CA2744153C - Compositions and methods for the assembly of polynucleotides - Google Patents
Compositions and methods for the assembly of polynucleotides Download PDFInfo
- Publication number
- CA2744153C CA2744153C CA2744153A CA2744153A CA2744153C CA 2744153 C CA2744153 C CA 2744153C CA 2744153 A CA2744153 A CA 2744153A CA 2744153 A CA2744153 A CA 2744153A CA 2744153 C CA2744153 C CA 2744153C
- Authority
- CA
- Canada
- Prior art keywords
- nucleic acid
- annealable linker
- linker sequence
- sequence
- acid molecules
- 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.)
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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
- 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
- C12N15/10—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
- C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
-
- 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
- C12N15/64—General methods for preparing the vector, for introducing it into the cell or for selecting the vector-containing host
-
- 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
-
- C—CHEMISTRY; METALLURGY
- C40—COMBINATORIAL TECHNOLOGY
- C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
- C40B40/00—Libraries per se, e.g. arrays, mixtures
- C40B40/04—Libraries containing only organic compounds
- C40B40/06—Libraries containing nucleotides or polynucleotides, or derivatives thereof
-
- C—CHEMISTRY; METALLURGY
- C40—COMBINATORIAL TECHNOLOGY
- C40B—COMBINATORIAL CHEMISTRY; LIBRARIES, e.g. CHEMICAL LIBRARIES
- C40B50/00—Methods of creating libraries, e.g. combinatorial synthesis
- C40B50/06—Biochemical methods, e.g. using enzymes or whole viable microorganisms
Landscapes
- Health & Medical Sciences (AREA)
- Life Sciences & Earth Sciences (AREA)
- Genetics & Genomics (AREA)
- Chemical & Material Sciences (AREA)
- Engineering & Computer Science (AREA)
- Organic Chemistry (AREA)
- Biomedical Technology (AREA)
- Zoology (AREA)
- Biotechnology (AREA)
- General Engineering & Computer Science (AREA)
- Bioinformatics & Cheminformatics (AREA)
- Wood Science & Technology (AREA)
- Molecular Biology (AREA)
- Biochemistry (AREA)
- Microbiology (AREA)
- Biophysics (AREA)
- Plant Pathology (AREA)
- Physics & Mathematics (AREA)
- General Health & Medical Sciences (AREA)
- Chemical Kinetics & Catalysis (AREA)
- General Chemical & Material Sciences (AREA)
- Medicinal Chemistry (AREA)
- Crystallography & Structural Chemistry (AREA)
- Bioinformatics & Computational Biology (AREA)
- Cell Biology (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
- Micro-Organisms Or Cultivation Processes Thereof (AREA)
- Enzymes And Modification Thereof (AREA)
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 |
Publications (2)
| Publication Number | Publication Date |
|---|---|
| CA2744153A1 CA2744153A1 (en) | 2010-05-27 |
| CA2744153C true CA2744153C (en) | 2020-07-07 |
Family
ID=41698076
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| CA2744153A Active CA2744153C (en) | 2008-11-19 | 2009-11-19 | Compositions and methods for the assembly of polynucleotides |
Country Status (12)
| Country | Link |
|---|---|
| US (3) | US8221982B2 (https=) |
| EP (1) | EP2358875B1 (https=) |
| JP (1) | JP2012509084A (https=) |
| KR (1) | KR101794298B1 (https=) |
| CN (1) | CN102282255B (https=) |
