Method for nucleic acid amplification that results in low...

Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid

Reexamination Certificate

Rate now

  [ 0.00 ] – not rated yet Voters 0   Comments 0

Details

C435S091200

Reexamination Certificate

active

10429229

ABSTRACT:
Disclosed are compositions and methods for amplification of nucleic acid sequences of interest. It has been discovered that amplification reactions can produce amplification products of high quality, such as low amplification bias, if performed on an amount of nucleic acid at or over a threshold amount and/or on nucleic acids at or below a threshold concentration. The threshold amount and concentration can vary depending on the nature and source of the nucleic acids to be amplified and the type of amplification reaction employed. Disclosed is a method of determining the threshold amount and/or threshold concentration of nucleic acids that can be used with nucleic acid samples of interest in amplification reactions of interest. Because amplification reactions can produce high quality amplification products, such as low bias amplification products, below the threshold amount and/or concentration of nucleic acid, such below-threshold amounts and/or concentrations can be used in amplification reactions.

REFERENCES:
patent: 3687808 (1972-08-01), Merigan et al.
patent: 5001050 (1991-03-01), Blanco et al.
patent: 5043272 (1991-08-01), Hartley
patent: 5198543 (1993-03-01), Blanco et al.
patent: 5262311 (1993-11-01), Pardee et al.
patent: 5455166 (1995-10-01), Walker et al.
patent: 5539082 (1996-07-01), Nielsen et al.
patent: 5563037 (1996-10-01), Sutherland et al.
patent: 5593836 (1997-01-01), Niemiec et al.
patent: 5714331 (1998-02-01), Buchardt et al.
patent: 5719262 (1998-02-01), Buchardt et al.
patent: 5854033 (1998-12-01), Lizardi
patent: 5866336 (1999-02-01), Nazarenko et al.
patent: 5876924 (1999-03-01), Zhang et al.
patent: 5942391 (1999-08-01), Zhang et al.
patent: 6033881 (2000-03-01), Himmler et al.
patent: 6096880 (2000-08-01), Kool et al.
patent: 6117635 (2000-09-01), Nazarenko et al.
patent: 6124120 (2000-09-01), Lizardi
patent: 6143495 (2000-11-01), Lizardi et al.
patent: 6183960 (2001-02-01), Lizardi
patent: 6210884 (2001-04-01), Lizardi
patent: 6214587 (2001-04-01), Dattagupta et al.
patent: 6221603 (2001-04-01), Mahtani et al.
patent: 6242188 (2001-06-01), Dattagupta et al.
patent: 6255082 (2001-07-01), Lizardi et al.
patent: 6280949 (2001-08-01), Lizardi
patent: 6287768 (2001-09-01), Chenchik et al.
patent: 6287776 (2001-09-01), Hefti
patent: 6288220 (2001-09-01), Kambara et al.
patent: 6291187 (2001-09-01), Kingsmore et al.
patent: 6291193 (2001-09-01), Khodadoust
patent: 6291669 (2001-09-01), Kwiatkowski et al.
patent: 6294664 (2001-09-01), Ravikumar et al.
patent: 6297006 (2001-10-01), Drmanac et al.
patent: 6323009 (2001-11-01), Lasken et al.
patent: 6329150 (2001-12-01), Lizardi et al.
patent: 6344329 (2002-02-01), Lizardi
patent: 6479235 (2002-11-01), Schumm et al.
patent: 6706519 (2004-03-01), Kellogg et al.
patent: 0 070 685 (1982-07-01), None
patent: 0 745 690 (1996-12-01), None
patent: WO 97/17076 (1997-05-01), None
patent: WO 97/17471 (1997-05-01), None
patent: WO 97/19193 (1997-05-01), None
patent: WO 99/31276 (1999-06-01), None
patent: WO 00/71562 (2000-11-01), None
Rudbeck et al., BioTechniques 25(4), 588-592 (1998).
Warnecke et al., Nucleic Acids Res. 25(21), 4422-4426 (1997).
Chandler, J. Indust. Microbiol. Biotech. 21, 128-140 (1998).
Becker et al., Applied Environ. Microbiol. 66(11), 4945-4953 (2000).
Baner et al. Signal Amplification of Padlock Probes by Rolling Circle Replication,Nucleic Acids Research, Oxford University Press, Surrey, 26(22):5073-5078 (1998), XP002112357.
Gusev et al. Rolling Circle Amplification: A New Approach to Increase Sensitivity for Immunohistochemistry and Flow Cytometry,American Journal of Pathology, 159(1): 63-69 (Jul. 2001).
Lizardi et al. Mutation Detection and Single-Molecule Counting Using Isothermal Rolling-Circle Amplification,Nature Genetics, 19:225-232 (1998).
Mullenix et al. Allergen-specific IgE Detection on Microarrays Using Rolling Circle Amplification: Correlation with in Vitro Assays for Serum IgE,Clinical Chemistry, 47(10):1926-1929 (2001).
Nuovo, et al. In Situ Amplification Using Universal Energy Transfer-labeled Primers,The Journal of Histochemistry&Cytochemistry, The Histochemistry Society, Inc., New York, New York 43(3):273-279 (1999), XP008002684.
