Molecular computing component and method of molecular computing

Patent metadata

Field	Value
Publication number	US-11180797-B2
Application number	US-201615998743-A
Country	US
Kind code	B2
Filing date	Feb 16, 2016
Priority date	Feb 16, 2016
Publication date	Nov 23, 2021
Grant date	Nov 23, 2021

Abstract

An object is to provide a component for molecular Computing and a method of molecular Computing. A component for molecular Computing, the component comprising: a microsphere including pores, at least some of which are open on a surface of the microsphere, and a plurality of modules grafted on the microsphere wherein each of the modules is a continuous séquence of nucleic acid base. A method of molecular Computing with a component comprising a microsphere including pores, at least some of which are open on a surface of the microsphere, and a plurality of modules grafted on the microsphere wherein each of the modules is a DNA strand, the method comprising steps of: designing the modules to create a molecular program! attaching the modules to the microsphere! bringing the microsphere into contact with a solution containing a mixture of enzymes! and incubating the microsphere with the modules at a constant température so that DNA production and exchange happen locally between the grafted modules according to the molecular program.

First claim

The invention claimed is:

1. A component for detection of molecular targets, the component comprising:
a microsphere including pores, at least some of which are open on a surface of the microsphere, and
a plurality of modules attached to the microsphere wherein each of the modules is a continuous sequence of nucleic acid bases, and multiple copies of each of the modules are attached to the microsphere,
wherein the modules include a first and a second module, the first module is an amplification template and includes a partial repeat structure and a nicking enzyme recognition site, and the second module is a leak absorption template having a nucleic acid sequence, a 3′ end that is complementary to a sequence amplified by the amplification template and a 5′ end that is a sequence tail of one to six nucleotides, and
wherein the modules include a target-conversion module as a third module having a nucleic acid sequence, a 5′ end that is at least partially complementary to the amplified sequence, a nicking enzyme recognition site and a 3′ end that is complementary to a target nucleic acid sequence.

2. The component according to claim 1 , wherein the plurality of modules attached on the microsphere locally cooperate to sense chemical signals in their environment, compute a response and generate a reporting signal.

3. The component according to claim 2 , wherein the component comprises a plurality of the microspheres, and the microspheres concurrently exist in an identical sample.

4. The component according to claim 3 , wherein the microspheres are of different types, and each of the microspheres has a distinct combination of modules, thereby each of the microspheres performs a different sensing function.

5. The component according to claim 4 , wherein the different types of microspheres can be distinguished by fluorescent labels grafted thereon.

6. The component according to claim 1 , wherein a sensing function is performed cooperatively by a combination of the modules attached to the microsphere, the modules cooperate on the microsphere through exchanges of short DNA strands and independent functioning of microspheres is obtained without requirement of physical compartments.

7. The component according to claim 1 , wherein the component comprises a plurality of the microspheres, each of the microspheres performs its sensing function independently in a unique solution.

8. The component according to claim 1 wherein at least one of the modules include a reporter.

9. The component according to claim 1 , wherein at least one of the modules include a fluorescent label.

10. The component according to claim 1 , wherein at least one of the modules has one or more biotin modification at one extremity, the microsphere is coated with streptavidin, and the module is immobilized on the microsphere via biotin-streptavidin linkage.

11. The component according to claim 1 , wherein at least one of the modules bears other modifications selected from the group consisting of linkers, spacers, exonuclease-protecting modifications, fluorescent modifications, nucleobase modifications and backbone modifications.

12. The component according to claim 1 , wherein the microsphere is made of hydrogel.

Assignees

• Univ Tokyo
• Centre Nat Rech Scient
• The Foundation For The Promotion Of Ind Science

Inventors

• Gines Guillaume
• Rondelez Yannick
• Fujii Teruo

Classifications

• C12Q2521/319

  Exonuclease · CPC title

• C12Q2521/101

  DNA polymerase · CPC title

• C12Q1/6846 Primary

  Common amplification features · CPC title

• C12Q2521/301

  Endonuclease · CPC title

• C12Q2565/537

  characterised by the capture oligonucleotide acting as a primer · CPC title