CA2256457A1 - Passive internal references for the detection of nucleic acid amplification products - Google Patents

Passive internal references for the detection of nucleic acid amplification products

Info

Publication number
CA2256457A1
CA2256457A1 CA002256457A CA2256457A CA2256457A1 CA 2256457 A1 CA2256457 A1 CA 2256457A1 CA 002256457 A CA002256457 A CA 002256457A CA 2256457 A CA2256457 A CA 2256457A CA 2256457 A1 CA2256457 A1 CA 2256457A1
Authority
CA
Canada
Prior art keywords
nucleic acid
amplification
fluorophore
acid amplification
internal
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.)
Granted
Application number
CA002256457A
Other languages
French (fr)
Other versions
CA2256457C (en
Inventor
Kenneth J. Livak
Lincoln J. Mcbride
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.)
Applied Biosystems LLC
Original Assignee
The Perkin-Elmer Corporation
Kenneth J. Livak
Lincoln J. Mcbride
Pe Corporation (Ny)
Applera Corporation
Applied Biosystems Inc.
Applied Biosystems, Llc
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 The Perkin-Elmer Corporation, Kenneth J. Livak, Lincoln J. Mcbride, Pe Corporation (Ny), Applera Corporation, Applied Biosystems Inc., Applied Biosystems, Llc filed Critical The Perkin-Elmer Corporation
Publication of CA2256457A1 publication Critical patent/CA2256457A1/en
Application granted granted Critical
Publication of CA2256457C publication Critical patent/CA2256457C/en
Anticipated expiration legal-status Critical
Expired - Lifetime legal-status Critical Current

Links

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
    • C12Q1/6844—Nucleic acid amplification reactions
    • C12Q1/6851—Quantitative amplification

Landscapes

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

Abstract

The invention relates to passive internal references for use in quantitating the formation of amplification products in a nucleic amplification reaction.
The internal amplification reference molecules of the invention comprise a first and second fluorophore joined together through a backbone connector. The first and second fluorophores are joined on the backbone in a configuration that permits the energy transfer from the first fluorophore to the second fluorophore. The backbone connector is selected so as not to bind to the target nucleic acid sequence under nucleic acid amplification conditions.
Preferably, the backbone connector is a polynucleotide. Another aspect of the invention is to provide passive internal reference molecule containing reagent compositions for use in nucleic acid amplification reactions. The compositions comprise the internal amplification reference molecule of the invention and a nucleic acid amplification reaction buffer. The reagent compositions, optionally, include additional components required for nucleic acid amplification reactions. The invention also provides improved methods of measuring the amount of amplification product in nucleic acid amplification reactions employing fluorescer-quencher probe assays, including methods for the real-time measurement of amplification product formation. The methods comprise the step of adding the internal reference molecule of the invention to the amplification reaction mixture. Fluorescence of the second fluorophore on the internal reference may then be measured and used to calculate changes in fluorescence of the fluorophore on a fluorescer-quencher probe.
CA002256457A 1996-06-04 1997-06-03 Passive internal references for the detection of nucleic acid amplification products Expired - Lifetime CA2256457C (en)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US08/657,989 1996-06-04
US08/657,989 US5736333A (en) 1996-06-04 1996-06-04 Passive internal references for the detection of nucleic acid amplification products
PCT/US1997/009648 WO1997046708A1 (en) 1996-06-04 1997-06-03 Passive internal references for the detection of nucleic acid amplification products

Publications (2)

Publication Number Publication Date
CA2256457A1 true CA2256457A1 (en) 1997-12-11
CA2256457C CA2256457C (en) 2003-10-07

Family

ID=24639453

Family Applications (1)

Application Number Title Priority Date Filing Date
CA002256457A Expired - Lifetime CA2256457C (en) 1996-06-04 1997-06-03 Passive internal references for the detection of nucleic acid amplification products

Country Status (8)

Country Link
US (1) US5736333A (en)
EP (1) EP0904411B1 (en)
JP (1) JP3454432B2 (en)
AT (1) ATE208826T1 (en)
AU (1) AU710782B2 (en)
CA (1) CA2256457C (en)
DE (1) DE69708285T2 (en)
WO (1) WO1997046708A1 (en)

