Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2011-05-31
2011-05-31
Mummert, Stephanie K (Department: 1637)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C435S091200
Reexamination Certificate
active
07951534
ABSTRACT:
Methods and compositions for performing nucleic acid duplication and amplification reactions are provided. A single-stranded nucleic acid binding protein is selected and provided in the reaction mixture which is assembled at a low, nonstringent temperature to include all of the necessary reagents for successful nucleic acid duplication or amplification reactions. By incorporating a single-stranded nucleic acid binding protein into the reaction mixture at low temperature, the generation of nonspecific products such as amplification products is improved despite the reaction mixture having been fully assembled at a nonstringent temperature.
REFERENCES:
patent: 4683195 (1987-07-01), Mullis et al.
patent: 4889818 (1989-12-01), Gelfand et al.
patent: 4965188 (1990-10-01), Mullis et al.
patent: 4994372 (1991-02-01), Tabor et al.
patent: 5223414 (1993-06-01), Zarling et al.
patent: 5338671 (1994-08-01), Scalice et al.
patent: 5364790 (1994-11-01), Atwood et al.
patent: 5411876 (1995-05-01), Bloch et al.
patent: 5449603 (1995-09-01), Nielson et al.
patent: 5534407 (1996-07-01), Tabor et al.
patent: 5538871 (1996-07-01), Nuovo et al.
patent: 5605824 (1997-02-01), Nielson et al.
patent: 5646019 (1997-07-01), Nielson et al.
patent: 5677152 (1997-10-01), Birch et al.
patent: 5773257 (1998-06-01), Nielson et al.
patent: 5854033 (1998-12-01), Lizardi
patent: 6124120 (2000-09-01), Lizardi
patent: 6183998 (2001-02-01), Ivanov et al.
patent: 6479264 (2002-11-01), Louwrier
patent: 6642034 (2003-11-01), Lizardi
patent: 7112423 (2006-09-01), Van Ness et al.
patent: 7399590 (2008-07-01), Piepenburg et al.
patent: 2004/0058378 (2004-03-01), Kong et al.
patent: 2004/0126789 (2004-07-01), Park et al.
patent: 2005/0136443 (2005-06-01), Shigemori
patent: 2005/0282176 (2005-12-01), Zhou et al.
patent: 0524808 (1993-01-01), None
patent: 0863213 (1998-09-01), None
patent: 0869187 (1998-10-01), None
patent: H5-336971 (1993-12-01), None
patent: WO 85/05685 (1985-12-01), None
patent: 91/06679 (1991-05-01), None
patent: 2004/022770 (2004-03-01), None
patent: WO2004/029292 (2004-08-01), None
Oshima et al. (Biotechniques, 1992, 13(2), p. 188).
Perales et al. (Nucleic Acids Research, 2003, vol. 31, No. 22, p. 6473-6480).
Kong et al. (JBC, 1997, vol. 272, No. 13, p. 8390-8397).
He et al. (JBC, 2003, vol. 278, No. 32, p. 29538-29545).
Lasham et al. (Molecular Cellular Probes, 1993, vol. 7, p. 67-73).
Keating et al. (Biochemistry, 1988, vol. 27, p. 5240-5245).
International Preliminary Report on Patentability for corresponding PCT application PCT/US2005/023824, dated May 26, 2008.
Written Opinion of the International Searching Authority for corresponding PCT application PCT/US2005/023824, dated Jan. 29, 2008.
International Search Report for corresponding PCT application PCT/US2005/023824, dated Jan. 29, 2008.
Daochun Kong, et al., “Role of the Bacteriophage T7 and T4 Single-stranded DNA-binding Proteins in the Formation of Joint Molecules and DNA Helicase-catalyzed Polar Branch Migration,” Journal of Biological Chemistry, Mar. 28, 1997, vol. 272, No. 13, pp. 8390-8397.
Letter from Dr. Bruce Moffett to Steven J. Solomon, dated Oct. 24, 2005.
Robert G. Oshima, “Single-Stranded DNA Binding Protein Facilitates Amplification of Genomic Sequences by PCR,” Biotechniques, Aug. 1992, 13(a), p. 188.
Celia Perales, et al., “Enhancement of DNA, cDNA synthesis and fidelity at high temperatures by a dimeric single-stranded DNA-binding protein,” Nucleic Acids Research, 2003, vol. 31, No. 22, pp. 6473-6480.
C. Villalva, et al., “Increased Yield of PCR Products by Addition of T4 Gene 32 Protein to the SMART™ PCR cDNA Synthesis System,” BioTechniques, Jul. 2001, vol. 31, No. 1, pp. 81-86.
Bruce M. Albets and Linda Frey, “T4 Bacteriophage Gene 32: A Structural Protein in the Replication and Recombination of DNA,” Nature, vol. 227, pp. 1313-1318 (1970).
Kenneth R. Williams et al., “Limited Proteolysis Studies on theEscherichia coliSingle-stranded DNA Binding Protein,” J. Biol. Chem., vol. 258, No. 5, pp. 3346-3355.
