WO2007057669A3 - Method of detecting pathogens - Google Patents

Method of detecting pathogens Download PDF

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Publication number
WO2007057669A3
WO2007057669A3 PCT/GB2006/004266 GB2006004266W WO2007057669A3 WO 2007057669 A3 WO2007057669 A3 WO 2007057669A3 GB 2006004266 W GB2006004266 W GB 2006004266W WO 2007057669 A3 WO2007057669 A3 WO 2007057669A3
Authority
WO
WIPO (PCT)
Prior art keywords
detecting pathogens
probes
kits
real
carrying
Prior art date
Application number
PCT/GB2006/004266
Other languages
French (fr)
Other versions
WO2007057669A2 (en
Inventor
Csaba Jeney
Tibor Takacs
Original Assignee
Genoid Kft
Hart Deborah Mary
Csaba Jeney
Tibor Takacs
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
Priority claimed from GB0523250A external-priority patent/GB0523250D0/en
Priority to BRPI0620507-0A priority Critical patent/BRPI0620507A2/en
Priority to EA200801315A priority patent/EA014648B1/en
Priority to AU2006314297A priority patent/AU2006314297B2/en
Priority to CA2629564A priority patent/CA2629564C/en
Priority to AT06808556T priority patent/ATE474066T1/en
Priority to JP2008540687A priority patent/JP2009515545A/en
Priority to EP06808556A priority patent/EP1844164B1/en
Application filed by Genoid Kft, Hart Deborah Mary, Csaba Jeney, Tibor Takacs filed Critical Genoid Kft
Priority to DE602006015419T priority patent/DE602006015419D1/en
Priority to DK06808556.2T priority patent/DK1844164T3/en
Priority to PL06808556T priority patent/PL1844164T3/en
Priority to US12/093,878 priority patent/US7993881B2/en
Priority to NZ568290A priority patent/NZ568290A/en
Publication of WO2007057669A2 publication Critical patent/WO2007057669A2/en
Publication of WO2007057669A3 publication Critical patent/WO2007057669A3/en
Priority to NO20082657A priority patent/NO20082657L/en

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Classifications

    • 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
    • C12Q1/6816—Hybridisation assays characterised by the detection means
    • C12Q1/6818—Hybridisation assays characterised by the detection means involving interaction of two or more labels, e.g. resonant energy transfer
    • 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
    • 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
    • C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
    • C12Q2525/10—Modifications characterised by
    • C12Q2525/161—Modifications characterised by incorporating target specific and non-target specific sites
    • 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
    • C12Q2525/00—Reactions involving modified oligonucleotides, nucleic acids, or nucleotides
    • C12Q2525/30—Oligonucleotides characterised by their secondary structure
    • C12Q2525/301—Hairpin oligonucleotides
    • 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
    • C12Q2565/00—Nucleic acid analysis characterised by mode or means of detection
    • C12Q2565/10—Detection mode being characterised by the assay principle
    • C12Q2565/107—Alteration in the property of hybridised versus free label oligonucleotides

Landscapes

  • Chemical & Material Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Organic Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Zoology (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Analytical Chemistry (AREA)
  • Microbiology (AREA)
  • Physics & Mathematics (AREA)
  • Molecular Biology (AREA)
  • Immunology (AREA)
  • Biotechnology (AREA)
  • Biophysics (AREA)
  • Biochemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)

Abstract

A method for detecting pathogens, particularly organisms associated with sexually transmitted diseases, especially Human papilloma virus genotypes is described. The method involves the use of real-time PCR using specially designed probes. The probes, kits for carrying out the method, and methods for designing primers suitable for use in the method of the invention are also described.
PCT/GB2006/004266 2005-11-15 2006-11-15 Method of detecting pathogens WO2007057669A2 (en)

Priority Applications (13)