| AU (1) | AU2009316660B2 (https=) |
| BR (1) | BRPI0922187B1 (https=) |
| CA (1) | CA2744153C (https=) |
| MX (1) | MX2011005195A (https=) |
| SG (1) | SG171760A1 (https=) |
| WO (1) | WO2010059763A1 (https=) |
| ZA (1) | ZA201103637B (https=) |
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| WO2010059763A1 (en) * | 2008-11-19 | 2010-05-27 | Amyris Biotechnologies, Inc. | Compositions and methods for the assembly of polynucleotides |
| US7919605B1 (en) | 2010-08-30 | 2011-04-05 | Amyris, Inc. | Nucleic acids, compositions and methods for the excision of target nucleic acids |
| KR102068107B1 (ko) | 2011-04-27 | 2020-01-20 | 아미리스 인코퍼레이티드 | 게놈 변형 방법 |
| CN104039974B (zh) | 2011-11-09 | 2016-10-12 | 阿迈瑞斯公司 | 乙酰辅酶a衍生的类异戊二烯的生产 |
| US8332160B1 (en) | 2011-11-17 | 2012-12-11 | Amyris Biotechnologies, Inc. | Systems and methods for engineering nucleic acid constructs using scoring techniques |
| AU2013203380A1 (en) * | 2012-01-13 | 2013-08-01 | Chromatin, Inc. | Engineering plants with rate limiting farnesene metabolic genes |
| CN104204205B (zh) * | 2012-03-27 | 2017-06-27 | 帝斯曼知识产权资产管理有限公司 | 克隆方法 |
| SG11201408736SA (en) * | 2012-06-29 | 2015-03-30 | Massachusetts Inst Technology | Massively parallel combinatorial genetics |
| US9976162B2 (en) | 2012-12-10 | 2018-05-22 | Agilent Technologies, Inc. | Pairing code directed assembly |
| MX364748B (es) | 2013-03-15 | 2019-05-06 | Amyris Inc | Uso de fosfoquetolasa y fosfotransacetilasa para la produccion de compuestos derivados de acetil-coenzima a. |
| CA2909733C (en) | 2013-04-18 | 2023-10-17 | Fondazione Telethon | Effective delivery of large genes by dual aav vectors |
| MX2016007797A (es) | 2013-12-19 | 2016-09-07 | Amyris Inc | Metodos para integracion genomica. |
| WO2015120403A1 (en) | 2014-02-08 | 2015-08-13 | The Regents Of The University Of Colorado, A Body Corporate | Multiplexed linking pcr |
| US11898141B2 (en) * | 2014-05-27 | 2024-02-13 | The Broad Institute, Inc. | High-throughput assembly of genetic elements |
| JP2018501814A (ja) | 2014-11-11 | 2018-01-25 | クララ フーズ カンパニー | 卵白タンパク質産生のための方法および組成物 |
| HK1245346A1 (zh) | 2014-12-05 | 2018-08-24 | Amyris, Inc. | 多核苷酸的高通量测序 |
| RS63416B1 (sr) * | 2015-03-03 | 2022-08-31 | Fond Telethon | Sistem višestrukih vektora i njegove primene |
| JP6698708B2 (ja) | 2015-06-09 | 2020-05-27 | ライフ テクノロジーズ コーポレーション | 分子タグ付けのための方法、システム、組成物、キット、装置、及びコンピュータ可読媒体 |
| WO2017024173A1 (en) | 2015-08-04 | 2017-02-09 | The Regents Of The University Of Colorado | Multiplexed binary assembly and quantitative tracking of bacterial populations |
| WO2017075538A1 (en) | 2015-10-29 | 2017-05-04 | 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 |
| JP6821598B2 (ja) | 2015-12-07 | 2021-01-27 | ザイマージェン インコーポレイテッド | Ｃｏｒｙｎｅｂａｃｔｅｒｉｕｍ ｇｌｕｔａｍｉｃｕｍ由来のプロモーター |
| 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 |
| EP4219731A3 (en) | 2016-05-18 | 2023-08-09 | Amyris, Inc. | Compositions and methods for genomic integration of nucleic acids into exogenous landing pads |
| EP3478833A4 (en) | 2016-06-30 | 2019-10-02 | Zymergen, Inc. | METHOD FOR PRODUCING A BACTERIAL HEMOGLOBIN LIBRARY AND ITS USE |
| JP2019519241A (ja) | 2016-06-30 | 2019-07-11 | ザイマージェン インコーポレイテッド | グルコース透過酵素ライブラリーを生成するための方法およびその使用 |
| 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 |
