AU2009316660B2 - Compositions and methods for the assembly of polynucleotides - Google Patents

Compositions and methods for the assembly of polynucleotides Download PDF

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AU2009316660B2
AU2009316660B2 AU2009316660A AU2009316660A AU2009316660B2 AU 2009316660 B2 AU2009316660 B2 AU 2009316660B2 AU 2009316660 A AU2009316660 A AU 2009316660A AU 2009316660 A AU2009316660 A AU 2009316660A AU 2009316660 B2 AU2009316660 B2 AU 2009316660B2
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annealable linker
nucleic acid
linker sequence
dna
seq
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AU2009316660A1 (en
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Sunil S. Chandran
Erik Jedediah Dean
Raymond Lowe
Darren M. Platt
Zach Serber
Kenneth Toshiki Takeoka
Jeffrey A. Ubersax
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AMRYS Inc
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    • 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
    • C12N15/1034Isolating an individual clone by screening libraries
    • C12N15/1093General methods of preparing gene libraries, not provided for in other subgroups
    • 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
    • CCHEMISTRY; METALLURGY
    • C12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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    • 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
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    • 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
    • C40COMBINATORIAL TECHNOLOGY
    • C40BCOMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B40/00Libraries per se, e.g. arrays, mixtures
    • C40B40/04Libraries containing only organic compounds
    • C40B40/06Libraries containing nucleotides or polynucleotides, or derivatives thereof
    • CCHEMISTRY; METALLURGY
    • C40COMBINATORIAL TECHNOLOGY
    • C40BCOMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
    • C40B50/00Methods of creating libraries, e.g. combinatorial synthesis
    • C40B50/06Biochemical methods, e.g. using enzymes or whole viable microorganisms

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  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Chemical & Material Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Organic Chemistry (AREA)
  • General Engineering & Computer Science (AREA)
  • Biomedical Technology (AREA)
  • Biotechnology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Molecular Biology (AREA)
  • Biochemistry (AREA)
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  • General Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Chemical Kinetics & Catalysis (AREA)
  • General Chemical & Material Sciences (AREA)
  • Medicinal Chemistry (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Cell Biology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Enzymes And Modification Thereof (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
AU2009316660A 2008-11-19 2009-11-19 Compositions and methods for the assembly of polynucleotides Ceased AU2009316660B2 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US11610908P 2008-11-19 2008-11-19
US61/116,109 2008-11-19
US16223009P 2009-03-20 2009-03-20
US61/162,230 2009-03-20
PCT/US2009/065048 WO2010059763A1 (en) 2008-11-19 2009-11-19 Compositions and methods for the assembly of polynucleotides

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AU2009316660A1 AU2009316660A1 (en) 2011-07-07
AU2009316660B2 true AU2009316660B2 (en) 2015-01-29

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US (3) US8221982B2 (enExample)
EP (1) EP2358875B1 (enExample)
JP (1) JP2012509084A (enExample)
KR (1) KR101794298B1 (enExample)
CN (1) CN102282255B (enExample)
AU (1) AU2009316660B2 (enExample)
BR (1) BRPI0922187B1 (enExample)
CA (1) CA2744153C (enExample)
MX (1) MX2011005195A (enExample)
SG (1) SG171760A1 (enExample)
WO (1) WO2010059763A1 (enExample)
ZA (1) ZA201103637B (enExample)

