Review
Biochemistry & Molecular Biology
Weronika Kotkowiak, Anna Pasternak
Summary: G-quadruplexes play a crucial role in nucleic acid structures and can be utilized as regulatory elements in cells. Extending quadruplexes with additional structural elements enhances stability and biological activity, and the specific interaction of G-quadruplexes with target molecules is pivotal. Future applications of G-quadruplex junctions hold promise, and there is still room for development in emerging research areas.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Chemistry, Physical
Dehui Qiu, Mingpan Cheng, Petr Stadlbauer, Jielin Chen, Michal Langer, Xiaobo Zhang, Qiang Gao, Huangxian Ju, Jiri Sponer, Jean-Louis Mergny, David Monchaud, Jun Zhou
Summary: The active sites of natural and artificial enzymes play a crucial role in their catalytic performance. This study focuses on G-quadruplex (GQ)/hemin DNAzymes and investigates how their active sites can be controlled and manipulated. Experimental and molecular dynamics simulation results reveal that the topology of the GQ and the flanking nucleotides influence the activation of hemin, providing valuable insights into the biocatalytic activity of GQs.
Article
Infectious Diseases
Uma Shankar, Subodh Kumar Mishra, Neha Jain, Arpita Tawani, Puja Yadav, Amit Kumar
Summary: This study identified and characterized conserved G-quadruplex motifs in Helicobacter pylori, which may affect the expression and function of nickel transporter genes in the bacterium. Targeting these conserved G-quadruplex motifs with bioactive molecules could potentially be a novel therapeutic approach for combating H. pylori infection.
INFECTION GENETICS AND EVOLUTION
(2022)
Article
Biochemistry & Molecular Biology
Lukas Trizna, Branislav Osif, Viktor Viglasky
Summary: This paper uses the G-QINDER tool to identify TG and AG repeat sequences in DNA that adopt unique structural motifs. The structures were found to be stable under certain conditions and could potentially play a regulatory role in cells. The stability of the AGAG motif is primarily dependent on the number of AG repeats in the sequence.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Polymer Science
Yanwei Cao, Wenjing Li, Renjun Pei
Summary: Supramolecular DNA complexes containing both G-quadruplexes and DNA duplexes were successfully fabricated by introducing specific structures into the DNA chains, resulting in high catalytic activity and controllability, which can be applied in complex biological systems.
Review
Chemistry, Physical
Jingxin Liu, Li Yan, Shiliang He, Junqing Hu
Summary: DNA quadruplexes and artificial DNA nanostructures play important roles in the field of biosensing, serving as key components in the construction of biosensors and being implemented in various sensing scenarios. Their applications have been surveyed, and general conclusions and future perspectives have been discussed for further developments.
Review
Biochemistry & Molecular Biology
Huiling Shu, Rongxin Zhang, Ke Xiao, Jing Yang, Xiao Sun
Summary: G-quadruplexes are non-canonical secondary nucleic acid structures that play important roles in genome regulation. Interactions between G-quadruplexes and proteins have diverse biological functions and potential therapeutic applications.
Review
Engineering, Biomedical
Luyao Shen, Pengfei Wang, Yonggang Ke
Summary: DNA nanotechnology has led to the creation of programmable nanostructures through Watson-Crick base pairing, with applications in biosensors and cancer therapy. The inherent addressability of DNA nanostructures allows them to interact with various biological molecules, offering potential for therapeutic applications.
ADVANCED HEALTHCARE MATERIALS
(2021)
Article
Chemistry, Multidisciplinary
Wenxuan Hu, Haitao Jing, Wenqiang Fu, Zengrong Wang, Jiang Zhou, Na Zhang
Summary: In this study, a new type of G-quadruplex structure, parallel homomeric bimolecular G-quadruplex, was demonstrated to undergo strand displacement reaction with short G-rich DNA fragments at room temperature, resulting in the formation of a parallel heteromeric trimolecular G-quadruplex. This provides new insights into the development of complex architectures in G-quadruplex-based DNA nanotechnology.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Article
Polymer Science
Viacheslav Severov, Vladimir Tsvetkov, Nikolay Barinov, Vladislav Babenko, Dmitry Klinov, Galina Pozmogova
Summary: This study reports the spontaneous formation of DNA-DNA junctions in solution without the involvement of proteins, visualized using atomic force microscopy. The positions of synapsis match with potential G-quadruplex (G4) sites, and these conjugates exhibit an affinity for G4 antibodies. Molecular modeling was employed to elucidate the possible structures of G4/IM-synaptic complexes, indicating a novel role of intermolecular noncanonical structures in chromatin architecture and genomic rearrangement.
