WO2001062982A3 - Methods for multi-stage solid phase amplification of nucleic acids - Google Patents

Methods for multi-stage solid phase amplification of nucleic acids Download PDF

Info

Publication number
WO2001062982A3
WO2001062982A3 PCT/US2001/005940 US0105940W WO0162982A3 WO 2001062982 A3 WO2001062982 A3 WO 2001062982A3 US 0105940 W US0105940 W US 0105940W WO 0162982 A3 WO0162982 A3 WO 0162982A3
Authority
WO
WIPO (PCT)
Prior art keywords
amplification
methods
nucleic acids
solid phase
double
Prior art date
Application number
PCT/US2001/005940
Other languages
French (fr)
Other versions
WO2001062982A2 (en
Inventor
Thomas R Gingeras
T Christian Boles
Stephen P A Fodor
Christopher P Adams
Original Assignee
Mosaic Technologies Inc
Affymetrix Inc
Thomas R Gingeras
T Christian Boles
Stephen P A Fodor
Christopher P Adams
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 Mosaic Technologies Inc, Affymetrix Inc, Thomas R Gingeras, T Christian Boles, Stephen P A Fodor, Christopher P Adams filed Critical Mosaic Technologies Inc
Priority to AU2001241723A priority Critical patent/AU2001241723A1/en
Publication of WO2001062982A2 publication Critical patent/WO2001062982A2/en
Publication of WO2001062982A3 publication Critical patent/WO2001062982A3/en

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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • C12Q1/6837—Enzymatic or biochemical coupling of nucleic acids to a solid phase using probe arrays or probe chips
    • 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
    • C12Q1/6834—Enzymatic or biochemical coupling of nucleic acids to a solid phase
    • 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
    • C12Q1/686—Polymerase chain reaction [PCR]
    • 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
    • C12Q2523/00—Reactions characterised by treatment of reaction samples
    • C12Q2523/10—Characterised by chemical treatment
    • C12Q2523/107—Chemical cleaving agents
    • 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
    • C12Q2525/131—Modifications characterised by incorporating a restriction site
    • 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
    • C12Q2563/00—Nucleic acid detection characterized by the use of physical, structural and functional properties
    • C12Q2563/155—Particles of a defined size, e.g. nanoparticles

Abstract

The present invention discloses multi-stage bridge amplification methods which employs a double-stranded amplification product to initiate a subsequent stage of amplification. This double-stranded amplification product is formed during an amplification reaction and can be used to establish an iterative process. Using this double-stranded amplification product, the efficiency of bridge amplification increases significantly as a result of multiple stages of bridge amplification and permits, for example, the detection of a target molecule using a non-radioactive label (such as fluorescence).
PCT/US2001/005940 2000-02-25 2001-02-23 Methods for multi-stage solid phase amplification of nucleic acids WO2001062982A2 (en)

Priority Applications (1)

Application Number Priority Date Filing Date Title
AU2001241723A AU2001241723A1 (en) 2000-02-25 2001-02-23 Methods for multi-stage solid phase amplification of nucleic acids

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US51330000A 2000-02-25 2000-02-25
US09/513,300 2000-02-25

Publications (2)

Publication Number Publication Date
WO2001062982A2 WO2001062982A2 (en) 2001-08-30
WO2001062982A3 true WO2001062982A3 (en) 2002-09-19

Family

ID=24042679

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2001/005940 WO2001062982A2 (en) 2000-02-25 2001-02-23 Methods for multi-stage solid phase amplification of nucleic acids

Country Status (2)

Country Link
AU (1) AU2001241723A1 (en)
WO (1) WO2001062982A2 (en)

Cited By (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US8951731B2 (en) 2007-10-15 2015-02-10 Complete Genomics, Inc. Sequence analysis using decorated nucleic acids
US9228228B2 (en) 2006-10-27 2016-01-05 Complete Genomics, Inc. Efficient arrays of amplified polynucleotides
US9238834B2 (en) 2007-11-29 2016-01-19 Complete Genomics, Inc. Efficient shotgun sequencing methods
US9334490B2 (en) 2006-11-09 2016-05-10 Complete Genomics, Inc. Methods and compositions for large-scale analysis of nucleic acids using DNA deletions
US9476054B2 (en) 2005-06-15 2016-10-25 Complete Genomics, Inc. Two-adaptor library for high-throughput sequencing on DNA arrays