Schweitzer et al. Immunoassays with Rolling Circle DNA Amplification: A Versatile Platform for Ultrasensitive Antigen Detection,PNAS, 97(18):10113-10119 (Aug. 29, 2000).
Schweitzer et al. Multiplexed Protein Profiling on Microarrays by Rolling-Circle Amplification,Nature Biotechnology, 20:359-365 (Apr. 2002).
Tyagia et al. Molecular Beacons: Probes that Fluoresce upon Hybridization,Nature Biotechnology, 14:303-308 (Mar. 1996), XP000196024.
Aliotta et al., ThermostableBstDNA polymerase I lacks a 3′→ 5′ proofreading exonuclease activity,Genet. Anal.(Netherlands) 12:185-195 (1996).
Beaucage et al., Deoxynucleoside Phorsphoranidites—A New Class of Key intermediates For Deoxypolynucleotide Synthesis.Tetrahedron Lett. 22:1859-1862 (1981).
Birkenmeyer et al., DNA Probe Amplification Methods.J. Virol. Meth. 35:117-126 (1991).
Blanco et al., Highly Efficient DNA Synthesis by the Phage ψ29 DNA Polymerase.J. Biol. Chem. 264:8935-8940 (1989).
Boehmer et al., Herpes Simplex Virus Type 1 ICP8: Helix-Destabilizing Properties.J. Virol. 67(2):711-715 (1993).
Buchanan et al., Long DOP-PCR of Rare Archival Anthropological Samples,Hum. Biol. 72:911-925 (2000).
Chatterjee et al., Cloning and Overexpression of the Gene Encoding Bateriophage T5 DNA Polymerase.Gene97:13-19 (1991).
Cheung et al., Whole genome amplification using a degenerate oligonucleotide primer allows hundreds of genotypes to be performed on less than one nanogram of genomic DNA,Proc Natl Acad Sci USA93:14676-14679 (1996).
Crooke et al., Antisense Research and Applications.CRC Press16:290-301 (1993).
Eckert et al., DNA Polymerase Fidelity and the Polymerase Chain Reaction,PCR Methods and Applications1:17-24 (1991).
Englisch et al., Chemically Modified Oligonucleotides as Probes and Inhibitors.Angewandte Chemie, International Edition in English 30(6):613-629 (1991).
Esteban et al., Fidelity of ψ29 DNA Polymerase. Comparison between Protein-Primed Initiation and DNA Polymerization,J. Biol. Chem. 268:2719-2726 (1993).
Faruqi et al., High-Throughput Genotyping of Single Nucleotide Polymorphisms with Rolling Circle Amplification,BMC Genomics2:4 (2001).
Gillespie et al., HLA class II typing of whole genome amplified mouth swab DNA,Tissue Antigens56:530-538 (2000).
Guillier-Gencik et al., Generation of whole-chromosome painting probes specific to each chicken macrochromosome,Cytogenet Cell Genet. 87:282-285 (1999).
Guo et al., Direct Fluorescence Analysis of Genetic Polymorphisms by Hybridization with Oligonucleotide Arrays on Glass Supports,Nucl. Acids Res. 22(24):5456-5465 (1994).
Hall et al., Mixed Anhydrides as Intermediates in the Synthesis of Dinucleoside Phosphates.J. Chem. Soc. 3291-3296 (1957).
Harper et al., Recent Advances and Future Developments in PGD,Prenat. Diagn. 19:1193-1199 (1999).
Henegariu et al., Custom fluorescent-nucleotide synthesis as an alternative method for nucleic acid labelling.Nature Biotechnology18:345-348 (2000).
Hoy et al., Bromodeoxyuridine/DNA Analysis of Replication in CHO Cells after Exposure to UV Light,Mutat. Res. 290:217-230 (1993).
Itakura et al., Synth sis and Use of Synthetic Oligonucleotides.Ann. Rev. Biochem. 53:323-356 (1984).
Iyer et al., 3H-1, 2-Benzodithiole-3-one 1, 1-Dioxide as an Improved Sulfurizing Reagent in the Solid-Phase Synthesis of Oligodeoxyribonucleoside Phosphorothioates.J. Am. Chem. Soc. 112:1253-1254 (1990).
Jacobsen et al., The N-Terminal Amino-Acid Sequences of DNA Polymerase I fromEscherichis coliand of the Large and the Small Fragments Obtained by a Limited Proteolysis.Eur. J. Biochem. 45:623-627 (1974).
Jung et al., Bacteriphage PRD1 DNA polymerases: Evolution of DNA polymerases.Proc. Natl. Acad. Sci. USA84:8287-8291 (1987).
Kaboord et al., Accessory proteins function as matchmakers in the assembly of the T4 DNA polymerase holoenzyme.Curr. Biol. 5(2):149-157 (1995).
Kerkhof, A Comparison of Substrates

LandOfFree

Say what you really think

Search LandOfFree.com for the USA inventors and patents. Rate them and share your experience with other people.

Rating

Method for nucleic acid amplification that results in low... does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Method for nucleic acid amplification that results in low..., we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Method for nucleic acid amplification that results in low... will most certainly appreciate the feedback.

Rate now

     

Profile ID: LFUS-PAI-O-3820328

  Search
All data on this website is collected from public sources. Our data reflects the most accurate information available at the time of publication.