Article
Chemistry, Multidisciplinary
Saddam Y. Khatik, Sruthi Sudhakar, Satyajit Mishra, Jeet Kalia, P. I. Pradeepkumar, Seergazhi G. Srivatsan
Summary: The lack of efficient probes and small molecule ligands that can differentiate different G-quadruplex (GQ) topologies presents challenges in understanding their structure and targeting specific GQ forms. However, G-rich sequences with unique chimeric structural motifs have been identified as potential therapeutic targets. In this study, a novel dual-app probe was used to analyze the EGFR GQs and their interaction with small molecules. The probe exhibited distinct fluorescence and NMR signals, enabling the quantification of different GQ structures and their ligand binding properties. The findings could be utilized in designing binders that target both GQ and hairpin domains for enhanced selectivity and druggability.
Article
Biotechnology & Applied Microbiology
Neha Jain, Uma Shankar, Aakriti Singh, Tarun Kumar Sharma, Amit Kumar
Summary: This study identified the significant role of G-quadruplexes (GQs) in N. gonorrhoeae, an obligate human pathogen that causes gonorrhea. Five GQ motifs in the N. gonorrhoeae genome were characterized and shown to be stabilized by the GQ-specific ligand, BRACO-19, in both in vitro and in vivo conditions. BRACO-19 exhibited potent anti-gonococcal activity and altered biofilm formation as well as the adhesion and invasion of human cervical epithelial cells by N. gonorrhoeae. This study advances the knowledge of N. gonorrhoeae biology and provides insights for developing therapeutic measures against this emerging antimicrobial resistant pathogen.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Article
Multidisciplinary Sciences
Long Li, Shujuan Xu, Xueyu Peng, Yuzhuo Ji, He Yan, Cheng Cui, Xiaowei Li, Xiaoshu Pan, Lu Yang, Liping Qiu, Jianhui Jiang, Weihong Tan
Summary: The use of aptamers in bio analytical and biomedical applications exploits their ability to recognize cell surface protein receptors, making them valuable tools in targeted therapeutics. A strategy of constructing structure-switching aptamers has been developed, enhancing target cell recognition by engineering aptamers with DNA intercalated motifs responsive to the microenvironment. Structure-switching sensitivity can be tuned by manipulating i-motif sequences, but estimating this sensitivity is challenging.
NATIONAL SCIENCE REVIEW
(2021)
Article
Cell & Tissue Engineering
Maria Rosaria Ambrosio, Teresa Migliaccio, Fabiana Napolitano, Sarah Di Somma, Giovanni Maneli, Jussara Amato, Bruno Pagano, Antonio Randazzo, Giuseppe Portella, Pietro Formisano, Anna Maria Malfitano
Summary: In this study, the role of G4 motifs in adipogenic differentiation was investigated using human adipose-derived mesenchymal stem cells (ASCs). The results showed that G4 structures were increased in differentiated adipocytes compared to their precursors, and treatment with the G4 ligand Braco-19 reduced G4 content in the mature adipocytes. Furthermore, Braco-19 caused morphological changes and reduced lipid droplet formation and key gene expression in the mature adipocytes. These findings reveal a new role of G4 motifs in human adipocyte differentiation.
STEM CELL RESEARCH & THERAPY
(2023)
Review
Food Science & Technology
Rong Du, Xiebingqing Yang, Ping Jin, Yahui Guo, Yuliang Cheng, Hang Yu, Yunfei Xie, He Qian, Weirong Yao
Summary: This review summarizes the recent 5-year research progress on the G-quadruplex (G4) structure in the detection of food contaminants. The article discusses the different applications of G4 as a recognition unit and a signal reporter, highlighting the current challenges and future directions, providing valuable insights for the field of food safety.
CRITICAL REVIEWS IN FOOD SCIENCE AND NUTRITION
(2023)
Review
Materials Science, Multidisciplinary
Nantao Li, Bin Zhao, Robert Stavins, Ana Sol Peinetti, Neha Chauhan, Rashid Bashir, Brian T. Cunningham, William P. King, Yi Lu, Xing Wang, Enrique Valera
Summary: The COVID-19 pandemic has highlighted limitations in current infectious disease diagnosis models, but efforts are underway to develop more effective rapid tests and address cost and time barriers for new test kits. Nanomaterials and nanochemistry show promise in enabling simpler workflows, high sensitivity, and scalable manufacturing for improved virus detection.
