Review
Biochemistry & Molecular Biology
Shunsuke Takahashi, Masahiko Oshige, Shinji Katsura
Summary: DNA replication, repair, and recombination in cells regulate genetic information transfer. Single-molecule imaging provides new insights into the dynamic behaviors of individual biomolecules, helping analyze the interaction between DNA and proteins.
Article
Nanoscience & Nanotechnology
Weiya Wang, Jin Wu, Zunquan Zhao, Qiaofeng Li, Bingyang Huo, Xuan Sun, Dianpeng Han, Mingzhu Liu, Ling Chao Cai, Yuan Peng, Jialei Bai, Zhixian Gao
Summary: This article presents a strategy called smSimoa for detecting trace amounts of small molecules. The strategy utilizes an aptamer as a recognition element and a DNA Nanoflower attached to magnetic beads as the output signal. With digital imaging and automated counting analysis, E2 can be measured at the attomolar level.
ACS APPLIED MATERIALS & INTERFACES
(2022)
Article
Biophysics
Soochul Shin, Sun Han, Juyoung Kim, Yumi Shin, Ji-Joon Song, Sungchul Hohng
Summary: SIMUL is a multiplexed ctDNA detection technique that can sensitively and specifically detect multiple single-nucleotide mutations in early cancer stages. It accurately measures mutant fractions and holds immense potential for clinical applications.
BIOSENSORS & BIOELECTRONICS
(2023)
Article
Chemistry, Multidisciplinary
Stefan Krause, Evelyn Ploetz, Johann Bohlen, Patrick Schuler, Renukka Yaadav, Florian Selbach, Florian Steiner, Izabela Kaminska, Philip Tinnefeld
Summary: Researchers screened 10 preparation methods for graphene-on-glass and presented an optimized protocol for single-molecule and super-resolution imaging; they utilized DNA origami technology to detect graphene quality, showing discrepancies between conventional techniques such as light microscopy, atomic force microscopy, and Raman spectroscopy for graphene characterization.
Article
Biotechnology & Applied Microbiology
Longkai Liu, Xiaoning Wang, Yan Li, Jianwei Liu
Summary: This study proposes a new method for detecting miRNA using single-molecule fluorescence imaging. The method utilizes the light signal of individual molecules labeled with specific fluorophores. By designing probes labeled with Cy5 dye and BHQ2 quencher, the abundance of miR-126 can be quantified by detecting image spots. The method shows high specificity and sensitivity for miR-126 detection.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Article
Chemistry, Physical
Cecilia Zaza, German Chiarelli, Ludovit P. Zweifel, Mauricio Pilo-Pais, Evangelos Sisamakis, Fabio Barachati, Fernando D. Stefani, Guillermo P. Acuna
Summary: Fluorescence Resonance Energy Transfer (FRET)-based approaches are unique tools for sensing the immediate surroundings and interactions of (bio)molecules. FRET imaging and Fluorescence Lifetime Imaging Microscopy (FLIM) enable the visualization of the spatial distribution of molecular interactions and functional states. However, conventional FLIM and FRET imaging provide average information over an ensemble of molecules within a diffraction-limited volume, which limits the spatial information, accuracy, and dynamic range of the observed signals. Here, an approach to obtain super-resolved FRET imaging based on single-molecule localization microscopy using an early prototype of a commercial time-resolved confocal microscope is demonstrated. DNA Points Accumulation for Imaging in Nanoscale Topography with fluorogenic probes provides a suitable combination of background reduction and binding kinetics compatible with the scanning speed of usual confocal microscopes. A single laser is used to excite the donor, a broad detection band is employed to retrieve both donor and acceptor emission, and FRET events are detected from lifetime information.
Article
Multidisciplinary Sciences
Aleksandr Barulin, Prithu Roy, Jean-Benoit Claude, Jerome Wenger
Summary: The authors introduce optical horn antennas, a nanophotonic platform, for the label-free detection of UV autofluorescence from single proteins. This technique allows for real-time monitoring of protein unfolding and dissociation.
