Thermostable DNA polymerases incorporating nucleoside triphosphates labeled with fluorescein family dyes
First Claim
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1. A recombinant thermostable DNA polymerase which is characterized in that a) in its native form said polymerase comprises the amino acid sequence LeuSerXaaXaaLeuXaaXaaProXaaXaaGlu (SEQ ID NO:
- 1), whereby “
Xaa”
at positions 3, 4, 6, 9, and 10 of said sequence are any amino acid residue, and “
Xaa”
at position 7 of said sequence is Val or Ile;
b) said “
Xaa”
at position 4 is mutated in comparison to said native sequence, except that “
Xaa”
at position 4 is not mutated to Glu; and
c) said thermostable DNA polymerase has a level of discrimination against incorporation of nucleotides labeled with fluorescein family dyes which is reduced in comparison to the native form of said polymerase.
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Abstract
Modified thermostable DNA polymerases having enhanced efficiency for incorporating unconventional nucleotides such as those labeled with fluorescein family dyes are advantageous in many in vitro DNA synthesis applications. Such enzymes are particularly useful for use in chain termination nucleic acid sequencing protocols, as are native forms of such enzymes. Genes encoding the modified enzymes and methods for their production and use offer cost and efficiency advantages for DNA sequencing.
38 Citations
54 Claims
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1. A recombinant thermostable DNA polymerase which is characterized in that
a) in its native form said polymerase comprises the amino acid sequence LeuSerXaaXaaLeuXaaXaaProXaaXaaGlu (SEQ ID NO: - 1), whereby “
Xaa”
at positions 3, 4, 6, 9, and 10 of said sequence are any amino acid residue, and “
Xaa”
at position 7 of said sequence is Val or Ile;
b) said “
Xaa”
at position 4 is mutated in comparison to said native sequence, except that “
Xaa”
at position 4 is not mutated to Glu; and
c) said thermostable DNA polymerase has a level of discrimination against incorporation of nucleotides labeled with fluorescein family dyes which is reduced in comparison to the native form of said polymerase. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10)
- 1), whereby “
-
11. A nucleic acid sequence encoding a recombinant thermostable DNA polymerase which is characterized in that
a) in its native form said polymerase comprises the amino acid sequence LeuSerXaaXaaLeuXaaXaaProXaaXaaGlu (SEQ ID NO: - 1), whereby “
Xaa”
at positions 3, 4, 6, 9, and 10 of said sequence are any amino acid residue, and “
Xaa”
at position 7 of said sequence is Val or Ile;
b) said “
Xaa”
at position 4 is mutated in comparison to said native sequence, except that “
Xaa”
at position 4 is not mutated to Glu; and
c) said thermostable DNA polymerase has a level of discrimination against incorporation of nucleotides labeled with fluorescein family dyes which is reduced in comparison to the native form of said polymerase. - View Dependent Claims (12, 13, 14, 15, 16, 17, 18, 19, 20)
- 1), whereby “
-
21. A method of DNA sequencing which comprises
a) providing a thermostable DNA polymerase characterized in that i) said polymerase comprises the amino acid sequence LeuSerXaaXaaLeuXaaXaaProXaaXaaGlu (SEQ ID NO: - 1), whereby “
Xaa”
at positions 3, 6, 9, and 10 of this sequence are any amino acid residue, and “
Xaa”
at position 4 can be any amino acid except Glu, and “
Xaa”
at position 7 of this sequence is Val or Ileii) said polymerase has a reduced level of discrimination against incorporation of nucleotides labeled with fluorescein family dyes, and b) providing a dye-terminator labeled with a negatively charged fluorescent dye, and c) performing a dye-terminator sequencing reaction. - View Dependent Claims (22, 23, 24, 25, 26, 27, 28, 29, 30)
- 1), whereby “
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31. A method of producing labeled DNA which comprises:
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a) providing a thermostable DNA polymerase characterized in that i) said polymerase comprises the amino acid sequence LeuSerValXaaLeuGlyXaaProValLysGlu (SEQ ID NO;
4), whereby “
Xaa”
at position 4 can be any amino acid except Glu, and “
Xaa”
at position 7 of this sequence is Val or Ile.ii) said polymerase has a reduced level of discrimination against incorporation of nucleotides labeled with fluorescein family dyes;
b) providing a nucleotide labeled with a fluorescein family dye, and c) performing a DNA synthesis reaction.