CURRENT OPINION IN SOLID STATE & MATERIALS SCIENCE
(2022)
Article
Chemistry, Multidisciplinary
Nantao Li, Xiaojing Wang, Joseph Tibbs, Congnyu Che, Ana Sol Peinetti, Bin Zhao, Leyang Liu, Priyash Barya, Laura Cooper, Lijun Rong, Xing Wang, Yi Lu, Brian T. Cunningham
Summary: This study introduces a label-free biosensing method for quickly detecting and quantifying intact viruses in human saliva with high selectivity and sensitivity.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Biochemical Research Methods
Shaokang Ren, Keith Fraser, Lili Kuo, Neha Chauhan, Addison T. Adrian, Fuming Zhang, Robert J. Linhardt, Paul S. Kwon, Xing Wang
Summary: Researchers have designed DNA nanostructures that can bind to viral antigens and effectively inhibit dengue virus infection. By using existing structural data and various experimental methods, these DNA nanostructures can be synthesized, characterized, and evaluated for their antiviral efficacy.
Review
Chemistry, Medicinal
Banani Chakraborty, Sreyashi Das, Arushi Gupta, Yanyu Xiong, T-v Vyshnavi, Megan E. Kizer, Jinwei Duan, Arun Richard Chandrasekaran, Xing Wang
Summary: This review examines the use of aptamers in detecting and inhibiting viral infections in humans, animals, and plants. It provides an in-depth introduction to aptamers, different selection methodologies, the advantages of using aptamers over antibodies, and the structural and functional mechanisms of aptasensors for viral detection and therapy. The review categorizes the characterization and read-out tools used to detect virus-aptasensor interactions and includes a detailed index of existing virus-targeting aptamers. It also discusses the potential of using aptamers for DNA nanotechnology-based detection and treatment of viral diseases.
ACS INFECTIOUS DISEASES
(2022)
Article
Chemistry, Multidisciplinary
Neha Chauhan, Yanyu Xiong, Shaokang Ren, Abhisek Dwivedy, Nicholas Magazine, Lifeng Zhou, Xiaohe Jin, Tianyi Zhang, Brian T. Cunningham, Sherwood Yao, Weishan Huang, Xing Wang
Summary: We propose a net-shaped DNA nanostructure design strategy for selective recognition and capture of intact SARS-CoV-2 virions, enabling the development of a rapid and inexpensive COVID-19 test. Furthermore, this strategy can be customized for tackling other viruses.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Multidisciplinary Sciences
Yanyu Xiong, Qinglan Huang, Taylor D. Canady, Priyash Barya, Shengyan Liu, Opeyemi H. Arogundade, Caitlin M. Race, Congnyu Che, Xiaojing Wang, Lifeng Zhou, Xing Wang, Manish Kohli, Andrew M. Smith, Brian T. Cunningham
Summary: The authors report a method for achieving nearly 3000-fold signal enhancement using a photonic crystal surface. By enhancing excitation, improving quantum efficiency, and suppressing blinking, the approach enables high signal-to-noise ratio and single emitter sensitivity. The study also demonstrates the application of this method in miRNA biomarker sensing.
NATURE COMMUNICATIONS
(2022)
Article
Management
Xing Wang, Tae-Yeol Kim, Hongli Li
Summary: This study examines the influence of cyber incivility on employees' task performance at a daily level. The results, based on data collected from 112 full-time employees, show that daily cyber incivility has a time-lagged effect on task performance of the following day. This effect is explained by the negative affect induced on the following workday, rather than the sleep quality of the previous night. Additionally, the relationship between cyber incivility and negative affect, as well as the indirect effect on task performance, is weaker among employees with high self-leadership.
ASIA PACIFIC JOURNAL OF MANAGEMENT
(2022)
Article
Biophysics
Hankeun Lee, Weijing Wang, Neha Chauhan, Yanyu Xiong, Nicholas Magazine, Owen Valdescruz, Dong Yeun Kim, Tianjie Qiu, Weishan Huang, Xing Wang, Brian T. Cunningham
Summary: We report the development of a compact and affordable fluorimeter called a Virus Pod (V-Pod) for sensitive self-testing of SARS-CoV-2 viral load in saliva. The device utilizes Designer DNA Nanostructures (DDN) that specifically interact with the virus to generate fluorescence signals. The V-Pod instrument performs sample testing and data transmission, offering a rapid and quantitative output compatible with frequent self-testing.
BIOSENSORS & BIOELECTRONICS
(2023)
Article
Biophysics
Leyang Liu, Joseph Tibbs, Nantao Li, Amanda Bacon, Skye Shepherd, Hankeun Lee, Neha Chauhan, Utkan Demirci, Xing Wang, Brian T. Cunningham
Summary: In this paper, a compact Photonic Resonator Interferometric Scattering Microscope (PRISM) designed for point-of-use environments and applications is presented. It allows label-free detection and digital counting of nanometer-scaled objects such as nanoparticles, viruses, extracellular vesicles, and protein molecules. The instrument incorporates two innovative elements to facilitate operation in ordinary laboratory environments and achieves stable image contrast over time and spatial position through an automated focusing module.
