WO2008113847A3 - Improved method for homologous recombination - Google Patents

Improved method for homologous recombination Download PDF

Info

Publication number
WO2008113847A3
WO2008113847A3 PCT/EP2008/053352 EP2008053352W WO2008113847A3 WO 2008113847 A3 WO2008113847 A3 WO 2008113847A3 EP 2008053352 W EP2008053352 W EP 2008053352W WO 2008113847 A3 WO2008113847 A3 WO 2008113847A3
Authority
WO
WIPO (PCT)
Prior art keywords
sequence
dna
functional
replacement
cells
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.)
Ceased
Application number
PCT/EP2008/053352
Other languages
French (fr)
Other versions
WO2008113847A2 (en
Inventor
Hesselien Touw-Riel
Van Den Marco Alexander Berg
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.)
DSM IP Assets BV
Original Assignee
DSM IP Assets BV
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
Family has litigation
First worldwide family litigation filed litigation Critical https://patents.darts-ip.com/?family=39766543&utm_source=google_patent&utm_medium=platform_link&utm_campaign=public_patent_search&patent=WO2008113847(A3) "Global patent litigation dataset” by Darts-ip is licensed under a Creative Commons Attribution 4.0 International License.
Application filed by DSM IP Assets BV filed Critical DSM IP Assets BV
Priority to DK08735442.9T priority Critical patent/DK2126100T3/en
Priority to US12/532,205 priority patent/US20100120154A1/en
Priority to EP08735442A priority patent/EP2126100B1/en
Publication of WO2008113847A2 publication Critical patent/WO2008113847A2/en
Publication of WO2008113847A3 publication Critical patent/WO2008113847A3/en
Anticipated expiration legal-status Critical
Priority to US14/146,858 priority patent/US20140154807A1/en
Ceased legal-status Critical Current

Links

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
    • C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
    • C12N15/79—Vectors or expression systems specially adapted for eukaryotic hosts
    • C12N15/80—Vectors or expression systems specially adapted for eukaryotic hosts for fungi
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • C07K14/37—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from fungi
    • C07K14/385—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from fungi from Penicillium
    • 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
    • C12N15/1058—Directional evolution of libraries, e.g. evolution of libraries is achieved by mutagenesis and screening or selection of mixed population of organisms
    • 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
    • C12N15/87—Introduction of foreign genetic material using processes not otherwise provided for, e.g. co-transformation
    • C12N15/90—Stable introduction of foreign DNA into chromosome
    • C12N15/902—Stable introduction of foreign DNA into chromosome using homologous recombination
    • 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
    • C12N2800/00—Nucleic acids vectors
    • C12N2800/30—Vector systems comprising sequences for excision in presence of a recombinase, e.g. loxP or FRT

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Chemical & Material Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Organic Chemistry (AREA)
  • Wood Science & Technology (AREA)
  • General Engineering & Computer Science (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Biomedical Technology (AREA)
  • Zoology (AREA)
  • Molecular Biology (AREA)
  • Biophysics (AREA)
  • General Health & Medical Sciences (AREA)
  • Biochemistry (AREA)
  • Microbiology (AREA)
  • Plant Pathology (AREA)
  • Physics & Mathematics (AREA)
  • Mycology (AREA)
  • Medicinal Chemistry (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Gastroenterology & Hepatology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Ecology (AREA)
  • Crystallography & Structural Chemistry (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)

Abstract

The present invention discloses a method to construct eukaryotic cells having a target sequence in a chromosomal DNA sequence replaced by a replacement sequence of interest comprising: - modifying a parent eukaryotic cell with a preference for NHR to provide a eukaryotic cell having an increased HR/NHR ratio as compared to the parent cell, - providing two sets of DNA molecules of which the first set comprises DNA molecules each comprising a first non-functional fragment of the replacement sequence of interest flanked at its 5'-side by a DNA sequence substantially homologous to a sequence of the chromosomal DNA flanking the target sequence and the second set comprises DNA molecules each comprising a second non-functional fragment of the DNA replacement sequence of interest overlapping with the first non-functional fragment and flanked at its 3'-side by a DNA sequence substantially homologous to a sequence of the chromosomal DNA flanking the target sequence, wherein the first and second non-functional fragments become functional upon recombination; - transforming the modified eukaryotic cells with both sets of DNA molecules; and - growing the cells to obtain transformed progeny cells having a DNA molecule from the first set recombined with a DNA molecule from the second set into a DNA molecule comprising a functional replacement sequence and having the target sequence replaced by the functional replacement sequence.
PCT/EP2008/053352 2007-03-21 2008-03-20 Improved method for homologous recombination Ceased WO2008113847A2 (en)

Priority Applications (4)