Application Number Priority Date Filing Date Title
NZ568290A NZ568290A (en) 2005-11-15 2006-11-15 Method of detecting pathogens and in particular human papilloma virus (HPV)
EP06808556A EP1844164B1 (en) 2005-11-15 2006-11-15 Method of detecting pathogens using molecular beacons
AU2006314297A AU2006314297B2 (en) 2005-11-15 2006-11-15 Method of detecting pathogens
CA2629564A CA2629564C (en) 2005-11-15 2006-11-15 Method of detecting pathogens
DE602006015419T DE602006015419D1 (en) 2005-11-15 2006-11-15 METHOD FOR DETECTING PATHOGENS BY MECHANISM OF BEACONS
JP2008540687A JP2009515545A (en) 2005-11-15 2006-11-15 Method
EA200801315A EA014648B1 (en) 2005-11-15 2006-11-15 Method of detecting pathogens
BRPI0620507-0A BRPI0620507A2 (en) 2005-11-15 2006-11-15 method of detecting pathogens
AT06808556T ATE474066T1 (en) 2005-11-15 2006-11-15 METHOD FOR DETECTING PATHOGENS USING MOLECULAR BEACONS
DK06808556.2T DK1844164T3 (en) 2005-11-15 2006-11-15 Method for Detecting Pathogens Using Molecular Beacons
PL06808556T PL1844164T3 (en) 2005-11-15 2006-11-15 Method of detecting pathogens using molecular beacons
US12/093,878 US7993881B2 (en) 2005-11-15 2006-11-15 Method for detecting pathogens using molecular beacons
NO20082657A NO20082657L (en) 2005-11-15 2008-06-13 Procedure for showing pathogens

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
US73700605P 2005-11-15 2005-11-15
US60/737,006 2005-11-15
GB0523250A GB0523250D0 (en) 2005-11-15 2005-11-15 Method
GB0523250.9 2005-11-15

Publications (2)

Publication Number Publication Date
WO2007057669A2 WO2007057669A2 (en) 2007-05-24
WO2007057669A3 true WO2007057669A3 (en) 2007-08-02

Family

ID=37684956

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/GB2006/004266 WO2007057669A2 (en) 2005-11-15 2006-11-15 Method of detecting pathogens

Country Status (12)

Country Link
US (1) US7993881B2 (en)
EP (1) EP1844164B1 (en)
JP (1) JP2009515545A (en)
KR (1) KR20080084809A (en)
AT (1) ATE474066T1 (en)
AU (1) AU2006314297B2 (en)
CA (1) CA2629564C (en)
DE (1) DE602006015419D1 (en)
EA (1) EA014648B1 (en)
NO (1) NO20082657L (en)
PL (1) PL1844164T3 (en)
WO (1) WO2007057669A2 (en)

Families Citing this family (9)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN102791884A (en) * 2010-01-08 2012-11-21 奇亚根盖瑟斯堡股份有限公司 Materials and methods for isothermal nucleic acid amplification
RU2558236C2 (en) 2010-02-16 2015-07-27 Бектон, Дикинсон энд Кампани Analysis system for detection of closely related serotypes of human papilloma virus (hpv)
US20140147851A1 (en) * 2011-04-01 2014-05-29 Occam Biolabs, Inc. Methods and kits for detecting cell-free pathogen-specific nucleic acids
US20140212869A1 (en) * 2013-01-25 2014-07-31 Agilent Technologies, Inc. Nucleic Acid Proximity Assay Involving the Formation of a Three-way junction
US20170204481A1 (en) * 2014-12-22 2017-07-20 Enzo Biochem, Inc. Comprehensive and comparative flow cytometry-based methods for identifying the state of a biological system
GB201511470D0 (en) 2015-06-30 2015-08-12 Cellcall Kft HPV detection method
JP6962927B2 (en) * 2016-03-11 2021-11-05 エフ.ホフマン−ラ ロシュ アーゲーF. Hoffmann−La Roche Aktiengesellschaft Compositions and methods for detecting Zika virus
BR112019022384A2 (en) * 2017-04-26 2020-05-26 F. Hoffmann-La Roche Ag APPROPRIATE POLYPEPTIDE FOR THE DETECTION OF ANTIBODIES AGAINST ZIKA VIRUS, METHODS OF PRODUCTION OF POLYPEPTIDE, OF DETECTION OF ANTIBODIES SPECIFIC TO ZIKA VIRUSES AND OF DETECTION OF ANTIBODIES AGAINST ZIKA VIRUSES, USE OF POLYTRAYE AGENTS
JPWO2020050350A1 (en) * 2018-09-07 2021-08-30 株式会社ヘルスケアシステムズ How to detect human papillomavirus

