Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2011-04-05
2011-04-05
Horlick, Kenneth R. (Department: 1637)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C435S091100, C435S091200
Reexamination Certificate
active
07919253
ABSTRACT:
A novel method of pyrophosphorolysis activated polymerization (PAP) has been developed. In PAP, pyrophosphorolysis and polymerization by DNA polymerase are coupled serially for each amplification by using an activatable oligonucleotide P* that has a non-extendible 3′-deoxynucleotide at its 3′ terminus. PAP can be applied for exponential amplification or for linear amplification. PAP can be applied to amplification of a rare allele in admixture with one or more wild-type alleles by using an activatable oligonucleotide P* that is an exact match at its 3′ end for the rare allele but has a mismatch at or near its 3′ terminus for the wild-type allele. PAP is inhibited by a mismatch in the 3′ specific sequence as far as 16 nucleotides away from the 3′ terminus. PAP can greatly increase the specificity of detection of an extremely rare mutant allele in the presence of the wild-type allele. Specificity results from both pyrophosphorolysis and polymerization since significant nonspecific amplification requires the combination of mismatch pyrophosphorolysis and misincorporation by the DNA polymerase, an extremely rare event. Using genetically engineered DNA polymerases greatly improves the efficiency of PAP.
REFERENCES:
patent: 5302509 (1994-04-01), Cheeseman
patent: 5792607 (1998-08-01), Backman et al.
patent: 5804375 (1998-09-01), Gelfand et al.
patent: 5824518 (1998-10-01), Kacian et al.
patent: 6159693 (2000-12-01), Shultz et al.
patent: 6200757 (2001-03-01), Kurn et al.
patent: 6235480 (2001-05-01), Shultz et al.
patent: 6268146 (2001-07-01), Shultz et al.
patent: 6270973 (2001-08-01), Lewis et al.
patent: 6270974 (2001-08-01), Shultz et al.
patent: 6277578 (2001-08-01), Shultz et al.
patent: 6312902 (2001-11-01), Shultz et al.
patent: 6335162 (2002-01-01), Shultz et al.
patent: 6379898 (2002-04-01), Shultz et al.
patent: 6391551 (2002-05-01), Shultz et al.
patent: 6509157 (2003-01-01), Martinez
patent: 6534269 (2003-03-01), Liu et al.
patent: 6653078 (2003-11-01), Lewis et al.
patent: 2001/0014451 (2001-08-01), Shultz et al.
patent: 2001/0031470 (2001-10-01), Shultz et al.
patent: 2003/0049624 (2003-03-01), Shultz et al.
patent: 2003/0077621 (2003-04-01), Shultz et al.
patent: 2003/0162199 (2003-08-01), Bonner
patent: 2003/0194699 (2003-10-01), Lewis et al.
patent: 2003/0203358 (2003-10-01), Shultz et al.
patent: 0892058 (1999-01-01), None
patent: 0892058 (1999-01-01), None
patent: 0162952 (2001-08-01), None
patent: 0162975 (2001-08-01), None
Bi, W. and Stambrook, P.J., “Detection of known mutation by proof-reading PCR,” Nucleic Acids Res, 1998, 26:3073-3075.
Meyer, P.R. et al., “Unblocking of chain-terminated primer by HIV-1 reverse transcriptase through a nucleotide-dependent mechanism,” Proc Natl Acad Sci USA, 1998, 95:13471-13476.
Liu, Q. et al., “Pyrophosphorolysis-Activated Polymerization (PAP): Application to Allele-Specific Amplification,” Biotechniques 29:1072-1083, 2000.
Sommer, S.S., et al., “PCR Amplification of Specific Alles (PASA) is a General Method for Rapidly Detecting Known Single-Base Changes,” biotechniques 12(1):82-87, 1992.
Tabor, S., et al., “DNA Sequence Analysis with a Modified Bacteriophage T7 DNA Polymerase,” The Journal of Biological Chemistry 265(14):8322-8328, May 15, 1990.
Liu, Q. et al., “Overlapping PCR for Bidirectional PCR Amplification of Specific Alleles: A Rapid One-Tube Method for Simultaneously Differentiating Homozygotes and Heterozygotes,” Genome Research, vol. 7, pp. 389-398, 1997.
Komura, J., et al., “Terminal transferase-dependent PCR: a versatile and sensitive method for in vivo footprinting and detection of DNA adducts,” Nucleic Acids Research, 1998, vol. 26, No. 7, pp. 1807-1811, © 1996 Oxford University Press.
Meyer, P.R. et al., “A Mechanism of AZT Resistance: An Increase in Nucleotide-Dependent Primer Unblocking by Mutant HIV-1 Reverse Transcriptase,” Molecular Cell, vol. 4, pp. 35-43, Jul. 1999.
Austermann, S. et al., “Inhibition of Human Immunodeficiency Virus Type 1 Reverse Transcriptase by 3'-Blocked Oligonucleotide Primers,” Biochemical Pharmacology, vol. 43, No. 12, pp. 2581-2589, 1992.
Non-Final Office Action dated Mar. 26, 2010, U.S. Appl. No. 12/402,206, filed Mar. 11, 2009, 17 pages; Response to Office Action dated Jun. 28, 2010, 8 pages.
Liu Qiang
Sommer Steve S.
City of Hope
Horlick Kenneth R.
Rothwell, Figg Ernst & Manbeck, PC
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