NATURE COMMUNICATIONS
(2022)
Review
Nanoscience & Nanotechnology
Meng Liu, Jian-Ge Qiu, Fei Ma, Chun-Yang Zhang
Summary: Single-molecule detection represents the ultimate sensitivity in measurement science, and with the integration of functional nanomaterials, novel single-molecule fluorescent nanosensors with excellent performance have been constructed.
WILEY INTERDISCIPLINARY REVIEWS-NANOMEDICINE AND NANOBIOTECHNOLOGY
(2021)
Review
Biotechnology & Applied Microbiology
Yujin Kang, Soyeong An, Duyoung Min, Ja Yil Lee
Summary: Advances in single-molecule techniques, specifically single-molecule fluorescence imaging, have revolutionized our understanding of biological processes, particularly in DNA repair. These techniques enable real-time visualization of biomolecular interactions and have provided convincing evidence for the importance of DNA repair in maintaining genomic integrity. Additionally, live-cell imaging at the single-molecule level has contributed to our understanding of DNA repair processes inside cells.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2022)
Review
Chemistry, Multidisciplinary
Bin Dong, Nourhan Mansour, Teng-Xiang Huang, Wenyu Huang, Ning Fang
Summary: Recent progress has been made in using single molecule fluorescence microscopy imaging to study nanoconfinement in porous materials, revealing static and dynamic heterogeneities between seemingly equal molecules by removing ensemble averaging effects. These studies allow for the investigation of various physicochemical processes at nanometer spatial resolution and provide the ability to quantitatively measure the inhomogeneities of nanoconfinement effects.
CHEMICAL SOCIETY REVIEWS
(2021)
Article
Chemistry, Analytical
Yan Zhang, Yun Han, Xiaoran Zou, Qinfeng Xu, Fei Ma, Chun-yang Zhang
Summary: A new fluorescent biosensor was successfully developed to efficiently and accurately detect 8-oxoG oxidative damage in DNA with high specificity and sensitivity. By combining single-molecule detection and hyperbranched signal amplification, the biosensor can accurately quantify the number of 8-oxoG damage bases in a single HeLa cell.
Review
Chemistry, Analytical
Shengnan Fu, Tengfang Zhang, Huanling Jiang, Yan Xu, Jing Chen, Linghao Zhang, Xin Su
Summary: Single-molecule tools, with the application of DNA nanotechnology, not only improve sensitivity and specificity, but also provide molecular receptors and rulers, helping to address the challenges hindering the development of single-molecule sensing and imaging.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2021)
Article
Multidisciplinary Sciences
Chih-Ping Mao, Shih-Chin Wang, Yu-Pin Su, Ssu-Hsueh Tseng, Liangmei He, Annie A. Wu, Richard B. S. Roden, Jie Xiao, Chien-Fu Hung
Summary: Characterizing individual biomarker protein molecules in patient blood samples using single-molecule imaging techniques holds promise for early disease diagnosis and effective treatment. However, current methods have detection limits that are orders of magnitude higher than needed, making them unsuitable for clinical use. The development of SMAC, with its ability to quantify and characterize protein molecules down to the subfemtomolar range, presents a new avenue for noninvasive disease profiling with single-molecule imaging.
Article
Multidisciplinary Sciences
Qiaoqiao Ruan, Patrick J. Macdonald, Kerry M. Swift, Sergey Y. Tetin
Summary: This study demonstrates that direct single-molecule imaging can fundamentally improve the sensitivity and specificity of medically relevant assays, enhancing the screening of blood donations and diagnostic testing. Compared to traditional microparticle-based assays, single-molecule imaging increases signal-to-noise ratio and improves discrimination against nonspecific effects. This approach lowers detection sensitivity to attomolar levels and enables a wider linear detection range, shorter incubation times, simpler assay protocols, and reduced reagent consumption.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Chemistry, Multidisciplinary
Aleksandra K. Adamczyk, Teun A. P. M. Huijben, Miguel Sison, Andrea Di Luca, Stefano Vanni, Sophie Brasselet, Kim I. Mortensen, Fernando D. Stefani, Mauricio Pilo-Pais, Guillermo P. Acuna
Summary: This study demonstrates a controlled orientation of single molecules in DNA origami by linking them to oligonucleotide strands and leaving unpaired bases. The number of unpaired bases affects the stretching and orientation of the fluorophore linkers. These findings expand the application of DNA origami in the fabrication of nanodevices involving orientation-dependent molecular interactions.
