WO2001036683A3 - Method for rapid and accurate identification of microorganisms - Google Patents

Method for rapid and accurate identification of microorganisms Download PDF

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Publication number
WO2001036683A3
WO2001036683A3 PCT/US2000/031579 US0031579W WO0136683A3 WO 2001036683 A3 WO2001036683 A3 WO 2001036683A3 US 0031579 W US0031579 W US 0031579W WO 0136683 A3 WO0136683 A3 WO 0136683A3
Authority
WO
WIPO (PCT)
Prior art keywords
methods
rapid
microorganisms
accurate identification
identification
Prior art date
Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
Ceased
Application number
PCT/US2000/031579
Other languages
French (fr)
Other versions
WO2001036683A2 (en
Inventor
Zhiping Liu
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Apollo Biotechnology Inc
Original Assignee
Apollo Biotechnology Inc
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Apollo Biotechnology Inc filed Critical Apollo Biotechnology Inc
Priority to AU17719/01A priority Critical patent/AU1771901A/en
Priority to CA002391571A priority patent/CA2391571A1/en
Priority to EP00980462A priority patent/EP1261716A2/en
Publication of WO2001036683A2 publication Critical patent/WO2001036683A2/en
Priority to US10/151,484 priority patent/US20030134293A1/en
Anticipated expiration legal-status Critical
Publication of WO2001036683A3 publication Critical patent/WO2001036683A3/en
Ceased legal-status Critical Current

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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
    • C12Q1/686—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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C12Q1/6837—Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
    • 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
    • C12Q1/6876—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
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/70—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving virus or bacteriophage
    • 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
    • C12Q2600/156—Polymorphic or mutational markers
    • 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)
  • Health & Medical Sciences (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Engineering & Computer Science (AREA)
  • Analytical Chemistry (AREA)
  • Immunology (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Biophysics (AREA)
  • Physics & Mathematics (AREA)
  • Biotechnology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Virology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)

Abstract

Methods and compositions useful for rapid identification of microorganisms are provided. Methods and compositions useful for rapid and simultaneous identification in a biological sample of multiple microorganisms, including bacteria, yeast, fungi and viruses are also provided. The methods and compositions utilize amplification techniques and sequence specific hybridization to detect species specific polynucleotide sequence in a sample. Novel methods for coupling oligonucleotide probes to glass surfaces with increased efficiency are also provided.
PCT/US2000/031579 1999-11-16 2000-11-16 Method for rapid and accurate identification of microorganisms Ceased WO2001036683A2 (en)

Priority Applications (4)

Application Number Priority Date Filing Date Title
AU17719/01A AU1771901A (en) 1999-11-16 2000-11-16 Method for rapid and accurate identification of microorganisms
CA002391571A CA2391571A1 (en) 1999-11-16 2000-11-16 Method for rapid and accurate identification of microorganisms
EP00980462A EP1261716A2 (en) 1999-11-16 2000-11-16 Method for rapid and accurate identification of microorganisms
US10/151,484 US20030134293A1 (en) 1999-11-16 2002-05-16 Method for rapid and accurate identification of microorganisms

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US16588199P 1999-11-16 1999-11-16
US60/165,881 1999-11-16
US47945700A 2000-01-06 2000-01-06
US09/479,457 2000-01-06

Related Child Applications (1)

Application Number Title Priority Date Filing Date
US10/151,484 Continuation-In-Part US20030134293A1 (en) 1999-11-16 2002-05-16 Method for rapid and accurate identification of microorganisms

Publications (2)

Publication Number Publication Date
WO2001036683A2 WO2001036683A2 (en) 2001-05-25
WO2001036683A3 true WO2001036683A3 (en) 2002-09-26

Family

ID=26861776

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2000/031579 Ceased WO2001036683A2 (en) 1999-11-16 2000-11-16 Method for rapid and accurate identification of microorganisms

Country Status (4)

Country Link
EP (1) EP1261716A2 (en)
AU (1) AU1771901A (en)
CA (1) CA2391571A1 (en)
WO (1) WO2001036683A2 (en)

