Review
Microbiology
Shayla Grace Verburg, Rebecca Margaret Lelievre, Michael James Westerveld, Jordon Marcus Inkol, Yi Lin Sun, Samuel Tekeste Workenhe
Summary: Viruses heavily rely on infected cells to replicate and modulate various cellular processes, including cell survival and cell death. They can activate and block different types of programmed cell death (PCD), which have direct and indirect effects on viral pathogenesis and antiviral immunity. While the mechanisms of apoptosis following virus infection have been widely studied, other forms of PCD, such as necroptosis, pyroptosis, ferroptosis, and paraptosis, are relatively understudied. This review covers the mechanisms by which viruses activate and inhibit PCDs and discusses their impact on viral pathogenesis and immunity.
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
Multidisciplinary Sciences
Shalabh Mishra, Athira S. Raj, Akhilesh Kumar, Ashwathi Rajeevan, Puja Kumari, Himanshu Kumar
Summary: The cytosolic DNA sensor IFI16 plays a crucial role in activating programmed cell death pathways in influenza A virus (IAV) infected cells by functioning as an RNA sensor for the virus. Its activation triggers the production of interferons and pro-inflammatory cytokines, promoting cell death and inflammatory responses.
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)
Review
Cell Biology
Miguel Hernandez-Gonzalez, Gabrielle Larocque, Michael Way
Summary: Membrane trafficking is a crucial cellular process that influences various aspects of cell function, and its dysfunction is associated with serious genetic, metabolic, and neurological disorders. Viruses often hijack membrane trafficking during infection to facilitate their replication, assembly, and egress.
JOURNAL OF CELL SCIENCE
(2021)
Review
Virology
Yan Yan, Yan-Dong Tang, Chunfu Zheng
Summary: This minireview provides an overview of CDKs' functions and highlights their emerging roles in viral infections, serving as a scientific and theoretical foundation for antiviral regulation and the development of therapeutic strategies.
JOURNAL OF MEDICAL VIROLOGY
(2022)
Article
Multidisciplinary Sciences
Audrey Labarde, Lina Jakutyte, Cyrille Billaudeau, Beatrix Fauler, Maria Lopez-Sanz, Prishila Ponien, Eric Jacquet, Thorsten Mielke, Silvia Ayora, Rut Carballido-Lopez, Paulo Tavares
Summary: Infection of Bacillus subtilis by bacteriophage SPP1 leads to the hijacking of host replication proteins to assemble hybrid viral-bacterial replisomes, doubling the cell total DNA content within 15 minutes. The replisomes operate at several independent locations within a single viral DNA focus positioned asymmetrically in the cell. These findings demonstrate that bacteriophages restructure the host cytoplasm to confine the essential processes for their multiplication at different cellular locations.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Multidisciplinary Sciences
Asis K. Jana, Eric R. May
Summary: Molecular simulations were used to study the mechanism and energetics of host cell entry by the non-enveloped virus Flock House virus. The simulations revealed details about the pH control mechanism that were not easily accessible in experiments. The findings agreed with experimental results and provided nanoscopic insights into the process.
Article
Biochemistry & Molecular Biology
Jack Chun-Chieh Hsu, Maudry Laurent-Rolle, Joanna B. Pawlak, Hongjie Xia, Amit Kunte, Jia Shee Hee, Jaechul Lim, Lawrence D. Harris, James M. Wood, Gary B. Evans, Pei-Yong Shi, Tyler L. Grove, Steven C. Almo, Peter Cresswell
Summary: This study reveals a novel antiviral mechanism in which viperin inhibits both cellular and viral RNA translation by activating a ribosome collision-dependent pathway. The SAM activity and enzymatic product of viperin play crucial roles in translation repression. This research highlights the significance of translational repression in the antiviral response and identifies viperin as a translation regulator in innate immunity.
