Enzyme-amplified redox microarray detection process

• US 10,539,561 B1
• Filed: 08/30/2001
• Issued: 01/21/2020
• Est. Priority Date: 08/30/2001
• Status: Active Grant

• Current Assignee: CustomArray, Inc. (Genscript Biotech Corp.)
• Original Assignee: CustomArray, Inc. (Genscript Biotech Corp.)
• Inventors: Dill, Kilian
• Primary Examiner(s): Brown, Melanie
• Assistant Examiner(s): Moerschell, Richard
• Application Number:
  US99/447,27
• Time in Patent Office: 6,718 Days
• Field of Search: 422 8201- 8204, 435 6, 435 771
• CPC Class Codes: C12Q 1/6825 Nucleic acid detection involving sensors
• CPC Class Codes: G01N 33/53 Immunoassay; Biospecific binding assay; Materials therefor
• CPC Class Codes: G01N 33/54353 with ligand attached to the carrier via a chemical coupling agent coatings G01N33/54393
• CPC Class Codes: G01N 33/5438 Electrodes

Abstract

There is disclosed a process and an array for assaying for binding of target molecules to capture molecules on micro array devices, wherein the microarray devices contain electrodes. Specifically, there is disclosed a binding (including nucleotide hybridization) process to detect binding on a microarray wherein the microarray contains electronically addressable electrode devices. There is further disclosed an enzymatically catalyzed oxidation/reduction reaction to take place within a “virtual flask” region of a micro array wherein the reaction is detected by current changes detected on the addressable electrode.

Claims

1. A method for detecting binding of a target molecule to a capture molecule on a microarray device, comprising the steps of:

(a) receiving the microarray device with a surface including;

a plurality of independently addressable electrodes;

(b) covering the surface with a porous reaction layer;

(c) attaching using in situ synthesis electrochemical techniques, a plurality of capture molecules to the porous reaction layer at sites over the plurality of independently addressable electrodes;

(d) contacting the microarray device with a plurality of target molecules which include;

an oxidation/reduction enzymatic moiety attached to one or more molecules selected from the group consisting of antibody, anti-idiotype antibody, antigen, biotin, avidin and streptavidin; and

a substrate molecule in solution proximate to the oxidation/reduction enzymatic moiety, where the substrate molecule creates a local voltage signal when catalyzed by the oxidation/reduction enzymatic moiety through local generation of electrochemical reagents;

(e) applying an amperometric potential to one or more selected electrodes from the plurality of independently addressable electrodes;

(f) measuring a current while applying the amperometric potential of step (e) on the plurality of independently addressable electrodes;

(g) waiting a period of time for the current to level off;

(h) comparing the current measured in step (f) after the period of time specified in step (g) at the plurality of independently addressable electrodes to determine sites having one or more of the plurality of target molecules bound to one or more of the plurality of capture molecules and sites not having one or more of the plurality of target molecules bound to any of the plurality of capture molecules;

(i) determining a current difference at the sites having one or more of the plurality of target molecules bound to one or more of the plurality of capture molecules compared with the sites not having one or more of the plurality of target molecules bound to any of the plurality of capture molecules; and

(j) using the current difference measured in step (i) to determine binding of one or more of the plurality of target molecules to one or more of the plurality of capture molecules.

2. The method of claim 1, wherein the oxidation/reduction enzymatic moiety is selected from the group consisting of laccase, horseradish peroxidase, ß

-galactosidase, glucose oxidase, alkaline phosphatase, dehydrogenases, and combinations thereof.

3. The method of claim 1, wherein the target molecules are selected from the group consisting of DNA, RNA, single-stranded DNA, ribosomal RNA, mitochondrial DNA, cellular receptors, glycosylated membrane-bound proteins, non-glycosylated membrane-bound proteins), polypeptides, glycosylated polypeptides, antibodies, cellular antigenic determinants, organic molecules, metal ions, salt anions and cations, and combinations thereof.

4. The method of claim 1, wherein the oxidation/reduction enzymatic moiety comprises a first antibody attached to an end of the target molecules, an antigen attached to the first antibody, a second antibody attached to the antigen, a streptavidin-biotin complex or an avidin-biotin complex attached to the second antibody, and an oxidation/reduction enzyme attached to the steptavidin-biotin complex or the avidin-biotin complex.

5. The method of claim 1, where the porous reaction layer has a thickness of between:

a lower limit of approximately 0.1 microns; and

an upper limit of approximately 10 microns.

