Amplification of denatured and stabilized nucleic acids

Chemistry: molecular biology and microbiology – Micro-organism – tissue cell culture or enzyme using process... – Preparing compound containing saccharide radical

Reexamination Certificate

Rate now

  [ 0.00 ] – not rated yet Voters 0   Comments 0

Details

Reexamination Certificate

active

07074600

ABSTRACT:
Disclosed are compositions and a method for amplification of nucleic acid sequences of interest. The disclosed method generally involves replication of a target sequence such that, during replication, the replicated strands are displaced from the target sequence by strand displacement replication of another replicated strand. In one form of the disclosed method, the target sample is not subjected to denaturing conditions. It was discovered that the target nucleic acids, genomic DNA, for example, need not be denatured for efficient multiple displacement amplification. The primers used can be hexamer primers. The primers can also each contain at least one modified nucleotide such that the primers are nuclease resistant. The primers can also each contain at least one modified nucleotide such that the melting temperature of the primer is altered relative to a primer of the same sequence without the modified nucleotide(s). The DNA polymerase can be φ29 DNA polymerase.

REFERENCES:
patent: 3687608 (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: 5539082 (1996-07-01), Nielsen et al.
patent: 5547843 (1996-08-01), Studier et al.
patent: 5563037 (1996-10-01), Sutherland et al.
patent: 5573907 (1996-11-01), Carrino et al.
patent: 5593836 (1997-01-01), Niemiec et al.
patent: 5714331 (1998-02-01), Buchardt
patent: 5719262 (1998-02-01), Buchardt
patent: 5792607 (1998-08-01), Backman 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: 6001611 (1999-12-01), Will
patent: 6027923 (2000-02-01), Wallace
patent: 6033881 (2000-03-01), Himmler et al.
patent: 6096880 (2000-08-01), Kool
patent: 6117635 (2000-09-01), Nazarenko et al.
patent: 6124120 (2000-09-01), Lizardi
patent: 6140055 (2000-10-01), Todd et al.
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
patent: 6255082 (2001-07-01), Lizardi
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 et al.
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: 6361940 (2002-03-01), Van Ness et al.
patent: 6479235 (2002-11-01), Schumm et al.
patent: 6642034 (2003-11-01), Lizardi
patent: 2002/0192649 (2002-12-01), Lizardi
patent: 0 070 685 (1982-07-01), None
patent: 0 466 520 (1991-07-01), None
patent: 0 745 690 (1996-12-01), None
patent: 0 866 071 (1998-03-01), None
patent: WO 95/03430 (1995-02-01), None
patent: WO 95/25180 (1995-09-01), None
patent: WO 97/16566 (1997-05-01), 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 98/07833 (1998-02-01), None
patent: WO 98/14610 (1998-04-01), None
patent: WO 99/18241 (1999-04-01), None
patent: WO 99/31276 (1999-06-01), None
patent: WO 99/46392 (1999-09-01), None
patent: WO 00/71562 (2000-11-01), None
Nuovo, et al. In Situ Amplification Using Universal Energy Transfer-labeled Primers,The Journal of Histochemistry&Cytochemistry, The Histochemical Society, Inc., New York, New York43(3):273-279 (1999), XP008002684.
Aliotta et al. ThermostableBstDNA polymerase l lacks a 3′-> 5′ proofreading exonuclease activity.Genet. Anal.(Netherlands) 12:185-195 (1996).
Arnold et al.Clinical Chemistry35:1588-1594 (1989).
Asseline et al. Solid phase preparation on 5′, 3′-Heterobifunctional oligonucleotides using modified solid supports.Tetrahedron. 48(7):1233-1254 (1992).
Baner et al. Signal amplification of padlock probes by rolling circle replication.Nucleic Acids Res.26(22):5073-5078 (1998).
Beaucage et al. Deoxynucleoside phosphoramidites-- a new class of key intermediates for deoxypolynucleotide synthesis.Tetrahedron Lett.22(20):1859-1862 (1981).
