WO2004067726A3 - Isothermal reactions for the amplification of oligonucleotides - Google Patents

Isothermal reactions for the amplification of oligonucleotides Download PDF

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Publication number
WO2004067726A3
WO2004067726A3 PCT/US2004/002718 US2004002718W WO2004067726A3 WO 2004067726 A3 WO2004067726 A3 WO 2004067726A3 US 2004002718 W US2004002718 W US 2004002718W WO 2004067726 A3 WO2004067726 A3 WO 2004067726A3
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WO
WIPO (PCT)
Prior art keywords
reactions
reaction
amplification
exponential
chain reaction
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Application number
PCT/US2004/002718
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French (fr)
Other versions
WO2004067726A2 (en
Inventor
Ness Jeffrey Van
David J Galas
Ness Lori K Van
Jeffrey B Graybill
Original Assignee
Keck Graduate Inst
Ionian Technologies Inc
Ness Jeffrey Van
David J Galas
Ness Lori K Van
Jeffrey B Graybill
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.)
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Publication date
Application filed by Keck Graduate Inst, Ionian Technologies Inc, Ness Jeffrey Van, David J Galas, Ness Lori K Van, Jeffrey B Graybill filed Critical Keck Graduate Inst
Publication of WO2004067726A2 publication Critical patent/WO2004067726A2/en
Publication of WO2004067726A3 publication Critical patent/WO2004067726A3/en

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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
    • C12Q1/6848—Nucleic acid amplification reactions characterised by the means for preventing contamination or increasing the specificity or sensitivity of an amplification reaction

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  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Biophysics (AREA)
  • Immunology (AREA)
  • Microbiology (AREA)
  • Molecular Biology (AREA)
  • Biotechnology (AREA)
  • Analytical Chemistry (AREA)
  • Physics & Mathematics (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)

Abstract

Described is a new class of isothermal reactions for amplifying DNA. These homogeneous reactions rapidly synthesize short oligonucleotides (e.g., 8-16 bases) specified by the sequence of an amplification template. Versions of the reactions can proceed in either a linear or an exponential amplification mode. Both of these reactions utilize simple, stable conditions. The rate of amplification depends entirely on the molecular parameters governing the interactions of the molecules in the reaction. The exponential version of the method is a molecular chain reaction that uses the oligonucleotide products of each linear reaction to create a producer of more of the same oligonucleotide. It is a highly sensitive chain reaction that can be triggered by specific DNA sequences and can achieve amplifications of more than 106 fold. Several similar reactions in this class are described here. The robustness, speed and sensitivity of the exponential reaction render it useful in rapidly detecting the presence of small amounts of a specific DNA sequence in a sample, and a range of other applications including many currently making use of the polymerase chain reaction (PCR).
PCT/US2004/002718 2003-01-29 2004-01-29 Isothermal reactions for the amplification of oligonucleotides WO2004067726A2 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US44365203P 2003-01-29 2003-01-29
US60/443,652 2003-01-29

Publications (2)

Publication Number Publication Date
WO2004067726A2 WO2004067726A2 (en) 2004-08-12
WO2004067726A3 true WO2004067726A3 (en) 2005-12-15

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ID=32825356

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2004/002718 WO2004067726A2 (en) 2003-01-29 2004-01-29 Isothermal reactions for the amplification of oligonucleotides

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WO (1) WO2004067726A2 (en)

Cited By (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9562264B2 (en) 2007-07-14 2017-02-07 Ionian Technologies, Inc. Nicking and extension amplification reaction for the exponential amplification of nucleic acids
US11845991B2 (en) 2009-02-03 2023-12-19 Exact Sciences Corporation Fecal sample processing and analysis comprising detection of blood