Citations (12)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0477972A2 (en) * 1990-09-28 1992-04-01 Abbott Laboratories Nucleotide sequences useful as type-specific probes, PCR primers and LCR probes for the amplification and detection of human papilloma virus, and related kits and methods
WO1993000435A1 (en) * 1991-06-28 1993-01-07 Institut Pasteur Adn sequences of the human papillomavirus type 42, and diagnostic application thereof
US6159729A (en) * 1995-03-30 2000-12-12 Merck & Co., Ltd. Synthetic HPV6/11 hybrid L1 DNA encoding human papillomavirus type 11 L1 protein
WO2001009386A2 (en) * 1999-08-02 2001-02-08 The Johns Hopkins University Digital amplification
EP1201771A2 (en) * 1997-09-16 2002-05-02 Innogenetics N.V. Detection and identification of human papillomavirus by PCR and type-specific reverse hybridization
US20020102571A1 (en) * 1997-07-24 2002-08-01 Jane Theaker Use of 2'-O-methyl RNA as hybridisation probe
US20030068625A1 (en) * 2001-09-05 2003-04-10 Perlegen Sciences, Inc. Algorithms for selection of primer pairs
WO2003057914A2 (en) * 2002-01-07 2003-07-17 Norchip A/S METHOD FOR DETECTING HUMAN PAPILLOMAVIRUS mRNA
WO2003076667A1 (en) * 2002-03-14 2003-09-18 Genoid Kft Amplification-hybridisation method for detecting and typing human papillomavirus
US20040151723A1 (en) * 2001-06-08 2004-08-05 Hiroo Maeda Novel epitope of human papilloma virus e7 antigen and cd4-positive t cells activated by the epitope
WO2005033333A2 (en) * 2003-10-07 2005-04-14 Dako Denmark A/S Methods and compositions for the diagnosis of cancer
US20050215497A1 (en) * 2001-11-09 2005-09-29 Annick Harel-Bellan Inhibitor oligonucleotides and their use for specific repression of a gene

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US6037130A (en) * 1998-07-28 2000-03-14 The Public Health Institute Of The City Of New York, Inc. Wavelength-shifting probes and primers and their use in assays and kits
EP1409735A4 (en) 2001-06-25 2005-10-05 Georgia Tech Res Inst Dual resonance energy transfer nucleic acid probes
US6713262B2 (en) * 2002-06-25 2004-03-30 Agilent Technologies, Inc. Methods and compositions for high throughput identification of protein/nucleic acid binding pairs
WO2005012548A2 (en) * 2003-08-01 2005-02-10 Dynal Biotech Inc. Self-hybridizing multiple target nucleic acid probes and methods of use

Patent Citations (12)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0477972A2 (en) * 1990-09-28 1992-04-01 Abbott Laboratories Nucleotide sequences useful as type-specific probes, PCR primers and LCR probes for the amplification and detection of human papilloma virus, and related kits and methods
WO1993000435A1 (en) * 1991-06-28 1993-01-07 Institut Pasteur Adn sequences of the human papillomavirus type 42, and diagnostic application thereof
US6159729A (en) * 1995-03-30 2000-12-12 Merck & Co., Ltd. Synthetic HPV6/11 hybrid L1 DNA encoding human papillomavirus type 11 L1 protein
US20020102571A1 (en) * 1997-07-24 2002-08-01 Jane Theaker Use of 2'-O-methyl RNA as hybridisation probe
EP1201771A2 (en) * 1997-09-16 2002-05-02 Innogenetics N.V. Detection and identification of human papillomavirus by PCR and type-specific reverse hybridization
WO2001009386A2 (en) * 1999-08-02 2001-02-08 The Johns Hopkins University Digital amplification
US20040151723A1 (en) * 2001-06-08 2004-08-05 Hiroo Maeda Novel epitope of human papilloma virus e7 antigen and cd4-positive t cells activated by the epitope
US20030068625A1 (en) * 2001-09-05 2003-04-10 Perlegen Sciences, Inc. Algorithms for selection of primer pairs
US20050215497A1 (en) * 2001-11-09 2005-09-29 Annick Harel-Bellan Inhibitor oligonucleotides and their use for specific repression of a gene
WO2003057914A2 (en) * 2002-01-07 2003-07-17 Norchip A/S METHOD FOR DETECTING HUMAN PAPILLOMAVIRUS mRNA
WO2003076667A1 (en) * 2002-03-14 2003-09-18 Genoid Kft Amplification-hybridisation method for detecting and typing human papillomavirus
WO2005033333A2 (en) * 2003-10-07 2005-04-14 Dako Denmark A/S Methods and compositions for the diagnosis of cancer