BIOSENSORS & BIOELECTRONICS
(2023)
Review
Chemistry, Analytical
Amanda Bacon, Weijing Wang, Hankeun Lee, Saurabh Umrao, Prima Dewi Sinawang, Demir Akin, Kodchakorn Khemtonglang, Anqi Tan, Sabina Hirshfield, Utkan Demirci, Xing Wang, Brian T. Cunningham
Summary: The ability for individuals to self-test for HIV is crucial in preventing transmission, especially when combined with other biomedical prevention methods like PrEP. In this article, we review recent advancements in HIV self-testing and sampling methods, and explore the potential impact of new materials and techniques developed for more effective point-of-care SARS-CoV-2 diagnostics. We discuss the limitations of current HIV self-testing technologies and the need for improvements in sensitivity, speed, simplicity, and cost to enhance diagnostic accuracy and accessibility. We also examine potential paths towards the next generation of HIV self-testing through sample collection materials, biosensing assays, and miniaturized instruments, as well as the implications for self-monitoring HIV viral load and other infectious diseases.
Proceedings Paper
Engineering, Biomedical
Hankeun Lee, Weijing Wang, Neha Chauhan, Yanyu Xiong, Nicholas Magazine, Owen Valdescruz, Dong Yeun Kim, Tianjie Qiu, Weishan Huang, Xing Wang, Brian T. Cunningham
Summary: We present a novel method for self-monitoring of SARS-CoV-2 in saliva, which involves the use of fluorophore-releasing Designer DNA Nanostructures (DDNs) that bind with spike proteins on the virus particles and a smartphone-linked, pocket-size fluorimeter called V-Pod. The method demonstrates a clinically relevant detection limit for different variants of the virus.
OPTICAL DIAGNOSTICS AND SENSING XXIII
(2023)
Proceedings Paper
Engineering, Electrical & Electronic
Yanyu Xiong, Qinglan Huang, Taylor D. Canady, Priyash Barya, Shengyan Liu, Opeyemi H. Arogundade, Caitlin M. Race, Congnyu Che, Xiaojing Wang, Lifeng Zhou, Anh Igarashi, Xing Wang, Manish Kohli, Andrew M. Smith, Brian T. Cunningham
Summary: In this study, the signal of nanoscale quantum emitters was significantly boosted using the multiplicative effects of amplified excitation, highly directed extraction, Purcell enhancement, and blinking suppression on a photonic crystal surface. The platform achieved single quantum dot sensitivity with high signal-to-noise ratio, and ultrasensitive detection with a wide linear dose-response range.
Review
Chemistry, Medicinal
Banani Chakraborty, Sreyashi Das, Arushi Gupta, Yanyu Xiong, Vyshnavi T-V, Megan E. Kizer, Jinwei Duan, Arun Richard Chandrasekaran, Xing Wang
Summary: This review compiles literature on the use of aptamers for detection and inhibition of viral infections in humans, animals, and plants. It provides an in-depth introduction to aptamers, their selection methodologies, advantages over antibody-based strategies, and the mechanisms of aptasensors for viral detection and therapy. The review also discusses future directions in aptamer-based strategies for viral diagnostics and treatment, making it a comprehensive resource in this field.
ACS INFECTIOUS DISEASES
(2022)
Proceedings Paper
Engineering, Biomedical
Neha Chauhan, Weijing Wang, Han Keun Lee, Yanyu Xiong, Tianyi Zhang, Nicholas Magazine, Lu Peng, Lifeng Zhou, Weishan Huang, Xing Wang, Brian T. Cunningham
Summary: A novel approach using a Designer DNA Nanostructure (DDN) mixed with saliva has been developed for rapid self-testing of SARS-CoV-2. This low-cost and convenient technology can detect virus concentration in a short time period. It can be wirelessly managed with a smartphone and has the potential for contact tracing and interaction with health services.
SMART BIOMEDICAL AND PHYSIOLOGICAL SENSOR TECHNOLOGY XIX
(2022)
Proceedings Paper
Optics
Nantao Li, Xiaojing Wang, Joseph Tibbs, Taylor D. Canady, Qinglan Huang, Glenn A. Fried, Xing Wang, Laura Cooper, Lijun Rong, Yi Lu, Brian T. Cunningham
Summary: Interferometric scattering microscopy is a promising technique for biomedical research and diagnostic testing, allowing the detection of nano-objects through their elastic light scattering. The photonic resonator interferometric scattering microscopy (PRISM) amplifies scattered light through a photonic crystal resonator, enabling improved signal-to-noise ratio. The technology has shown potential in virus and protein detection, with results comparable to conventional nucleic acid tests.
INTEGRATED OPTICS: DEVICES, MATERIALS, AND TECHNOLOGIES XXVI
(2022)