Families Citing this family (62)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
MX2011005195A (es) * 2008-11-19 2011-09-01 Amyris Inc Composiciones y metodos para el ensamblaje de polinucleotidos.
US7919605B1 (en) 2010-08-30 2011-04-05 Amyris, Inc. Nucleic acids, compositions and methods for the excision of target nucleic acids
PT2702160T (pt) 2011-04-27 2020-07-30 Amyris Inc Métodos para modificação genómica
DK2776571T3 (en) 2011-11-09 2017-06-26 Amyris Inc PREPARATION OF ACETYL-COENZYM A-DERIVED ISOPRENOIDS
US8332160B1 (en) 2011-11-17 2012-12-11 Amyris Biotechnologies, Inc. Systems and methods for engineering nucleic acid constructs using scoring techniques
WO2013106868A1 (en) * 2012-01-13 2013-07-18 Chromatin, Inc. Engineering plants with rate limiting farnesene metabolic genes
DK2831238T3 (en) * 2012-03-27 2018-04-03 Dsm Ip Assets Bv CLONING PROCEDURE
PL2867361T3 (pl) * 2012-06-29 2018-07-31 Massachusetts Institute Of Technology Masowo równoległa genetyka kombinatoryczna
US9976162B2 (en) 2012-12-10 2018-05-22 Agilent Technologies, Inc. Pairing code directed assembly
MY171958A (en) 2013-03-15 2019-11-08 Amyris Inc Use of phosphoketolase and phosphotransacetylase for production of acetyl-coenzyme a derived compounds
US10494645B2 (en) 2013-04-18 2019-12-03 Fondazione Telethon Effective delivery of large genes by dual AAV vectors
AU2014368982B2 (en) 2013-12-19 2021-03-25 Amyris, Inc. Methods for genomic integration
US10287627B2 (en) 2014-02-08 2019-05-14 The Regents Of The University Of Colorado, A Body Corporate Multiplexed linking PCR
WO2015184016A2 (en) * 2014-05-27 2015-12-03 The Broad Institute, Inc. High-thoughput assembly of genetic elements
WO2016077457A1 (en) 2014-11-11 2016-05-19 Clara Foods Co. Methods and compositions for egg white protein production
WO2016090266A1 (en) 2014-12-05 2016-06-09 Amyris, Inc. High-throughput sequencing of polynucleotides
DK3265571T3 (da) * 2015-03-03 2022-06-27 Fond Telethon Fler-vektorsystem og anvendelse heraf
US10344336B2 (en) 2015-06-09 2019-07-09 Life Technologies Corporation Methods, systems, compositions, kits, apparatus and computer-readable media for molecular tagging
WO2017024173A1 (en) 2015-08-04 2017-02-09 The Regents Of The University Of Colorado Multiplexed binary assembly and quantitative tracking of bacterial populations
EP3368673B1 (en) 2015-10-29 2020-07-29 Amyris, Inc. Compositions and methods for production of myrcene
CN106811459B (zh) * 2015-11-27 2019-09-27 清华大学 一种利用短链引物阻遏提高dna克隆及组装效率的方法
KR20180084756A (ko) 2015-12-07 2018-07-25 지머젠 인코포레이티드 코리네박테리움 글루타미컴으로부터의 프로모터
US11208649B2 (en) 2015-12-07 2021-12-28 Zymergen Inc. HTP genomic engineering platform
US9988624B2 (en) 2015-12-07 2018-06-05 Zymergen Inc. Microbial strain improvement by a HTP genomic engineering platform
US11293033B2 (en) 2016-05-18 2022-04-05 Amyris, Inc. Compositions and methods for genomic integration of nucleic acids into exogenous landing pads
WO2018005793A1 (en) 2016-06-30 2018-01-04 Zymergen Inc. Methods for generating a glucose permease library and uses thereof
WO2018005655A2 (en) 2016-06-30 2018-01-04 Zymergen Inc. Methods for generating a bacterial hemoglobin library and uses thereof
GB201621589D0 (en) * 2016-12-19 2017-02-01 Univ Gent And Katholieke Univ Leuven K U Leuven R&D Polynucleotide shuffling method
EP3574105B1 (en) 2017-01-25 2021-04-21 Amyris Bio Products Portugal, Unipessoal, LDA Co-production of a sesquiterpene and a carotenoid
KR102424850B1 (ko) 2017-06-30 2022-07-22 인스크립타 인코포레이티드 자동 세포 처리 방법, 모듈, 기기 및 시스템
