Method of using a TAQ DNA polymerase without 5'-3'-exonuclease activity
First Claim
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1. A method for determining the nucleotide base sequence of a DNA molecule, comprising:
- a) hybridizing a primer to a DNA template molecule to be sequenced;
b) extending the primer with a Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity;
c) incorporating a strand terminating nucleotide onto the extended primer under conditions to yield a distinct population of nucleotide fragments beginning on the same nucleotide position for all populations and having a variable terminus at one of the following four nucleotide bases;
A, C, G and T; and
d) separating the synthesized fragments according to their size, whereby at least a part of the nucleotide base sequence of the DNA molecule can be determined.
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Abstract
The present invention is directed to a modified Taq DNA polymerase and methods for its use.
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Citations
46 Claims
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1. A method for determining the nucleotide base sequence of a DNA molecule, comprising:
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a) hybridizing a primer to a DNA template molecule to be sequenced; b) extending the primer with a Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity; c) incorporating a strand terminating nucleotide onto the extended primer under conditions to yield a distinct population of nucleotide fragments beginning on the same nucleotide position for all populations and having a variable terminus at one of the following four nucleotide bases;
A, C, G and T; andd) separating the synthesized fragments according to their size, whereby at least a part of the nucleotide base sequence of the DNA molecule can be determined. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10)
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11. A method for determining the nucleotide base sequence of a DNA molecule, comprising:
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a) hybridizing a primer to a DNA template molecule to be sequenced; b) extending the primer with a Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity; c) incorporating alpha-thiodeoxynucleotides onto the extending primer with the modified Taq DNA polymerase, wherein the extended primer is selectively degraded to yield a distinct population of nucleotide fragments beginning at the same nucleotide position for all populations and having a variable terminus at one of the following four nucleotide bases;
A, C, G and T; andd) separating the synthesized fragments according to size, whereby at least a part of the nucleotide base sequence of the DNA molecule can be determined.
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12. A method for determining the nucleotide base sequence of a DNA molecule, comprising:
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a) hybridizing a primer to a DNA template molecule to be sequenced; b) extending the primer with a Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity; c) incorporating a strand terminating nucleotide onto the extended primer, wherein the determination of the DNA sequence is accomplished by a set of four different sequencing reactions, wherein each sequencing reaction contains a different strand terminating nucleotide which terminates nucleotide synthesis at a specific nucleotide base wherein each reaction yields a distinct population of nucleotide fragments beginning on the same nucleotide position for all populations, but having a variable terminus at one of the following four nucleotide bases;
A, C, G and T; andd) separating the synthesized fragments according to their size, whereby at least a part of the nucleotide base sequence of the DNA molecule can be determined. - View Dependent Claims (13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25)
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26. In an enzymatic CNA synthesis reaction wherein a primer is hybridized to a template DNA template in a reaction catalyzed by a DNA polymerase, the improvement comprising catalyzing the extension of primer with a Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity.
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27. A method of amplifying a DNA sequence comprising:
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(a) annealing a first and second primer to opposite strands of a double stranded DNA template molecule, and (b) thermocycling the annealed mixture with a Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity. - View Dependent Claims (28)
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29. A thermocycling DNA sequencing method comprising one or more repetitions of the following steps:
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a) denaturing the DNA sequence under suitable denaturing conditions to form single-stranded DNA sequence segments; b) annealing the DNA sequence under conditions sufficient to hybridize a primer to a template of a DNA sequence segment; and c) replicating the DNA sequence segment by extending the primer with a Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity.
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30. A method for determining the order in which nucleotide bases are arranged within a length of a nucleic acid strand, comprising:
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a) incubating the nucleic acid strand with a nucleotide triphosphate selected from the group consisting of dATP, dCTP, dGTP, dTTP, and a primer for each sequence; b) incubating the nucleic acid strand at the same time with a Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity for an effective time and at an effective temperature to catalyze the nucleotide triphosphate to form primer extension products complementary to each nucleic acid strand. - View Dependent Claims (31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 42)
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41. A method for labeling DNA molecules comprising:
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a) annealing a primer to a DNA template molecule; and b) incubating a nucleotide in the annealed mixture of step a) with a Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity under effective conditions to incorporate the labeled nucleotide into the DNA molecule.
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43. A method for site-directed in vitro mutagenesis within a DNA sequence comprising annealing a primer containing a desired mutation sequence to a DNA template molecule and extending the primer with a Taq DNA polymerase having a molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity, such that the primer synthesizes a new DNA sequence containing the mutation.
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44. A method for random in vitro mutagenesis within a DNA sequence comprising annealing a primer to the DNA sequence in the presence of a Taq DNA polymerase having a molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity, under conditions in which the DNA sequence is randomly mutated as the new DNA strand is synthesized.
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45. A kit for DNA sequencing, comprising:
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a) Taq DNA polymerase having an apparent molecular weight of about 80,000 daltons and substantially no 5'"'"'-3'"'"' exonuclease activity; and b) a reagent necessary for sequencing. - View Dependent Claims (46)
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Specification