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DNA molecular logic gate based on DNA Origami and construction method thereof

A technology of DNA molecules and construction methods, applied in the field of DNA molecular logic gates and their construction based on DNAOrigami, can solve problems such as hindering the development of sensing systems and difficult logic operations

Active Publication Date: 2017-09-01
NORTH CHINA ELECTRIC POWER UNIV (BAODING)
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

In addition, in most previous nanosystems assembled with nanoparticles and DNA origami, it is very difficult to realize the logic operation of multiple inputs at the same time, which greatly hinders the development of DNA origami-based sensing systems.

Method used

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  • DNA molecular logic gate based on DNA Origami and construction method thereof
  • DNA molecular logic gate based on DNA Origami and construction method thereof
  • DNA molecular logic gate based on DNA Origami and construction method thereof

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0060] Embodiment 1: Two-input OR (OR) logic gate

[0061] (1) Mix 1.6nM M13mp18 chain (circular chain of about 7000 bases) with 202 short staple chains (Table 1) in a ratio of 1:10 in 1×TAE / Mg2+ buffer, and start from 90 Anneal to room temperature at ℃, assemble into a DNA Origami-1 template, and three helper chains a1, b1, c1 are extended from specific positions on the surface of the DNA Origami-1 template;

[0062] (2) The thiolated DNA strand a1' combines with 15nm gold particles (AuNP) to form DP-A conjugates; the thiolated DNA strands b1' and c1' combine with 5nm gold particles (AuNP) respectively to form DP-B and DP-C conjugates; wherein, chains a1', b1', c1' can recognize helper chains a1, b1, c1 respectively;

[0063] (3) DNA Origami-1 template in step (1) hybridizes with DP-B and DP-C conjugates in step (2) to form AuNP / origami conjugates (product I), such as figure 1 a;

[0064] (4) Add DNA input strands to step (3), and implement logic operations by selectively ...

Embodiment 2

[0068] Embodiment 2: Two-input AND (AND) logic gate

[0069] (1) Same as the steps in Example 1, the difference is that it is assembled into a DNA Origami-2 template, and three helper chains a1, d1, e1 are extended from specific positions on the surface of the DNA Origami-2 template;

[0070] (2) The thiolated DNA chain a1' is combined with 15nm gold particles (AuNP) to form a DP-A conjugate; the thiolated DNA chain d1', e1', 5nm gold particles (AuNP) are in accordance with the ratio of 1:1:1 The molar ratio is combined to form a DP-DE-1 conjugate; wherein, the chain a1', d1', e1' can recognize the helper chain a1, d1, e1 respectively;

[0071] (3) The DNA Origami-2 template in step (1) hybridizes with the DP-A, DP-DE-1 conjugate in step (2), and the conjugate NP-DE-1 and origami-2 pass through the chain d1' / e1' hybridized with d1 / e1 and connected together, and NP-A as a reference was also connected on the surface of origami-2 to form an AuNP / origami conjugate (product V) as ...

Embodiment 3 3

[0078] Embodiment 3 Three-input AND (AND) logic gate

[0079] (1) Mix 1.6nM M13mp18 chain (circular chain of about 7000 bases) with 202 short staple chains at a ratio of 1:10 in 1×TAE / Mg2+ buffer, and anneal from 90°C to room temperature , assembled into a DNA Origami-3 template, and two helper strands f1, g1 are extended from specific positions on the surface of the DNA Origami-3 template;

[0080] (2) The thiolated DNA chain f1′, the thiolated DNA chain T1 and the 15nm gold particles AuNP form a conjugate NP-M according to the molar ratio of 1:1:1; the thiolated DNA chain g1′, the thiolated DNA chain T2 Form the conjugate NP-N with 15nm gold particles AuNP according to the molar ratio of 1:1:1;

[0081] (3) DNA Origami-3 template in step (1), DP-M and DP-N conjugates in step (2) hybridize with bridge strand T to form AuNP / origami conjugates (product VII);

[0082] (4) Add DNA input strands to step (3), and implement logic operations by selectively releasing AuNPs using str...

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Abstract

The invention belongs to the field of molecular computation, and particularly relates to a DNA molecular logic gate based on DNA Origami and a construction method thereof. The logic gate comprises an input signal, a signal converter and an output signal; the signal converter includes a DNA Origami template, a helper chain positioned on the DNA Origami template, and a DNA / AuNP conjugate that can be identified and connected with the helper chain; and the output signal is provided for releasing the DNA / AuNP conjugate from the DNA Origami template. According to the DNA molecular logic gate based on the DNA Origami and the construction method thereof disclosed by the invention, the selective and dynamic release to gold particles is implemented by a special DNA signal on the DNA Origami, and thus, the operation of the logic gate is implemented; moreover, by employing a gold particle dimer connected by the DNA chain, the operation of simultaneously imputing three input chains for the logic gate is implemented. The DNA molecular logic gate and the construction method thereof provide a concept to construct complex molecular circuit and nano device; and through combining with various nano engineering strategies, the DNA molecular logic gate and the construction method thereof can be used for assembling a large programmable structure, and also pave a road for sensitivity detection of various molecular conformations.

Description

technical field [0001] The invention belongs to the field of molecular computing, and in particular relates to a DNA molecular logic gate based on DNA Origami and a construction method thereof. Background technique [0002] In recent years, DNA self-assembly has become a powerful tool for constructing nanostructures, and it has a wide range of applications in the construction of various 2D and 3D structures, including planar arrays, cylindrical tubes, and various geometric shapes. DNAorigami was first discovered by Rothemund. He formed a preliminary nanostructure by hybridizing a long DNA single strand M13 with hundreds of short DNA helper strands, providing researchers with an efficient DNA nanostructure with well-defined shape and size. method of structure. Now, DNA origami has been applied in various fields such as molecular signal sensing and logic computing. Gold particles have unique structural and optical properties, and a method to fully control the assembly of gol...

Claims

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Application Information

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Patent Type & Authority Applications(China)
IPC IPC(8): H03K19/20G06F19/20
CPCG16B25/00H03K19/20
Inventor 杨静张成吴燃峰宋智超
Owner NORTH CHINA ELECTRIC POWER UNIV (BAODING)
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