Families Citing this family (15)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP1421216A4 (en) * 2001-09-01 2006-05-17 Samsung Electronics Co Ltd METHOD FOR PRODUCING A HYDROGEL BIOCHIP USING A STARRY-LIKE POLYETHYLENE GLYCOL DERIVATIVE WITH EPOXY GROUP
JP2003144153A (en) * 2001-11-09 2003-05-20 Gifu Univ Gene detection method, gene detection primer, DNA microarray, and gene detection kit
US20050202414A1 (en) * 2001-11-15 2005-09-15 The Regents Of The University Of California Apparatus and methods for detecting a microbe in a sample
US6881835B2 (en) * 2002-01-04 2005-04-19 Dr. Chip Biotechnology Inc. Detection of respiratory viruses
DE10244456A1 (en) * 2002-09-24 2004-04-15 Hain Lifescience Gmbh Methods for the detection and differentiation of bacteria
FI113549B (en) * 2002-11-19 2004-05-14 Mobidiag Oy Diagnostic method for identifying and identifying bacteria causing respiratory tract infections and primer composition useful in the process
FR2860801B1 (en) * 2003-10-10 2007-09-21 Bertin Technologies Sa METHOD FOR RAPID DETECTION OF MICROORGANISMS ON DNA CHIPS
US20090197249A1 (en) * 2004-11-01 2009-08-06 George Mason University Compositions and methods for diagnosing colon disorders
RU2348695C2 (en) * 2006-05-23 2009-03-10 Закрытое акционерное общество "Молекулярно-медицинские технологии" Differentiating and specific oligonucleotids for dna sequence identification for infection agents in biological materials, method of species identification of infection agents, biochip and method implementation kit
JP5596894B2 (en) * 2006-11-10 2014-09-24 キヤノン株式会社 Probe set, probe fixing carrier, and genetic testing method
MX345230B (en) 2010-02-24 2017-01-20 The Broad Inst Inc * Methods of diagnosing infectious disease pathogens and their drug sensitivity.
GB201314873D0 (en) * 2013-08-20 2013-10-02 Univ Cape Town Method for diagnosing tuberculosis in a urine sample
EP3607096A1 (en) * 2017-04-03 2020-02-12 Bio-Me AS Microorganism detection methods
CN119040455B (en) * 2024-10-31 2025-02-25 南京农业大学三亚研究院 Primer set, kit and application thereof for high-throughput targeted detection of ruminant pathogens and drug-resistant genes
CN120738374A (en) * 2025-08-27 2025-10-03 北京昭衍生物技术有限公司 QPCR primer probe composition for detecting spiroplasma, kit and application thereof

Citations (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1991002577A1 (en) * 1989-08-15 1991-03-07 Gelman Sciences, Inc. Blotting methods using polyaldehyde activated membranes
US5708160A (en) * 1995-04-26 1998-01-13 The National Research Council HSP-60 genomic locus and primers for species identification
WO1998020157A2 (en) * 1996-11-04 1998-05-14 Infectio Diagnostic (I.D.I.) Inc. Species-specific, genus-specific and universal dna probes and amplification primers to rapidly detect and identify common bacterial and fungal pathogens and associated antibiotic resistance genes from clinical specimens for diagnosis in microbiology laboratories
WO1998028444A2 (en) * 1996-12-23 1998-07-02 The University Of Chicago Customized oligonucleotide microchips as multiple biosensors
DE19716456A1 (en) * 1997-04-21 1998-10-22 Schmitt Heinz Josef Prof Dr Identification of microorganisms, especially respiratory tract pathogens
EP0899337A2 (en) * 1997-08-29 1999-03-03 Smithkline Beecham FtsY polynucleotides and polypeptides of Stapyloccoccus aureus belonging to the signal recognition protein family

Patent Citations (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1991002577A1 (en) * 1989-08-15 1991-03-07 Gelman Sciences, Inc. Blotting methods using polyaldehyde activated membranes
US5708160A (en) * 1995-04-26 1998-01-13 The National Research Council HSP-60 genomic locus and primers for species identification
WO1998020157A2 (en) * 1996-11-04 1998-05-14 Infectio Diagnostic (I.D.I.) Inc. Species-specific, genus-specific and universal dna probes and amplification primers to rapidly detect and identify common bacterial and fungal pathogens and associated antibiotic resistance genes from clinical specimens for diagnosis in microbiology laboratories
WO1998028444A2 (en) * 1996-12-23 1998-07-02 The University Of Chicago Customized oligonucleotide microchips as multiple biosensors
DE19716456A1 (en) * 1997-04-21 1998-10-22 Schmitt Heinz Josef Prof Dr Identification of microorganisms, especially respiratory tract pathogens
EP0899337A2 (en) * 1997-08-29 1999-03-03 Smithkline Beecham FtsY polynucleotides and polypeptides of Stapyloccoccus aureus belonging to the signal recognition protein family

Non-Patent Citations (4)

* Cited by examiner, † Cited by third party
Title
BRENDEL V ET AL: "EVOLUTIONARY COMPARISONS OF RECA-LIKE PROTEINS ACROSS ALL MAJOR KINGDOMS OF LIVING ORGANISMS", JOURNAL OF MOLECULAR EVOLUTION, SPRINGER VERLAG, NEW YORK, NY, US, vol. 44, no. 5, May 1997 (1997-05-01), pages 528 - 541, XP001001339, ISSN: 0022-2844 *
KARLIN S ET AL: "BACTERIAL CLASSIFICATIONS DERIVED FROM RECA PROTEIN SEQUENCE COMPARISONS", JOURNAL OF BACTERIOLOGY, WASHINGTON, DC, US, vol. 177, no. 23, December 1995 (1995-12-01), pages 6881 - 6893, XP000857476, ISSN: 0021-9193 *
NOWAK A ET AL: "Genomic species typing of acinetobacters by polymerase chain reaction amplification of the recA gene.", FEMS MICROBIOLOGY LETTERS, vol. 130, no. 2-3, 1995, pages 327 - 332, XP002192745, ISSN: 0378-1097 *
See also references of EP1261716A2 *

Also Published As

Publication number Publication date
WO2001036683A2 (en) 2001-05-25
CA2391571A1 (en) 2001-05-25
AU1771901A (en) 2001-05-30
EP1261716A2 (en) 2002-12-04

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