Article
Chemistry, Analytical
Qian Wu, Li Tian, Xiangyu Shan, Huiling Li, Chao Li, Juan Lu
Summary: A novel ECL sensor was developed by modifying Fe3CuO4-Ru(bpy)3+ and GO-CdS@ZnS on the electrode for the detection of permethrin. The sensor exhibited high sensitivity and a wide detection range.
Article
Chemistry, Analytical
Tingting Gong, Lei Liao, Bingying Jiang, Ruo Yuan, Yun Xiang
Summary: In this study, a fluorescent biosensing system for high sensitivity detection of MT was established using a new Ag+-stabilized DNA triplex probe (Ag+-SDTP) combined with catalytic hairpin assembly (CHA) and CRISPR/Cas12a signal enhancements. The sensing method is able to selectively detect MT from other non-specific molecules and can achieve low level detection of MT in diluted human serums, demonstrating its potential for monitoring disease-specific MT biomarker at trace levels.
Article
Chemistry, Analytical
Estrella Sanz Rodriguez, Kyra Wood, Paul R. Haddad, Brett Paull
Summary: This study presents a simple, rapid, and reliable method for determining boron in aqueous solutions using suppressed ion chromatography coupled to electrospray ionisation-triple quadrupole mass spectrometry. The method achieved a low limit of detection and demonstrated excellent analytical performance.
Article
Chemistry, Analytical
Aline Cournut, Paul Moustiez, Yannick Coffinier, Christine Enjalbal, Claudia Bich
Summary: Alzheimer's disease is a major cause of senile dementia and is characterized by the aggregation of neurofibrillary tangles and amyloid plaques in the brain. The A beta 1-42 peptide is considered the primary cause of neurotoxicity due to its insolubility and subsequent aggregation. A beta 1-42 and A beta 1-40 have been identified as relevant biomarkers for AD diagnosis, and SurfaceAssisted Laser Desorption/Ionization Mass Spectrometry (SALDI-MS) was used to monitor the A beta 1-42/A beta 1-40 ratio without prior sample treatment.
Article
Chemistry, Analytical
Dotse Selali Chormey, Buse Tugba Zaman, Tulay Borahan Kustanto, Sezin Erarpat Bodur, Suleyman Bodur, Elif Ozturk Er, Sezgin Bakirdere
Summary: This review provides an overview of the harmful effects of endocrine disrupting chemicals (EDCs) on human health and introduces the methods for analyzing EDCs. Recent research has focused on using green chemicals, such as deep eutectic solvents (DESs), for microextraction to ensure environmental safety.
Article
Chemistry, Analytical
Yan Zhang, Renfeng Xu, Jingjing Wu, Zhenghong Zhang, Yuhuang Wang, Hongqin Yang, Sheng Zhang
Summary: This study visualized the pore-like structures in prostate cancer cell membranes after treatment with the anticancer drug paclitaxel, demonstrating its mechanism of action related to oxidative damage.
Article
Chemistry, Analytical
Chihong Ma, Qin Zhou, Jinjin Shi, Hua Gao, Di Huang, Huimin Xue, Han Wang, Zhenzhong Zhang, Sen Yang, Junli Zhang, Kaixiang Zhang
Summary: We developed a CRISPR-empowered electrochemical biosensor, named PER-E-CRISPR, for amplification-free and sensitive detection of miR-21. The biosensor combines the advantages of CRISPR/Cas13a and primer exchange reaction (PER) for target amplification. Under optimized conditions, the PER-E-CRISPR assay exhibits a linear range from 10-13 to 10-7 M and a limit of detection of 30.2 fM. The biosensor shows excellent performance in actual plasma, indicating promising prospects for miRNA detection in molecular diagnosis.
