Method, compositions and kit for detection and identification of

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

Patent

Rate now

  [ 0.00 ] – not rated yet Voters 0   Comments 0

Details

435 912, C12Q 168, C12P 1934

Patent

active

058887369

ABSTRACT:
Evaluation of a sample for the presence and qualitative nature of a microorganism can be performed in a single vessel by combining a natural abundance DNA sample with a sequencing mixture containing a primer pair, a thermally stable polymerase such as ThermoSequenase.TM. which incorporates dideoxynucleotides into an extending nucleic acid polymer at a rate which is no less than about 0.4 times the rate of incorporation of deoxynucleotides, nucleotide triphosphate feedstocks, and a chain terminating nucleotide triphosphate. The mixture is processed through multiple thermal cycles for annealing, extension and denaturation to produce a product mixture which is analyzed by electrophoresis.

REFERENCES:
patent: 4683194 (1987-07-01), Saiki et al.
patent: 4683195 (1987-07-01), Mullis et al.
patent: 4683202 (1987-07-01), Mullis
patent: 4729947 (1988-03-01), Middendorf et al.
patent: 4795699 (1989-01-01), Tabor et al.
patent: 4800159 (1989-01-01), Mullis et al.
patent: 4811218 (1989-03-01), Hunkapiller et al.
patent: 4889818 (1989-12-01), Gelfand et al.
patent: 4942124 (1990-07-01), Church
patent: 4965188 (1990-10-01), Mullis et al.
patent: 5008182 (1991-04-01), Sninsky et al.
patent: 5075216 (1991-12-01), Innis et al.
patent: 5079352 (1992-01-01), Gelfand et al.
patent: 5122345 (1992-06-01), Tabor et al.
patent: 5124247 (1992-06-01), Ansorge
patent: 5171534 (1992-12-01), Smith et al.
patent: 5175082 (1992-12-01), Jeffreys
patent: 5176995 (1993-01-01), Sninsky et al.
patent: 5207880 (1993-05-01), Middendorf et al.
patent: 5283171 (1994-02-01), Manos et al.
patent: 5352600 (1994-10-01), Gelfand et al.
patent: 5427911 (1995-06-01), Ruano
patent: 5453355 (1995-09-01), Birkenmeyer et al.
patent: 5527898 (1996-06-01), Bauer et al.
patent: 5830657 (1998-11-01), Leushner et al.
Rao, V. B., "Direct-Sequencing of Polymerase Chain Reaction-Amplified DNA", Anal Biochem, 216: 1-14 (1994).
Kretz et al., "Cycle Sequencing" in PCR Methods and Applications 3: S107-S112 (1994).
Deng et al., "Simultaneous amplification and sequencing of genomic DNA (SAS): sequencing of 16S rRNA genes using total genomic DNA from Butyrovibrio fibrisolvens, and detection and genotyping of non-cultruable mycoplasma-like organisms directly from total DNA isolated from infected plants", J. Microbiol. Methods 17: 103-113 (1993).
Gyllenstein et al., "Generation of single-stranded DNA by polymerase chain reaction and its application to direct sequencing of the HLA-DQA locus", Proc. Nat'l Acad. Sci. USA 85: 7652-7656 (1988).
Mullis et al., "Specific Synthesis of DNA in Vitro via a Polymerase-Catalyzed Chain Reaction" Meth. Enzymol. 155: 335-350 (1987).
Ruano et al., "Genotyping and haplotyping of polymorphisms directly from genomic DNA via coupled amplification and sequencing (CAS)" Nucl. Acids Res. 19: 6877-6882 (1991).
Miller et al., "Chain Terminator Sequencing of Double-Stranded DNA With Built in Error Correction", General Atomics Pre-Print (1991).
Nuovo, G.J., "In situ PCR" in Dieffenbach et al., PCR Primer: A Laboratory Manual, pp. 235-248, Cold Spring Harbor Laboratory Press (1995).
Roemer et al., "Simultaneous Bi-Directional Cycle Sequencing", Poster presented at 9.sup.th International Genome Sequencing and Analysis Conference, Hilton Head, SC, Sep. 1997.
Tabor et al., "A single residue in DNA Polymerases of the Escherichia coli DNA polymerase I family is critical for distinguishing between deoxy and dideoxynucleotides", Proc. Nat'l Acad. Sci. USA. 92: 6339-6343 (1995).
Reeve et al., A novel thermostable polymerase for DNA sequencing Nature 376: 796-797 (1995).
Sarkar et al., "Dideoxy Fingerprinting (ddF): A rapid and Efficient Screen for the Presence of Mutations" Genomics 13: 441-443 (1992).
Wiemann et al., "Simultaneous On-Line Sequencing on Both Strands with Two Fluorescent Dyes" Anal. Biochem. 224: 117-121 (1995).
