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DNA molecular logic gate based on DNA ribozyme

A technology of DNA molecules and logic gates, applied in the field of DNA molecular logic gates, can solve the problems of lack of connection information flow links and difficulties, and achieve the effect of wide application prospects.

Inactive Publication Date: 2019-07-02
NORTH CHINA ELECTRIC POWER UNIV (BAODING)
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

Despite the promise of DNA catalytic mechanisms, designing a rational cascading DNA logic network is very difficult due to the lack of links connecting information flow

Method used

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  • DNA molecular logic gate based on DNA ribozyme
  • DNA molecular logic gate based on DNA ribozyme
  • DNA molecular logic gate based on DNA ribozyme

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0085] Example 1 The Basic YES Gate of DNA Molecules Based on DNAzymes

[0086] Such as figure 1 As shown, a DNA molecular logic gate based on DNAzyme, including: input signal, DNA logic calculation unit and output signal,

[0087] The input signal includes: DNA catalytic chain H1;

[0088] The DNA logic calculation unit includes: A chain, DNA complex B (Complex B, including B / B1 / B2) and a signal substrate; the B1 chain and the B2 chain are not connected; the A chain and the B chain are hybridized and connected Composition of DNAzyme-1 with endonuclease function;

[0089] The DNAzyme-1 can recognize a specific sequence in the signal substrate, and catalyze the cleaving of the signal substrate to release the signal;

[0090] The DNA catalytic chain H1 can be combined with the cohesive end of the B chain to undergo a strand displacement reaction;

[0091] On the B chain, there is a binding site of the A chain at the hybridization position between the B chain and the B1 chain...

Embodiment 2

[0100] Example 2 DNA molecule cascade YES gate based on DNAzyme

[0101] In order to study the feasibility of constructing a DNAzyme-based molecular logic circuit, the cascaded YES gate in this example was developed and constructed. The circuit is designed to be triggered by DNAzyme input and generate another DNAzyme. The specific DNA strand sequences involved in this example are shown in Table 1.

[0102] Such as image 3 As shown, in this system, the DNAzyme DNAzyme-2 (such as image 3 , DNAzyme-2 is composed of the hybridization of the D-strand and C-strand sequences in Table 1) was designed as an input signal to trigger the cascade YES gate and generate the DNAzyme DNAzyme-1, thereby causing an increase in fluorescence intensity.

[0103] The DNA molecular cascade YES gate includes: an input signal, a DNA logic calculation unit and an output signal, and the input signal includes: DNAzyme-2;

[0104] The DNA logic calculation unit includes: DNA complex B* (Complex B*, in...

Embodiment 3

[0108] Cascade two-layer YES gate of embodiment 3 ribozyme regulation

[0109] In order to test the scalability of the molecular logic circuit based on DNAzyme regulation, a cascaded two-layer YES gate is established in this embodiment. It mainly generates DNAzyme-2a through the regulation of DNAzyme-3 (DNAzyme-3 is formed by the hybridization of D1 chain and C1 chain sequence in Table 1), and then generates DNAzyme-1 through the regulation of DNAzyme-2a. The specific DNA strand sequences involved in this example are shown in Table 1.

[0110] Such as Figure 5 As shown, DNAzyme-3 is designed as the input signal of the YES gate of the first layer; for the computing unit of the first layer, the DNA logic computing unit includes the DNA complex D(D' chain and D*-ErF chain, wherein the chain The position of the loop on D*-ErF sets the cleavage site, and D*1 and D*2 are connected by the sequence of the loop position), the catalytic chain H4 and the C' chain.

[0111] Then, thro...

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Abstract

The invention discloses a DNA molecular logic gate based on DNA ribozyme and a construction method of the DNA molecular logic gate. The DNA molecular logic gate based on DNA ribozyme comprises an input signal, a DNA logic calculation unit and an output signal. In the molecular logic computing system regulated and controlled by the DNA ribozyme, the DNA ribozyme plays multiple roles of an input signal and an output report. Thus, a series of logic gates, including gates, or gates and AND gates, are successfully constructed. In addition, a more complex two-level cascade circuit and a feedback autocatalysis logic circuit are also established. The result is verified by non-denaturing polyacrylamide gel electrophoresis and real-time fluorescence detection. Through the principle design and various experimental verifications, the provided DNA ribozyme regulation and control strategy is a reasonable and feasible method for constructing a complex catalytic molecular calculation model, and may have a wider application prospect in the fields of molecular sensing, nano devices, DNA calculation and the like.

Description

technical field [0001] The invention belongs to the technical field of molecular computing, and in particular relates to a DNA molecular logic gate based on DNAzyme. Background technique [0002] Due to its predictable Watson-Crick base pairing principle and small performance, DNA has excellent data storage capacity and has become a new material with great potential in the field of nanotechnology. So far, DNA has been used to construct logic operations, cascaded networks, and cyclic circuits, and DNA-based computing systems, especially in bioengineering systems, play a vital role in regulating signal amplification and information processing, the above It shows its great potential in the fields of molecular nanoengineering and molecular computing. [0003] Based on sticky end (toehold)-mediated strand displacement reactions, most DNA logic computing systems employ two main mechanisms: non-catalytic circuits and catalytic circuits. In noncatalytic circuits, an input DNA stra...

Claims

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Application Information

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IPC IPC(8): G06N3/12
CPCG06N3/123
Inventor 杨静张成吴燃峰
Owner NORTH CHINA ELECTRIC POWER UNIV (BAODING)
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