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32. A method of producing labeled primer extension products which comprises:
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a) providing a thermostable DNA polymerase characterized in that i) said polymerase comprises the amino acid sequence LeuSerValXaaLeuGlyXaaProValLysGlu (SEQ ID NO;
4), whereby “
Xaa”
at position 4 can be any amino acid except Glu, and “
Xaa”
at position 7 of this sequence is Val or Ile.ii) said polymerase has a reduced level of discrimination against incorporation of nucleotides labeled with fluorescein family dyes;
iii) said polymerase also comprises the second amino acid sequence SQIXLR(V/I) (SEQ ID NO;
18) where “
X”
is any amino acid except E,iv) said polymerase has reduced discrimination against incorporation of ribonucleotides labeled with fluorescein family dyes;
b) providing a ribonucleotide labeled with a fluorescein family dye, and c) performing a primer extension reaction.
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33. A kit for DNA sequencing which comprises
a) a thermostable DNA polymerase characterized in that i) said polymerase comprises the amino acid sequence LeuSerXaaXaaLeuXaaXaaProXaaXaaGlu (SEQ ID NO: - 1), whereby “
Xaa”
at positions 3, 6, 9, and 10 of this sequence are any amino acid residue, and “
Xaa”
at position 4 can be any amino acid except Glu, and “
Xaa”
at position 7 of this sequence is Val or Ileii) said polymerase has reduced discrimination against incorporation of nucleotides labeled with fluorescein family dyes, and b) a terminator labeled with negatively-charged fluorescent dye. - View Dependent Claims (34, 35, 36, 37, 38, 40, 41, 42, 43, 44, 46, 47, 48, 49)
- 1), whereby “
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39. A kit for DNA sequencing which comprises
a) a mutant thermostable DNA polymerase characterized in that i) in its native form said polymerase comprises the amino acid sequence LeuSerXaaXaaLeuXaaXaaProXaaXaaGlu (SEQ ID NO: - 1), whereby “
Xaa”
at positions 3, 4, 6, 9, and 10 of this sequence are any amino acid residue, and “
Xaa”
at position 7 of this sequence is Val or Ileii) said amino acid sequence is mutated, except that “
Xaa”
at position 4 is not mutated to Glu; and
iii) said thermostable DNA polymerase has a level of discrimination against incorporation of nucleotides labeled with fluorescein family dyes which is reduced in comparison to the native form of said polymerase.
- 1), whereby “
-
45. A kit for producing labeled DNA which comprises
a) a thermostable DNA polymerase characterized in that i) said polymerase comprises the amino acid sequence LeuSerXaaXaaLeuXaaXaaProXaaXaaGlu (SEQ ID NO: - 7), whereby “
Xaa”
at positions 3, 6, 9, and 10 of this sequence are any amino acid residue, and “
Xaa”
at position 4 can be any amino acid except Glu, and “
Xaa”
at position 7 of this sequence is Val or Ileii) said polymerase has reduced discrimination against incorporation of nucleotides labeled with fluorescein family dyes, and b) a nucleotide labeled with a negatively-charged fluorescent dye.
- 7), whereby “
-
50. A kit for producing labeled primer extension products which comprises
a) a thermostable DNA polymerase which is characterized in that i) in its native form, the polymerase comprises the first amino acid sequence LeuSerXaaXaaLeuXaaXaaProXaaXaaGlu (SEQ ID NO: - 1), whereby “
Xaa”
at positions 3, 6, 9, and 10 of this sequence are any amino acid residue, and “
Xaa”
at position 4 can be any amino acid except Glu, and “
Xaa”
at position 7 of this sequence is Val or Ile;
ii) the polymerase has reduced discrimination against incorporation of nucleotides labeled with fluorescein family dyes;
iii) the polymerase also comprises the second amino acid sequence SQIXLR(V/I) where “
X”
is any amino acid except;
iv) the polymerase has reduced discrimination against incorporation of ribonucleotides labeled with fluorescein family dyes; and
b) a ribonucleotide labeled with a fluorescein family dye. - View Dependent Claims (51, 52, 53, 54)
- 1), whereby “
Specification