSCIENCE AND REMOTE SENSING LETTERS
(2022)
Article
Chemistry, Multidisciplinary
Wei Lin, Gary C. H. Mo, Sohum Mehta, Jin Zhang
Summary: Super-resolution activity imaging currently does not consider the locations of collaborating regulators/effectors in living cells. The DrFLINC technique, based on the FLINC principle, utilizes nonfluorescent Dronpa to enhance fluorescence fluctuations, leading to the development of a superior red label and a next-generation activity sensor for context-rich super-resolution biosensing.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2021)