Stephen R. Planck and Samuel H. Wilson, “Studies on the Structure of Mouse Helix-destabilizing Protein-1,” J. Biol. Chem., vol. 255, No. 23, pp. 11547-11556 (1980).
Glenn Herrick and Bruce Alberts, “Nucleic Acid Helix-Coil Transitions Mediated by Helix-unwinding Proteins from Calf Thymus,” J. Biol. Chem., vol. 251, No. 7, pp. 2133-2141 (1976).
Peter H. Von Heppel et al., “Molecular Approaches to the Interaction of Nucleic Acids with 'Melting” Proteins, Nucleic Acid-Protein Recognition, ed. H.J. Vogel, pp. 65-89, Academic Press, New York (1977).
Joseph E. Coleman and John L. Oakley, “Physical Chemical Studies of the Structure and Function of DNA Binding (Helix-Destabilizing) Proteins,” CRC Crit. Rev. Biochem. Jan. 1980, pp. 247-289 (1980).
David E. Jensen et al., “DNA 'Melting Proteins,” J. Biol. Chem., vol. 251, No. 22, pp. 7215-7228 (1976).
Benjamin Lewin, “The Topology of Nucleic Acids,” Genes III, Chap. 3, pp. 57-63 (1987).
Wolfram Saenger, “Formation and Breakdown of Double-Helix Structure Show Cooperative Behavior,” Principles of Nucleic Acid Structure, Chap. 6.8, pp. 141-149 (1983).
Peter H. Von Hippel et al., “Autoregulation of Gene Expression,” J. Mol. Biol., vol. 162, pp. 795-818 (1982).
P. Kaspar et al., “An improved double stranded DNA sequencing method using gene 32 protein,” Nucleic Acids Research, vol. 17, No. 9, p. 3616 (1989).
K. Muniyappa et al., “Mechanism of the concerted action of recA protein and helix-destabilizing proteins in homologous recombination,” Proc. Natl. Acad. Sci., vol. 81, pp. 2757-2761 (1984).
G.F. Hong, “Sequencing of large double-stranded DNA using the dideoxy sequencing technique,” Bioscience Reports 2, pp. 907-912 (1982).
Thomas A. Kunkel et al., “Single-strand binding protein enhances fidelity of DNA synthesis in vitro,” Proc, Natl. Acad. Sci., vol. 16, No. 12, pp. 6331-6335 (1979).
Michael A. Innis et al., “DNA sequencing withThermus aquaticusDNA polymerase and direct sequencing of polymerase chain reation-amplified DNA,” Proc. Natl. Acad. Sci., vol. 85, pp. 9436-9440 (1988).
Marmur, J., Doty, P., “Determination of the Base Composition of Deoxyribonucleic Acid from its Thermal Denaturation Temperature”, J. Mol. Biol., 1962, vol. 5, pp. 109-118.
Suggs, et al., “Use of Synthetic Oligodeoxyribonucleotides for the Isolation of Specific Cloned DNA Sequences,” Developmental Biology Using Purified Genes, Brown, D., ed., ICN-UCLA Symposia on Molecular and Cellular Biology, 1981, vol. XXIII, pp. 683-693.
Saiki, et al., “Primer-Directed Enzymatic Amplification of DNA with a Thermostable DNA Polymerase”, Science, 1988, vol. 239, pp. 487-491.
Dunn, J., et al., “Complete Nucleotide Sequence of Bacteriophage T7 DNA and the Locations of T7 Genetic Elements”, J. Mol. Biol., 1963, vol. 166, pp. 477-535.
Scherzinger, E, et al., “Stimulation of T7 DNA Polymerase by a New Phage-Coded Protein”, Molec. Gen. Genet., 1973, vol. 123, pp. 247-262.
Chase, J. Williams, K, “Single-Stranded DNA Binding Proteins Required for DNA Replication”, Ann. Rev. Biochem., 1986, vol. 55, pp. 103-136.
Chien, A., et al., “Deoxyribonucleic Acid Polymerase from the Extreme ThermophileThermus aquaticus”, J. Bacterial., 1976, vol. 127, No. 3, pp. 1550-1557.
Chou, Q., et al., “Prevention of pre-PCR mis-priming and primer dimerization improves low-copy number amplifications”, Nuc. Acids Res., 1992, vol. 20, No. 7, pp. 1717-1723.
Curth, U., et al., “In vitro and in vivo function of the C-terminus ofEscherichia colisingle-stranded DNA binding protein”, Nuc. Acids Res., 1996, vol. 24, No. 14, pp. 2706-2711.
Gillam, S., et al., “The base-paring specificity of cellulos-pdT9”, Nuc. Acids Res., 1975, vol. 2, pp. 625-634.
He, et al.,
Kubu Christopher James
Moffett Robert Bruce
Muller-Greven Jeannine Catherine
Affymetrix Inc.
Mummert Stephanie K
Pearne & Gordon LLP
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