WO2007123742A3 - Methods and compositions for increasing the fidelity of multiplex nucleic acid assembly - Google Patents

Methods and compositions for increasing the fidelity of multiplex nucleic acid assembly Download PDF

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Publication number
WO2007123742A3
WO2007123742A3 PCT/US2007/007988 US2007007988W WO2007123742A3 WO 2007123742 A3 WO2007123742 A3 WO 2007123742A3 US 2007007988 W US2007007988 W US 2007007988W WO 2007123742 A3 WO2007123742 A3 WO 2007123742A3
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WO
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Patent type
Prior art keywords
fidelity
nucleic acid
compositions
increasing
methods
Prior art date
Application number
PCT/US2007/007988
Other languages
French (fr)
Other versions
WO2007123742A2 (en )
Inventor
Brian M Baynes
Jennifer A Camacho
Gerald Thomas Marsischky
Kenneth G Nesmith
Original Assignee
Brian M Baynes
Jennifer A Camacho
Codon Devices Inc
Gerald Thomas Marsischky
Kenneth G Nesmith
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

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    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/63Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/64General methods for preparing the vector, for introducing it into the cell or for selecting the vector-containing host
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/10Processes for the isolation, preparation or purification of DNA or RNA
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09Recombinant DNA-technology
    • C12N15/63Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/66General methods for inserting a gene into a vector to form a recombinant vector using cleavage and ligation; Use of non-functional linkers or adaptors, e.g. linkers containing the sequence for a restriction endonuclease
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12QMEASURING 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
    • C12Q1/00Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6844Nucleic acid amplification reactions
    • C12Q1/686Polymerase chain reaction [PCR]

Abstract

Certain aspects of the present invention provide methods for increasing the fidelity of nucleic acid assembly reactions. Fidelity-optimized conditions may be used in certain embodiments. Nucleic acid binding proteins and/or recombinases (e.g., heat stable variants) may be used in some embodiments. A RecA protein (e.g., a heat stable RecA) may be included in some assembly reactions. Aspects of the invention also provide related kits, compositions, devices, and systems to increase the fidelity of multiplex nucleic acid assembly reaction.
PCT/US2007/007988 2006-03-31 2007-03-30 Methods and compositions for increasing the fidelity of multiplex nucleic acid assembly WO2007123742A3 (en)

Priority Applications (4)

Application Number Priority Date Filing Date Title
US78844006 true 2006-03-31 2006-03-31
US78829306 true 2006-03-31 2006-03-31
US60/788,293 2006-03-31
US60/788,440 2006-03-31

Publications (2)

Publication Number Publication Date
WO2007123742A2 true WO2007123742A2 (en) 2007-11-01
WO2007123742A3 true true WO2007123742A3 (en) 2008-02-28

Family

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Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2007/007988 WO2007123742A3 (en) 2006-03-31 2007-03-30 Methods and compositions for increasing the fidelity of multiplex nucleic acid assembly

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WO (1) WO2007123742A3 (en)

Cited By (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9023601B2 (en) 2002-09-12 2015-05-05 Gen9, Inc. Microarray synthesis and assembly of gene-length polynucleotides
US9217144B2 (en) 2010-01-07 2015-12-22 Gen9, Inc. Assembly of high fidelity polynucleotides
US9216414B2 (en) 2009-11-25 2015-12-22 Gen9, Inc. Microfluidic devices and methods for gene synthesis

Families Citing this family (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US8999679B2 (en) 2008-12-18 2015-04-07 Iti Scotland Limited Method for assembly of polynucleic acid sequences
GB2481425A (en) 2010-06-23 2011-12-28 Iti Scotland Ltd Method and device for assembling polynucleic acid sequences
WO2013163263A3 (en) 2012-04-24 2014-03-06 Gen9, Inc. Methods for sorting nucleic acids and multiplexed preparative in vitro cloning
WO2014160004A1 (en) * 2013-03-13 2014-10-02 Gen9, Inc. Compositions, methods and apparatus for oligonucleotides synthesis

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2002101004A2 (en) * 2001-06-08 2002-12-19 Shanghai Mendel Dna Center Co., Ltd Low-temperature cycle extension of dna with high priming specificity
US20040241655A1 (en) * 2003-05-29 2004-12-02 Yuchi Hwang Conditional touchdown multiplex polymerase chain reaction
WO2006044956A1 (en) * 2004-10-18 2006-04-27 Codon Devices, Inc. Methods for assembly of high fidelity synthetic polynucleotides

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2002101004A2 (en) * 2001-06-08 2002-12-19 Shanghai Mendel Dna Center Co., Ltd Low-temperature cycle extension of dna with high priming specificity
US20040241655A1 (en) * 2003-05-29 2004-12-02 Yuchi Hwang Conditional touchdown multiplex polymerase chain reaction
WO2006044956A1 (en) * 2004-10-18 2006-04-27 Codon Devices, Inc. Methods for assembly of high fidelity synthetic polynucleotides

Non-Patent Citations (5)

* Cited by examiner, † Cited by third party
Title
HENEGARIU O ET AL: "MULTIPLEX PCR: CRITICAL PARAMETERS AND STEP-BY-STEP PROTOCOL" BIOTECHNIQUES, INFORMA LIFE SCIENCES PUBLISHING, WESTBOROUGH, MA, US, vol. 23, no. 3, September 1997 (1997-09), pages 504-511, XP000703350 ISSN: 0736-6205 *
SHIGEMORI YASUSHI ET AL: "Multiplex PCR: use of heat-stable Thermus thermophilus RecA protein to minimize non-specific PCR products" NUCLEIC ACIDS RESEARCH, vol. 33, no. 14, 2005, XP002454038 ISSN: 0305-1048 *
STEMMER W P C ET AL: "Single-step assembly of a gene and entire plasmid from large numbers of oligodeoxyribonucleotides" GENE, ELSEVIER, AMSTERDAM, NL, vol. 164, no. 1, 1995, pages 49-53, XP004041916 ISSN: 0378-1119 *
TIAN J ET AL: "Accurate multiplex gene synthesis from programmable DNA microchips" NATURE, NATURE PUBLISHING GROUP, LONDON, GB, vol. 432, no. 7020, 23 December 2004 (2004-12-23), pages 1050-1054, XP002371017 ISSN: 0028-0836 *
XIONG AI-SHENG ET AL: "A simple, rapid, high-fidelity and cost-effective PCR-based two-step DNA synthesis method for long gene sequences" NUCLEIC ACIDS RESEARCH, vol. 32, no. 12, July 2004 (2004-07), XP002454037 ISSN: 0305-1048 *

Cited By (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US9023601B2 (en) 2002-09-12 2015-05-05 Gen9, Inc. Microarray synthesis and assembly of gene-length polynucleotides
US9216414B2 (en) 2009-11-25 2015-12-22 Gen9, Inc. Microfluidic devices and methods for gene synthesis
US9217144B2 (en) 2010-01-07 2015-12-22 Gen9, Inc. Assembly of high fidelity polynucleotides

Also Published As

Publication number Publication date Type
WO2007123742A2 (en) 2007-11-01 application

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