Article
Multidisciplinary Sciences
Seung-Wan Yoo, Abdul A. Waheed, Pragney Deme, Sehmus Tohumeken, Rana Rais, Matthew D. Smith, Catherine DeMarino, Peter A. Calabresi, Fatah Kashanchi, Eric O. Freed, Barbara S. Slusher, Norman J. Haughey
Summary: This study found that neutral sphingomyelinase 2 (nSMase2) interacts with HIV-1 Gag, and through the hydrolysis of sphingomyelin creates ceramide that plays a critical role in the formation of the viral envelope and maturation. Inhibition or depletion of nSMase2 leads to the production of noninfectious HIV-1 virions with incomplete Gag lattices. In vivo and in vitro experiments suggest that nSMase2 could be a potential therapeutic target for killing HIV-1-infected cells.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Review
Biochemistry & Molecular Biology
Chunmei Cai, Yan-Dong Tang, Guocai Xu, Chunfu Zheng
Summary: Viral infections pose a severe threat to humans, and understanding how the host immune system responds to viral infections has become increasingly important. Gene detection and intracellular sensing can induce immune responses to limit viral infections. The overlap between RNA- and DNA-sensing mechanisms enhances antiviral responses.
CELLULAR AND MOLECULAR LIFE SCIENCES
(2021)
Article
Virology
Ranran Wang, June F. Yang, Taylor E. Senay, Wei Liu, Jianxin You
Summary: Merkel cell carcinoma (MCC) is a lethal skin cancer that has increased in incidence in recent years. Merkel cell polyomavirus (MCPyV) is associated with a majority of MCC cases. In this study, the researchers found that MCPyV infection induces the expression of interferons (IFNs) and IFN-stimulated genes (ISGs) in human dermal fibroblasts (HDFs), but the IFN-mediated induction of ISGs is not crucial for viral control. Instead, type I IFN directly represses viral transcription. The researchers also found that growth factors induced by skin abrasion or UV irradiation can stimulate MCPyV gene expression and replication, supporting persistent infection.
JOURNAL OF VIROLOGY
(2023)
Review
Biochemistry & Molecular Biology
Devasahayam Arokia Balaya Rex, Thottethodi Subrahmanya Keshava Prasad, Richard K. Kandasamy
Summary: The fate of a viral infection in the host is determined by various cellular responses, including different types of cell death mechanisms. Apoptosis, necroptosis, and pyroptosis play crucial roles in the response to viral infections. This review discusses the mechanisms by which viruses interfere with cell death and illustrates the general principles and cellular signaling mechanisms of virus-host molecule interactions.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Multidisciplinary Sciences
Vorrapon Chaikeeratisak, Kanika Khanna, Katrina T. Nguyen, MacKennon E. Egan, Eray Enustun, Emily Armbruster, Jina Lee, Kit Pogliano, Elizabeth Villa, Joe Pogliano
Summary: A unique structure called phage bouquets was discovered, which is formed by viral particles of Pseudomonas nucleus-forming jumbo phage PhiPA3. These particles assemble in a spherical pattern with tails oriented inward and the heads outward at specific subcellular locations. The bouquets maintain the same distance from the phage nucleus, indicating an active mechanism for positioning.
Article
Immunology
Young Rock Chung, Tanushree Dangi, Nicole Palacio, Sarah Sanchez, Pablo Penaloza-MacMaster
Summary: Adoptive B cell therapy can effectively treat chronic infections, and the combination of antibody effector functions and virus-specific CD4 T cells can enhance the therapeutic effect.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Chemistry, Analytical
Long Chuan Zhang, Yu Meng Yang, Ling Liang, Yong Jian Jiang, Chun Mei Li, Yuan Fang Li, Lei Zhan, Hong Yan Zou, Cheng Zhi Huang
Summary: In this study, hydrothermally prepared O-CDs exhibited aggregation-induced fluorescence enhancement through complexation with Cu2+, enabling sensitive and selective detection of Cu2+ in a linear range. The detection limit of 14 nM allowed successful detection of Cu2+ in fresh water and E. coli lysate, demonstrating the potential application of the O-CDs in environmental monitoring of heavy metals.