6. The method of claim 1, where the period of time is 2 minutes.

7. A method of detecting binding of a target molecule to a capture molecule, comprising:

(a) receiving a Complimentary Metal Oxide Semiconductor (CMOS) microarray including;

parallel addressing for applying a potential at a plurality of addressable electrodes;

a porous reaction layer attached to the CMOS microarray between 0.1 microns and 10 microns in thickness; and

a plurality of oligonucleotide capture molecules attached to the porous reaction layer at sites over the plurality of addressable electrodes, where the plurality of oligonucleotide capture molecules has a first sequence;

(b) exposing the plurality of oligonucleotide capture molecules to target molecules including;

an oxidation/reduction enzymatic moiety that is attached to a streptavidin moiety; and

a biotinylated oligonucleotide substrate molecule in solution proximate to the oxidation/reduction enzymatic moiety, where the biotinylated oligonucleotide substrate molecule has a second sequence, where the second sequence is complementary to the first sequence;

(c) applying an amperometric potential to one or more selected electrodes from the plurality of addressable electrodes;

(d) measuring a current while applying the amperometric potential of step (c) on the plurality of addressable electrodes;

(e) waiting a period of time for the current to level off;

(f) comparing the current measured in step (d) after the period of time specified in step (e) at the plurality of addressable electrodes to determine sites having the target molecules bound to one or more of the plurality of oligonucleotide capture molecules and sites not having target molecules bound to the plurality of oligonucleotide capture molecules;

(g) measuring a current difference at the sites having the target molecules bound to the plurality of oligonucleotide capture molecules compared with the sites not having target molecules bound to the plurality of oligonucleotide capture molecules; and

(h) using the current difference measured in step (g) to determine binding of a target molecule to an oligonucleotide capture molecule.

8. The method of claim 7, where the oxidation/reduction enzymatic moiety is one or more enzymes selected from the group consisting of laccase, horseradish peroxidase, ß

-galactosidase, glucose oxidase, alkaline phosphatase and dehydrogenases.

9. The method of claim 7, where the period of time is 2 minutes.

10. A method for detecting a voltage signal difference between sites having a target molecule and sites not having the target molecule, comprising:

(a) receiving a Complimentary Metal Oxide Semiconductor (CMOS) microarray including;

parallel addressing for applying a potential at a plurality of addressable electrodes;

a porous reaction layer attached to the CMOS microarray; and

a plurality of oligonucleotide capture molecules attached to the porous reaction layer at sites over the plurality of addressable electrodes, where the plurality of oligonucleotide capture molecules has a first sequence;

(b) exposing the plurality of oligonucleotide capture molecules to one or more target molecules, where the one or more target molecules include;

an oxidation/reduction enzymatic moiety that is attached to a streptavidin moiety; and

a biotinylated oligonucleotide substrate molecule in solution proximate to the oxidation/reduction enzymatic moiety, where the biotinylated oligonucleotide substrate molecule has a second sequence, where the second sequence is complementary to the first sequence;

(c) adding a substrate for the oxidation/reduction enzymatic moiety, where the substrate and the oxidation/reduction enzymatic moiety create a local voltage to one or more selected electrodes from the plurality of addressable electrodes;

(d) measuring a current while applying the amperometric potential of step (c) on the plurality of addressable electrodes;

(e) waiting a period of time for the current to level off;

(f) comparing the current measured in step (d) after the period of time specified in step (e) at the plurality of addressable electrodes to determine sites having the one or more target molecules bound to one or more of the plurality of oligonucleotide capture molecules and sites not having one or more target molecules bound to the plurality of oligonucleotide capture molecules;

(g) measuring a current difference at the sites having the one or more target molecules bound to the plurality of oligonucleotide capture molecules compared with the sites not having the one or more target molecules bound to the plurality of oligonucleotide capture molecules; and

(h) using the current difference measured in step (g) to determine binding of a target molecule to an oligonucleotide capture molecule.

11. The method of claim 10, where the oxidation/reduction enzymatic moiety is one or more enzymes selected from the group consisting of laccase, horseradish peroxidase, ß

-galactosidase, glucose oxidase, alkaline phosphatase and dehydrogenases.

12. The method of claim 10, where the one or more target molecules are one or more species selected from the group consisting of DNA, RNA, single-stranded DNA, ribosomal RNA, mitochondrial DNA, cellular receptors, glycosylated membrane-bound proteins, non-glycosylated membrane-bound proteins), polypeptides, glycosylated polypeptides, antibodies, cellular antigenic determinants, organic molecules, metal ions, salt anions and cations.

13. The method of claim 10, where the porous reaction layer has a thickness of between:

a lower limit of approximately 0.1 microns; and

an upper limit of approximately 10 microns.

14. The method of claim 10, where the period of time is 2 minutes.