Families Citing this family (84)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6787304B1 (en) * 1994-12-28 2004-09-07 Georgetown University Fluorometric assay for detecting nucleic acid cleavage
US20030165908A1 (en) * 1994-12-30 2003-09-04 Georgetown University Fluorometric assay for detecting nucleic acid cleavage
US7133726B1 (en) * 1997-03-28 2006-11-07 Applera Corporation Thermal cycler for PCR
US6080868A (en) 1998-01-23 2000-06-27 The Perkin-Elmer Corporation Nitro-substituted non-fluorescent asymmetric cyanine dye compounds
ATE469982T1 (en) * 1998-02-04 2010-06-15 Life Technologies Corp DETERMINATION OF THE GENOTYPE OF AN AMPLIFICATION PRODUCT AT MULTIPLE ALLELE SITES
DE19811730A1 (en) * 1998-03-18 1999-09-23 November Ag Molekulare Medizin Identifying marker that indicates presence of immobilized nucleic acid using fluorophore-labeled detection agent bound to solid phase
US5952202A (en) * 1998-03-26 1999-09-14 The Perkin Elmer Corporation Methods using exogenous, internal controls and analogue blocks during nucleic acid amplification
EP1619491B1 (en) * 1998-05-16 2009-03-11 Applera Corporation Optical instrument, particulary for monitoring DNA polymerase chain reactions
US7498164B2 (en) 1998-05-16 2009-03-03 Applied Biosystems, Llc Instrument for monitoring nucleic acid sequence amplification reaction
US6818437B1 (en) * 1998-05-16 2004-11-16 Applera Corporation Instrument for monitoring polymerase chain reaction of DNA
AU759974B2 (en) * 1998-05-16 2003-05-01 Applied Biosystems, Llc Instrument for monitoring polymerase chain reaction of DNA
US6066458A (en) * 1998-05-18 2000-05-23 Becton, Dickinson And Company Methods, apparatus and computer program products for determining quantities of nucleic acid sequences in samples using standard curves and amplification ratio estimates
US6270730B1 (en) * 1998-06-16 2001-08-07 Northwest Engineering Inc. Multi-well rotary synthesizer
US6271042B1 (en) 1998-08-26 2001-08-07 Alpha Innotech Corporation Biochip detection system
GB9819417D0 (en) * 1998-09-07 1998-10-28 Secr Defence Reaction method
DE19850593A1 (en) * 1998-11-03 2000-05-04 Biochip Technologies Gmbh DNA hybridization assay comprises detecting fluorescent resonance energy transfer between fluorochromes on different DNA strands
US6387621B1 (en) * 1999-04-27 2002-05-14 University Of Utah Research Foundation Automated analysis of real-time nucleic acid amplification
US6331393B1 (en) * 1999-05-14 2001-12-18 University Of Southern California Process for high-throughput DNA methylation analysis
US20050279949A1 (en) * 1999-05-17 2005-12-22 Applera Corporation Temperature control for light-emitting diode stabilization
US7423750B2 (en) * 2001-11-29 2008-09-09 Applera Corporation Configurations, systems, and methods for optical scanning with at least one first relative angular motion and at least one second angular motion or at least one linear motion
US7387891B2 (en) * 1999-05-17 2008-06-17 Applera Corporation Optical instrument including excitation source
US7410793B2 (en) * 1999-05-17 2008-08-12 Applera Corporation Optical instrument including excitation source
US6440706B1 (en) * 1999-08-02 2002-08-27 Johns Hopkins University Digital amplification
US6586177B1 (en) * 1999-09-08 2003-07-01 Exact Sciences Corporation Methods for disease detection
US6852986B1 (en) * 1999-11-12 2005-02-08 E. I. Du Pont De Nemours And Company Fluorometer with low heat-generating light source
US6558509B2 (en) 1999-11-30 2003-05-06 Applied Materials, Inc. Dual wafer load lock
US6919174B1 (en) * 1999-12-07 2005-07-19 Exact Sciences Corporation Methods for disease detection
US7226732B2 (en) * 2001-07-16 2007-06-05 Cepheid Methods, apparatus, and computer programs for verifying the integrity of a probe
US7635588B2 (en) * 2001-11-29 2009-12-22 Applied Biosystems, Llc Apparatus and method for differentiating multiple fluorescence signals by excitation wavelength
US6946245B2 (en) * 2001-12-04 2005-09-20 Quest Diagnostics Investments Incorporated Oligonucleotides and methods for detecting hepatitis C viral nucleic acids
US6635428B2 (en) * 2001-12-04 2003-10-21 Quest Diagnostics Investments Incorporated Oligonucleotides and methods for detecting hepatitis B viral nucleic acids
EP2775291B1 (en) * 2002-05-17 2016-01-13 Life Technologies Corporation Apparatus for differentiating multiple fluorescence signals by excitation wavelength
US7148043B2 (en) 2003-05-08 2006-12-12 Bio-Rad Laboratories, Inc. Systems and methods for fluorescence detection with a movable detection module
US20060029948A1 (en) * 2003-09-19 2006-02-09 Gary Lim Sealing cover and dye compatibility selection
US7417726B2 (en) * 2003-09-19 2008-08-26 Applied Biosystems Inc. Normalization of data using controls
KR101041106B1 (en) * 2003-11-25 2011-06-13 한면기 Novel realtime detection of nucleic acids and proteins
WO2005077125A2 (en) * 2004-02-11 2005-08-25 Applera Corporation Methods and compositions for detecting nucleic acids
US20050255485A1 (en) * 2004-05-14 2005-11-17 Livak Kenneth J Detection of gene duplications
EP1627921B1 (en) * 2004-08-18 2008-08-27 Roche Diagnostics GmbH Method for detecting nucleic acid amplification in real-time comprising positioning a reaction vial relative to a detection unit
EP1791982B1 (en) 2004-09-21 2011-01-05 Life Technologies Corporation TWO-COLOR REAL-TIME/END-POINT QUANTITATION OF MICRORNAS (MIRNAs)
US8084260B2 (en) * 2004-11-24 2011-12-27 Applied Biosystems, Llc Spectral calibration method and system for multiple instruments
FI20055043A0 (en) * 2005-01-31 2005-01-31 Wallac Oy Arrangements at an imaging device for microtiter wells
US8263330B1 (en) 2005-03-08 2012-09-11 Quest Diagnostics Investments Incorporated Detection of Mycobacterium tuberculosis complex nucleic acids
CA2842232C (en) 2005-03-10 2015-01-27 Gen-Probe Incorporated Systems and methods to perform assays for detecting or quantifying analytes within samples
