Lesion repair polymerase compositions

• US 20050196392A1
• Filed: 02/18/2005
• Published: 09/08/2005
• Est. Priority Date: 02/20/2004
• Status: Abandoned Application

• Current Assignee: Applied Biosystems LLC (Thermo Fisher Scientific Incorporated)
• Original Assignee: Applied Biosystems LLC (Thermo Fisher Scientific Incorporated)
• Inventors: Andersen, Mark R.
• Application Number:
  US11/061,099
• Publication Number:
  US 20050196392A1
• Time in Patent Office: Days
• US Class Current: 424/94.61
• CPC Class Codes: C12N 9/1252 DNA-directed DNA polymerase (2.7.7.7), i.e. DNA replicase
• CPC Class Codes: C12Q 1/686 Polymerase chain reaction [PCR]
• CPC Class Codes: C12Q 2521/101 DNA polymerase
• CPC Class Codes: C12Q 2527/149 Concentration of an enzyme

Abstract

Compositions comprising at least two polymerases, including a lesion repair polymerase, are provided. Methods for producing primer extension products using at least two polymerases, including a lesion repair polymerase, are also provided. Kits for producing primer extension products comprising at least two polymerases, including a lesion repair polymerase, are also provided.

Claims

1. A composition comprising at least one lesion repair polymerase and at least one second polymerase.

2. The composition of claim 1, wherein the at least one second polymerase is not a lesion repair polymerase.

3. The composition of claim 1, wherein at least one of the at least one second polymerase is thermostable.

4. The composition of claim 3, wherein at least one of the at least one lesion repair polymerase is thermostable.

5. The composition of claim 1, wherein at least one of the at least one lesion repair polymerase is an X family polymerase.

6. The composition of claim 5, wherein the X family polymerase is selected from DNA polymerase β

, DNA polymerase λ

, DNA polymerase σ

, DNA polymerase μ

, DpoB, TDT, and ASFV polymerase X.

7. The composition of claim 1, wherein at least one of the at least one lesion repair polymerase is a Y family polymerase.

8. The composition of claim 7, wherein the Y family polymerase is selected from DNA polymerase η

, DNA polymerase I, DNA polymerase κ

, Rev 1, Rad 30, DinB, UmuC, UmuD2C, UmuD′

2C, Dpo4, Dbh, and bacterial DNA pol II.

9. The composition of claim 1, wherein the at least one lesion repair polymerase is one lesion repair polymerase and wherein the at least one second polymerase is one second polymerase.

10. The composition of claim 9, wherein the lesion-repair polymerase and the second polymerase are present at a weight ratio from 1:

4999 to 1;

99.

11. The composition of claim 9, wherein the lesion-repair polymerase and the second polymerase are present at a weight ratio of 1:

99 to 50;

50.

12. The composition of claim 9, wherein the lesion-repair polymerase and the second polymerase are present at a weight ratio from 50:

50 to 99;

1.

13. The composition of claim 9, wherein the lesion-repair polymerase and the second polymerase are present at a unit ratio from 1:

4999 to 1;

99.

14. The composition of claim 9, wherein the lesion-repair polymerase and the second polymerase are present at a unit ratio from 1:

99 to 50;

50.

15. The composition of claim 9, wherein the lesion-repair polymerase and the second polymerase are present at a unit ratio from 50:

50 to 99;

1.

16. The composition of claim 1, wherein the at least one lesion-repair polymerase is one lesion-repair polymerase and wherein the at least one second polymerase is two second polymerases.

17. The composition of claim 16, wherein at least one of the two second polymerases is thermostable.

18. The composition of claim 17, wherein the two second polymerases are Taq (G46D;

F667Y;

E681I) and Taq (G46D;

F667Y;

T664N;

R660G).

19. The composition of claim 18, wherein the unit ratio of Taq (G46D;

F667Y;

E681I) and Taq (G46D;

F667Y;

T664N;

R660G) is from 1;

99 to 50;

50.

