Detection of nucleic acid sequences by invader-directed cleavage

Details Detection of nucleic acid sequences by invader-directed cleavage Detection of nucleic acid sequences by invader-directed cleavage

1996-07-12

1999-12-14

Arthur, Lisa B.

Chemistry: molecular biology and microbiology

Measuring or testing process involving enzymes or...

Involving nucleic acid

435 911, 536 231, C12Q 168, C12P 1934, C07H 2102

Patent

active

060015675

ABSTRACT:
The present invention relates to means for the detection and characterization of nucleic acid sequences, as well as variations in nucleic acid sequences. The present invention also relates to methods for forming a nucleic acid cleavage structure on a target sequence and cleaving the nucleic acid cleavage structure in a site-specific manner. The 5' nuclease activity of a variety of enzymes is used to cleave the target-dependent cleavage structure, thereby indicating the presence of specific nucleic acid sequences or specific variations thereof. The present invention further relates to methods and devices for the separation of nucleic acid molecules based by charge.

REFERENCES:
patent: 4511502 (1985-04-01), Builder et al.
patent: 4511503 (1985-04-01), Olson et al.
patent: 4512922 (1985-04-01), Jones et al.
patent: 4518526 (1985-05-01), Olson
patent: 4683195 (1987-07-01), Mullis et al.
patent: 4683202 (1987-07-01), Mullis
patent: 4775619 (1988-10-01), Urdea
patent: 4876187 (1989-10-01), Duck et al.
patent: 5011769 (1991-04-01), Duck et al.
patent: 5108892 (1992-04-01), Burke et al.
patent: 5118605 (1992-06-01), Urdea
patent: 5210015 (1993-05-01), Gelfand et al.
patent: 5380833 (1995-01-01), Urdea
patent: 5403711 (1995-04-01), Walder et al.
patent: 5422253 (1995-06-01), Dahlberg et al.
patent: 5427930 (1995-06-01), Birkenmeyer et al.
patent: 5487972 (1996-01-01), Gelfand et al.
patent: 5494810 (1996-02-01), Barany et al.
patent: 5541311 (1996-07-01), Dahlberg et al.
patent: 5614402 (1997-03-01), Dahlberg et al.
patent: 5660988 (1997-08-01), Duck et al.
Lyamichev et al. Science 260:778-783, May 1993.
Cotton. Mutation Research 285:125-144, Jan. 1993.
Corey. J. Am. Chem. Soc. 117:9373-9374, Sep. 1995.
Schmidt et al. Biochim. Biophys Acta 1130:41-46, Feb. 1992.
Agrawal et al. Curr. Opin. Biotech. 6:12-19, Feb. 1995.
Augustyns et al. Nucl. Acids Res. 21:4670-4676, Oct. 1993.
Barany, "Genetic disease detection and DNA amplification using cloned thermostable ligase," Proc. Natl. Acad. Sci., 88:189 (1991).
Barany, "The Ligase Chain Reaction in a PCR World," PCR Methods and Applic., 1:5 (1991).
Wu and Wallace, "The Ligation Amplification Reaction (LAR)--Amplification of Specific DNA Sequences Using Sequential Rounds of Template-Dependent Ligation," Genomics 4:560 (1989).
Guatelli et al., "Isothermal, in vitro amplification of nucleic acids by a multienzyme reaction modeled after retroviral replication," Proc. Natl. Acad. Sci., 87:1874-1878 (1990) with an erratum at Proc. Natl. Acad. Sci., 87:7797 (1990).
Kwoh et al., "Transcription-based amplification system and detection of amplified human immunodeficiency virus type 1 with a bead-based sandwich hybridization format," Proc. Natl. Acad. Sci., 86:1173-1177 (1989).
Fahy et al., "Self-sustained Sequence Replication (3SR): An Isothermal Transcription-based Amplification System Alternative to PCR," PCR Meth. Appl., 1:25-33 (1991).
Landgren, "Molecular mechanics of nucleic acid sequence amplification," Trends in Genetics 9:199 (1993).
Mullis, "The Polymerase Chain Reaction in an Anemic Mode: How to Avoid Cold Oligodeoxyribonuclear Fusion," PCR Methods Applic., 1:1 (1991).
Kwok et al., "Effects of primer-template mismatches on the polymerase chain reaction: Human immunodeficiency virus type 1 model studies," Nucl. Acids Res., 18:999 (1990).
Duck et al., "Probe Amplifier System Based on Chimeric Cycling Oligonucleotides," BioTech, 9:142 (1990).
Urdea et al., "A novel method for the rapid detection of specific nucleotide sequences in crude biological samples without blotting or radioactivity; application to the analysis if hepatitis B virus in human serum," Gene 61:243-264 (1987).
Anderson and Young, "Quantitative Filter Hybridization", in Nucleic Acid Hybridization, Hames & Higgins, (eds.), IRL Press, Washington, DC, pp. 73-111 (1985).
Marmur and Lane, "Strand Separation and Specific Recombination in Deoxyribonucleic acids: Biological Studies," Proc. Natl. Acad. Sci. USA 46:461 (1960).