Article
Chemistry, Analytical
Gang Liang, Jie Zhao, Yufei Gao, Tao Xie, Jianhui Zhen, Ligang Pan, Wenwen Gong
Summary: Molecular docking (MD) analysis is widely used for studying the interaction between aptamers and small molecules. This study established steady-state aptamers of tertiary structures (SATS) using specific aptamers of tetracycline antibiotics as docking models. Molecular docking results revealed multiple binding sites in the SATS of aptamers, with significant variations in binding free energy (BFE) and docking score (DS). The study also proposed a method for MD analysis based on SATS, providing insights into binding mode and predicting binding sites.
Article
Chemistry, Analytical
Yixuan Xu, Changchang Teng, Huiping Dang, Dalong Yin, Lifeng Yan
Summary: Stable organic radical molecules with high NIR fluorescence quantum efficiency have been synthesized and encapsulated into nanoparticles, which show great potential for both photodynamic therapy (PDT) and photothermal therapy (PTT) of tumors.
Article
Chemistry, Analytical
Yu Su, Dandan Yang, Yanjie Wang, Jie Ding, Lan Ding, Daqian Song
Summary: In this study, a highly selective molecularly imprinted polymer Cu-MIPs@CS was designed and synthesized for bisphenol A (BPA). Cu-MIPs@CS showed significantly enhanced imprinting factor and selective factor towards BPA compared to MIPs@CS. It also exhibited superior discrimination ability between BPA and its structural analogue. Additionally, Cu-MIPs@CS were successfully applied as a solid phase extraction adsorbent for the determination of BPA in drinking water samples.
Article
Chemistry, Analytical
Yi Qiao, Qiongdan Zhang, Yukun He, Tianguang Cheng, Jing Tu
Summary: Single cell heterogeneity plays an important role in many biological phenomena, and distinguishing cells with specific mutations is beneficial for clinical diagnosis and drug screening. This study introduces a gel plate platform that can distinguish cell types based on their phenotypes, with low equipment requirement. The gel platform has potential in point-of-care circumstances and single-cell stimulation responses that prioritize efficiency and simplicity.
Article
Chemistry, Analytical
Chengke Wang, Shuyang Sun, Ping Wang, Huawei Zhao, Wenling Li
Summary: The food safety of aquatic products is a global concern. Nanotechnology-based analyses have advantages in the detection of bacteria, metal ions, and small molecule contaminants. This review summarizes the recent advances in biosensing strategies for aquatic products and highlights the application of nanomaterials, lateral flow-based biosensors, surface-enhanced Raman scattering, microfluidic chips, and molecular imprinting technologies.
Article
Chemistry, Analytical
Liping Zhu, Zeng Tang, Xuemei Zhang, Li Zhu, Tian Meng, Linying Yu, Ting Xiao, Shasha Lu, Xiaoli Xiong, Xiurong Yang
Summary: A sensitive off-on electrochemiluminescence DNA sensor was developed using Exo III-assisted cascade amplification system. The sensor achieved high selectivity and ultra-high sensitivity in detecting target DNA by utilizing ECL and SPR effects. This study provides a new perspective for designing highly sensitive and programmable ECL biosensors.
Article
Chemistry, Analytical
Tong Li, Mengxu Sun, Suping Xia, Ting Huang, Rong-Tian Li, Chunrong Li, Zong Dai, Jin-Xiang Chen, Jun Chen, Nuan Jia
Summary: Here, we developed a binary system based on DNA tetrahedron and fluorogenic RNA aptamers for highly specific and label-free mRNA imaging in living cells. This system achieved high specificity label-free detection of nucleic acids with a detection limit of 1.34 nM. The method has potential applications in early disease diagnosis and new drug development.
Article
Chemistry, Analytical
Yao Zhao, Shu Zhang, Wang Yao, Yuxuan Zhu, Jing Qian, Juan Yang, Nianjun Yang
Summary: A new hierarchical nanostructured composite with high conductivity and catalytic activity is synthesized. The sensor exhibits significant catalytic effect and high sensitivity for monitoring the environmental endocrine disruptor bisphenol A (BPA).