Article
Biophysics
Yao Wang, Yan Bai, Li Ping Cao, Li Li Li, Lei Zhan, Hua Zuo, Chun Mei Li, Cheng Zhi Huang
Summary: The study developed a method for imaging cellular miR-155 through the assembly of DNA frameworks driven by miR-155, leading to successful detection and imaging of miR-155 in live cells. The method significantly enhanced resistance to nuclease digestion and stable ability with exclusive interference.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Chemistry, Analytical
Li Li Li, Wen Yi Lv, Yu Ting Xu, Yuan Fang Li, Chun Mei Li, Cheng Zhi Huang
Summary: A DNA nanodevice with logic-responsive and signal amplifying capability has been developed for sequential imaging of tumor biomarkers in cells. The nanodevice shows better molecular targeting and recognition ability, making it useful for early cancer diagnosis and cell identification.
ANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Multidisciplinary
Na Wang, Yongjian Jiang, Kunhan Nie, Di Li, Hui Liu, Jian Wang, Chengzhi Huang, Chunmei Li
Summary: A cascade DNAzyme amplifier was designed using concurrent amplification cycle principles of toehold-mediated strand displacement reaction (TSDR) and Zn2+-assisted DNAzyme cycle. Compared to a single DNAzyme amplifier, the cascade DNAzyme amplifier exhibited higher sensitivity by releasing more DNAzyme through TSDR during the DNAzyme cycle. This detection strategy showed promise in early cancer diagnosis due to its ability to distinguish single-base mismatched DNA strands.
CHINESE CHEMICAL LETTERS
(2023)
Article
Chemistry, Analytical
Li Ping Cao, Chun Mei Li, Shu Jun Zhen, Cheng Zhi Huang
Summary: A general signal amplifier based on a micelle-supported entropy-driven circuit was designed and prepared for sensitive quantification of biomarkers. The amplifier exhibited excellent sensitivity and selectivity in detecting microRNA-155, showing the potential for the development of DNA nanotechnology in biosensing.
ANALYTICAL CHEMISTRY
(2023)
Article
Nanoscience & Nanotechnology
Yue Zhang, Feng Cheng, Rui Liang, Xin Jia Shuai, Kun Han Nie, Jing Li, Qiao Ling Zeng, Cheng Zhi Huang, Chun Mei Li
Summary: A simple and cost-effective method has been developed to selectively induce cancer cell apoptosis by activating cell surface nucleolin clustering in the slightly acidic microenvironment of cancer cells. This strategy not only regulates cell function through nucleolin receptor aggregation, but also provides a new approach for tumor treatment with reduced side effects to normal cells.
ACS APPLIED MATERIALS & INTERFACES
(2023)
Article
Chemistry, Analytical
Xinjia Shuai, Yue Zhang, Jia Zhai, Jing Li, Jiao Chen, Xinying Long, Di Li, Chengzhi Huang, Chunmei Li
Summary: A highly loaded Na+-fueled linear programmable DNAzyme nanostructure (LPDN) was proposed for sensitive detection of intracellular miRNAs. The LPDN, composed of long, single-strand DNA produced by rolling circle amplification reactions, can control the position of the DNAzyme and substrate precisely for optimal efficiency. This method enables in situ real-time imaging and evaluation of intracellular miRNA level changes, making it a promising candidate for early cancer diagnosis and imaging analysis.
ANALYTICAL CHEMISTRY
(2023)
Article
Engineering, Biomedical
Feng Cheng, Yongjian Jiang, Bo Kong, Huarong Lin, Xinjia Shuai, Pingping Hu, Pengfei Gao, Lei Zhan, Chengzhi Huang, Chunmei Li
Summary: Cell signal transduction mediated by cell surface ligand-receptor is crucial for regulating cell behavior. However, the construction of a stable model of cytomembrane receptor aggregation and the development of a universal anti-tumor therapy model on the cellular surface remain challenging.
ADVANCED HEALTHCARE MATERIALS
(2023)
Article
Chemistry, Analytical
De Yu Li, Yong Jian Jiang, Kun Han Nie, Jing Li, Yuan Fang Li, Chun Mei Li
Summary: In this study, a fluorescent genotyping nanodevice for HPV subtype distinction was constructed using programmable and modified DNA as the backbone. The nanodevice had low background noise due to dual energy transfer and the programmability of DNA allowed for simultaneous and selective distinction of multiple HPV subtypes. The potential clinical applications of the nanodevice were demonstrated through successful HPV-DNA analysis in cervical scrapes samples.
