Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2006-03-16
2009-10-13
Riley, Jezia (Department: 1637)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C435S004000, C435S005000, C435S810000, C536S023100, C536S024300
Reexamination Certificate
active
07601498
ABSTRACT:
Methods of using dyes and associated technology are provided. A dye, such as a monomeric dye or a dimeric dye, may be used in a nucleic acid gel staining application and/or a nucleic acid detection application. Such a dye and a salt that comprises an anion that is associated with a strong acid and a cation that is associated with a strong base may be used in such an application. A dimeric dye, such as a dimeric dye capable of forming a hairpin-like structure, may be used to stain and/or detect nucleic acids via a release-on-demand mechanism. A dimeric dye having low background fluorescence in the absence of nucleic acids and high fluorescence in the presence of nucleic acids, upon binding therewith, may be used to stain and/or detect nucleic acids.
REFERENCES:
patent: 4883867 (1989-11-01), Lee et al.
patent: 5118801 (1992-06-01), Lizardi et al.
patent: 5210015 (1993-05-01), Gelfand et al.
patent: 5312728 (1994-05-01), Lizardi et al.
patent: 5321130 (1994-06-01), Yue et al.
patent: 5401847 (1995-03-01), Glazer et al.
patent: 5403928 (1995-04-01), Arrhenuis
patent: 5410030 (1995-04-01), Yue et al.
patent: 5436134 (1995-07-01), Haugland et al.
patent: 5445946 (1995-08-01), Roth et al.
patent: 5534416 (1996-07-01), Millard et al.
patent: 5538848 (1996-07-01), Livak et al.
patent: 5545535 (1996-08-01), Roth et al.
patent: 5582977 (1996-12-01), Yue et al.
patent: 5646264 (1997-07-01), Glazer et al.
patent: 5656449 (1997-08-01), Yue
patent: 5658751 (1997-08-01), Yue et al.
patent: 5691146 (1997-11-01), Mayrand
patent: 5763162 (1998-06-01), Glazer et al.
patent: 5846726 (1998-12-01), Nadeau et al.
patent: 5863753 (1999-01-01), Haugland et al.
patent: 5925517 (1999-07-01), Tyagi et al.
patent: 5977344 (1999-11-01), Glazer et al.
patent: 6037137 (2000-03-01), Komoriya et al.
patent: 6150097 (2000-11-01), Tyagi et al.
patent: 6258569 (2001-07-01), Livak et al.
patent: 6277570 (2001-08-01), Wood et al.
patent: 6569627 (2003-05-01), Wittwer et al.
patent: 6635427 (2003-10-01), Wittwer et al.
patent: 6664047 (2003-12-01), Haugland et al.
patent: 7166478 (2007-01-01), Stavrianopoulos et al.
patent: 2003/0008316 (2003-01-01), Smith et al.
patent: 2004/0132046 (2004-07-01), Westman et al.
patent: 2005/0239096 (2005-10-01), Beaudet et al.
patent: 2006/0211028 (2006-09-01), Mao et al.
patent: 1344835 (2003-09-01), None
patent: 1348713 (2003-10-01), None
patent: 1373250 (2006-08-01), None
Barak et al., “Fluorescent Low Density Lipoprotein for Observation of Dynamics of Individual Receptor Complexes on Cultured Human Fibroblasts,”The Journal of Cell Biology, vol. 90, 1981, pp. 595-604.
Ueda et al., “Single-Molecule Analysis of Chemotactic Signaling inDictyostelium Cells,” Science, vol. 294, Oct. 26, 2001, pp. 864-867.
Saiki et al., Enzymatic Amplification of β-Globin Genomic Sequences and Restriction Site Analysis for Diagnosis of Sickle Cell Anemia,Science, vol. 230, Dec. 20, 1985, pp. 1350-1354.
Lee, et al., “Allelic Discrimination by Nick-Translation PCR with Fluorogenic Probes,”Nucleic Acids Research, vol. 21, No. 16, 1993, pp. 3761-3766.
Zipper et al., “Investigations on DNA Intercalation and Surface Binding by SYBR Green 1, Its Structure Determination and Methodological Implications,”Nucleic Acid Research, vol. 32, No. 12, 2004, pp. 1-10.
Bengtsson et al., “A New Minor Groove Binding Asymmetric Cyanine Reporter Dye for Real-Time PCR,”Nucleic Acid Research, vol. 31, No. 8, 2003, pp. 1-5.
Karsai et al., “Evaluation of a Homemade SYBR Green I Reaction Mixture for Real-Time PCR Quantification of Gene Expression,”Biotechniques, Apr. 2002; 32(4): 790-2, 794-6, abstract only.
Stryer et al., “Energy Transfer: A Spectroscopic Ruler,”Proceedings of the National Academy of Sciences of the United States of America, vol. 58, No. 2, Aug. 15, 1967, pp. 719-726.
Kapuscinski et al., “Fluorescent Complexes of DNA with DAPI 4′,6-diamidine-2-phenyl indole.2HCI or DCI 4′,6-dicarboxyamide-2-phenyl indole,”Nucleic Acid Research, vol. 5, No. 10, Oct. 1978, pp. 3775-3799.