US7622079B2 (en) * 2005-03-22 2009-11-24 Applied Biosystems, Llc Dual nest microplate spotter
DE102005047617A1 (en) * 2005-10-05 2007-04-19 Qiagen Gmbh Polymerase chain reaction method using a DNA polymerase with proofreading property
US7824858B2 (en) 2006-01-23 2010-11-02 Quest Diagnostics Investments Incorporated Assay for mycobacterium avium/intracellulare nucleic acid
EP1878503A1 (en) * 2006-07-14 2008-01-16 Roche Diagnostics GmbH Temperature sensor element for monitoring heating and cooling
AU2007281535A1 (en) 2006-08-01 2008-02-07 Applied Biosystems, Llc. Detection of analytes and nucleic acids
US8097419B2 (en) 2006-09-12 2012-01-17 Longhorn Vaccines & Diagnostics Llc Compositions and method for rapid, real-time detection of influenza A virus (H1N1) swine 2009
US9481912B2 (en) 2006-09-12 2016-11-01 Longhorn Vaccines And Diagnostics, Llc Compositions and methods for detecting and identifying nucleic acid sequences in biological samples
US8080645B2 (en) 2007-10-01 2011-12-20 Longhorn Vaccines & Diagnostics Llc Biological specimen collection/transport compositions and methods
US8652782B2 (en) * 2006-09-12 2014-02-18 Longhorn Vaccines & Diagnostics, Llc Compositions and methods for detecting, identifying and quantitating mycobacterial-specific nucleic acids
US9290803B2 (en) * 2007-04-12 2016-03-22 University Of Southern California DNA methylation analysis by digital bisulfite genomic sequencing and digital methylight
IL184478A (en) * 2007-07-08 2017-07-31 Hadasit Medical Res Services & Development Ltd Compositions, methods and kits for the diagnosis of carriers of mutations in the brca1 and brca2 genes and early diagnosis of cancerous disorders associated with mutations in brca1 and brca2 genes
US9683256B2 (en) 2007-10-01 2017-06-20 Longhorn Vaccines And Diagnostics, Llc Biological specimen collection and transport system
US11041215B2 (en) 2007-08-24 2021-06-22 Longhorn Vaccines And Diagnostics, Llc PCR ready compositions and methods for detecting and identifying nucleic acid sequences
US10004799B2 (en) 2007-08-27 2018-06-26 Longhorn Vaccines And Diagnostics, Llc Composite antigenic sequences and vaccines
EP2772267B1 (en) 2007-08-27 2016-04-27 Longhorn Vaccines and Diagnostics, LLC Immunogenic compositions and methods
US7993831B2 (en) * 2007-09-14 2011-08-09 Asuragen, Inc. Methods of normalization in microRNA detection assays
CA2861667C (en) 2007-10-01 2017-06-13 Longhorn Vaccines And Diagnostics, Llc Biological specimen collection and transport system and methods of use
US11041216B2 (en) 2007-10-01 2021-06-22 Longhorn Vaccines And Diagnostics, Llc Compositions and methods for detecting and quantifying nucleic acid sequences in blood samples
EP2240613B1 (en) 2008-02-06 2013-09-11 Ludwig-Maximilians-Universität München Thermo-optical characterisation of nucleic acid molecules
WO2009103003A2 (en) * 2008-02-15 2009-08-20 Bio-Rad Laboratories, Inc. Scanning fluorescent reader with diffuser system
EA020593B1 (en) 2009-01-13 2014-12-30 Флуидигм Корпорейшн Single-cell nucleic acid analysis
US8674080B2 (en) 2009-04-09 2014-03-18 Roche Molecular Systems, Inc. Dye composition for liquid transfer control
US8906306B2 (en) 2009-04-09 2014-12-09 Roche Molecular Systems, Inc. Fluid transfer control for real-time PCR
CA2812512A1 (en) 2010-09-29 2012-04-05 Mor Research Applications Ltd. Prognostic methods, compositions and kits for prediction of acute lymphoblastic leukemia (all) relapse
WO2012083235A1 (en) * 2010-12-16 2012-06-21 Bio-Rad Laboratories, Inc. Universal reference dye for quantitative amplification
US20140170653A1 (en) 2011-04-15 2014-06-19 Life Technologies Corporation Chemical ligation
WO2012154876A1 (en) 2011-05-09 2012-11-15 Fluidigm Corporation Probe based nucleic acid detection
EP2710146A2 (en) 2011-05-18 2014-03-26 Life Technologies Corporation Chromosome conformation analysis
WO2013030841A1 (en) 2011-09-04 2013-03-07 Yissum Research Development Company Of The Hebrew Universitiy Of Jerusalem Ltd. Prognostic methods and compositions for predicting interferon treatment eficacy in a subject
CA2863083C (en) 2012-01-26 2023-09-19 Longhorn Vaccines And Diagnostics, Llc Composite antigenic sequences and vaccines
JP2013153709A (en) * 2012-01-31 2013-08-15 Fujirebio Inc Method for correcting detection signal in isothermal nucleic acid amplification reaction
WO2013168162A1 (en) 2012-05-09 2013-11-14 Yissum Research Development Company Of The Hebrew University Of Jerusalem Ltd. Clustered single nucleotide polymorphisms in the human acetylcholinesterase gene and uses thereof in diagnosis and therapy
US9085761B1 (en) 2012-06-14 2015-07-21 Affymetrix, Inc. Methods and compositions for amplification of nucleic acids
WO2014063051A2 (en) 2012-10-18 2014-04-24 Idexx Laboratories, Inc. Nucleic acid amplification controls and kits and methods of use thereof
US9069358B2 (en) 2013-06-24 2015-06-30 Biolytic Lab Performance, Inc. System for controlling and optimizing reactions in solid phase synthesis of small molecules
CN105392862B (en) 2013-10-10 2019-04-02 生物辐射实验室股份有限公司 Compound visible colorant and method for quantitative amplification
US20160265058A1 (en) 2013-11-01 2016-09-15 Yissum Research Development Company Of The Hebrew University Of Jerusalem Ltd. Diagnostic methods and kits for determining a personalized treatment regimen for a subject suffering from a pathologic disorder
EP3175001B1 (en) 2014-07-30 2021-02-10 Mor Research Applications Ltd. Prognostic methods and systems of treatment for acute lymphoblastic leukemia
CA2985652C (en) 2015-05-14 2020-03-10 Gerald W. FISHER Rapid methods for the extraction of nucleic acids from biological samples
EP3359690A4 (en) 2015-10-09 2019-06-26 Genefron Ltd. METHODS AND KITS FOR PREDICTION AND DIAGNOSIS OF HUMAN CYTOMEGALOVIRUS CONGENITAL (hCMV) TRANSMISSION

