Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Patent
1999-02-18
2000-12-12
Fredman, Jeffrey
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
435 7, 435 17, 435 21, 435810, 436501, 536 26, 536 27, 536 28, 935 77, 935 82, C12Q 168, G01N 3353, G01N 33566, C07H 1904
Patent
active
061596930
ABSTRACT:
This invention discloses methods for detecting specific nucleic acid sequences, interrogating the identity of a specific base within a sequence, and assaying endonuclease and exonuclease activity. DNA or RNA probes are hybridized to target nucleic acid sequences. Probes that are complementary to the target sequence at each base are depolymerized, while probes which differ from the target at the interrogation position are not depolymerized. The nucleic acid detection systems utilize the pyrophosphorolysis reaction catalyzed by various polymerases to produce deoxyribonucleoside triphosphates or ribonucleoside triphosphates. dNTPs are transformed to ATP by the action of NDPK. The ATP produced by these reactions is detected by luciferase or NADH based detection systems.
REFERENCES:
patent: 4446231 (1984-05-01), Self
patent: 4460684 (1984-07-01), Bauer
patent: 4595655 (1986-06-01), Self
patent: 4735897 (1988-04-01), Vary et al.
patent: 4743561 (1988-05-01), Shaffar
patent: 4755458 (1988-07-01), Rabbani et al.
patent: 5498523 (1996-03-01), Tabor et al.
patent: 5541311 (1996-07-01), Dahlberg et al.
patent: 5648232 (1997-07-01), Squirrell
Nikiforov et al., "Genetic Bit Analysis: a solid phase method for typing single nucleotide polymorphisms", Nucleic Acids Research, (Sep. 1994), vol. 22(20), pp. 4167-4175.
A.E. Sippel, "Purification and Characterization of Adenosine Triphosphate: Ribonucleic Acid Adenyltransferase from Escherichia coli" Eur. J. Biochem. 37:31-40 (1973).
K.Chowdhury, N. Kaushik, V.N. Pandey and M.J. Modak, "Elucidiation of the Role of Arg 110 of Murine Leukemia Virus Reverse Transcriptase in the Catalytic Mechanism: Biochemical Characterization of Its Mutant Enzymes," Biochemistry, 35:16610-16620 (1996).
S. Karamohamed, M. Ronaghi and P. Nyren, "Bioluminometric Method for Real-Time Detection of Reverse Transcriptase Activity", Biotechniques, 24:302-306 (Feb., 1998).
B. Hove-Jensen, K.W. Harlow, C.J. King, R.L. Switzer, "Phosphoribosylpyrophosphate Synthetase of Escherichia coli" J. Biol. Chem., 261(15):6765-6771 (1986).
P. Nyren, S. Karamohamed and M. Ronaghi, "Detection of Single-Base Changes Using a Bioluminometric Primer Extension Assay", Anal. Biochem., 244:367-373 (Jan. 15, 1997).
M. Ronaghi, S. Karamohamed, B. Pettersson, M. Uhlen and P. Nyren, "Real-Time DNA Sequencing Using Detection of Pyrophosphate Release," Anal. Biochem., 242:84-89 (1996).
T.A. Rozovskaya, V.O. Rechinsky, R.S. Bibilashvili, M.Y. Karpeisky, N.B. Tarusova, R.M. Khomutov, H.B.F. Dixon, "The Mechanism of Pyrophosphorolysis of RNA by RNA Polymerase", Biochem. J., 224:645-650 (1989).
M.P. Deutscher and A. Kornberg, "Enzymatic Synthesis of Deoxyribonucleic Acid", J. Biol. Chem., 244(11):3019-28 (1969).
J.D. Moyer and J.F. Henderson, "Nucleoside Triphosphate Specificity of Firefly Luciferase", Anal. Biochem., 131:187-189 (1983).
C. Blondin, L. Serina, L. Weismuller, A. Gilles and O. Barzu, "Improved Spectrophotometric Assay of Nucleoside Monophosphate Kinase Activity Using the Pyruvate Kinase/Lactate Dehydrogenase Coupling System", Anal. Biochem., 220:219-21 (1994).
S. Tabor and C.C. Richardson, "DNA Sequence Analysis With a Modified Bacteriophage T7 DNA Polymerase", J. Biol. Chem., 265(14):8322-8328 (1990).
R.S. Chittock, J.-M. Hawronsky, J. Holah and C.W. Wharton, "Kinetic Aspects of ATP Amplification Reactions", Anal. Biochem., 255:120-126 (Jan. 1, 1998).
Kung, et al., "Picogram Quantitation ofTotal DNA Using DNA-Binding Proteins in a Silicon Sensor-Based System", Anal. Biochem., 187:220-227 (1990).
Srivastavan & Modak, J. Biol. Chem., 255(5):2000-2004 (1980).
Sano & Feix, Eur. J. Biochem., 71:577-583 (1976).
Sabina, et al., Science, 223:1193-1195 (1984).
Parks & Agarwal in The Enzymes, vol. 9:307-333, P. Boyer Ed. (1973).
Shimofuruya & Suzuki, Biochem. Intl., 26(5):853-861 (1992).
Nyren, et al., "Detection of Single-Base Changes Using a Bioluminometric Primer Extension Assay", Anal. Biochem., 244:367-373 (1997).
P. Bernard et al., Am. J. Pathol., 153:1055-1061 (1998).
G. Garinis et al., J. Clin. Lab. Anal., 13:122-125 (1999).
Holguin, et al., Eur. J. Clin. Microbiol. Infect. Dis., 18:256-259 (1999).
Boriskin, et al., Arch. Dis. Child., 80:132-136 (1999).
de Vega, et al., "Primer Terminus Stabilizing at the 3'-5' exonuclease active site of .sub.- 29 DNA polymerase. Involvement of two amino acid residues highly conserved in proofreading DNA polymerases", EMBO J., 15(5):1182-1192 (1996).
S. Patel et al., Biochemistry, 30:511-525 (1991).
I. Wong et al., Biochemistry, 30:526-537 (1991).
S. Zinnen et al., J. Biological Chemistry, 269(39):24195-24202 (1994).
J. Lindquist, Dept. of Bacteriology, University of Wisconsin-Madison,http://www.bact.wisc.edu/bact102/102di13.html (Undated).
J. Lindquist, Dept. of Bacteriology, University of Wisconsin-Madison, http://www.bact.wisc.edu/bact102/102di13a.html (Undated).
Most Probable Number (MPN), WQA Glossary of Terms, 3rd Ed., Water Quality Association (Undated).
P. Nyren, B. Pettersson, and M. Uhlen. "Solid Phase DNA Minisquencing byan Enzymatic Luminometric Inorganic Pyrophosphate Detection Assay," Anal. Biochem.., 208:171-175 (1993).
M. Ronaghi, S. Karamohamed, B. Pettersson, M. Uhlen, and P. Nyren, "Real-Time DNA Sequencing Using Detection of Pyrophosphate Release," Anal. Biochem., 242:84-89 (1996).
J. Shultz, D. Leippe, K. Lewis and M. Nelson, "Non-radioactive Measurement of DNA Using Coupled Enzymatic Reactions", Presentation, Mar. 16-20, 1998 at a Parenteral Drug Association meeting in San Francisco, California.
Leippe Donna M.
Lewis Martin K.
Mandrekar Michelle A.
Nelson Lisa S.
Shultz John W.
Chakrabarti Arun
Fredman Jeffrey
Promega Corporation
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