DNA sequencing by mass spectrometry via exonuclease degradation

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

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250282, 250288, 422 681, C12Q 168, B01D 5944, G01N 3072

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056228244

ABSTRACT:
Methods for determining the sequence of nucleic acids by cleaving the nueleic acid unilaterally from a first end with an exonuclease activity to sequentially release individual nucleotides, identifying each of the sequentially release nucleotides by mass spectrometry, and determining the sequence of the nueleic acid from the identified nucleotides are disclosed. The method is amenable to multiplexing for simultaneously determining more than one nucleic acid sequence.

REFERENCES:
patent: 4997928 (1991-03-01), Hobbs, Jr.
patent: 5002868 (1991-03-01), Jacobson et al.
patent: 5174962 (1992-12-01), Brennan
patent: 5288644 (1994-02-01), Beavis et al.
Jacobson, K. Bruce et al., "Applications of Mass Spectrometry to DNA Sequencing", GATA, 8(8) pp. 223-229 (1991).
Ardrey "Electrospray Mass Spectrometry" Spectroscopy Europe 1992, vol. 4, No. 4, pp. 11-18.
Axelrod et al. "Transcription from Bacteriophage T7 and SP6 RNA Polymerase Promoters in the Presence of 3'-Deoxyribonucleoside 5'-Ttiphosphate Chain Terminators" Biochemistry 1985, vol. 24, pp. 5716-5723.
Arlinghaus et al. "Applications of reasonance ionization spectroscopy for semiconductor, environmental and biomedical analysis, and for DNA sequencing" SPIE 1991, vol. 1435, pp. 26-35.
Bains "Setting a Sequence to Sequence a Sequence" BIO/Technology 1992, vol. 10, pp. 757-758.
Bains "DNA Sequencing by Mass Spectrometry. Outline of a Potential Future Application" Chimica0ggi Review 1991, vol. Oct.
Barrell "DNA sequencing: present limitations and prospects for the future" The FASEB Journal 1991, vol. 5, pp. 40-45.
Beck et al. "Applications of Dioxetane Chemiluminescent Probes to Molecular Biology" Analytical Chemistry 1990, vol. 17, No. 21, pp. 2258-2270.
Beck et al. "Chemiluminescent detection of DNA: application for DNA sequencing and hybridization" Nucleic Acid Research 1989, vol. 17, No. 13, pp. 5115-5123.
Brennan et al. "New Methods to Sequence DNA by Mass Spectrometry" SPIE/New Technologies in Cytometry and Molecular Biology 1990, vol. 1206, pp. 60-67.
Brumbaugh et al. "Continous, on-line DNA sequencing using oligodeonucleotide primers with multiple fluorophores" PNAS 1988, vol. 85, pp. 5610-5614.
Chu et al. "Synthesis of an amplifiable reporter RNA for bioassays" Nucleic Acid Research 1986, vol. 14 No. 14, pp. 5590-5603.
Church et al. "Multiplex DNA Sequencing" Science Research Articles 1988, vol. 240, pp. 185-188.
Covey et al. "The Determination of Protein, Oligonucleotide and Peptide Molecular Weights by Ion-spray Mass Spectrometry" Rapid Communications in Mass Spectrometry 1988, vol. 2, No. 11, pp. 249-256.
Crain "Mass spectrometrc techniques in nucleic acid research" Mass Spectrometry Reviews 1990, vol. 9, pp. 505-554.
Edmonds et al. "Electrospray Ionization Mass Spectrometry" Methods in Enzymology 1990, vol. 193, pp. 412-431.
Eckstein (editor) "Oligonucleotides and Analogues: A Practical Approach" 1991, Chapter 7, by Connolly, pp. 155-183.
Eckstein "Nucleoside Phosphorothioates" Ann. Rev. Biochem. 1985, vol. 54, pp. 367-402.
Eckstein "Phosphorothioate Analogues of Nucleotides" Accounts of Chemical Research 1978, vol. 12, pp. 204-210.
Eckstein et al. "Synthesis and Properties of Diastereoisomers of Adenosine 5'-(O-1-Thiotriphosphate) and Adenoise 5'-(O-2-Thiotriphosphate)" Biochemistry 1976, vol. 15, No. 8, pp. 1685-1691.
Fehere et al. "Matrix-assisted Laser Desorption Mass Spectrometry of Oligodeoxythymidylic Acids" Rapid Communications in Mass Spectrometry 1992, vol. 6, pp. 209-213.
Frank et al. "DNA chain length and the influence of base composition on electrophoretic mobility of oligodeoxyribonucleotides in polyacrylamide-gels" Nucleic Acid Research 1979, vol. 6, No. 6, pp. 2069-2087.
Gildea et al. "A Versatile Acid-labile Linker for Modification of Synthetic Biomolecules" Tetrahedron Letters 1990, vol. 31, No. 49, pp. 7095-7098.
Green et al. "Variable-wavelength On-column Fluorescence Detector for Open-tubular Zone Electrophoresis" Journal of Chromatography 1986, vol. 352, pp. 337-343.
