Enzymatic nucleic acid synthesis: compositions and methods for inhibiting pyrophosphorolysis
First Claim
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1. A composition comprising a purified polymerase, a nucleic acid template molecule, and at least one nucleotide compound selected from the group consisting of compounds of the following general formulas:
-
Z—
OPO2—
(OP(EE′
)O)n—
PO2O —
Z′
(e)
Z—
OPO2—
(OP(EE′
)O)nPO2—
Z′
(f)
Z—
PO2—
(OP(EE′
)O)nPO2O—
Z′
(g)
Z—
PO2—
(OP(EE′
)O)nPO2—
Z′
(h)where Z and Z′
are each independently a hydrogen atom or a thermally stable substituent, E and E′
are each independently an oxygen atom or a thermally stable substituent, and n is an integer having a value of at least two.
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Abstract
Nucleotide triphosphate probes containing a molecular and/or atomic tag on a a γ and/or β phosphate group and/or a base moiety having a detectable property are disclosed, and kits and method for using the tagged nucleotides in sequencing reactions and various assay. Also, phosphate and polyphosphate molecular fidelity altering agents are disclosed.
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Citations
21 Claims
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1. A composition comprising a purified polymerase, a nucleic acid template molecule, and at least one nucleotide compound selected from the group consisting of compounds of the following general formulas:
-
Z—
OPO2—
(OP(EE′
)O)n—
PO2O —
Z′
(e)
Z—
OPO2—
(OP(EE′
)O)nPO2—
Z′
(f)
Z—
PO2—
(OP(EE′
)O)nPO2O—
Z′
(g)
Z—
PO2—
(OP(EE′
)O)nPO2—
Z′
(h)where Z and Z′
are each independently a hydrogen atom or a thermally stable substituent, E and E′
are each independently an oxygen atom or a thermally stable substituent, and n is an integer having a value of at least two. - View Dependent Claims (5, 6, 7, 8)
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2. A method for performing a nucleotide incorporation, comprising:
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forming a nucleotide polymerization reaction mixture including a polymerase, a template nucleic acid molecule, and a nucleotide analog selected from the group consisting of nucleotide compounds having the following general formulas;
Z—
OPO2—
(OP(EE′
)O)n—
PO2O —
Z′
(e)
Z—
OPO2—
(OP(EE′
)O)nPO2—
Z′
(f)
Z—
PO2—
(OP(EE′
)O)nPO2O—
Z′
(g)
and
Z—
PO2—
(OP(EE′
)O)nPO2—
Z′
(h)where Z and Z′
are each independently a hydrogen atom or a thermally stable substituent, E and E′
are each independently an oxygen atom or a thermally stable substituent, and n is an integer having a value of at least 2; andincorporating the nucleotide analog into a nascent nucleic acid molecule in a template-dependent manner using the polymerase.
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3. A method for nucleotide incorporation, comprising:
- forming a sequencing reaction mixture including a template nucleic acid molecule, a polymerase and at least one nucleotide compound having a formula selected from the group consisting of;
Z—
OPO2—
(OP(EE′
)O)n—
PO2O —
Z′
(e)
Z—
OPO2—
(OP(EE′
)O)nPO2—
Z′
(f)
Z—
PO2—
(OP(EE′
)O)nPO2O—
Z′
(g)
and
Z—
PO2—
(OP(EE′
)O)nPO2—
Z′
(h)where Z and Z′
are each independently a hydrogen atom or a thermally stable substituent, E and E′
are each independently an oxygen atom or a thermally stable substituent, and n is an integer having a value of at least 2;incorporating one or more nucleotide compounds of the sequencing reaction mixture into a nascent nucleic acid molecule in a template-dependent manner using the polymerase; detecting a signal that indicates the incorporation of at least one of the nucleotide compounds into the nascent nucleic acid molecule by the polymerase. - View Dependent Claims (4, 9, 10, 11, 12)
- forming a sequencing reaction mixture including a template nucleic acid molecule, a polymerase and at least one nucleotide compound having a formula selected from the group consisting of;
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13. A method for performing a nucleotide incorporation, comprising:
- contacting a polymerase with a template nucleic acid molecule and a nucleotide including a polyphosphate chain including at least four phosphate groups, and incorporating the nucleotide into a nascent nucleic acid molecule in a template-dependent manner using the polymerase.
- View Dependent Claims (14, 15, 16, 17, 18, 19, 20, 21)
Specification