Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2005-07-28
2009-06-16
Horlick, Kenneth R. (Department: 1637)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C435S091200
Reexamination Certificate
active
07547514
ABSTRACT:
The invention provides novel SGP primers for improved use in waveform-profiling methods of DNA amplification. In one embodiment, use of an SGP primer in a method of DNA amplification results in exponential amplification of several distinct products. In another embodiment, the methods of the invention further comprise a novel half-time elongation step. In another embodiment, the distinct products may be detected via melting temperature analysis. The primers and methods of the invention may be combined to determine an organism in a sample.
REFERENCES:
patent: 5779868 (1998-07-01), Parce et al.
patent: 5800690 (1998-09-01), Chow et al.
patent: 5876675 (1999-03-01), Kennedy
patent: 5882465 (1999-03-01), McReynolds
patent: 5965410 (1999-10-01), Chow et al.
patent: 6174709 (2001-01-01), Kenten et al.
patent: 6267858 (2001-07-01), Parce et al.
patent: 6337212 (2002-01-01), Nagle et al.
patent: 6379974 (2002-04-01), Parce et al.
patent: 6416642 (2002-07-01), Alajoki et al.
patent: 6465257 (2002-10-01), Parce et al.
patent: 6482364 (2002-11-01), Parce et al.
patent: 6495369 (2002-12-01), Kercso et al.
patent: 6500323 (2002-12-01), Chow et al.
patent: 6534262 (2003-03-01), McKernan et al.
patent: 6556923 (2003-04-01), Gallagher et al.
patent: 6558944 (2003-05-01), Parce et al.
patent: 6558960 (2003-05-01), Parce et al.
patent: 6582576 (2003-06-01), Chow et al.
patent: 6613581 (2003-09-01), Wada et al.
patent: 6670153 (2003-12-01), Stern
patent: 6718742 (2004-04-01), Baker
patent: 6752966 (2004-06-01), Chazan
patent: 6852524 (2005-02-01), Okamura et al.
patent: 2003/0054395 (2003-03-01), Baker
patent: 2003/0104466 (2003-06-01), Knapp et al.
patent: 2003/0130499 (2003-07-01), Baker
patent: 2004/0089548 (2004-05-01), Burd Mehta et al.
patent: 2004/0152076 (2004-08-01), Willson et al.
patent: 2004/0241651 (2004-12-01), Olek et al.
patent: 2005/0009022 (2005-01-01), Weiner et al.
patent: 1149921 (2001-10-01), None
patent: 1 510 576 (2005-03-01), None
patent: 2002-291500 (2002-10-01), None
patent: 2002-325581 (2002-11-01), None
patent: 2003-083965 (2003-03-01), None
patent: 2003-093075 (2003-04-01), None
patent: 2003-180351 (2003-07-01), None
patent: 2003-180374 (2003-07-01), None
patent: 2003-274959 (2003-09-01), None
patent: 2003-334082 (2003-11-01), None
patent: 2004-041191 (2004-02-01), None
patent: 2004-057202 (2004-02-01), None
patent: 2004-185583 (2004-07-01), None
patent: 2004-236651 (2004-08-01), None
patent: 2004-361310 (2004-12-01), None
patent: WO 94/24307 (1994-10-01), None
patent: WO 97/41219 (1997-11-01), None
patent: WO 99/12031 (1999-03-01), None
patent: WO 99/16162 (1999-04-01), None
patent: WO 01/02850 (2001-01-01), None
patent: WO 02/10373 (2002-02-01), None
patent: WO 02/083952 (2002-10-01), None
patent: WO 2004/090132 (2004-10-01), None
patent: WO 2004/104196 (2004-12-01), None
patent: WO 2005/003395 (2005-01-01), None
patent: WO 2005/005664 (2005-01-01), None
Kong et al. Rapid-cycle PCR for detection and typing ofMycoplasma pneumoniaein clinical specimens. J. Clin. Microbiol. (2000) vol. 38, No. 2, pp. 4256-4259.
Adgene Co., Ltd. “Goodbye DNA Chip, Hello Genopattern for 21stCentury” (www.adgene.co.jp) (published at least as early as Nov. 24, 2002; pp. 1-8).
Adgene Co., Ltd. “A method for comparison and identification of DNAs and RNAs by pattern analysis: Genopattern Method” (www.adgene.co.jp) (published at least as early as Nov. 24, 2002; pp. 1-9).
Alberti and Mergny “DNA duplex-quadruplex exchange as the basis for a nanomolecular machine”PNAS100(4):1569-73 (Feb. 2003).
Antolin et al. “Intensive Linkage Mapping in a Wasp (Bracon hebetor) and a Mosquito (Aedes aegypti) with Single-Strand Conformation Polymorphism Analysis of Random Amplified Polymorphic DNA Markers”Genetics143:1727-38 (Aug. 1996).
Arnau et al. “The Use of RAPD Markers in the Genetic Analysis of the Plant Pathogenic FungusCladosporium fulvum” Curr. Genet.25:438-44 (1994).
