Method and apparatus for amplification of nucleic acid sequences by using thermal convection

• US 9,765,376 B2
• Filed: 10/17/2013
• Issued: 09/19/2017
• Est. Priority Date: 09/15/2001
• Status: Expired due to Fees

• Current Assignee: Ahram Biosystems, Inc.
• Original Assignee: Ahram Biosystems, Inc.
• Inventors: Hwang, Hyun Jin, Kim, Jeong Hee, Jeong, Kyunghoon
• Primary Examiner(s): BERTAGNA, ANGELA MARIE
• Application Number:
  US14/056,172
• Publication Number:
  US 20140170707A1
• Time in Patent Office: 1,433 Days
• Field of Search: None
• CPC Class Codes: B01L 2300/1838 using fluid heat transfer medium
• CPC Class Codes: B01L 2300/1883 using thermal insulation
• CPC Class Codes: B01L 2400/0442 thermal energy, e.g. vaporisation, bubble jet
• CPC Class Codes: B01L 2400/0445 Natural or forced convection
• CPC Class Codes: B01L 7/525 with physical movement of samples between temperature zones
• CPC Class Codes: C12P 19/34 Polynucleotides, e.g. nucleic acids, oligoribonucleotides

Abstract

The present invention provides a nucleic acid sequence amplification method and apparatuses thereof that are simple in the design and easy to miniaturize and integrate into complex apparatuses, with capability of using DNA polymerases that are not thermostable. In the present invention, a plurality of heat sources are combined to supply or remove heat from specific regions of the sample such that a specific spatial temperature distribution is maintained inside the sample by locating a relatively high temperature region lower in height than a relatively low temperature region.

Claims

1. A nucleic acid sequence amplification apparatus, which apparatus comprises:

a plurality of heat sources which may supply heat to, or remove heat from a plurality of specific regions in a sample contained in a reaction vessel disposed within the plurality of heat sources,

wherein the plurality of heat sources is arranged to maintain a specific spatial temperature distribution in the sample such that a relatively high temperature region is located lower in height than a relatively low temperature region,

wherein the specific spatial temperature distribution comprises specific spatial regions each fulfilling a temperature condition suitable for (i) a denaturation step in which double strand DNAs become separated to single strand DNAs, (ii) an annealing step in which the single strand DNAs formed in the denaturation step hybridize to primers to form DNA-primer complexes, or (iii) a polymerization step in which the primers in the DNA-primer complexes are extended by the polymerization reaction,

and wherein the specific spatial temperature distribution is a temperature distribution that induces circulation of the sample by thermal convection so that the denaturation, annealing, and polymerization steps occur sequentially and repeatedly inside the sample.

2. The nucleic acid sequence amplification apparatus of claim 1, wherein at least one of the heat sources comprises a thermally conductive solid in thermal contact with a specific region of the reaction vessel or the sample;

and a heating unit that supplies heat to the thermally conductive solid, a cooling unit that removes heat from the thermally conductive solid, or a combination of the heating unit and the cooling unit.

3. The nucleic acid sequence amplification apparatus of claim 1, wherein at least one of the heat sources comprises a liquid in thermal contact with a specific region of the reaction vessel;

a receptor in which the liquid is to be contained; and

a heating unit that supplies heat to the liquid, a cooling unit that removes heat from the liquid, or a combination of the heating unit and the cooling unit.

4. The nucleic acid sequence amplification apparatus of claim 3, wherein at least one of the heat sources further comprises a circulation unit that circulates the liquid around the reaction vessel.

5. The nucleic acid sequence amplification apparatus of claim 1, wherein at least one of the heat sources comprises a gas in thermal contact with a specific region of the reaction vessel;

a heating unit that supplies heat to the gas, a cooling unit that removes heat from the gas, or a combination of the heating unit and the cooling unit; and

a circulation unit that circulates the gas around the reaction vessel.

6. The nucleic acid sequence amplification apparatus of claim 1, wherein at least one of the heat sources is an infrared radiation generating unit that supplies heat directly to the sample.

7. The nucleic acid sequence amplification apparatus of claim 1, further comprising an insulator of heat transfer between the heat sources.

8. The apparatus according to claim 1, wherein one of the heat sources is shaped to comprise at least one protrusion that fits in an opening of the reaction vessel, wherein said protrusion contacts the sample.

9. The apparatus of claim 1, wherein the apparatus further comprises a receptor opening contiguous with the plurality of heat sources that immovably disposes the reaction vessel therein.

10. The apparatus of claim 9, wherein the receptor opening consists of an opening having one end closed.

11. The apparatus of claim 10, wherein the receptor opening further comprises a through hole.

12. A nucleic acid sequence amplification method using polymerase chain reaction (PCR), which method comprises:

injecting into the reaction vessel contain in the nucleic acid sequence amplification apparatus of claim 1, a sample containing a template DNA having at least one target nucleic acid sequence to be amplified, DNA polymerase, deoxyadenosine triphosphate, deoxycytidine triphosphate, deoxyguanosine triphosphate, deoxythymidine triphosphate, and at least two oligonucleotide primers; and

maintaining a specific spatial temperature distribution in the sample by using the plurality of heat sources in the device of claim 1, wherein the heat sources supply heat to, or remove heat from specific regions of the sample such that a relatively high temperature region is located lower in height than a relatively low temperature region,

wherein the specific spatial temperature distribution comprises specific spatial regions each fulfilling a temperature condition suitable for (i) a denaturation step in which double stranded DNAs become separated to single stranded DNAs, (ii) an annealing step in which the single stranded DNAs formed in the denaturation step hybridize to the primers to form DNA-primer complexes, or (iii) a polymerization step in which the primers in the DNA-primer complexes are extended by the polymerization reaction,

and wherein the specific spatial temperature distribution is a temperature distribution that induces circulation of the sample by thermal convection so that the denaturation, annealing, and polymerization steps occur sequentially and repeatedly inside the sample, thereby amplifying the target nucleic acid sequence by PCR.

13. The nucleic acid sequence amplification method of claim 12, wherein at least one of the heat sources comprises a thermally conductive solid in thermal contact with a specific region of the reaction vessel or the sample;

and a heating unit that supplies heat to the thermally conductive solid, a cooling unit that removes heat from the thermally conductive solid, or a combination of the heating unit and the cooling unit.

14. The nucleic acid sequence amplification method of claim 12, wherein at least one of the heat sources comprises a liquid in thermal contact with a specific region of the reaction vessel;

a receptor in which the liquid is to be contained; and

a heating unit that supplies heat to the liquid, a cooling unit that removes heat from the liquid, or a combination of the heating unit and the cooling unit.

15. The nucleic acid sequence amplification method of claim 14, wherein at least one of the heat sources further comprises a circulation unit that circulates the liquid around the reaction vessel.

16. The nucleic acid sequence amplification method of claim 12, wherein at least one of the heat sources comprises a gas in thermal contact with a specific region of the reaction vessel;

a heating unit that supplies heat to the gas, a cooling unit that removes heat from the gas, or a combination of the heating unit and the cooling unit; and

a circulation unit that circulates the gas around the reaction vessel.

17. The nucleic acid sequence amplification method of claim 12, wherein at least one of the heat sources is an infrared radiation generating unit that supplies heat directly to the sample.

18. The nucleic acid sequence amplification method of claim 12, wherein the apparatus of claim 8 further comprises an insulator of heat transfer between the heat sources.

19. The method according to claim 12, wherein one of the heat sources is shaped to comprise at least one protrusion that fits in an opening of the reaction vessel, wherein said protrusion contacts the sample.