WO1995013396A3 - A method for identifying microorganisms, and aids useful thereof - Google Patents
A method for identifying microorganisms, and aids useful thereof Download PDFInfo
- Publication number
- WO1995013396A3 WO1995013396A3 PCT/NL1994/000283 NL9400283W WO9513396A3 WO 1995013396 A3 WO1995013396 A3 WO 1995013396A3 NL 9400283 W NL9400283 W NL 9400283W WO 9513396 A3 WO9513396 A3 WO 9513396A3
- Authority
- WO
- WIPO (PCT)
- Prior art keywords
- microorganism
- nucleic acid
- sample
- subjected
- conserved
- Prior art date
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Classifications
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6844—Nucleic acid amplification reactions
- C12Q1/6858—Allele-specific amplification
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6813—Hybridisation assays
- C12Q1/6827—Hybridisation assays for detection of mutation or polymorphism
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6844—Nucleic acid amplification reactions
- C12Q1/686—Polymerase chain reaction [PCR]
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
- C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
- C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q2600/00—Oligonucleotides characterized by their use
- C12Q2600/16—Primer sets for multiplex assays
Landscapes
- Chemical & Material Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Organic Chemistry (AREA)
- Proteomics, Peptides & Aminoacids (AREA)
- Zoology (AREA)
- Wood Science & Technology (AREA)
- Health & Medical Sciences (AREA)
- Engineering & Computer Science (AREA)
- Analytical Chemistry (AREA)
- Biophysics (AREA)
- Immunology (AREA)
- Microbiology (AREA)
- Molecular Biology (AREA)
- Biotechnology (AREA)
- Physics & Mathematics (AREA)
- Biochemistry (AREA)
- Bioinformatics & Cheminformatics (AREA)
- General Engineering & Computer Science (AREA)
- General Health & Medical Sciences (AREA)
- Genetics & Genomics (AREA)
- Chemical Kinetics & Catalysis (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
Abstract
Identification of a microorganism, in particular a bacterium, present in a sample. Nucleic acid (DNA or RNA) of the microorganism present in the sample is subjected to PCR or a different nucleic acid amplification method, utilizing one or more sets of universal primers based on a gene of the microorganism to be identified which comprises both conserved and variable regions, in particular the 16S rRNA gene, the primers being chosen in conserved areas which enclose a variable region. The product of the amplification is brought into single-stranded form, if necessary, and subjected to electrophoresis by which single-stranted nucleic acids of equal lengths can be separated from each other on the basis of differences in nucleotide sequence. The electrophoresed nucleic acid is detected and its position compared with those of a set of reference nucleic acids of known microorganisms. Set of suitable aids for practicing the method.
Applications Claiming Priority (2)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
NL9301957 | 1993-11-11 | ||
NL9301957A NL9301957A (en) | 1993-11-11 | 1993-11-11 | Method for identifying microorganisms, and useful tools. |
Publications (2)
Publication Number | Publication Date |
---|---|
WO1995013396A2 WO1995013396A2 (en) | 1995-05-18 |
WO1995013396A3 true WO1995013396A3 (en) | 1995-06-08 |
Family
ID=19863128
Family Applications (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
PCT/NL1994/000283 WO1995013396A2 (en) | 1993-11-11 | 1994-11-11 | A method for identifying microorganisms, and aids useful thereof |