Butler “Nucleic acid sequence analysis software packages”Curr. Opin. Biotechnol.5(1):19-23 (1994).
Burpo “A critical review of PCR primer design algorithms and cross-hybridization case study” Standford Computer Molecular Biology Course Materials (2001) (cmgm.stanford.edu/biochem218/Projects%202001/Burpo.pdf) (printed Apr. 12, 2007; pp. 1-11).
Cooksey et al. “Temperature-Mediated Heteroduplex Analysis Performed by Using Denaturing High-Performance Liquid Chromatography To Identify Sequence Polymorphisms inMycobacterium tuberculosisComplex Organisms”J. Clin. Microbiol.40:1610-16 (May 2002).
Constans “Nano-Quakes: Advalytix's programmable biochips shake up the lab-on-a-chip market”The Scientist17(7):48 (Apr. 2003). (www.the-scientist.com/yr2003/apr/tools—030407.html) (printed Mar. 18, 2004; pp. 1-3).
Darby et al. “High throughput measurement of duplex, triplex and quadruplex melting curves using molecular beacons and a LightCycler”Nucleic Acids Res.30(9):e39, 1-8 (May 2002).
Descheemaeker et al. “Evaluation of Arbitrarily Primed PCR Analysis and Pulsed-Field Gel Electrophoresis of Large Genomic DNA Fragments for Identification of Enterocci Important in Human Medicine”Int. J. Syst. Bacteriol.47(2):555-61 (Apr. 1997).
Holding “Lab on a Chip: Miniaturized microfluidic device analyzes multiple samples in parallel”The Scientist(Mar. 15, 2004) (www.biomedcentral.com
ews/20040315/02) (printed Mar. 18, 2004; pp. 1-3).
Kemp “Capillary electrophoresis: a versatile family of analytical techniques”Biotechnol. Appl. Biochem.27:9-17 (Feb. 1998).
Kopp et al. “Chemical amplification: continuous-flow PCR on a chip”Science280:1046-48 (May 1998).
Kozwich et al. “Development of a Novel, Rapid IntegratedCrptosporidium parvumDetection Assay”Appl. Environ. Microbiol.66(7):2711-17 (Jul. 2000).
Marx “PCR-on-a-Chip Downsizes Even as It Grows Up”Genomics&Proteomics(www.genpromag.com/ShowPR—Print.aspx?PUBCODE=018&ACCT˜1800000100˜ISSUE˜0404˜RELTYPE˜PR˜ORIGRELTYPE˜GPF˜PRODCODE˜00000000˜PRODLETT˜E=CALLFROM=RELPGM.html) (printed Jun. 7, 2007; pp. 1-4).
Naimuddin et al. “Commonly Conserved Genetic Fragments Revealed by Genome Profiling Can Serve as Tracers of Evolution”Nucleic Acids Res.30(10):e42, 1-6 (May 2002).
“Melting Curve Technology” (Roche Diagnostics Corporation (2003)) (www.roche-applied-science.com/sis/lighttyper/lt—frames/frame—technology.jsp) (printed Jun. 6, 2007; pp. 1-2).
Schwartz et al. “Detection of antibiotic-resistant bacteria and their resistance genes in wastewater, surface water, and drinking water biofilms,”FEMS Microbiol. Ecol.43:325-35 (2003) (first published online Nov. 23, 2002).
Sinclair “Small Wonder: Agilent Technologies and Caliper Technologies bring lab-on-a-chip technology to the research bench”The Scientist14(5):25-27 (Mar. 2000) (www.the-scientist.com/yr2000/mar/profile—000306.html) (printed Mar. 18, 2004; pp. 1-3).
Swaminathan and Barrett “Amplification Methods for Epidemiologic Investigations of Infectious Diseases”J. Microbiol. Meth.23:129-39 (1995).
Wang et al. “RAPD (Arbitrary Primer) PCR is More Sensitive than Multilocus Enzyme Electrophoresis for Distinguishing Related Bacterial Strains”Nucleic Acids Res.21(25):5930-33 (1993).
Welsh and McClelland “Fingerprinting Genomes Using PCR With Arbitrary Primers”Nucleic Acids Res.18(24):7213-18 (Dec. 1990).
Williams et al. “DNA polymorphisms amplified by arbitrary primers are useful as genetic markers”Nucleic Acids Res.18(22):6531-34 (Oct. 1990).
“Geopattern Analyzer GP1000” (www.yamato-net.co.jp/english/products/bio/gp1000.htm) (printed May 21, 2007; pp. 1-8).
“PCR Primer Design” (www.premierbiosoft.com/tech—notes/PCR—Primer—Design.html) (printed Apr. 12, 2007; pp. 1-5).
Boles Deborah John
Takahashi Toru
Canon U.S. Life Sciences, Inc.
Horlick Kenneth R.
Rothwell Figg Ernst & Manbeck
Thomas David C
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