US10738327B2 (en) 2017-08-28 2020-08-11 Inscripta, Inc. Electroporation cuvettes for automation
WO2019055481A1 (en) 2017-09-18 2019-03-21 Amyris, Inc. METHODS OF GENOMIC INTEGRATION IN PICHIA AND OTHER HOST CELLS
WO2019055535A1 (en) 2017-09-18 2019-03-21 Amyris, Inc. METHODS OF GENOMIC INTEGRATION FOR HOST CELLS COMPRISING HANSENULA AND ARXULA
CN111386343A (zh) 2017-09-18 2020-07-07 阿迈瑞斯公司 用于克鲁维酵母宿主细胞基因组整合的方法
US11884928B2 (en) 2017-09-18 2024-01-30 Amyris, Inc. Methods for genetic engineering Kluyveromyces host cells
EP3688167A4 (en) * 2017-09-29 2021-07-14 Victoria Link Limited SYSTEM FOR MODULAR DNA ARRANGEMENT
AU2018338990B2 (en) 2017-09-30 2022-06-23 Inscripta, Inc. Flow through electroporation instrumentation
EP3775159A4 (en) 2018-03-29 2022-01-19 Inscripta, Inc. AUTOMATED REGULATION OF CELL GROWTH RATES FOR INDUCTION AND TRANSFORMATION
WO2019200004A1 (en) 2018-04-13 2019-10-17 Inscripta, Inc. Automated cell processing instruments comprising reagent cartridges
EP3782057B1 (en) * 2018-04-17 2025-06-25 Nanjing GenScript Biotech Co., Ltd. Dna construct design system
US10526598B2 (en) 2018-04-24 2020-01-07 Inscripta, Inc. Methods for identifying T-cell receptor antigens
WO2019209926A1 (en) 2018-04-24 2019-10-31 Inscripta, Inc. Automated instrumentation for production of peptide libraries
US10858761B2 (en) 2018-04-24 2020-12-08 Inscripta, Inc. Nucleic acid-guided editing of exogenous polynucleotides in heterologous cells
AU2019292919A1 (en) 2018-06-30 2021-03-11 Inscripta, Inc. Instruments, modules, and methods for improved detection of edited sequences in live cells
US10532324B1 (en) 2018-08-14 2020-01-14 Inscripta, Inc. Instruments, modules, and methods for improved detection of edited sequences in live cells
US11142740B2 (en) 2018-08-14 2021-10-12 Inscripta, Inc. Detection of nuclease edited sequences in automated modules and instruments
WO2020081149A2 (en) 2018-08-30 2020-04-23 Inscripta, Inc. Improved detection of nuclease edited sequences in automated modules and instruments
JP2022513408A (ja) * 2018-10-31 2022-02-07 ザイマージェン インコーポレイテッド Dnaライブラリーの多重化決定論的アセンブリー
SG11202110872XA (en) * 2019-04-01 2021-10-28 Univ Kobe Nat Univ Corp Method for constructing chimeric plasmid library
CN114008070A (zh) 2019-06-21 2022-02-01 因思科瑞普特公司 导致大肠杆菌赖氨酸产量增加的全基因组合理设计的突变
US10927385B2 (en) 2019-06-25 2021-02-23 Inscripta, Inc. Increased nucleic-acid guided cell editing in yeast
US12096784B2 (en) 2019-07-11 2024-09-24 Clara Foods Co. Protein compositions and consumable products thereof
DK3997118T3 (da) 2019-07-11 2025-03-24 Clara Foods Co Drikkevaresammensætning, der indeholder rekombinant ovomucoid-protein
US10927360B1 (en) 2019-08-07 2021-02-23 Clara Foods Co. Compositions comprising digestive enzymes
US10689669B1 (en) 2020-01-11 2020-06-23 Inscripta, Inc. Automated multi-module cell processing methods, instruments, and systems
JP7473953B2 (ja) * 2020-03-24 2024-04-24 国立大学法人 東京大学 連結dnaの製造方法及びそれに用いるためのベクターの組み合わせ
US20230159955A1 (en) * 2020-04-16 2023-05-25 Zymergen Inc. Circular-permuted nucleic acids for homology-directed editing
US20210332388A1 (en) 2020-04-24 2021-10-28 Inscripta, Inc. Compositions, methods, modules and instruments for automated nucleic acid-guided nuclease editing in mammalian cells
US11787841B2 (en) 2020-05-19 2023-10-17 Inscripta, Inc. Rationally-designed mutations to the thrA gene for enhanced lysine production in E. coli
CN112813103A (zh) * 2021-01-28 2021-05-18 云舟生物科技(广州)有限公司 一种标准品载体及其在测定重组腺相关病毒滴度中的应用
CN113943666B (zh) * 2021-11-11 2023-08-22 广西壮族自治区农业科学院 一种酿酒酵母工程菌及其应用
CN115261377B (zh) * 2021-12-27 2024-11-19 天津大学 一种dna串联重复单元的拆分组装方法