Country Status (2)
Country | Link |
---|---|
NL (1) | NL9301957A (en) |
WO (1) | WO1995013396A2 (en) |
Families Citing this family (55)
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US5876924A (en) * | 1994-06-22 | 1999-03-02 | Mount Sinai School Of Medicine | Nucleic acid amplification method hybridization signal amplification method (HSAM) |
US6593086B2 (en) | 1996-05-20 | 2003-07-15 | Mount Sinai School Of Medicine Of New York University | Nucleic acid amplification methods |
USRE38442E1 (en) * | 1994-06-22 | 2004-02-24 | Mount Sinai School Of Medicine | Nucleic acid amplification method hybridization signal amplification method (HSAM) |
US5942391A (en) | 1994-06-22 | 1999-08-24 | Mount Sinai School Of Medicine | Nucleic acid amplification method: ramification-extension amplification method (RAM) |
GB9420774D0 (en) * | 1994-10-14 | 1994-11-30 | Univ Wales | Method of detecting and identifying spore forming bacteria |
DE19716456C2 (en) * | 1997-04-21 | 2002-05-08 | Schmitt Heinz Josef | Use of a combination of primers for the detection of infectious agents |
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WO1999035285A2 (en) * | 1998-01-08 | 1999-07-15 | Merck Sharp & Dohme De Espana, S.A.E. | Hybridization probes which differentiate between the actinomadura madurae group of bacteria and maduromycetes |
AU5062500A (en) * | 1999-04-26 | 2000-11-10 | Amersham Pharmacia Biotech Ab | Primers for identifying typing or classifying nucleic acids |
DE19945916A1 (en) | 1999-09-24 | 2001-04-05 | Biotecon Diagnostics Gmbh | Nucleic acid molecules for the detection of bacteria and phylogenetic units of bacteria |
WO2001023608A2 (en) * | 1999-09-27 | 2001-04-05 | Merck Sharp & Dohme De Espana, S.A.E. | Hybridization probes which specifically detect strains of the genera microbispora, microtetraspora, nonomuria and planobispora |
DE10027113A1 (en) | 1999-12-23 | 2001-09-27 | Andreas Hoeft | Method for determining microbial DNA / RNA, kit therefor and use of the method |
US20040121311A1 (en) | 2002-12-06 | 2004-06-24 | Ecker David J. | Methods for rapid detection and identification of bioagents in livestock |
US20030027135A1 (en) | 2001-03-02 | 2003-02-06 | Ecker David J. | Method for rapid detection and identification of bioagents |
AU2013231102B2 (en) * | 2001-03-02 | 2016-04-28 | Ibis Biosciences, Inc. | Methods for rapid identification of pathogens in humans and animals |
US7666588B2 (en) | 2001-03-02 | 2010-02-23 | Ibis Biosciences, Inc. | Methods for rapid forensic analysis of mitochondrial DNA and characterization of mitochondrial DNA heteroplasmy |
US7226739B2 (en) | 2001-03-02 | 2007-06-05 | Isis Pharmaceuticals, Inc | Methods for rapid detection and identification of bioagents in epidemiological and forensic investigations |
US7217510B2 (en) * | 2001-06-26 | 2007-05-15 | Isis Pharmaceuticals, Inc. | Methods for providing bacterial bioagent characterizing information |
JP2006516193A (en) | 2002-12-06 | 2006-06-29 | アイシス・ファーマシューティカルス・インコーポレーテッド | Rapid identification of pathogens in humans and animals |
US8057993B2 (en) | 2003-04-26 | 2011-11-15 | Ibis Biosciences, Inc. | Methods for identification of coronaviruses |
US7964343B2 (en) | 2003-05-13 | 2011-06-21 | Ibis Biosciences, Inc. | Method for rapid purification of nucleic acids for subsequent analysis by mass spectrometry by solution capture |
US8158354B2 (en) | 2003-05-13 | 2012-04-17 | Ibis Biosciences, Inc. | Methods for rapid purification of nucleic acids for subsequent analysis by mass spectrometry by solution capture |