Beigelman et al. Synthesis of 1-Deoxy-D-Ribofuranose phosphoramidite and the incorporation of abasic nucleotides in stem-loop II of a hammerhead ribozyme.Bioorganic&Medicinal Chemistry Letters4(14):1715-1720 (1994).
Biragyn et al. Mediators of innate immunity that target immature, but not mature, dendritic cells induce antitumor immunity when genetically fused with nonimmunogenic tumor antigens.Journal of Immunology167:6644-6653 (2001).
Birkenmeyer et al. DNA probe amplification methods.J. Virol. Meth.35:117-126 (1991).
Blanco et al. Highly efficient DNA synthesis by the phage φ29 DNA polymerase.J. Biol. Chem.264(15):8935-8940 (1989).
Bloch et al. Alpha-anomeric DNA: beta-RNA hybrids as new synthetic inhibitors ofEscherichia coliRNase H, Drosophila embryo RNase H and M-MLV reverse transcriptase.Gene. 72:349-360 (1988).
Boehmer et al. Herpes simplex virus type 1 ICP8: helix-destabilizing properties.J. Virol.67(2):711-715 (1993).
Brownie et al. The elimination of primer-dimer accumulation In PCR.Nucleic Acids Res.25(16):3235-3241 (1997).
Brownstein et al. Modulation of non-templated nucleotide addition by Taq DNA polymerase: primer modifications that facilitate genotyping. Biotechniques 20(6):1004-1010 (1996).
Buchanan et al. Long DOP-PCR of rare archival anthropological samples,Hum. Biol.72(6):911-925 (2000).
Chatterjee et al. Cloning and overexpression of the gen encoding bacteri phage T5 DNA polymerase.Gene97:13-19 (1991).
Cheung et al. Wh le g nome amplification using a degen rate oligonucl tide primer allows hundr ds f genotypes t be p rf rmed n less than on nanogram of g nomic DNA,Proc Natl Acad Sci USA93:14676-14679 (1996).
Cocuzza. A phosphoramidite reagent for automat d s lid phase synthesis of 5′-biotinylated lig nucleotides.Tetrahedron Lett.30(46):6287-6290 (1989).
Compton. Nucleic acid sequence-based amplification.Nature. 350(6313):91-92 (1991).
Connolly. The synthesis of oligonucleotides containing a primary amino group at the 5′-terminus.Nucleic Acids Res.15(7):3131-3139 (1987).
Connolly et al. Chemical synthesis of oligonucleotides containing a free sulphydryl group and subsequent attachment of thiol specific probes.Nucleic Acids Res.13(12):4485-4502 (1985).
Craxton et al. Linear amplification sequencing, a powerful method for sequencing DNA,Methods: A Companion in Methods in Enzymology. 3(1):20-26 (1991).
Dolinnaya et al. Oligonucleotide circularization by template-directed chemical ligation.Nucleic Acids Res.21(23):5403-5407 (1993).
Dreyer et al. Sequence-specific cleavage of single-stranded DNA: oligodeoxynucleotide-EDTA Fe(II).Proc. Natl. Acad. Sci. USA82:968-972 (1985).
Durand et al. Circular dichroism studies of an oligodeoxyribonucleotide containing a hairpin loop made of a hexaethylene glycol chain: conformation and stability.Nucleic Acids Res.18(21):6353-6359 (1990).
Eckert et al. DNA polymerase fidelity and the polymerase chain reaction,PCR Methods and Applications1:17-24 (1991).
Egholm et al. Peptide nucleic acids (PNA). Oligonucleotide analogues with an achiral peptide backbone.J. Am. Chem. Soc.114:1895-1897 (1992).
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 φ29 DNA polymerase. comparison between protein-primed ilnitiation and DNA polymerization,J. Biol. Chem.268(4):2719-2726 (1993).
Faruqi et al. High-throughput genotyping of single nucleotide polymorphisms with rolling circle amplification,BMC Genomics2:4 (2001).
Ferrie et al. Development, multiplexing, and application of ARMS tests for common mutations in the CFTR gene.Am. J. Hum. Genet.51:251-262 (1992).
G

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

Amplification of denatured and stabilized nucleic acids does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Amplification of denatured and stabilized nucleic acids, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Amplification of denatured and stabilized nucleic acids will most certainly appreciate the feedback.

Rate now

     

Profile ID: LFUS-PAI-O-3555518

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