Doty et al., "Strand Separation and Specific Recombination in Deoxyribonucleic Acids: Physical Chemical Studies," Proc. Natl. Acad. Sci. USA 46:461 (1960).
Kornberg, DNA Replication, W.H. Freeman and Co., San Francisco, pp. 127-139 (1980).
Tindall and Kunkall, "Fidelity of DNA by the Thermus aquaticus DNA Polymerase," Biochem. 27:6008 (1988).
Brutlag et al., "An Active Fragment of DNA Polymerase Produced By Proteolytic Cleavage," Biochem. Biophys. Res. Commun. 37:982 (1969).
Erlich et al., "Recent Advances in the Polymerase Chain Reaction," Science 252:1643 (1991).
Setlow and Kornberg, "Deoxyribonucleic Acid Polymerase: Two Distinct Enzymes in One Polypeptide," J. Biol Chem. 247:232 (1972).
Gelfand, PCR Technology--Principles and Applications for DNA Amplification (H.A. Erlich, Ed.), Stockton Press, New York, p. 19 (1989).
Holland et al., "Detection of specific polymerase chain reaction product by utilizing the 5'-3' exonuclease activity of Thermus aquaticus DNA polymerase," Proc. Natl. Acad. Sci. USA 88:7276 (1991).
Lawyer et al., "Isolation, Characterization, and Expression in Escherichia coli of the DNA Polymerase Gene from Thermus aquaticus," J. Biol. Chem. 264:6427 (1989).
Akhmetzjanov and Vakhitov, "Molecular cloning and nucleotide sequence of the DNA polymerase gene from Thermus flavus," Nucl. Acids. Res. 20:5839 (1992).
Andrews, Electrophoresis, 2nd Edition, Oxford University Press (1986), pp. 153-154.
Saiki et al., "Primer-Directed Enzymatic Amplification of DNA with a Thermostable DNA Polymerase," Science 239:487 (1988).
Mullis and Faloona, "Specific Synthesis of DNA in Vitro via a Polymerase-Catalyzed Chain Reaction," Methods in Enzymology 155:335 (1987).
Bargseid et al., "A High Fidelity Thermostable DNA Polyester Isolated from Pyrococcus Furiosus," Strategies 4:34(1991).
Perler et al., "Intervening sequences in an Archaea DNA polymerase gnee," Proc. Natl. Acad. Sci. USA 89:5577 (1992).
Kaledin et al., "Isolation and Properties of DNA Polymerase From the Extremely Thermophilic Bacterium Thermus flavus," Biokhimiya 46:1576 (1981).
Carballeira et al., "Purification of a Thermostable DNA Polymerase from Thermus thermophilus HB8, Useful in the Polymerase Chain Reaction," Biotechniques 9:276 (1990).
Myers et al., "Reverse Transcription and DNA amplification by a Thermus thermophilus DNA Polymerase," Biochem. 30:7661 (1991).
Ito et al., "Compilation and alignment of DNA polymerase sequences," Nucl. Acids Res. 19:4045 (1991).
Mathur et al., "The DNA polymerase gene from the hyperthermophilic marine archaebacterium Pyrococcus furiosus, shows sequence homology with .alpha.-like DNA polymerases," Nucl. Acids. Res. 19:6952 (1991).
Dunn et al., "Complete Nucleotide Sequence of Bacteriophage T7 DNA and the Locations of T7 Genetic Elements," J. Mol. Biol. 166:477 (1983).
Antao et al., "A thermodynamic study of unusually stable RNA and DNA hairpins," Nucl. Acids Res. 19:5901 (1991).
Stark, "Multicopy expression vectors carrying the lac repressor gene for regulated high-level expression of genes in Escherichia coli," Gene 5:255 (1987).
Studier and Moffatt, "Use of Bacteriophage T7 RNA Polymerase to Direct Selective High-level Expression of Cloned Genes," J. Mol. Biol. 189:113 (1986).
Sambrook et al., Molecular Cloning. A Laboratory Manual, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, pp. 1.63-1.69 (1989).
Engelke, "Purification of Thermus aquaticus DNA Polymerase Expressed in Escherichia coli," Anal. Biochem 191:396 (1990).
Copley and Boot, "Exonuclease Cycling Assay: An Amplified Assay for the Detection of Specific DNA Sequences," BioTechniques 13:888 (1992).
Lyamichev et al."Structure-Specific Endonucleolytic Cleavage of Nucleic Acids by Eubacterial DNA Polymerases," Science 260:778 (1993).
Longley et al. "Characterization of the 5' to 3' exonuclease associated with Thermus aquaticus DNA polymerase," Nucl. Acids Res. 18:7317 (1990).
Hiraro, I. et al. "Most compact hairpin-turn structure exerted by a short DNA fragment, d(GCGAAGC) in solution: an extraordinarily stable structure resistant to nucleases and heat," Nucleic Acids Res. 22(4):576 (1994).
Leirmo

Affiliated with

Also associated with

Rating

Detection of nucleic acid sequences by invader-directed cleavage does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Detection of nucleic acid sequences by invader-directed cleavage, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Detection of nucleic acid sequences by invader-directed cleavage will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFUS-PAI-O-861884