Multiplexed and high-bandwidth DNA computing circuits with superresolution DNA origami displays
Abstract
DNA computing circuits leverage molecular interactions to construct a highly parallel and biologically compatible information processing paradigm. However, their development has been constrained by a critical gap between intrinsic computational parallelism and the limited readout bandwidth. Multibit outputs from complex circuits often require multiple separate tests, limiting the integration and debugging efficiency. Here, we overcome this bottleneck by decoupling computation from readout via a DNA origami display-based interface by integrating strand displacement and unstable binding reactions. We convert multibit molecular outputs from DNA circuits into spatially resolved geometric bits, enabling direct visualization via superresolution microscopy for high-throughput readout. We experimentally demonstrated the direct readout of an 8-bit decoder circuit and simultaneous display of 16 parallel-running logic gates. This high-bandwidth platform unlocks capabilities in circuit debugging and multiplexed execution, paving the way for large-scale DNA computing and high-throughput biosensing.
Article Details
Journal Info
Proceedings of the National Academy of Sciences
National Academy of Sciences
Authors (13)
Zhongchao Jin
State Key Laboratory of Synergistic Chem-Bio Synthesis, School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules, Institute of Translational Medicine, Shanghai Jiao Tong University
Yuqing Tang
State Key Laboratory of Synergistic Chem-Bio Synthesis, School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules, Institute of Translational Medicine, Shanghai Jiao Tong University
Sisi Jia
Zhangjiang Laboratory
Zheze Dai
State Key Laboratory of Synergistic Chem-Bio Synthesis, School of Chemistry and Chemical Engineering, Frontiers Science Center for Transformative Molecules, Institute of Translational Medicine, Shanghai Jiao Tong University
Zhikun Zhao
State Key Laboratory of Synergistic Chem-Bio Synthesis, School of Chemistry and Chemical Engineering, New Cornerstone Science Laboratory, Frontiers Science Center for Transformative Molecules, Zhang Jiang Institute for Advanced Study and National Center for Translational Medicine
Jiang Li
State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica
Kai Xia
Jiaxing Key Laboratory of Biosemiconductors
Jun Liu
Ke Ke
Lenovo Research, Lenovo Group
Hui Lv
Institute of Materiobiology, College of Sciences
Qian Li
Fei Wang
Chunhai Fan
State Key Laboratory of Synergistic Chem-Bio Synthesis, School of Chemistry and Chemical Engineering, New Cornerstone Science Laboratory, Frontiers Science Center for Transformative Molecules, Zhang Jiang Institute for Advanced Study and National Center for Translational Medicine