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DNA nanotechnology, and DNA computing in particular, has grown extensively over the past decade to end with a variety of functional stable structures and dynamic circuits. However, the use as designer elements of regular DNA pieces, perfectly complementary double strands, has remained elusive. Here, we report the exploitation of CRISPR-Cas systems to engineer logic circuits based on isothermal strand displacement that perform with toehold-free double-stranded DNA. We designed and implemented molecular converters for signal detection and amplification, showing good interoperability between enzymatic and nonenzymatic processes. Overall, these results contribute to enlarge the repertoire of substrates and reactions (hardware) for DNA computing.
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http://dx.doi.org/10.1021/acssynbio.0c00649 | DOI Listing |
Nucleic Acids Res
September 2025
Key Laboratory of Clinical Laboratory Diagnostics (Chinese Ministry of Education), College of Laboratory Medicine, Chongqing Medical University, Chongqing 400016, P. R. China.
Local pH variations play a pivotal role in numerous critical biological processes. However, achieving the tunability and selectivity of pH detection remains a challenge. Here, we present a DNA-based strategy that enables programmable and selective pH responses, which is termed shadow-strand hybridization-actuated displacement engineering (SHADE).
View Article and Find Full Text PDFBiosens Bioelectron
September 2025
College of Chemistry, Jilin Province Research Center for Engineering and Technology of Spectral Analytical Instruments, Jilin University, Qianjin Street 2699, Changchun, 130012, China. Electronic address:
Papillary thyroid carcinoma (PTC) is the most prevalent form of thyroid cancer with a high incidence among endocrine malignancies. It tends to metastasize early in lymph nodes and differs markedly from other subtypes in biological behavior, clinical management, and prognosis. Therefore, accurately distinguishing PTC from other pathological subtypes is crucial for guiding diagnosis and treatment decisions.
View Article and Find Full Text PDFPNAS Nexus
September 2025
Department of Chemical and Biomedical Engineering, University of Missouri, Columbia, MO 65211, USA.
DNA data storage is a promising alternative to conventional storage due to high density, low energy consumption, durability, and ease of replication. While information can be encoded into DNA via synthesis, high costs and the lack of rewriting capability limit its applications beyond archival storage. Emerging "hard drive" strategies seek to encode data onto universal DNA templates without de novo synthesis, using methods such as DNA nanostructures and base modifications.
View Article and Find Full Text PDFBiosens Bioelectron
September 2025
State Key Laboratory for Diagnosis and Treatment of Severe Zoonotic Infectious Diseases, Key Laboratory for Zoonosis Research of the Ministry of Education, School of Public Health, Jilin University, Changchun, 130021, China. Electronic address:
As one of enzyme-free amplification strategies, entropy-driven catalytic (EDC) based on toehold-mediated strand displacement reaction could achieve efficient amplification without cumbersome temperature changing and expensive enzymes, which shows great potential in biological sensing. However, the limitations in reaction velocity and sensitivity need to be further improved. Herein, a cascade platform integrating entropy-driven DNA nanomachine with CRISPR/Cas12a was proposed.
View Article and Find Full Text PDFNano Lett
September 2025
School of Mathematics and Physics, Faculty of Engineering and Physical Sciences, University of Surrey, Guildford GU2 7XH, United Kingdom.
Dynamic DNA nanotechnology creates programmable reaction networks and nanodevices by using DNA strands. The key reaction in dynamic DNA nanotechnology is the exchange of DNA strands between different molecular species, achieved through three- and four-way strand exchange reactions. While both reactions have been widely used, the four-way exchange reaction has traditionally been slower and less efficient than the three-way reaction.
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