Family Cites Families (6)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5210015A (en) * 1990-08-06 1993-05-11 Hoffman-La Roche Inc. Homogeneous assay system using the nuclease activity of a nucleic acid polymerase
FR2672128B1 (en) * 1991-01-28 1995-08-18 Cis Bio Int METHOD FOR MEASURING THE LUMINESCENCE EMITTED IN A LUMINESCENCE ASSAY.
US5457027A (en) * 1993-05-05 1995-10-10 Becton, Dickinson And Company Internal controls for isothermal nucleic acid amplification reactions
US5538848A (en) * 1994-11-16 1996-07-23 Applied Biosystems Division, Perkin-Elmer Corp. Method for detecting nucleic acid amplification using self-quenching fluorescence probe
US5654419A (en) * 1994-02-01 1997-08-05 The Regents Of The University Of California Fluorescent labels and their use in separations
CA2159830C (en) * 1994-04-29 2001-07-03 Timothy M Woudenberg System for real time detection of nucleic acid amplification products

Also Published As

Publication number Publication date
DE69708285D1 (en) 2001-12-20
US5736333A (en) 1998-04-07
JP2000503857A (en) 2000-04-04
AU710782B2 (en) 1999-09-30
ATE208826T1 (en) 2001-11-15
EP0904411B1 (en) 2001-11-14
DE69708285T2 (en) 2002-07-18
WO1997046708A1 (en) 1997-12-11
CA2256457C (en) 2003-10-07
EP0904411A1 (en) 1999-03-31
JP3454432B2 (en) 2003-10-06
AU3230297A (en) 1998-01-05

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