US7205111B2 (en) * | 2003-07-24 | 2007-04-17 | Marshfield Clinic | Rapid identification of bacteria from positive blood cultures |
US8546082B2 (en) | 2003-09-11 | 2013-10-01 | Ibis Biosciences, Inc. | Methods for identification of sepsis-causing bacteria |
US8097416B2 (en) | 2003-09-11 | 2012-01-17 | Ibis Biosciences, Inc. | Methods for identification of sepsis-causing bacteria |
US20120122103A1 (en) | 2003-09-11 | 2012-05-17 | Rangarajan Sampath | Compositions for use in identification of bacteria |
US8163895B2 (en) | 2003-12-05 | 2012-04-24 | Ibis Biosciences, Inc. | Compositions for use in identification of orthopoxviruses |
US7666592B2 (en) | 2004-02-18 | 2010-02-23 | Ibis Biosciences, Inc. | Methods for concurrent identification and quantification of an unknown bioagent |
EP1766659A4 (en) | 2004-05-24 | 2009-09-30 | Ibis Biosciences Inc | Mass spectrometry with selective ion filtration by digital thresholding |
US20050266411A1 (en) | 2004-05-25 | 2005-12-01 | Hofstadler Steven A | Methods for rapid forensic analysis of mitochondrial DNA |
US7811753B2 (en) | 2004-07-14 | 2010-10-12 | Ibis Biosciences, Inc. | Methods for repairing degraded DNA |
US7309589B2 (en) * | 2004-08-20 | 2007-12-18 | Vironix Llc | Sensitive detection of bacteria by improved nested polymerase chain reaction targeting the 16S ribosomal RNA gene and identification of bacterial species by amplicon sequencing |
US8084207B2 (en) | 2005-03-03 | 2011-12-27 | Ibis Bioscience, Inc. | Compositions for use in identification of papillomavirus |
US20060205040A1 (en) | 2005-03-03 | 2006-09-14 | Rangarajan Sampath | Compositions for use in identification of adventitious viruses |
JP2009502137A (en) | 2005-07-21 | 2009-01-29 | アイシス ファーマシューティカルズ インコーポレイティッド | Method for rapid identification and quantification of nucleic acid variants |
US8088582B2 (en) | 2006-04-06 | 2012-01-03 | Ibis Biosciences, Inc. | Compositions for the use in identification of fungi |
US9149473B2 (en) | 2006-09-14 | 2015-10-06 | Ibis Biosciences, Inc. | Targeted whole genome amplification method for identification of pathogens |
JP5680304B2 (en) | 2007-02-23 | 2015-03-04 | アイビス バイオサイエンシズ インコーポレイティッド | Rapid forensic DNA analysis |
WO2008151023A2 (en) | 2007-06-01 | 2008-12-11 | Ibis Biosciences, Inc. | Methods and compositions for multiple displacement amplification of nucleic acids |
US8550694B2 (en) | 2008-09-16 | 2013-10-08 | Ibis Biosciences, Inc. | Mixing cartridges, mixing stations, and related kits, systems, and methods |
EP2347254A2 (en) | 2008-09-16 | 2011-07-27 | Ibis Biosciences, Inc. | Sample processing units, systems, and related methods |
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WO2010093943A1 (en) | 2009-02-12 | 2010-08-19 | Ibis Biosciences, Inc. | Ionization probe assemblies |
WO2010104798A1 (en) | 2009-03-08 | 2010-09-16 | Ibis Biosciences, Inc. | Bioagent detection methods |
WO2010114842A1 (en) | 2009-03-30 | 2010-10-07 | Ibis Biosciences, Inc. | Bioagent detection systems, devices, and methods |
WO2011008971A1 (en) | 2009-07-17 | 2011-01-20 | Ibis Biosciences, Inc. | Lift and mount apparatus |
WO2011008972A1 (en) | 2009-07-17 | 2011-01-20 | Ibis Biosciences, Inc. | Systems for bioagent identification |
US9416409B2 (en) | 2009-07-31 | 2016-08-16 | Ibis Biosciences, Inc. | Capture primers and capture sequence linked solid supports for molecular diagnostic tests |
US9080209B2 (en) | 2009-08-06 | 2015-07-14 | Ibis Biosciences, Inc. | Non-mass determined base compositions for nucleic acid detection |
