Basic Logic Gates Design Based on DNA and Restriction Endonuclease
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摘要: 由于DNA分子具有特异性、高并行性、微小性等天然特性，在信息处理过程中展现出了强大的并行计算能力和数据存储能力。该文研究将具有特异性识别功能的限制性核酸内切酶引入DNA链置换反应中，作为DNA电路的输入，通过控制立足点的生成和移除设计了是门、非门和与门3种基本逻辑门。采用Visual DSD对逻辑模型进行模拟仿真，并通过凝胶电泳实验验证设计。与以往的分子逻辑门比较，该设计反应迅速，操作简便，具有良好的扩展性，为大规模电路的设计提供了可能性。Abstract: Due to the natural characteristics of specificity, high parallelism and miniaturization of DNA molecules, it exhibits strong parallel computing power and data storage capability in information processing. In this study, restriction endonuclease with specific recognition function are introduced into DNA strand displacement as the input of the DNA circuit. The YES gate, NOT gate and AND gate are designed by controlling the generation and removal of the toehold. The logic model is simulated by Visual DSD, and the design is verified by PolyacrylAmide Gel Electrophoresis(PAGE) experiments. Compared with previous molecular logic gates, this design has a quick response, simple operation, and good scalability, which provides the possibility for the design of large-scale circuits.
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表 1 实验所需寡核苷酸序列
DNA链 序列(5’ to 3’) 所涉及逻辑门 起作用的限制酶 A TTTTTTTTTTTGATCCGTTCCTTGCAGTTGCTGAGGTGGCCAT 非门 / B TTATGGCCACCTCAGCAACTGCAAGGAACGGATCA 非门 Nt.BbvCI C TGATCCGTTCCTTGCAGTTGCTGAGGT 非门 / P GGCTGCGAGACTCGGTTTTCCGAGTCTCGCAGCCTCAGCAGTTGGATACATCTCAAGC(其中TTTT为环形结构) 与门 Nt.BsmAI X TTTTTTTCAGCCTCAGCAGTTGGATACATCTCAAGCTTTTTTTTTTTTTTT 是门、与门 Nt.BbvCI Y GCTTGAGATGTATCCAACTGCTGAGGCTG 是门、与门 / Z CAGCCTCAGCAGTTGGATACATCTCAAGC 是门 / 
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