Families Citing this family (27)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP1444364A4 (en) * 2001-10-27 2006-03-15 Sigma Genosys Inc Multiple oligonucleotides per gene for use in gene arrays
CN103396933B (en) 2003-02-26 2016-04-20 凯利达基因组股份有限公司 By hybridizing the random array DNA analysis carried out
ES2949821T3 (en) 2004-01-07 2023-10-03 Illumina Cambridge Ltd Molecular arrays
GB0402895D0 (en) * 2004-02-10 2004-03-17 Solexa Ltd Arrayed polynucleotides
DK1907583T4 (en) 2005-06-15 2020-01-27 Complete Genomics Inc SINGLE MOLECULE ARRAYS FOR GENETIC AND CHEMICAL ANALYSIS
GB0514936D0 (en) 2005-07-20 2005-08-24 Solexa Ltd Preparation of templates for nucleic acid sequencing
US8415099B2 (en) 2007-11-05 2013-04-09 Complete Genomics, Inc. Efficient base determination in sequencing reactions
US8617811B2 (en) 2008-01-28 2013-12-31 Complete Genomics, Inc. Methods and compositions for efficient base calling in sequencing reactions
JP2009178159A (en) * 2007-11-05 2009-08-13 Hitachi Plant Technologies Ltd Method of nucleic acid sequence detection and nucleic acid sequence detection substrate
US8592150B2 (en) 2007-12-05 2013-11-26 Complete Genomics, Inc. Methods and compositions for long fragment read sequencing
JP5457222B2 (en) 2009-02-25 2014-04-02 エフ．ホフマン−ラ ロシュ アーゲー Miniaturized high-throughput nucleic acid analysis
US9347092B2 (en) 2009-02-25 2016-05-24 Roche Molecular System, Inc. Solid support for high-throughput nucleic acid analysis
US9524369B2 (en) 2009-06-15 2016-12-20 Complete Genomics, Inc. Processing and analysis of complex nucleic acid sequence data
WO2012048341A1 (en) 2010-10-08 2012-04-12 President And Fellows Of Harvard College High-throughput single cell barcoding
EP2718465B1 (en) 2011-06-09 2022-04-13 Illumina, Inc. Method of making an analyte array
GB2495909A (en) * 2011-10-19 2013-05-01 Genome Analysis Ct Arrays comprising immobilized primer pair spots for amplifying target nucleic acids
AU2012328662B2 (en) 2011-10-28 2015-12-17 Illumina, Inc. Microarray fabrication system and method
AU2012336040B2 (en) 2011-11-07 2015-12-10 Illumina, Inc. Integrated sequencing apparatuses and methods of use
US9012022B2 (en) 2012-06-08 2015-04-21 Illumina, Inc. Polymer coatings
US9512422B2 (en) 2013-02-26 2016-12-06 Illumina, Inc. Gel patterned surfaces
WO2015002813A1 (en) 2013-07-01 2015-01-08 Illumina, Inc. Catalyst-free surface functionalization and polymer grafting
CA3171807A1 (en) 2013-12-19 2015-06-25 Illumina, Inc. Substrates comprising nano-patterning surfaces and methods of preparing thereof
SG11201809376WA (en) 2016-05-18 2018-12-28 Illumina Inc Self assembled patterning using patterned hydrophobic surfaces
ES2937782T3 (en) 2016-10-03 2023-03-31 Illumina Inc Fluorescent detection of amines and hydrazines and methods of testing the same
EP4212628A1 (en) 2017-08-01 2023-07-19 MGI Tech Co., Ltd. Nucleic acid sequencing method
US11485966B2 (en) 2017-10-11 2022-11-01 Mgi Tech Co., Ltd. Method for improving loading and stability of nucleic acid
KR20230041808A (en) 2020-07-29 2023-03-24 엠쥐아이 테크 컴퍼니 엘티디. Methods for Loading Nucleic Acid Molecules on Solid Supports

Citations (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4800159A (en) * 1986-02-07 1989-01-24 Cetus Corporation Process for amplifying, detecting, and/or cloning nucleic acid sequences
US5641658A (en) * 1994-08-03 1997-06-24 Mosaic Technologies, Inc. Method for performing amplification of nucleic acid with two primers bound to a single solid support
WO1998036094A1 (en) * 1997-02-14 1998-08-20 Mosaic Technologies Method and apparatus for performing amplification of nucleic acid on supports
WO1998044151A1 (en) * 1997-04-01 1998-10-08 Glaxo Group Limited Method of nucleic acid amplification
WO2000075374A1 (en) * 1999-06-04 2000-12-14 Mosaic Technologies Solid phase methods for amplifying multiple nucleic acids

Patent Citations (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US4800159A (en) * 1986-02-07 1989-01-24 Cetus Corporation Process for amplifying, detecting, and/or cloning nucleic acid sequences
US5641658A (en) * 1994-08-03 1997-06-24 Mosaic Technologies, Inc. Method for performing amplification of nucleic acid with two primers bound to a single solid support
WO1998036094A1 (en) * 1997-02-14 1998-08-20 Mosaic Technologies Method and apparatus for performing amplification of nucleic acid on supports
WO1998044151A1 (en) * 1997-04-01 1998-10-08 Glaxo Group Limited Method of nucleic acid amplification
WO2000075374A1 (en) * 1999-06-04 2000-12-14 Mosaic Technologies Solid phase methods for amplifying multiple nucleic acids

Cited By (5)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9476054B2 (en) 2005-06-15 2016-10-25 Complete Genomics, Inc. Two-adaptor library for high-throughput sequencing on DNA arrays
US9228228B2 (en) 2006-10-27 2016-01-05 Complete Genomics, Inc. Efficient arrays of amplified polynucleotides
US9334490B2 (en) 2006-11-09 2016-05-10 Complete Genomics, Inc. Methods and compositions for large-scale analysis of nucleic acids using DNA deletions
US8951731B2 (en) 2007-10-15 2015-02-10 Complete Genomics, Inc. Sequence analysis using decorated nucleic acids
US9238834B2 (en) 2007-11-29 2016-01-19 Complete Genomics, Inc. Efficient shotgun sequencing methods