WO2011047307A1 (en) | 2009-10-15 | 2011-04-21 | Ibis Biosciences, Inc. | Multiple displacement amplification |
WO2011048227A1 (en) * | 2009-10-22 | 2011-04-28 | Biotools Biotechnological & Medical Laboratories, S.A. | Composition, method and kit for detecting bacteria by means of sequencing |
WO2011115840A2 (en) | 2010-03-14 | 2011-09-22 | Ibis Biosciences, Inc. | Parasite detection via endosymbiont detection |
JP5399312B2 (en) * | 2010-04-26 | 2014-01-29 | 日東電工株式会社 | Adhesive sheet |
WO2016164407A2 (en) | 2015-04-07 | 2016-10-13 | Polyskope Labs | Detection of one or more pathogens |
CA3130726A1 (en) * | 2019-03-15 | 2020-09-24 | Cyrus Cody ZEGRATI | Selective enrichment broth for detection of one or more pathogens |
Citations (4)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO1990001560A1 (en) * | 1988-07-29 | 1990-02-22 | David John Evans | Bacterial dna probe |
WO1990015157A1 (en) * | 1989-05-31 | 1990-12-13 | Gene-Trak Systems | Universal eubacteria nucleic acid probes and methods |
EP0479117A1 (en) * | 1990-10-05 | 1992-04-08 | F. Hoffmann-La Roche Ag | Methods and reagents for identifying bacteria |
WO1993005179A1 (en) * | 1991-08-29 | 1993-03-18 | THE UNITED STATES OF AMERICA, represented by THE SECRETARY, DEPARTMENT OF HEALTH AND HUMAN SERVICES:National Institutes of Health | A method for discriminating and identifying alleles in complex loci |
-
1993
- 1993-11-11 NL NL9301957A patent/NL9301957A/en not_active Application Discontinuation
-
1994
- 1994-11-11 WO PCT/NL1994/000283 patent/WO1995013396A2/en active Application Filing
Patent Citations (4)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO1990001560A1 (en) * | 1988-07-29 | 1990-02-22 | David John Evans | Bacterial dna probe |
WO1990015157A1 (en) * | 1989-05-31 | 1990-12-13 | Gene-Trak Systems | Universal eubacteria nucleic acid probes and methods |
EP0479117A1 (en) * | 1990-10-05 | 1992-04-08 | F. Hoffmann-La Roche Ag | Methods and reagents for identifying bacteria |
WO1993005179A1 (en) * | 1991-08-29 | 1993-03-18 | THE UNITED STATES OF AMERICA, represented by THE SECRETARY, DEPARTMENT OF HEALTH AND HUMAN SERVICES:National Institutes of Health | A method for discriminating and identifying alleles in complex loci |
Non-Patent Citations (5)
Title |
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G. SARKAR ET AL.: "Screening for mutations by RNA single-strand conformation polymorphism (rSSCP): comparison with DNA-SSCP", NUCL. ACIDS RES., vol. 20, IRL PRESS, OXFORD, ENGLAND;, pages 871 * |
G. VAN CAMP ET AL.: "Amplification and sequencing of variable regions in bacterial 23S ribosomal RNA genes with conserved primer sequences", CURRENT MICROBIOL., vol. 27, no. 3, SPRINGER INTERNATIONAL, NEW YORK, US, pages 147 - 151 * |
J. BROSIUS ET AL.: "Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli", PROC. NATL.ACAD SCI., vol. 75, no. 10, NATL. ACAD SCI.,WASHINGTON,DC,US;, pages 4801 - 4805 * |
K. CHEN ET AL.: "Broad range DNA probes for detecting and amplifying eubacterial nucleic acids", FEMS MICROBIOLGY LETTERS, vol. 57, ELSEVIER, AMSTERDAM, NL;, pages 19 * |
M.N. WIDJOJOATMODJO ET AL.: "Rapid identification of bacteria by single-strand conformation polymorphism", J. CLIN. MICROBIOL., vol. 32, no. 12, ASM, WASHINGTON,DC,US, pages 3002 - 3007 * |
Also Published As
Publication number | Publication date |
---|---|
NL9301957A (en) | 1995-06-01 |
WO1995013396A2 (en) | 1995-05-18 |
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