WO2014202938A3 - Fluorophore-based oligonucleotide probes with a universal element - Google Patents

Fluorophore-based oligonucleotide probes with a universal element Download PDF

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Publication number
WO2014202938A3
WO2014202938A3 PCT/GB2014/000240 GB2014000240W WO2014202938A3 WO 2014202938 A3 WO2014202938 A3 WO 2014202938A3 GB 2014000240 W GB2014000240 W GB 2014000240W WO 2014202938 A3 WO2014202938 A3 WO 2014202938A3
Authority
WO
WIPO (PCT)
Prior art keywords
nucleotide sequence
section
hybridising
oligonucleotide
target polynucleotide
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/GB2014/000240
Other languages
French (fr)
Other versions
WO2014202938A2 (en
Inventor
David French
Paul Debenham
Rebecca Howard
Tom Brown
James Richardson
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.)
University of Southampton
LGC Ltd
Original Assignee
University of Southampton
LGC Ltd
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 University of Southampton, LGC Ltd filed Critical University of Southampton
Priority to CN201480045830.4A priority Critical patent/CN105555969A/en
Priority to EP14742563.1A priority patent/EP3011053A2/en
Priority to US14/898,953 priority patent/US20160369327A1/en
Publication of WO2014202938A2 publication Critical patent/WO2014202938A2/en
Publication of WO2014202938A3 publication Critical patent/WO2014202938A3/en
Anticipated expiration legal-status Critical
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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6832—Enhancement of hybridisation reaction
    • 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
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6848—Nucleic acid amplification reactions characterised by the means for preventing contamination or increasing the specificity or sensitivity of an amplification reaction
    • 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
    • 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
    • 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

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  • 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

There is provided a method of detecting the presence of a target polynucleotide and/or sequence variations within the target polynucleotide using a probe system comprising two independent partner oligonucleotide components wherein the first oligonucleotide has a first and second section, wherein the first section comprises a nucleotide sequence that is labelled with at least one visually detectable label and is not capable of hybridising to the nucleotide sequence of the target polynucleotide; and wherein the second section comprises a nucleotide sequence that is capable of hybridising to a portion of the sequence of the target polynucleotide; and the second oligonucleotide has a first and second section, wherein the first section comprises a nucleotide sequence which is capable of hybridising to a nucleotide sequence of the first section of the first oligonucleotide; and the second section comprises a nucleotide sequence that is capable of hybridising to a nucleotide sequence of the target polynucleotide that is adjacent to the nucleotide sequence that the second section of the first oligonucleotide is capable of hybridising to. There are also provided alternative methods using additional oligonucleotides and probes for use in such methods.
PCT/GB2014/000240 2013-06-18 2014-06-18 Fluorophore-based oligonucleotide probes with a universal element Ceased WO2014202938A2 (en)

Priority Applications (3)

Application Number Priority Date Filing Date Title
CN201480045830.4A CN105555969A (en) 2013-06-18 2014-06-18 Fluorophore-based oligonucleotide probes with a universal element
EP14742563.1A EP3011053A2 (en) 2013-06-18 2014-06-18 Fluorophore-based oligonucleotide probes with a universal element
US14/898,953 US20160369327A1 (en) 2013-06-18 2014-06-18 Fluorophore-based oligonucleotide probes with a universal element

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
GB1310823.8 2013-06-18
GBGB1310823.8A GB201310823D0 (en) 2013-06-18 2013-06-18 Fluorophore-based oligonucleotide probes with a universal element

Publications (2)

Publication Number Publication Date
WO2014202938A2 WO2014202938A2 (en) 2014-12-24
WO2014202938A3 true WO2014202938A3 (en) 2015-04-09

Family

ID=48914731

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/GB2014/000240 Ceased WO2014202938A2 (en) 2013-06-18 2014-06-18 Fluorophore-based oligonucleotide probes with a universal element

Country Status (5)

Country Link
US (1) US20160369327A1 (en)
EP (1) EP3011053A2 (en)
CN (1) CN105555969A (en)
GB (2) GB201310823D0 (en)
WO (1) WO2014202938A2 (en)

Families Citing this family (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
KR20180053679A (en) * 2015-09-03 2018-05-23 나노스트링 테크놀로지스, 인크. A multi-valued probe with a single nucleotide resolution
WO2018232596A1 (en) * 2017-06-20 2018-12-27 深圳华大基因研究院 Quantitative PCR amplification primer pair and its application
CN109694927A (en) * 2019-03-01 2019-04-30 纽奥维特(成都)生物科技有限公司 Primer system of HPV (human papillomavirus) as well as detection method and application thereof
EP4034674B1 (en) 2019-09-23 2025-03-26 Universiteit Gent Probe and method for str-genotyping

Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0552931A1 (en) * 1992-01-22 1993-07-28 Gen-Probe Incorporated Hybridization assay using branched nucleic acid probes
WO2007010268A2 (en) * 2005-07-20 2007-01-25 Lgc Limited Oligonucleotides
WO2010017246A1 (en) * 2008-08-04 2010-02-11 University Of Maryland Probes and methods for detecting analytes
WO2011063388A2 (en) * 2009-11-23 2011-05-26 Becton, Dickinson And Company Assay method for target nucleic acid by signal amplification using probe hybridization and restriction

Family Cites Families (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO1999042616A1 (en) * 1998-02-20 1999-08-26 Dade Behring Inc. Methods for determining concentrations of nucleic acids
EP1278889B1 (en) * 2000-03-29 2006-07-26 LGC Limited Hybridisation beacon and method of rapid sequence detection and discrimination
DE102005000021A1 (en) * 2005-03-16 2006-09-21 Köhler, Thomas, Dr. Method and test kit for the detection of target nucleic acids

Patent Citations (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0552931A1 (en) * 1992-01-22 1993-07-28 Gen-Probe Incorporated Hybridization assay using branched nucleic acid probes
WO2007010268A2 (en) * 2005-07-20 2007-01-25 Lgc Limited Oligonucleotides
WO2010017246A1 (en) * 2008-08-04 2010-02-11 University Of Maryland Probes and methods for detecting analytes
WO2011063388A2 (en) * 2009-11-23 2011-05-26 Becton, Dickinson And Company Assay method for target nucleic acid by signal amplification using probe hybridization and restriction

Also Published As

Publication number Publication date
GB201310823D0 (en) 2013-07-31
WO2014202938A2 (en) 2014-12-24
GB2520373A (en) 2015-05-20
EP3011053A2 (en) 2016-04-27
GB201410882D0 (en) 2014-07-30
US20160369327A1 (en) 2016-12-22
CN105555969A (en) 2016-05-04

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