CN101501207B - 合成基因组 - Google Patents

合成基因组 Download PDF

Info

Publication number
CN101501207B
CN101501207B CN200680052444.3A CN200680052444A CN101501207B CN 101501207 B CN101501207 B CN 101501207B CN 200680052444 A CN200680052444 A CN 200680052444A CN 101501207 B CN101501207 B CN 101501207B
Authority
CN
China
Prior art keywords
genome
synthetic
expression cassette
nucleic acid
genes
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.)
Active
Application number
CN200680052444.3A
Other languages
English (en)
Chinese (zh)
Other versions
CN101501207A (zh
Inventor
J·克雷格·文特尔
汉密尔顿·O·史密斯
克莱德·A·哈奇森三世
丹尼尔·G·吉布森
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.)
Viridos Inc
Original Assignee
Synthetic Genomics Inc
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 Synthetic Genomics Inc filed Critical Synthetic Genomics Inc
Publication of CN101501207A publication Critical patent/CN101501207A/zh
Application granted granted Critical
Publication of CN101501207B publication Critical patent/CN101501207B/zh
Active legal-status Critical Current
Anticipated expiration legal-status Critical

Links

Images

Classifications

    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/10—Processes for the isolation, preparation or purification of DNA or RNA
    • C12N15/1034—Isolating an individual clone by screening libraries
    • C12N15/1093—General methods of preparing gene libraries, not provided for in other subgroups
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/66—General 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

Landscapes

  • Genetics & Genomics (AREA)
  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Chemical & Material Sciences (AREA)
  • Organic Chemistry (AREA)
  • Wood Science & Technology (AREA)
  • Biomedical Technology (AREA)
  • Biotechnology (AREA)
  • General Engineering & Computer Science (AREA)
  • Zoology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Molecular Biology (AREA)
  • Microbiology (AREA)
  • Plant Pathology (AREA)
  • Physics & Mathematics (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Apparatus Associated With Microorganisms And Enzymes (AREA)
CN200680052444.3A 2005-12-06 2006-12-06 合成基因组 Active CN101501207B (zh)

Applications Claiming Priority (3)

Application Number Priority Date Filing Date Title
US74254205P 2005-12-06 2005-12-06
US60/742,542 2005-12-06
PCT/US2006/046803 WO2008024129A2 (en) 2005-12-06 2006-12-06 Synthetic genomes

Publications (2)

Publication Number Publication Date
CN101501207A CN101501207A (zh) 2009-08-05
CN101501207B true CN101501207B (zh) 2014-03-12

Family

ID=39107256

Family Applications (1)

Application Number Title Priority Date Filing Date
CN200680052444.3A Active CN101501207B (zh) 2005-12-06 2006-12-06 合成基因组

Country Status (9)

Country Link
US (2) US10041060B2 (https=)
EP (1) EP1968994B1 (https=)
JP (1) JP5106412B2 (https=)
CN (1) CN101501207B (https=)
AU (1) AU2006347573B2 (https=)
CA (1) CA2643356A1 (https=)
DK (1) DK1968994T3 (https=)
IL (1) IL192041A (https=)
WO (1) WO2008024129A2 (https=)