Also Published As

Publication number Publication date
AU2001241723A1 (en) 2001-09-03
WO2001062982A2 (en) 2001-08-30

Similar Documents

Publication Publication Date Title
WO2001062982A3 (en) Methods for multi-stage solid phase amplification of nucleic acids
WO2002026946A3 (en) Fad4, fad5, fad5-2, and fad6, fatty acid desaturase family members and uses thereof
WO2001096608A8 (en) Detection of nucleic acids by type-specific hybrid capture method
EP1256630A3 (en) Selective polymerase chain reaction of DNA of which base sequence is completely unknown
WO2006102309A3 (en) Methods, compositions, and kits for detection of micro rna
CA2236670A1 (en) Strand displacement amplification of rna targets
WO2001090415A3 (en) Method of producing a dna library using positional amplification
WO2001079420A3 (en) Detection and amplification or rna using target-mediated ligation of dna by rna ligase
EP0395398A3 (en) Amplification of nucleic acid sequences using random sequence oligonucleotides as primers
EP1201768A3 (en) Amplification using modified primers
WO1996023079A3 (en) Method for suppressing dna fragment amplification during pcr
AU7415694A (en) Nucleic acid sequence amplification methods utilizing a transcription complex
ATE236269T1 (en) AN ELECTROCHEMILUMINESCENTER DETECTION OF NUCLEIC ACIDS BASED ON SELF-SUSTAINING SEQUENCE REPLICATION
WO2006081284A3 (en) Methods for quantitating small rna molecules
HK1068651A1 (en) Detection system
WO2001094625A3 (en) Capture moieties for nucleic acids and uses thereof
WO2002057479A3 (en) Primers and methods for the detection and discrimination of nucleic acids
CA2191182A1 (en) Oligonucleotide primers for amplifying hcv nucleic acid
WO2004027081A3 (en) Methods and composition for detecting targets
WO2002034951A3 (en) Compositions and methods for detecting human immunodeficiency virus 2 (hiv-2)
WO2001006004A3 (en) A method for amplifying low abundance nucleic acid sequences and means for performing said method
EP1176213A3 (en) Amplification and detection of legionella pneumophila nucleic acids
AU6329099A (en) Method for purifying or isolating viral nucleic acids
EP1634962A4 (en) Method of detecting target nucleotide sequence, detection target structure to be used in embodying the method, process for producing the same and assay kit for detecting target nucleotide sequence
WO2002061140A3 (en) Competitive population normalization for comparative analysis of nucleic acid samples

Legal Events

Date Code Title Description
AK Designated states

Kind code of ref document: A2

Designated state(s): AE AG AL AM AT AU AZ BA BB BG BR BY BZ CA CH CN CR CU CZ DE DK DM DZ EE ES FI GB GD GE GH GM HR HU ID IL IN IS JP KE KG KP KR KZ LC LK LR LS LT LU LV MA MD MG MK MN MW MX MZ NO NZ PL PT RO RU SD SE SG SI SK SL TJ TM TR TT TZ UA UG US UZ VN YU ZA ZW

AL Designated countries for regional patents

Kind code of ref document: A2

Designated state(s): GH GM KE LS MW MZ SD SL SZ TZ UG ZW AM AZ BY KG KZ MD RU TJ TM AT BE CH CY DE DK ES FI FR GB GR IE IT LU MC NL PT SE TR BF BJ CF CG CI CM GA GN GW ML MR NE SN TD TG

121 Ep: the epo has been informed by wipo that ep was designated in this application
REG Reference to national code

Ref country code: DE

Ref legal event code: 8642

AK Designated states

Kind code of ref document: A3

Designated state(s): AE AG AL AM AT AU AZ BA BB BG BR BY BZ CA CH CN CR CU CZ DE DK DM DZ EE ES FI GB GD GE GH GM HR HU ID IL IN IS JP KE KG KP KR KZ LC LK LR LS LT LU LV MA MD MG MK MN MW MX MZ NO NZ PL PT RO RU SD SE SG SI SK SL TJ TM TR TT TZ UA UG US UZ VN YU ZA ZW

AL Designated countries for regional patents

Kind code of ref document: A3

Designated state(s): GH GM KE LS MW MZ SD SL SZ TZ UG ZW AM AZ BY KG KZ MD RU TJ TM AT BE CH CY DE DK ES FI FR GB GR IE IT LU MC NL PT SE TR BF BJ CF CG CI CM GA GN GW ML MR NE SN TD TG

32PN Ep: public notification in the ep bulletin as address of the adressee cannot be established

Free format text: NOTING OF LOSS OF RIGHTS PURSUANT TO RULE 69(1) EPC SENT ON 19-05-03

122 Ep: pct application non-entry in european phase
NENP Non-entry into the national phase

Ref country code: JP