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COUTLÉE FRANÇOIS ET AL: "Use of PGMY primers in L1 consensus PCR improves detection of human papillomavirus DNA in genital samples.", JOURNAL OF CLINICAL MICROBIOLOGY MAR 2002, vol. 40, no. 3, March 2002 (2002-03-01), pages 902 - 907, XP002420610, ISSN: 0095-1137 *
DENG ET AL: "Two-dimensional micro-bubble actuator array to enhance the efficiency of molecular beacon based DNA micro-biosensors", BIOSENSORS & BIOELECTRONICS, ELSEVIER SCIENCE PUBLISHERS, BARKING, GB, vol. 21, no. 8, 11 August 2005 (2005-08-11), pages 1443 - 1450, XP005263999, ISSN: 0956-5663 *
EL-HAJJ H H ET AL: "Detection of rifampin resistance in Mycobacterium tuberculosis in a single tube with molecular beacons.", JOURNAL OF CLINICAL MICROBIOLOGY NOV 2001, vol. 39, no. 11, November 2001 (2001-11-01), pages 4131 - 4137, XP002420608, ISSN: 0095-1137 *
HSIEH MING-HUA ET AL: "An efficient algorithm for minimal primer set selection", BIOINFORMATICS, OXFORD UNIVERSITY PRESS, OXFORD,, GB, vol. 19, no. 2, 22 January 2003 (2003-01-22), pages 285 - 286, XP002427481, ISSN: 1367-4803 *
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SNIJDERS P J F ET AL: "THE USE OF GENERAL PRIMERS IN THE POLYMERASE CHAIN REACTION PERMITS THE DETECTION OF A BROAD SPECTRUM OF HUMAN PAPILLOMAVIRUS GENOTYPES", JOURNAL OF GENERAL VIROLOGY, READING, BERKS, GB, vol. 71, no. 1, 1990, pages 173 - 181, XP009014549, ISSN: 0022-1317 *
STROHSAHL ET AL: "Towards single-spot multianalyte molecular beacon biosensors", TALANTA, ELSEVIER, AMSTERDAM, NL, vol. 67, no. 3, 15 September 2005 (2005-09-15), pages 479 - 485, XP005047815, ISSN: 0039-9140 *
SZUHAI K ET AL: "A novel strategy for human papillomavirus detection and genotyping with SybrGreen and molecular beacon polymerase chain reaction.", THE AMERICAN JOURNAL OF PATHOLOGY NOV 2001, vol. 159, no. 5, November 2001 (2001-11-01), pages 1651 - 1660, XP002419665, ISSN: 0002-9440 *
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Also Published As

Publication number Publication date
EA014648B1 (en) 2010-12-30
WO2007057669A2 (en) 2007-05-24
EP1844164B1 (en) 2010-07-14
US7993881B2 (en) 2011-08-09
DE602006015419D1 (en) 2010-08-26
PL1844164T3 (en) 2010-12-31
CA2629564A1 (en) 2007-05-24
JP2009515545A (en) 2009-04-16
KR20080084809A (en) 2008-09-19
EP1844164A2 (en) 2007-10-17
ATE474066T1 (en) 2010-07-15
CA2629564C (en) 2014-04-22
AU2006314297A1 (en) 2007-05-24
AU2006314297B2 (en) 2012-10-18
NO20082657L (en) 2008-08-14
EA200801315A1 (en) 2008-10-30
US20090215030A1 (en) 2009-08-27

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