Families Citing this family (42)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CA2618699C (en) * 2005-08-11 2012-10-02 J. Craig Venter Institute, Inc. In vitro recombination method
US20090017513A1 (en) * 2007-07-13 2009-01-15 Georgia Belle Plantation, Inc. Process for producing hydrocarbon molecules from renewable biomass
US9267132B2 (en) 2007-10-08 2016-02-23 Synthetic Genomics, Inc. Methods for cloning and manipulating genomes
AU2009214435C1 (en) * 2008-02-15 2014-07-17 Synthetic Genomics, Inc. Methods for in vitro joining and combinatorial assembly of nucleic acid molecules
US9259662B2 (en) 2008-02-22 2016-02-16 James Weifu Lee Photovoltaic panel-interfaced solar-greenhouse distillation systems
US10093552B2 (en) 2008-02-22 2018-10-09 James Weifu Lee Photovoltaic panel-interfaced solar-greenhouse distillation systems
US8986963B2 (en) * 2008-02-23 2015-03-24 James Weifu Lee Designer calvin-cycle-channeled production of butanol and related higher alcohols
PL2250276T3 (pl) 2008-02-23 2017-07-31 James Weifu Lee Organizmy zaprojektowane do fotobiologicznego wytwarzania butanolu z ditlenku węgla i wody
CA2728285A1 (en) 2008-03-03 2009-09-11 Joule Unlimited, Inc. Engineered co2 fixing microorganisms producing carbon-based products of interest
CN103725717A (zh) 2008-10-17 2014-04-16 焦耳无限科技公司 微生物的乙醇生产
CA2747535C (en) 2008-12-18 2020-01-14 Iti Scotland Limited Method for assembly of polynucleic acid sequences
SG10201400436PA (en) * 2009-03-06 2014-06-27 Synthetic Genomics Inc Methods For Cloning And Manipulating Genomes
US7794969B1 (en) 2009-07-09 2010-09-14 Joule Unlimited, Inc. Methods and compositions for the recombinant biosynthesis of n-alkanes
CN105969710A (zh) 2009-09-25 2016-09-28 Reg生命科学有限责任公司 脂肪酸衍生物的产生
US20110269119A1 (en) 2009-10-30 2011-11-03 Synthetic Genomics, Inc. Encoding text into nucleic acid sequences
EP2494060B1 (en) * 2009-10-30 2016-04-27 Synthetic Genomics, Inc. Encoding text into nucleic acid sequences
EP2542676A1 (en) * 2010-03-05 2013-01-09 Synthetic Genomics, Inc. Methods for cloning and manipulating genomes
GB2481425A (en) 2010-06-23 2011-12-28 Iti Scotland Ltd Method and device for assembling polynucleic acid sequences
WO2012037285A2 (en) 2010-09-14 2012-03-22 Joule Unlimited Technologies, Inc. Methods and compositions for targeting heterologous integral membrane proteins to the cyanobacterial plasma membrane
US8349587B2 (en) 2011-10-31 2013-01-08 Ginkgo Bioworks, Inc. Methods and systems for chemoautotrophic production of organic compounds
US8790901B2 (en) 2011-12-14 2014-07-29 Pronutria, Inc. Microorganisms and methods for producing unsaturated fatty acids
HK1206761A1 (en) 2012-03-26 2016-01-15 Axcella Health Inc. Nutritive fragments, proteins and methods
EP2831100A4 (en) 2012-03-26 2016-02-10 Pronutria Inc NUTRIENT PROTEINS AND METHOD
MX2014011459A (es) 2012-03-26 2015-02-04 Pronutria Inc Proteinas nutritivas cargadas y metodos.
HK1206765A1 (en) 2012-03-26 2016-01-15 Axcella Health Inc. Nutritive fragments, proteins and methods
GB201219989D0 (en) 2012-11-06 2012-12-19 Discuva Ltd Bacterial engineering
US20150315599A1 (en) 2012-12-07 2015-11-05 Ginkgo Bioworks, Inc Methods and Systems for Methylotrophic Production of Organic Compounds
US11408013B2 (en) 2013-07-19 2022-08-09 Cargill, Incorporated Microorganisms and methods for the production of fatty acids and fatty acid derived products
EP3048904A2 (en) 2013-09-25 2016-08-03 Pronutria Biosciences, Inc. Compositions and formulations for treatment of gastrointestinal tract malabsorption diseases and inflammatory conditions and methods of production and use thereof
WO2015048339A2 (en) 2013-09-25 2015-04-02 Pronutria, Inc. Compositions and formulations for non-human nutrition and methods of production and use thereof
WO2015054507A1 (en) 2013-10-10 2015-04-16 Pronutria, Inc. Nutritive polypeptide production systems, and methods of manufacture and use thereof
GB201413202D0 (en) 2014-07-25 2014-09-10 Discuva Ltd Process for producing bacterial mutants
EP3430133A1 (en) 2016-03-17 2019-01-23 INVISTA Textiles (U.K.) Limited Carboxylic acid reductase polypeptides and variants having improved activity, materials and processes relating thereto
EP3433354B1 (en) * 2016-03-23 2023-12-27 Synthetic Genomics, Inc. Generation of synthetic genomes
EP3577227A4 (en) 2017-02-02 2020-12-30 Cargill Inc. GENETICALLY MODIFIED CELLS PRODUCING C6-C10 FATTY ACID DERIVATIVES
US11512276B2 (en) 2018-03-30 2022-11-29 Inv Nylon Chemicals Americas, Llc Methods for controlling oxygen concentration during aerobic biosynthesis
EP3775240A1 (en) 2018-03-30 2021-02-17 INVISTA Textiles (U.K.) Limited Method for controlling dissolved oxygen concentration in a continuous aerobic fermentation
EP3775182A1 (en) 2018-03-30 2021-02-17 INVISTA Textiles (U.K.) Limited Materials and methods for biosynthetic manufacture of pimelic acid and utilization of synthetic polypeptides
WO2019191767A1 (en) 2018-03-30 2019-10-03 Invista Textiles (U.K.) Limited High hydrogen utilization and gas recycle
US11999943B2 (en) 2018-05-02 2024-06-04 Inv Nylon Chemicals Americas, Llc Materials and methods for maximizing biosynthesis through alteration of pyruvate-acetyl-CoA-TCA balance in species of the genera ralstonia and cupriavidus and organisms related thereto
WO2019213118A1 (en) 2018-05-02 2019-11-07 Invista North America S.A.R.L. Methods for controlling pha biosynthesis in cupriavidus or ralstonia
CN115807021A (zh) * 2022-08-01 2023-03-17 深圳大学 一种莱茵衣藻人工叶绿体基因组合成组装与功能测试的方法

Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6521427B1 (en) * 1997-09-16 2003-02-18 Egea Biosciences, Inc. Method for the complete chemical synthesis and assembly of genes and genomes

Family Cites Families (18)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5750380A (en) 1981-06-30 1998-05-12 City Of Hope Research Institute DNA polymerase mediated synthesis of double stranded nucleic acids
US5928905A (en) 1995-04-18 1999-07-27 Glaxo Group Limited End-complementary polymerase reaction
US5976846A (en) 1996-01-13 1999-11-02 Passmore; Steven E. Method for multifragment in vivo cloning and mutation mapping
IL120338A0 (en) * 1997-02-27 1997-06-10 Gesher Israel Advanced Biotecs Single step DNA fragments assembly
US6670127B2 (en) * 1997-09-16 2003-12-30 Egea Biosciences, Inc. Method for assembly of a polynucleotide encoding a target polypeptide
JP3131633B1 (ja) 1999-11-26 2001-02-05 農林水産省食品総合研究所長 Ｐｃｒ法による植物遺伝子の検出方法
CN1384203A (zh) 2001-04-30 2002-12-11 香港科技创业股份有限公司 具有高度延伸专一性的dna低温循环延伸反应方法
US7267984B2 (en) * 2002-10-31 2007-09-11 Rice University Recombination assembly of large DNA fragments
US20040185449A1 (en) 2003-03-20 2004-09-23 Quinn John J. Method for preparing assay samples
JP2007534303A (ja) * 2003-05-22 2007-11-29 ユニバーシティー オブ カリフォルニア 合成遺伝子または他のｄｎａ配列を作製するための方法
KR100624452B1 (ko) 2004-12-21 2006-09-18 삼성전자주식회사 고정화된 히드로겔 또는 ｐｅｇ－히드로겔 공중합체를이용한 핵산의 분리 및 정제 방법
CA2618699C (en) 2005-08-11 2012-10-02 J. Craig Venter Institute, Inc. In vitro recombination method
CA2618665C (en) 2005-08-11 2012-11-13 J. Craig Venter Institute Method for in vitro recombination
US20090305233A1 (en) 2007-07-03 2009-12-10 Arizona Board Of Regents, A Body Corporate Of The State Of Arizona Methods and Reagents for Polynucleotide Assembly
AU2009214435C1 (en) 2008-02-15 2014-07-17 Synthetic Genomics, Inc. Methods for in vitro joining and combinatorial assembly of nucleic acid molecules
WO2010042007A1 (en) 2008-10-10 2010-04-15 Jonas Tegenfeldt Method for the mapping of the local at/gc ratio along dna
EP2885408B1 (en) 2012-08-16 2023-01-25 Synthetic Genomics, Inc. Digital to biological converter
CA2893817C (en) 2012-12-13 2021-03-09 Synthetic Genomics, Inc. Peg-mediated assembly of nucleic acid molecules

Patent Citations (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6521427B1 (en) * 1997-09-16 2003-02-18 Egea Biosciences, Inc. Method for the complete chemical synthesis and assembly of genes and genomes

Non-Patent Citations (5)

* Cited by examiner, † Cited by third party
Title
Accurate multiplex gene synthesis from programmable DNA microchips;Jingdong Tian,et al.;《Nature》;20041230;第432卷;1050-1054 *
Generating a synthetic genome by whole genome assembly:X174 bacteriophage from synthetic;Hamilton O. Smith,et al.;《PNAS》;20031223;第100卷(第26期);15440-15445 *
Global Transposon Mutagenesis and a Minimal Mycoplasma Genome;Clyde A. Hutchison III,et al.;《Science》;19991210;第286卷;2165-2169 *
Venter Cooks Up a Synthetic Genome in Record Time;ELIZABETH PENNISI;《Science》;20031121;第302卷;1307 *
Venter Gets Down to Life’s Basics;ELIOT MARSHALL;《Science》;20021129;第298卷;1701 *

Also Published As

Publication number Publication date
JP5106412B2 (ja) 2012-12-26
US20070264688A1 (en) 2007-11-15
IL192041A (en) 2013-08-29
CA2643356A1 (en) 2008-02-28
US10041060B2 (en) 2018-08-07
IL192041A0 (en) 2008-12-29
EP1968994A2 (en) 2008-09-17
AU2006347573A1 (en) 2008-02-28
WO2008024129A2 (en) 2008-02-28
JP2009518038A (ja) 2009-05-07
AU2006347573B2 (en) 2013-01-17
EP1968994B1 (en) 2013-07-03
CN101501207A (zh) 2009-08-05
DK1968994T3 (da) 2013-09-30
WO2008024129A3 (en) 2008-10-09
US20180340165A1 (en) 2018-11-29
EP1968994A4 (en) 2009-04-08