Application Number Priority Date Filing Date Title
DK08735442.9T DK2126100T3 (en) 2007-03-21 2008-03-20 Improved method of homologous recombination
US12/532,205 US20100120154A1 (en) 2007-03-21 2008-03-20 Method for homologous recombination
EP08735442A EP2126100B1 (en) 2007-03-21 2008-03-20 Improved method for homologous recombination
US14/146,858 US20140154807A1 (en) 2007-03-21 2014-01-03 Method for homologous recombination

Applications Claiming Priority (4)

Application Number Priority Date Filing Date Title
EP07104588.4 2007-03-21
EP07104588 2007-03-21
EP07111826 2007-07-05
EP07111826.9 2007-07-05

Related Child Applications (2)

Application Number Title Priority Date Filing Date
US12/532,205 A-371-Of-International US20100120154A1 (en) 2007-03-21 2008-03-20 Method for homologous recombination
US14/146,858 Continuation US20140154807A1 (en) 2007-03-21 2014-01-03 Method for homologous recombination

Publications (2)

Publication Number Publication Date
WO2008113847A2 WO2008113847A2 (en) 2008-09-25
WO2008113847A3 true WO2008113847A3 (en) 2009-02-12

Family

ID=39766543

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/EP2008/053352 Ceased WO2008113847A2 (en) 2007-03-21 2008-03-20 Improved method for homologous recombination

Country Status (4)

Country Link
US (2) US20100120154A1 (en)
EP (2) EP2592149A1 (en)
DK (1) DK2126100T3 (en)
WO (1) WO2008113847A2 (en)

Families Citing this family (17)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2005095624A2 (en) 2004-04-02 2005-10-13 Dsm Ip Assets B.V. Filamentous fungal mutants with improved homologous recombination efficiency
US8906607B2 (en) 2010-04-30 2014-12-09 Cellectis Method for modulating double-strand break-induced homologous recombination
CA2801799C (en) * 2010-06-03 2018-11-20 Danisco Us Inc. Filamentous fungal host strains and dna constructs, and methods of use thereof
CN103596970A (en) 2011-03-11 2014-02-19 帝斯曼知识产权资产管理有限公司 Vector-host system
WO2013189878A1 (en) 2012-06-19 2013-12-27 Dsm Ip Assets B.V. Promoters for expressing a gene in a cell
CN105073986A (en) 2013-02-04 2015-11-18 帝斯曼知识产权资产管理有限公司 Carbohydrate degrading polypeptides and uses thereof
WO2014202622A2 (en) 2013-06-19 2014-12-24 Dsm Ip Assets B.V. Rasamsonia gene and use thereof
WO2014202624A2 (en) 2013-06-19 2014-12-24 Dsm Ip Assets B.V. Rasamsonia gene and use thereof
WO2014202620A2 (en) 2013-06-19 2014-12-24 Dsm Ip Assets B.V. Rasamsonia gene and use thereof
WO2014202621A1 (en) 2013-06-20 2014-12-24 Dsm Ip Assets B.V. Carbohydrate degrading polypeptide and uses thereof
WO2015082535A1 (en) * 2013-12-03 2015-06-11 Novozymes A/S Fungal gene library by double split-marker integration
NL2011912C2 (en) * 2013-12-06 2015-06-09 Univ Delft Tech Novel genome alteration system for microorganisms.
KR20150096019A (en) * 2014-02-13 2015-08-24 삼성전자주식회사 Yeast cell having enhanced genetic manipulation efficiency and use thereof
EP3512953A1 (en) * 2016-09-15 2019-07-24 Novozymes A/S Genomic integration of dna fragments in fungal host cells
KR20200026878A (en) 2017-06-06 2020-03-11 지머젠 인코포레이티드 HTP Genome Engineering Platform to Improve Fungal Strains
EP3810750A4 (en) 2018-06-06 2022-03-23 Zymergen, Inc. MANIPULATION OF GENES INVOLVED IN SIGNAL TRANSDUCTION TO CONTROL FUNGAL MORPHOLOGY DURING FERMENTATION AND PRODUCTION
US11479779B2 (en) 2020-07-31 2022-10-25 Zymergen Inc. Systems and methods for high-throughput automated strain generation for non-sporulating fungi

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2005095624A2 (en) * 2004-04-02 2005-10-13 Dsm Ip Assets B.V. Filamentous fungal mutants with improved homologous recombination efficiency
WO2007013979A2 (en) * 2005-07-20 2007-02-01 Invitrogen Corporation Methods for increasing efficiency of homologous recombination