20. The composition of claim 18, wherein the unit ratio of Taq (G46D;

F667Y;

E681I) and Taq (G46D;

F667Y;

T664N;

R660G) is from 50;

50 to 99;

1.

21. The composition of claim 16, wherein the weight ratio of the lesion-repair polymerase to the two second polymerases is from 1:

4999 to 1;

99.

22. The composition of claim 16, wherein the weight ratio of the lesion-repair polymerase to the two second polymerases is from 1:

99 to 50;

50.

23. The composition of claim 16, wherein the weight ratio of the lesion-repair polymerase to the two second polymerases is from 50:

50 to 99;

1.

24. The composition of claim 16, wherein the unit ratio of the lesion-repair polymerase to the two second polymerases is from 1:

4999 to 1;

99.

25. The composition of claim 16, wherein the unit ratio of the lesion-repair polymerase to the two second polymerases is from 1:

99 to 50;

50.

26. The composition of claim 16, wherein the unit ratio of the lesion-repair polymerase to the two second polymerases is from 50:

50 to 99;

1.

27. The composition of claim 1, further comprising a target nucleic acid.

28. The composition of claim 27, wherein the target nucleic acid is a lesion-containing target nucleic acid.

29. The composition of claim 1, further comprising at least one primer and at least one extendable nucleotide.

30. The composition of claim 28, further comprising at least one of a terminator, a buffering agent, and an additive.

31. A method of amplifying a lesion-containing target nucleic acid comprising incubating the lesion-containing target nucleic acid with at least one primer, at least one extendable nucleotide, at least one lesion-repair polymerase, and at least one second polymerase under conditions to generate at least one primer extension product.

32-56. -56. (canceled)

57. A method of sequencing a lesion-containing target nucleic acid comprising:

(a) incubating the lesion-containing target nucleic acid with at least one primer, at least one extendable nucleotide, at least one terminator, at least one lesion repair polymerase, and at least one second polymerase, under conditions to generate at least one primer extension product comprising a terminator;

(b) separating the at least one primer extension product comprising a terminator;

(c) detecting at least one of the at least one primer extension product comprising a terminator; and

(d) determining the sequence of the lesion-containing target nucleic acid.

58-84. -84. (canceled)

85. A method of genotyping a lesion-containing target nucleic acid comprising:

(a) incubating the lesion-containing target nucleic acid with at least one primer, at least one extendable nucleotide, at least one lesion repair polymerase, and at least one second polymerase, under conditions to generate at least one primer extension product;

(b) separating the at least one primer extension product;

(c) detecting the at least one primer extension product; and

(d) determining the genotype of the lesion-containing target nucleic acid.

86-194. -194. (canceled)

195. A kit comprising at least one lesion repair polymerase and at least one second polymerase.

196. The kit of claim 195, wherein at least one of the at least one lesion repair polymerase is an X family polymerase.

197. The kit of claim 196, wherein the X family polymerase is selected from DNA polymerase β

, DNA polymerase λ

, DNA polymerase σ

, DNA polymerase μ

, DpoB, TDT, and ASFV polymerase X.

198. The kit of claim 195, wherein at least one of the at least one lesion repair polymerase is a Y family polymerase.

199. The kit of claim 198, wherein the Y family polymerase is selected from DNA polymerase η

, DNA polymerase I, DNA polymerase κ

, Rev 1, Rad 30, DinB, UmuC, UmuD2C, UmuD′

2C, Dpo4, Dbh, and bacterial DNA pol II.

200. The kit of claim 195, wherein at least one of the at least one second polymerase is thermostable.

201. The kit of claim 195, wherein the at least one second polymerase is two second polymerases.

202. The kit of claim 201, wherein at least one of the two second polymerases is thermostable.

203. The kit of claim 202, wherein the two second polymerases are Taq (G46D;

F667Y;

E681I) and Taq (G46D;

F667Y;

T664N;

R660G).

204. The kit of claim 195, further comprising at least one of a terminator, a buffering agent, a divalent cation, and an additive.