A DNA based molecular logic gate capable of a vari

Authors: Anton Kan Yoko Sakai Kohichiroh Shohda Akira Suyama

Publish Date: 2013/10/06

Volume: 13, Issue: 4, Pages: 573-581

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Abstract

In this paper we report on a module in the RTRACS Reversetranscription and TRanscriptionbased Autonomous Computing System molecular computing system constructed with DNA RNA and enzymes The module is a 2input logic gate that receives input and produces output in the form of RNA molecules Each of the two input molecules is chosen from a set of two and the logic gate produces an output molecule for each of the four possible input combinations Two output RNA molecules can be produced by this module one for only one combination of inputs whilst the remaining three combinations lead to the production of the other output Since the RNA strands can be arbitrarily assigned logical values this module is capable performing multiple logical operations including AND NAND OR and NOR given the appropriate mapping of RNA molecules to logical values We performed numerical simulations of the logic gate reaction scheme revealing the details of the kinetics of the production of output molecules and the theoretical input–output characteristics We experimentally demonstrated the proper functioning of the logic gate and the real time production of output molecules Furthermore we demonstrate an implementation of the logic gate in diagnosing single nucleotide polymorphism patterns on samples of human genomic DNA We believe this versatile logic gate has significant advantages as a basic module of RTRACS due to the wide variety of possible logical operationsThe authors gratefully acknowledge Prof Katsushi Tokunaga and Dr Nao Nishida Department of Human Genetics Graduate School of Medicine The University of Tokyo for their help with the preparation of encoding products from the human genomic DNA samples This work was partly supported by GrantinAid for Scientific Research on Innovative Areas 23119007 to AS from the Ministry of Education Culture Sports Science and Technology Japan

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