Haralambidis et al. "Preparation of base-modified nucleosides suitable for non-radioactive label attachment and their incorporation into synthetic oligodeoxyribonucleotides" Nucleic Acid Research 1987, vol. 15, No. 12, pp. 4857-4876.
Khrapko et al. "An oligonucleotide hybridization approach to DNA sequencing" FEBS Letters 1989, vol. 256, No. 1,2, pp. 118-122.
Higuchi et al. "A general method of in vitro preparation and specific mutagenesis of DNA fragments: study of protein and DNA interactions" Nucleic Acid Research 1988, vol. 16, No. 15, pp. 7351-7367.
Hillenkamp et al. "Matrix-Assisted UV-Laser Desorption/Ionization: A New Approach to Mass Spectrometry of Large Biomolecules" Biological Mass Spectrometry 1987, pp. 49-61.
Hobbs et al. "A General Method for the Synthesis of 2'-Azido-2'-deoxy-and 2'-Amino-2'-deoxyribofuranosyl Purines" Journal Organic Chemistry 1977, vol. 42, No. 4, pp. 714-719.
Hyman "A New Method of Sequencing DNA" Analytical Biochemistry 1988, vol. 174, pp. 423-436.
Koster et al. "Oligonucleotide synthesis and multiplex DNA sequencing using chemiluminescent detection" Nucleic Acid Research Symposioum Series 1991, No. 24, pp. 318-321.
Koster et al. "N-Acyl Protecting Groups for Deoxynucleosides a Quantitative and Comparative Study" Tetrahedron 1981, vol. 37, No. 2, pp. 363-369.
Ikehara et al. "Studies of Nucleosides and Nucleotides LXXIX. Purine Cyclonucleosides. (37). The Total Synthesis of an Antibiotic 2'-Amino-2'-deoxyguanosine" Chem. Pharm. Bull. 1978, vol. 26, No. 1, pp. 240-244.
Imazawa et al. "Facile Synthesis of 2'-Amino-2'-deoxyribofuranosyl Purines" Journal Organic Chemistry 1979, vol. 44, No. 12, pp. 2039-2041.
Jett et al. "High-Speed DNA Sequencing: An Approach Based Upon Fluorescence Detection of Single Molecules" Journal of Biomolecular Structure & Dynamics 1989, vol. 7, No. 2, pp. 301-309.
Lim et al. "Optimal Conditions for Supercoil DNA Sequencing with the Eschirichia coliDNA Polymerase I Large Fragment" Gene. Anal. Techn. 1988, vol. 5, pp. 32-39.
Nakamaye et al. "Direct sequencing of polymerase chain reaction amplified DNA fragments through the incorporation of deoxynucleoside o-thitriphosphates" Nucleic Acid Research 1988 vol. 16, No. 21, pp. 9947-9959.
Nelson et al. "Time-of-Flight Mass Spectrometry of Nucleic Acids by Laser Ablation and Ionization from A Frozen Aqueous Matrix" Rapid Communications In Spectrometry 1990, vol. 4, No. 9, pp. 348-351.
Nelson et al. "Volatilization of High Molecular Weight DNA by Pulsed Laser Ablation of Frozen Aqueous Solutions" Science Reports 1989, vol. 246, pp. 1585-1587.
Perrouault et al. "Sequence-specific artificial photo-induced endonucleases based on triple helix-forming oligonucleotides" Nature (Letters to Nature) 1990, vol. 344, pp. 358-360.
Pitulle et al. "Initiator oligonucleotides for the combination of chemical and enzymatic RNA synthesis" Gene 1992, vol. 112, pp. 101-105.
Prober et al. "A System for Rapid DNA Sequencing with Fluorescent Chain-Terminating Dideoxynucleotides" Science Research Articles 1987, vol. 238, pp. 336-341.
Schram et al. "Mass Spectrometry of Nucleic Acd Components" Mathods Biochem. Anal. 1990, vol. 34, pp. 203-287.
Seela et al. "98. 1,7-Dideaza-2', 3'-dideoxyadenosine: Syntheses of Pyrrolo[2,3-b]pyridine 2', 3'-Dideoxyribofuranosides and Participation of Purine N(1) during HIV-1 Reverse Transcriptase Inhibition" Helvetica Chimica Acta 1991, vol. 74, pp. 1048-1058.
Singh et al. "Oligonucleotides, part 5+: synthesis and fluorescence studies of DNA oligomers d(AT)5 containing adenines covalently linked at C-8 with dansyl flurophore" Nucleic Acid Research 1990, vol. 18, No. 11, pp. 3339-3345.
Sinha et al. "Polymer support oligonucleotide synthesis XVIII: use of B-cyanoethyl-N, N-dialklyamino-/N-morpholino phosphoramidite of deoxynucleosides for the synthesis of DNA fragments simplifying deprotection and isolation of final product" Nuc. Acid Res. 1984, vol. 12 No. 11 pp. 4539-4557.
Slim et al. "Configurationally defined phosphorothioate-containing oligoribonucleotides in the study of the mechanism of cleavage of hammerhead ribozymes" Nuclei

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