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DNA Concentration Regulator That can be Driven for a Long Time

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Abstract

A molecular robot is an autonomous micro/nano machine that mounts a molecular controller connecting the sensor and actuator systems. A major control problem of a molecular robot is to maintain the actuator operation at the desired level. This requires a regulator that adjusts the concentration of a specific DNA strand of a system to the desired level to be appropriately implemented on a chemical reaction system made of molecular interactions among DNA strands. However, although there are several research results on DNA concentration regulators, there is a major problem: the regulators normally work only within a limited period because of the finiteness problem of gate and fuel strands. The operating time of the controller is an important control performance index and is a prerequisite for its practical applications. In this study, the design of a renewable DNA concentration regulator simplified to an experimentally feasible level is proposed, inspired by the previously reported azobenzene-based photo-reaction method used for a renewable PID controller. It is shown that the methodology that timely switches the operation between “regulator mode” and “concentration recovery mode” by light irradiation can serve as a solution for the long-time operation of the DNA concentration regulator.

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Acknowledgements

We appreciate Mr. Minoru Akita (Kyushu Institute of Technology, graduated in March 2021) for discussing the design of the renewable DCR.

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Authors and Affiliations

  1. Department of Intelligent and Control Systems, Kyushu Institute of Technology, Iizuka, Fukuoka, 8208502, Japan

    Takashi Nakakuki

  2. Department of Biomolecular Engineering, Graduate School of Engineering, Nagoya University, Furo-cho, Chikusa-ku, Nagoya, 4648603, Japan

    Keiji Murayama & Hiroyuki Asanuma

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  1. Takashi Nakakuki
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  2. Keiji Murayama
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  3. Hiroyuki Asanuma
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Correspondence to Takashi Nakakuki.

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This work was supported by JSPS KAKENHI Grant Numbers 20H05971 (T. N.), 20K04549 (T. N.), 20H05970 (K. M.), 20H05968 (K. M.), and JP21H05025 (H. A.).

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Nakakuki, T., Murayama, K. & Asanuma, H. DNA Concentration Regulator That can be Driven for a Long Time. New Gener. Comput. 40, 681–702 (2022). https://doi.org/10.1007/s00354-022-00173-3

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  • DOI: https://doi.org/10.1007/s00354-022-00173-3

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