Similar Documents

Publication Publication Date Title
CN101501207B (zh) 合成基因组
Pryor et al. Rapid 40 kb genome construction from 52 parts through data-optimized assembly design
JP6798056B2 (ja) Ｈｔｐゲノム操作プラットフォームによる微生物株の改良
Gallaher et al. High‐throughput sequencing of the chloroplast and mitochondrion of Chlamydomonas reinhardtii to generate improved de novo assemblies, analyze expression patterns and transcript speciation, and evaluate diversity among laboratory strains and wild isolates
Babski et al. Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq)
Kazakoff et al. Capturing the biofuel wellhead and powerhouse: the chloroplast and mitochondrial genomes of the leguminous feedstock tree Pongamia pinnata
Shibata et al. Technical Focus-Agrobacterium-mediated plant transformation with large DNA fragments
Mitousis et al. An update on molecular tools for genetic engineering of actinomycetes—the source of important antibiotics and other valuable compounds
Nickel et al. Two CRISPR-Cas systems in Methanosarcina mazei strain Gö1 display common processing features despite belonging to different types I and III
Zhou et al. Strategies and methods for improving the efficiency of CRISPR/Cas9 gene editing in plant molecular breeding
Cengic et al. Inducible CRISPR/Cas9 allows for multiplexed and rapidly segregated single-target genome editing in Synechocystis sp. PCC 6803
EP3635110A2 (en) A high-throughput (htp) genomic engineering platform for improving saccharopolyspora spinosa
Freed et al. Genome-wide tuning of protein expression levels to rapidly engineer microbial traits
Geertsma FX cloning: a simple and robust high-throughput cloning method for protein expression
Jia et al. Orthogonal ribosome biofirewall
Konar et al. Strain improvement of microbes
Ye et al. Plant synthetic genomics: big lessons from the little yeast
Jeong et al. New target gene screening using shortened and random sgRNA libraries in microbial CRISPR interference
Nguyen et al. Enzymatic assembly of small synthetic genes with repetitive elements
Wang et al. PAM-interacting domain swapping is extensively utilized in nature to evolve CRISPR-Cas9 nucleases with altered PAM specificities
JP2017029159A (ja) 改変され、そして改善された細胞および生物を生成するための組成物および方法
Zeitoun et al. Quantitative tracking of combinatorially engineered populations with multiplexed binary assemblies
Gibson et al. Synthetic cells and minimal life
Xu et al. Towards the first synthetic eukaryotic cell
Farrow et al. Combinatorial recombination of gene fragments to construct a library of chimeras

Legal Events

Date Code Title Description
C06 Publication
PB01 Publication
C10 Entry into substantive examination
SE01 Entry into force of request for substantive examination
ASS Succession or assignment of patent right

Owner name: SYNTHETIC GENOMICS LTD.

Free format text: FORMER OWNER: JOHN CRAIG VENTER RESEARCH CO., LTD.

Effective date: 20100512

CB03 Change of inventor or designer information

Inventor after: Smith Hamilton O.

Inventor after: Smith Hamilton O.

Inventor after: Hutchison Clyde A. III

Inventor before: Smith Hamilton O.

Inventor before: Smith Hamilton O.

COR Change of bibliographic data

Free format text: CORRECT: INVENTOR; FROM: VENTER CRAIG J. SMITH HAMILTON O. TO: VENTER CRAIG J. SMITH HAMILTON O. HUTCHISON CLYDE A. III

TA01 Transfer of patent application right

Effective date of registration: 20100512

Address after: American California

Applicant after: Synthetic Genomics Inc.

Address before: American California

Applicant before: J. Craig. Venter research, Limited by Share Ltd

C53 Correction of patent of invention or patent application
CB03 Change of inventor or designer information

Inventor after: Smith Hamilton O.

Inventor after: Smith Hamilton O.

Inventor after: Hutchison Clyde A. III

Inventor after: Young Lei

Inventor before: Smith Hamilton O.

Inventor before: Smith Hamilton O.

Inventor before: Hutchison Clyde A. III

COR Change of bibliographic data

Free format text: CORRECT: INVENTOR; FROM: J. CRAIG VENTER HAMILTON O. SMITH CLYDE A. HUTCHISON III TO: J. CRAIG VENTER HAMILTON O. SMITH CLYDE A. HUTCHISON III DANIEL G. GIBSON

GR01 Patent grant
GR01 Patent grant