Families Citing this family (35)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
JP4822801B2 (en) 2005-10-24 2011-11-24 西川ゴム工業株式会社 Mutant endonuclease
EP2050828A3 (en) 2006-06-12 2009-08-26 Oncomethylome Sciences S.A. Methylation markers for early detection and prognosis of colon cancers
AU2008273946A1 (en) 2007-07-09 2009-01-15 Microsens Medtech Limited Detection of micro-organisms based on their NAD-dependent DNA ligase activity
US9322065B2 (en) 2007-09-17 2016-04-26 Mdxhealth Sa Methods for determining methylation of the TWIST1 gene for bladder cancer detection
CN101932723B (en) 2007-09-17 2014-09-10 肿瘤甲基化科学公司 Improved detection of mage-a expression
WO2009105549A2 (en) 2008-02-19 2009-08-27 Oncomethylome Sciences Sa Detection and prognosis of lung cancer
EP2626435B1 (en) 2008-03-21 2016-06-01 MDxHealth S.A. Detection and prognosis of cervical cancer
CA2679750A1 (en) 2008-09-23 2010-03-23 Nexus Dx, Inc. Methods for detecting nucleic acids in a sample
CN102099488B (en) * 2009-01-05 2013-04-03 汪小龙 Method for amplifying oligonucleotide and small RNA by using polymerase-endonuclease chain reaction
CA2755358A1 (en) 2009-03-13 2010-09-16 Mdxhealth Sa Novel markers for bladder cancer detection
MX2011009597A (en) 2009-03-17 2012-05-29 Glaxosmithkline Biolog Sa Improved detection of gene expression.
WO2011036173A1 (en) 2009-09-24 2011-03-31 Oncomethylome Sciences S.A. Detection and prognosis of cervical cancer
WO2011135058A2 (en) 2010-04-30 2011-11-03 Mdxhealth Sa Methods for detecting epigenetic modifications
EP2420579A1 (en) 2010-08-17 2012-02-22 QIAGEN GmbH Helicase dependent isothermal amplification using nicking enzymes
US20120058481A1 (en) 2010-08-20 2012-03-08 Life Technologies Corporation Quantitative Real Time PCR Assay Using FRET Dual-Labeled Primers
US9845495B2 (en) 2010-12-10 2017-12-19 Abbott Laboratories Method and kit for detecting target nucleic acid
GB201206209D0 (en) 2012-04-06 2012-05-23 Univ Leuven Kath Marker gene based diagnosis, staging and prognosis of prostate caner
US9352312B2 (en) 2011-09-23 2016-05-31 Alere Switzerland Gmbh System and apparatus for reactions
NZ701145A (en) 2012-04-09 2016-09-30 Envirologix Inc Compositions and methods for quantifying a nucleic acid sequence in a sample
GB201322034D0 (en) 2013-12-12 2014-01-29 Almac Diagnostics Ltd Prostate cancer classification
CA2936157C (en) 2014-01-15 2021-08-24 Tokyo Institute Of Technology Covered sequence conversion dna and detection methods
WO2016059473A2 (en) 2014-10-14 2016-04-21 Abbott Japan Co., Ltd Sequence conversion and signal amplifier dna having locked nucleic acids and detection methods using same
US10604790B2 (en) 2014-12-24 2020-03-31 Abbott Laboratories Sequence conversion and signal amplifier DNA cascade reactions and detection methods using same
GB201510684D0 (en) 2015-06-17 2015-08-05 Almac Diagnostics Ltd Gene signatures predictive of metastatic disease
WO2017141067A1 (en) 2016-02-16 2017-08-24 The University Of Tokyo Method of eliminating background amplification of nucleic acid targets
CA3014543A1 (en) 2016-02-16 2017-08-24 The University Of Tokyo Molecular computing component and method of molecular computing
GB201605110D0 (en) 2016-03-24 2016-05-11 Mologic Ltd Detecting sepsis
AU2018255266B2 (en) * 2017-04-17 2023-04-20 Montana State University Switch-like isothermal DNA amplification demonstrating a non-linear amplification rate
GB201902458D0 (en) 2019-02-22 2019-04-10 Mologic Ltd Treatment stratification for an excerbation of inflamation
CN110408678A (en) * 2019-07-26 2019-11-05 宁儿医院股份有限公司 The multiple microorganism detection system of single-tube and its instant detection method
GB201914538D0 (en) 2019-10-08 2019-11-20 Momentum Bioscience Ltd Microorganism capture from antimicrobial-containing solution
WO2021192965A1 (en) * 2020-03-26 2021-09-30 Ｐｈｃホールディングス株式会社 Isothermal nucleic acid amplification method and isothermal nucleic acid amplification device
EP4150126A2 (en) * 2020-05-12 2023-03-22 Singular Genomics Systems, Inc. Nucleic acid amplification methods
GB202019059D0 (en) * 2020-12-03 2021-01-20 Univ Birmingham Target rna detection
CN112760362B (en) * 2021-02-04 2023-07-07 中国人民解放军陆军特色医学中心 Annular signal amplification template for oligonucleotide amplification and application thereof

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5648211A (en) * 1994-04-18 1997-07-15 Becton, Dickinson And Company Strand displacement amplification using thermophilic enzymes
US6130038A (en) * 1996-07-16 2000-10-10 Gen-Probe Incorporated Method for amplifying target nucleic acids using modified primers
WO2001094544A2 (en) * 2000-06-02 2001-12-13 New England Biolabs, Inc. N.bstnbi nicking endonuclease and methods for using endonucleases in single-stranded displacement amplification

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5648211A (en) * 1994-04-18 1997-07-15 Becton, Dickinson And Company Strand displacement amplification using thermophilic enzymes
US6130038A (en) * 1996-07-16 2000-10-10 Gen-Probe Incorporated Method for amplifying target nucleic acids using modified primers
WO2001094544A2 (en) * 2000-06-02 2001-12-13 New England Biolabs, Inc. N.bstnbi nicking endonuclease and methods for using endonucleases in single-stranded displacement amplification

Non-Patent Citations (1)

* Cited by examiner, † Cited by third party
Title
MORGAN R.D. ET AL: "Characterization of the specific DNA nicking activity of Restriction endonuclease N.BstNBI.", BIOL CHEM., vol. 381, no. 11, November 2000 (2000-11-01), pages 1123 - 1125, XP001009735 *

Cited By (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9562264B2 (en) 2007-07-14 2017-02-07 Ionian Technologies, Inc. Nicking and extension amplification reaction for the exponential amplification of nucleic acids
US9562263B2 (en) 2007-07-14 2017-02-07 Ionian Technologies, Inc. Nicking and extension amplification reaction for the exponential amplification of nucleic acids
US11845991B2 (en) 2009-02-03 2023-12-19 Exact Sciences Corporation Fecal sample processing and analysis comprising detection of blood

Also Published As

Publication number Publication date
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