ANALYTICA CHIMICA ACTA
(2023)
Article
Chemistry, Analytical
Li Li Li, Feng Cheng, Jing Li, Shu Jun Zhen, Wen Yi Lv, Xin Jia Shuai, Yuan Fang Li, Cheng Zhi Huang, Chun Mei Li
Summary: Researchers developed a new type of intelligent DNA biocomputing nanodevices (iDBNs) for precise real-time monitoring of apoptotic molecular events. These nanodevices simultaneously responded to mitochondrial microRNA-21 and microRNA-10b produced during cell apoptosis, allowing sensitive intracellular imaging. This study demonstrated that iDBNs could effectively respond to multiple biomarkers, improving the detection accuracy for cell apoptosis and making them highly effective and reliable for disease diagnosis and anticancer drug screening.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Analytical
Ling Liang, Xinjia Shuai, Liping Cao, Jian Wang, Yao Wang, Lili Li, Yuanfang Li, Chengzhi Huang, Chunmei Li
Summary: DNAwalkers are advanced nanomachines that can be used for biosensing with high programmability and flexibility. However, they usually require additional auxiliary driving force, especially on hard surfaces. In this study, a three-dimensional DNA walker was constructed on the soft surface of DNA nanospheres using a single-stranded DNA and powered by endogenous ATP. This DNA walker showed sensitive imaging of miRNA in the tumor microenvironment, with significantly increased sensitivity and decreased detection limit. This approach provides a promising method for designing programmable DNA nanomachines without the need for complex cell treatments or additional auxiliary factors.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Zhe Zhang, Jin Jin, Victoria E. Paluzzi, Zhuoer Jin, Yuandong Wen, Cheng Zhi Huang, Chun Mei Li, Chengde Mao, Hua Zuo
Summary: Tile-based DNA self-assembly is a versatile method for constructing various nanostructures. By adding ligands and aptamers to DNA tiles, geometrically well-defined nanostructures can be formed through ligand-aptamer binding. This new inter-tile cohesion could have potential applications in DNA self-assembly.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Article
Chemistry, Multidisciplinary
Zhe Zhang, Jin Jin, Victoria E. Paluzzi, Zhuoer Jin, Yuandong Wen, Cheng Zhi Huang, Chun Mei Li, Chengde Mao, Hua Zuo
Summary: Tile-based DNA self-assembly is a versatile method for constructing a wide range of nanostructures for various applications. By designing DNA tiles containing both ligands and aptamers, geometrically well-defined nanostructures can be formed upon ligand-aptamer binding. This new inter-tile cohesion could open up new potentials for DNA self-assembly, allowing modulation of nanostructure formation through the addition of free ligands.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Article
Chemistry, Analytical
Li Ping Cao, Chun Mei Li, Shu Jun Zhen, Cheng Zhi Huang
Summary: A general signal amplifier based on a micelle-supported entropy-driven circuit (MEDC) was designed for sensitive quantification of biomarkers. The MEDC was triggered by microRNA-155, resulting in dynamic self-assembly of poly-DNA micelles and causing the recovery of cyanine 3 fluorescence.
ANALYTICAL CHEMISTRY
(2023)
Article
Materials Science, Multidisciplinary
Li Ping Cao, Yao Wang, Yan Bai, Yong Jian Jiang, Chun Mei Li, Yuan Fang Li, Cheng Zhi Huang, Shu Jun Zhen
Summary: The combination of Cu-MOG with EDC was utilized for the detection of miR-155, showing promising applications in bioassays and opening up a new application field of MOGs in EDC development.
JOURNAL OF MATERIALS CHEMISTRY C
(2022)
Article
Engineering, Biomedical
Lin-Lin Luo, Jie Xu, Bing-Qiao Wang, Chen Chen, Xi Chen, Qiu-Mei Hu, Yu-Qiu Wang, Wan-Yun Zhang, Wan-Xiang Jiang, Xin-Ting Li, Hu Zhou, Xiao Xiao, Kai Zhao, Sen Lin
Summary: A novel AAV serotype, AAVYC5, introduced in this study, showed more efficient transduction into multiple retinal layers compared to AAV2, and enabled successful delivery of anti-angiogenic molecules in mice and non-human primates.