Family Cites Families (8)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
EP0635574B1 (en) 1993-07-23 2003-04-23 Dsm N.V. Selection marker gene free recombinant strains, a method for obtaining them and the use of these strains
ATE418614T1 (en) 1995-08-03 2009-01-15 Dsm Ip Assets Bv AMDS GENE FROM ASPERGILLUS NIGER CODING FOR AN ACETAMIDASE
PL335227A1 (en) 1997-02-20 2000-04-10 Dsm Nv Industrial-scale production of valuable compounds by fermentation in a chemically defined medium
EP1217074A1 (en) * 2000-12-22 2002-06-26 Universiteit Leiden Nucleic acid integration in eukaryotes
JP2006528970A (en) 2003-05-28 2006-12-28 デーエスエム アイピー アセッツ ベー． ヴェー． Cephem compound
EP1673380A2 (en) 2003-10-14 2006-06-28 DSM IP Assets B.V. Method for preparing a modified host cell
US20050181509A1 (en) 2004-02-12 2005-08-18 The Penn State Research Foundation Dual selection based, targeted gene disruption method for fungi and fungus-like organisms
ATE460489T1 (en) * 2006-04-08 2010-03-15 Dsm Ip Assets Bv IMPROVED METHOD FOR HOMOLOGUE RECOMBINATION IN FUNGAL CELLS

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2005095624A2 (en) * 2004-04-02 2005-10-13 Dsm Ip Assets B.V. Filamentous fungal mutants with improved homologous recombination efficiency
WO2007013979A2 (en) * 2005-07-20 2007-02-01 Invitrogen Corporation Methods for increasing efficiency of homologous recombination

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
NIELSEN ET AL: "Efficient PCR-based gene targeting with a recyclable marker for Aspergillus nidulans", FUNGAL GENETICS AND BIOLOGY, SAN DIEGO, CA, US, vol. 43, no. 1, January 2006 (2006-01-01), pages 54 - 64, XP005234491, ISSN: 1087-1845 *
NINOMIYA Y ET AL: "Highly efficient gene replacements in Neurospora strains deficient for nonhomologous end-joining", PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF USA, NATIONAL ACADEMY OF SCIENCE, WASHINGTON, DC, US, vol. 101, no. 33, 17 August 2004 (2004-08-17), pages 12248 - 12253, XP002346025, ISSN: 0027-8424 *

Also Published As

Publication number Publication date
DK2126100T3 (en) 2013-01-14
WO2008113847A2 (en) 2008-09-25
EP2126100B1 (en) 2012-11-14
US20140154807A1 (en) 2014-06-05
US20100120154A1 (en) 2010-05-13
EP2126100A2 (en) 2009-12-02
EP2592149A1 (en) 2013-05-15

Similar Documents

Publication Publication Date Title
WO2008148010A9 (en) Compositions comprising high concentration of biologically active molecules and processes for preparing the same
WO2011078665A8 (en) Improved techniques for transfecting protoplasts
WO2014127287A8 (en) Method for in vivo targeted mutagenesis
WO2012058137A3 (en) Methods for diversifying antibodies, antibodies derived therefrom and uses thereof
UA103887C2 (en) Method for production of herbicide resistant plant
WO2006138005A8 (en) Genes and uses for plant improvement
WO2008070179A3 (en) Genes and uses for plant improvement
WO2007136835A3 (en) Methods and cells for creating functional diversity and uses thereof
WO2008153927A3 (en) Genes and uses for plant enhancement
WO2009073069A3 (en) Genes and uses for plant enhancement
WO2009134339A8 (en) Genes and uses for plant enhancement
WO2008052101A3 (en) Multiplex automated genome engineering
WO2009083804A3 (en) Improved fibronectin-based binding molecules and their use
WO2008153712A3 (en) Method for introducing nucleic acids into fungal cells
WO2009105612A3 (en) Nucleotide sequences and corresponding polypeptides conferring improved nitrogen use efficiency characteristics in plants
DE602007012846D1 (en) IMPROVED METHOD FOR HOMOLOGOUS RECOMBINATION IN EUKARYONTIC CELLS
WO2011101811A3 (en) Improved meganuclease recombination system
WO2010027497A3 (en) Preparations, compositions, and methods for nucleic acid sequencing
MX2012004579A (en) Homologous recombination in an algal nuclear genome.
DK2162537T3 (en) Use of genetically modified organisms to produce biomass-degrading enzymes.
MX2010001347A (en) Msca1 nucleotide sequences impacting plant male fertility and method of using same.
WO2007087153A3 (en) Cyst nematode resistant transgenic plants
WO2008060555A3 (en) Activation of the arabidopsis hypertall (hyt1/yucca6) locus affects several auxin mediated responses
WO2010084331A3 (en) Gene targeting in plants
WO2005110067A3 (en) Method and compositions for rna interference

Legal Events

Date Code Title Description
121 Ep: the epo has been informed by wipo that ep was designated in this application

Ref document number: 08735442

Country of ref document: EP

Kind code of ref document: A2

WWE Wipo information: entry into national phase

Ref document number: 2008735442

Country of ref document: EP

WWE Wipo information: entry into national phase

Ref document number: 12532205

Country of ref document: US

NENP Non-entry into the national phase

Ref country code: DE