Murakawa et al., :Direct Detection of HIV-1 RNA from AIDS and ARC Patient Samples DNA 7: 287-295 (1988).
Carothers et al., "Point Mutation Analysis in A Mammalian Gene: Rapid Preparation of Total RNA, PCR Amplification of cDNA, and Tag Sequencing by a Novel Method" BioTechniques 7: 494-498 (1989).
Murray, V., "Improved Double-Stranded DNA Sequencing Using the Linear Polymerase Chain Reaction", Nucl. Acids Res. 17: 8889 (1989).
Mahony et al., "Multiplex PCR for Detection of Chlamydia trachomatis and Neisseria gonorhoeae in Genitourinary specimens" J. Clin. Microbiol. 33: 3049-3053 (1995).
Kaltenboeck et al, "Two-Step Polymerase Chain Reaction and Restriction Endonuclease Analyses Detect and Differentiate ompA DNA of Chlmaydia spp." J. Clin. Microbiol. 30: 1098-1104 (1992).
Mahony et al., "Confirmatory Polymerase Chain Reaction Testing for Chlamydia trachomatis in First-Void Urine from Asymptomatic and Symptomatic Men" J. Clin. Microbiol. 30: 2241-2245 (1992).
Ruano et al., "Coupled Amplification and sequencing of geneomic DNA", Proc. Nat'l Acad. Sci (USA) 88: 2815-2819 (1991).
Ewanowitch et al., "Major Outbreak of Pertussis in Northern Alberta Canada: Analysis of Discrepant Direct Fluorescent-Antibody Culture Results by Using Polymerase Chain Reaction Methodology" J. Clin. Microbiol. 31: 1715-1725 (1993).
Erickson, D., "Diagnosis by DNA", Scientific American, p. 116 (1992).
Eisenstein, B., "The Polymerase Chain Reaction", New Engl. J., Med. 332: 178-183 (1990).
De Schryver et al., "Epidemiology of sexually transmitted diseases: the global picture", Bull. WHO 68: 639-654 (1990).
Church et al., "The Genomic Sequencing Technique", Medical Genetics: Past, Present, Future pp. 17-21 (1985).
Church et al., "Genomic Sequencing", Proc. Nat'l Acad. Sci. (USA) 81: 1991-1995 (1984). for detection of bacterial pathogens and indicators in water" Molec. Cellular Probes 4: 353-365 (1990).
Bej et al., "Detection of Coliform Bacteria and Escherichia coli by Multiplex Chain Reaction: Comparison with Defined Substrate and Plating Methods for Water Quality Monitoring" Appl. Environ. Microbiol. 57: 2429-2432 (1991).
Beebe et al., "Incidence of Neisseria gonorrhoeae Isolates Negative by Syva DDirect Fluorescent-Antibody Test but Positve by Gen-Prove Accuprobe Test in a Sexually Transmitted Disease Clinic Population" J. Clim. Microbiol. 31: 2535-2537 (1993).
Way et al., "Specific Detection of Salmonella spp. by Multiplex Polymerase Chain Reaction" Appl. Environ. Microbiol. 59: 1473-1479 (1993).
Warren et al., "Comparative Evaulation of Detection Assays for Chlamydia trachomatis" J. Clin. Microbiol. 31: 1663-1666 (1993).
Thermosequenase Product Insert (1995).
Maxam et al., "A new method for sequencing DNA", Proc. Nat'l. Acad. Sci. (USA) 74: 560-564 (1977).
Smith et al., "Fluorescence Detection in automated DNA Sequence analysis" Nature 321: 674-679 (1986).
Langemeier et al., "Application of Cycle Dideoxy Fingerprinting to Screening Heterogeneous Polpulations of the Equine Infectious Anemia Virus", Biotechniques 17 (1994).
Ruano et al., Automated Genomic Coupled Amplification and Sequencing (CAS) of the Mitochondrial D Loop, Genomic Analysis Conference, Hilton Head, Fall 1994.
Arnot et al. "Digital codes from hypervariable tandemly repeated DNA sequences in the Plasmodium falciparum circumsporozoite gene can genetically barcode isolates" Molec. Biochem. Parasitol. 61: 15-24 (1993).
Ellison et al., "Detection of Mutations and Polymorphisms Using Fluorescence-Based Dideoxy Fingerprinting (F-ddF)", Biotechniques 17: 742-753 (1994).
Sanger et al., "DNA sequencing with chain-terminating inhibitors" Proc. Nat'l. Acad. Sci. 74: 5463-5467 (1977).

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, compositions and kit for detection and identification of 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, compositions and kit for detection and identification of, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Method, compositions and kit for detection and identification of will most certainly appreciate the feedback.

Rate now

     

Profile ID: LFUS-PAI-O-1213477

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