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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
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/US2004/002718
Other languages
French (fr)
Other versions
WO2004067726A2 (en
Inventor
Ness Jeffrey Van
David J Galas
Ness Lori K Van
Jeffrey B Graybill
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.)
Keck Graduate Institute of Applied Life Sciences
Ionian Technologies LLC
Original Assignee
Keck Graduate Institute of Applied Life Sciences
Ionian Technologies LLC
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Publication date
Application filed by Keck Graduate Institute of Applied Life Sciences, Ionian Technologies LLC filed Critical Keck Graduate Institute of Applied Life Sciences
Publication of WO2004067726A2 publication Critical patent/WO2004067726A2/en
Anticipated expiration legal-status Critical
Publication of WO2004067726A3 publication Critical patent/WO2004067726A3/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
    • C12Q1/6848—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 Ceased 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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PCT/US2004/002718 Ceased WO2004067726A2 (en) 2003-01-29 2004-01-29 Isothermal reactions for the amplification of oligonucleotides

Country Status (1)

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WO (1) WO2004067726A2 (en)

Cited By (3)

* Cited by examiner, † Cited by third party
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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
US12110550B2 (en) 2020-07-13 2024-10-08 Singular Genomics Systems, Inc. Methods of amplifying circular polynucleotides in situ

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JP4822801B2 (en) 2005-10-24 2011-11-24 西川ゴム工業株式会社 Mutant endonuclease
CA2654266A1 (en) 2006-06-12 2007-12-27 Oncomethylome Sciences S.A. Methylation markers for early detection and prognosis of colon cancers
CN101849019A (en) 2007-07-09 2010-09-29 微敏医疗技术有限公司 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
EP2677041A3 (en) 2008-02-19 2014-04-09 MDxHealth SA Detection and prognosis of lung cancer
CA2718092C (en) 2008-03-21 2019-03-19 Oncomethylome Sciences 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
US20120028253A1 (en) * 2009-01-05 2012-02-02 Xiaolong Wang Method for amplifying oligonucleotide and small rna by using polymerase-endonuclease chain reaction
WO2010102823A1 (en) 2009-03-13 2010-09-16 Oncomethylome Sciences Sa Novel markers for bladder cancer detection
AU2010225125A1 (en) 2009-03-17 2011-10-20 Glaxosmithkline Biologicals S.A. 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
WO2013155056A1 (en) 2012-04-09 2013-10-17 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
WO2015114469A2 (en) 2014-01-15 2015-08-06 Abbott Japan Co., Ltd Covered sequence conversion dna and detection methods
JP6773651B2 (en) 2014-10-14 2020-10-21 アボット・ラボラトリーズＡｂｂｏｔｔ Ｌａｂｏｒａｔｏｒｉｅｓ Sequence conversion and signal amplification DNA having a poly DNA spacer sequence and detection methods using them
US10604790B2 (en) 2014-12-24 2020-03-31 Abbott Laboratories Sequence conversion and signal amplifier DNA cascade reactions and detection methods using same
CN107532124B (en) 2015-03-27 2022-08-09 精密科学公司 Detection of esophageal disorders
GB201510684D0 (en) 2015-06-17 2015-08-05 Almac Diagnostics Ltd Gene signatures predictive of metastatic disease
WO2017141068A1 (en) 2016-02-16 2017-08-24 The University Of Tokyo Molecular computing component and method of molecular computing
WO2017141067A1 (en) 2016-02-16 2017-08-24 The University Of Tokyo Method of eliminating background amplification of nucleic acid targets
GB201605110D0 (en) 2016-03-24 2016-05-11 Mologic Ltd Detecting sepsis
US20200048691A1 (en) * 2017-04-17 2020-02-13 Montana State University Switch-like isothermal dna amplification demonstrating a non-linear amplification rate
GB201805479D0 (en) 2018-04-03 2018-05-16 Momentum Bioscience Ltd Microorganism separation and detection
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
US20230086471A1 (en) * 2020-02-15 2023-03-23 Agency For Science, Technology And Research A method to amplify a nucleic acid
GB202019059D0 (en) * 2020-12-03 2021-01-20 Univ Birmingham Target rna detection
JPWO2021192965A1 (en) * 2020-03-26 2021-09-30
EP4150126A4 (en) * 2020-05-12 2024-06-19 Singular Genomics Systems, Inc. METHODS FOR AMPLIFICATION OF NUCLEIC ACIDS
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
GB202405229D0 (en) 2024-04-12 2024-05-29 Momentum Bioscience Ltd Microorganism enumeration

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* Cited by examiner, † Cited by third party
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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 (5)

* 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
US12110550B2 (en) 2020-07-13 2024-10-08 Singular Genomics Systems, Inc. Methods of amplifying circular polynucleotides in situ
US12139759B2 (en) 2020-07-13 2024-11-12 Singular Genomics Systems, Inc. Methods of sequencing circular template polynucleotides

Also Published As

Publication number Publication date
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