Gong et al., “New DNA Minor-Groove Binding Molecules with High Sequence-Selectivities and Binding Affinities,”Biochemical and Biophysical Communications, vol. 240, No. 3, 1997, pp. 557-560.
Tse et al., “A Fluorescent Intercalator Displacement Assay for Establishing DNA Binding Selectivity and Affinity,”Accounts of Chemical Research, vol. 37, No. 1, 2004, pp. 61-69.
Lown et al., “Efficient Total Syntheses of the Oligopeptide Antibiotics Netropsin and Distamycin,”J. Org. Chem., vol. 50, No. 20, 1985, pp. 3774-3779.
Chakraborty et al., “Synthesis and DNA Binding Properties of Pyrrole Amino Acid-Containing Peptides,”Tetrahedron Letters, vol. 46, 2005, pp. 647-651.
Parks et al., “Optimization of the Hairpin Polyamide Design for Recognition of the Minor Groove of DNA,”J. Am. Chem. Soc., vol. 118, No. 26, 1996, pp. 6147-6152.
Dervan, “Molecular Recognition of DNA By Small Molecules,”Bioorganic&Medicinal Chemistry, vol. 9, 2001, pp. 2215-2235.
West et al., “The Dimeric State of Cyanine Dyes,”The Journal of Physical Chemistry, vol. 69, No. 6, Jun. 1965, pp. 1894-1903.
Rohatgi et al., “Nature of Bonding in Dye Aggregates,”The Journal of Physical Chemistry, vol. 70, No. 6, Jun. 1966, pp. 1695-1701.
Rohatgi et al., “Thermodynamics of Dye Dimerization,”Chemical Physics Letters, vol. 12, No. 2, Dec. 15, 1971, pp. 259-260.
Khairutdinov et al., “Photophysics of Cyanine Dyes: Subnanosecond Relaxation Dynamics in Monomers, Dimers, and H- and J-Aggregates in Solution,”J. Phys. Chem. B, vol. 101, No. 14, 1997, pp. 2602-2610.
Yunjing et al., “Study on Acridine Orange Dimer as a New Fluorescent Probe for the Determination of Protein,”Anal. Commun., vol. 36, 1999, pp. 135-137.
Guo et al., DNA-Dye Fluorescence Enhancement Based on Shifting the Dimer-Monomer Equilibrium of Fluorescent Dye,Applied Spectroscopy, vol. 51, No. 7, 1997, pp. 1002-1007.
Ishiguro et al., “Fluorescence Detection of Specific Sequence of Nucleic Acids by Oxazole Yellow-Linked Oligonucleotides. Homogeneous Quantitative Monitoring of in vitro Transcription,”Nucleic Acids Research, vol. 24, No. 24, 1996, pp. 4992-4997.
Capelle et al., “Deoxyribonucleic Acid Bifunctional Intercalators: Kinetic Investigation of the Binding of Several Acridine Dimers to Deoxyribonucleic Acid,”Biochemistry, vol. 18, No. 15, 1979, pp. 3354-3362.
Traganos et al., “Simultaneous Staining of Ribonucleic and Deoxyribonucleic Acids in Unfixed Cells Using Acridine Orange in a Flow Cytofluorometric System,” 1 page, J. of Histochemistry & Cytochem. 1977, vol. 25, No. 1, p. 46, abstract on.
Yamagishi et al., “Selective Activation of Reactant Molecules by Reversed Micelles,”J. Phys. Chem., vol. 85, No. 3, 1981, pp. 281-285.
Gaugain et al., “DNA Bifunctional Intercalators. 1. Synthesis and Conformational Properties of an Ethidium Homodimer and of an Acridine Ethidium Heterodimer,”Biochemistry, vol. 17, No. 24, Nov. 28, 1978, pp. 5071-5078.
Gaugain, et al., “DNA Bifunctional Intercalators. 2. Fluorescence Properties and DNA Binding Interaction of an Ethidium Homodimer and an Acridine Ethidium Heterodimer,”Biochemistry, vol. 17, No. 24, 1978, pp. 5078-5088.
Adkins et al., “Visualization of DNA in Agarose Gels as Migrating Colored Bands: Applications for Preparative Gels and Educational Demonstrations,”Analytical Biochemistry, vol. 240, Article No. 0325, 1996, pp. 17-23.
Joseph et al., “Tuning of Intercalation and Electron-Transfer Processes Between DNA and Acridinium Derivatives through Steric Effects,”Bioconjugate Chem., vol. 15, 2004, pp. 1230-1235.
Yang et al., “Palladium-Catalyzed Amination of Aryl Halides and Sulfonates,”Journal of Organometallic Chemistry, vol. 576, 1999, pp. 125-146.
Hartwig et al., “Room-Temp
Leung Wai-Yee
Mao Fei
Biotium, Inc.
Riley Jezia
Wilson Sonsini Goodrich & Rosati
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