Research On Nucleic Acid Logic Calculation Model Based On DNA Strand Displacement

DNA molecules have an enough sequence design space for studying of logical components, because the combination of special molecular structure. Watson-Crick, the complementarily principle can predict the behavior of molecules, and itself biological characteristics make it becoming an excellent engineering material in molecular computing field. Under the emerging computing model, there have a lot of achievements by using combination logic calculation model with complementary base pairing principle and fluorescence labeling technique. Firstly, this paper introduces the development of molecular computing, expounding the research results at home and abroad. Secondly, we put forward the method and process of logic components which is based on nucleic acid. And finally, we explain how to use the trait of DNA molecules, the DNA strand displacement technology, fluorescence labeling and other possible biological technology to establish a logical calculation mode. Based on DNA strand displacement, the computing model with nucleic acid logical component has great theoretical and application value for the research of molecular computer in the future.Through tracking the literature, we constructed some logical models by complementary base pairing, DNA strand displacement and fluorescence labeling technique. We tried to recycling these DNA sequences because the models we constructed with good versatility and universality, and we used the computer simulation or biological experiments to verify the model feasibility. We build some logic structure based on the Watson-Crick complementary base pairing and DNA strand displacement technology, and the proposed model was tested by the fluorescence labeling technique. These models are more complex logic components of the molecula'circuit'will be the next step for DNA computing model provides important support and feasible scheme. Based on the previous foundation and experience, we used the DNA strand displacement and fluorescence labeling technique to construct two kinds of DNA molecular computing model:(1) In this work, we construct a half-subtractor calculation model with the principle of complementary base pairs and the technology of fluorescence labeling through the combination of INH and XOR calculation model. We implement the calculation process of a half-subtractor which utilizes the strand displacement technology that two DNA sstrand as the input signal and the intensity of fluorescence as the output signal. Using NUPACK for designing the sequence of strands used in the experiment, and the half-subtractor model is simulated and analyzed by Visual DSD. In addition, we further verify the validity and feasibility of the design proposal by biological experiments.(2) In this paper, a series of logical components are constructed by using the principle of Watson-Crick complementary base pairing, DNA stand displacement and the technology of fluorescence labeling. These components are introduced into the DNA strands worked as the input, and the output of the logic module is reading by the fluorescence detection technology. In addition, Using NUPACK for designing the sequence of strands used in the experiment, and these models are simulated and analyzed by Visual DSD. These structures are simple and stable. Last but not least, on this basis, we constructed a logic circuit. The model is more complex logic components of the molecular 'circuit' will be the next step for small or larger molecular circuit provides important support.These models we constructed not only have simple structure but also with good stability in the paper, the experiment process is easy to operate and these results are convenient to test. What's more, using NUPACK to design the sequence achieved in the experiment, and these models are simulated and analyzed by Visual DSD. It provided a theoretical basis for the following biological experiments.