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2008045380A2 (en) * 2006-10-04 2008-04-17 Codon Devices, Inc. Nucleic acid libraries and their design and assembly

Family Cites Families (15)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5057419A (en) * 1988-09-22 1991-10-15 Rutgers University Genetically engineered plasmid and organisms for the production of specialized oils
US5976846A (en) * 1996-01-13 1999-11-02 Passmore; Steven E. Method for multifragment in vivo cloning and mutation mapping
DE69837711T2 (de) 1997-09-29 2008-01-10 City Of Hope, Duarte Leistungstarke verknüpfung von nukleinsäuresegmenten
DE60041642D1 (de) * 1999-03-18 2009-04-09 Complete Genomics As Methoden zur klonierung und herstelung von kettenfragmenten mit lesbarem inhalt an information
CA2317865A1 (en) 2000-03-07 2001-09-07 University Of Guelph Dna joining method
AU8835601A (en) 2000-08-21 2002-03-04 Invitrogen Corp Methods and reagents for molecular cloning
US20030087254A1 (en) * 2001-04-05 2003-05-08 Simon Delagrave Methods for the preparation of polynucleotide libraries and identification of library members having desired characteristics
US20020165175A1 (en) 2001-04-17 2002-11-07 Xiaowu Liang Fast and enzymeless cloning of nucleic acid fragments
CN1263860C (zh) * 2002-09-30 2006-07-12 华南农业大学 多基因载体的构建方法与应用
US20080050808A1 (en) 2002-10-09 2008-02-28 Reed Thomas D DNA modular cloning vector plasmids and methods for their use
DK1915446T3 (en) * 2005-08-11 2017-09-11 Synthetic Genomics Inc IN VITRO RECOMBINATION PROCEDURE
DK1929012T3 (da) * 2005-08-11 2011-01-31 Synthetic Genomics Inc Fremgangsmåde til in vitro-rekombination
US20100291633A1 (en) 2007-09-03 2010-11-18 Thorsten Selmer Method of cloning at least one nucleic acid molecule of interest using type iis restriction endonucleases, and corresponding cloning vectors, kits and system using type iis restriction endonucleases
MX2010003644A (es) * 2007-10-08 2010-06-23 Synthetic Genomics Inc Ensamble de acidos nucleicos grandes.
MX2011005195A (es) * 2008-11-19 2011-09-01 Amyris Inc Composiciones y metodos para el ensamblaje de polinucleotidos.

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2008045380A2 (en) * 2006-10-04 2008-04-17 Codon Devices, Inc. Nucleic acid libraries and their design and assembly

Also Published As

Publication number Publication date
CN102282255A (zh) 2011-12-14
JP2012509084A (ja) 2012-04-19
CA2744153C (en) 2020-07-07
KR101794298B1 (ko) 2017-11-20
SG171760A1 (en) 2011-07-28
BRPI0922187B1 (pt) 2021-05-04
US8221982B2 (en) 2012-07-17
WO2010059763A1 (en) 2010-05-27
US20120245056A1 (en) 2012-09-27
MX2011005195A (es) 2011-09-01
AU2009316660A1 (en) 2011-07-07
US20100136633A1 (en) 2010-06-03
BRPI0922187A2 (pt) 2018-10-23
KR20110102351A (ko) 2011-09-16
EP2358875B1 (en) 2015-08-12
CN102282255B (zh) 2014-05-07
CA2744153A1 (en) 2010-05-27
EP2358875A1 (en) 2011-08-24
US20100124768A1 (en) 2010-05-20
US8546136B2 (en) 2013-10-01
ZA201103637B (en) 2012-08-29
US8110360B2 (en) 2012-02-07

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