| MX2019015505A (es) | 2017-06-30 | 2020-07-28 | Inscripta Inc | Metodos, modulos, instrumentos y sistemas de procesamiento de celulas automatizados. |
| US10738327B2 (en) | 2017-08-28 | 2020-08-11 | Inscripta, Inc. | Electroporation cuvettes for automation |
| CN111356766A (zh) | 2017-09-18 | 2020-06-30 | 阿迈瑞斯公司 | 用于遗传工程改造克鲁维酵母宿主细胞的方法 |
| US11685934B2 (en) | 2017-09-18 | 2023-06-27 | Amyris, Inc. | Methods for genomic integration for Kluyveromyces host cells |
| WO2019055535A1 (en) | 2017-09-18 | 2019-03-21 | Amyris, Inc. | METHODS OF GENOMIC INTEGRATION FOR HOST CELLS COMPRISING HANSENULA AND ARXULA |
| WO2019055481A1 (en) | 2017-09-18 | 2019-03-21 | Amyris, Inc. | METHODS OF GENOMIC INTEGRATION IN PICHIA AND OTHER HOST CELLS |
| AU2018343309B2 (en) * | 2017-09-29 | 2025-04-10 | Victoria Link Limited | Modular dna assembly system |
| EP3687621A4 (en) | 2017-09-30 | 2021-08-11 | Inscripta, Inc. | Flow through electroporation instrumentation |
| WO2019190874A1 (en) | 2018-03-29 | 2019-10-03 | Inscripta, Inc. | Automated control of cell growth rates for induction and transformation |
| US10376889B1 (en) | 2018-04-13 | 2019-08-13 | Inscripta, Inc. | Automated cell processing instruments comprising reagent cartridges |
| WO2019201276A1 (en) * | 2018-04-17 | 2019-10-24 | Nanjingjinsirui Science & Technology Biology Corp. | Dna construct design system |
| US10508273B2 (en) | 2018-04-24 | 2019-12-17 | Inscripta, Inc. | Methods for identifying selective binding pairs |
| US10526598B2 (en) | 2018-04-24 | 2020-01-07 | Inscripta, Inc. | Methods for identifying T-cell receptor antigens |
| 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 |
| US11965154B2 (en) | 2018-08-30 | 2024-04-23 | Inscripta, Inc. | Detection of nuclease edited sequences in automated modules and instruments |
| EP3874037A4 (en) * | 2018-10-31 | 2021-12-15 | Zymergen, Inc. | DETERMINIST MULTIPLEXED SET OF DNA LIBRARIES |
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| US10920189B2 (en) | 2019-06-21 | 2021-02-16 | Inscripta, Inc. | Genome-wide rationally-designed mutations leading to enhanced lysine production in E. coli |
| 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 |
| BR112022000545A2 (pt) | 2019-07-11 | 2022-04-05 | Clara Foods Co | Composições de proteína e produtos de consumo destas |
| 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 |
| WO2021211972A1 (en) * | 2020-04-16 | 2021-10-21 | 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 |
Family Cites Families (16)
| 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 |
| WO1999016904A1 (en) * | 1997-09-29 | 1999-04-08 | City Of Hope | Efficient linking of nucleic acid segments |
| ATE423845T1 (de) * | 1999-03-18 | 2009-03-15 | 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 |
| 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 |
| US20080287320A1 (en) * | 2006-10-04 | 2008-11-20 | Codon Devices | Libraries and their design and assembly |
| 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 |
| CN101932725A (zh) * | 2007-10-08 | 2010-12-29 | 合成基因组股份有限公司 | 大核酸的装配 |
| WO2010059763A1 (en) * | 2008-11-19 | 2010-05-27 | Amyris Biotechnologies, Inc. | Compositions and methods for the assembly of polynucleotides |
-
2009
- 2009-11-19 WO PCT/US2009/065048 patent/WO2010059763A1/en not_active Ceased
- 2009-11-19 US US12/622,401 patent/US8221982B2/en active Active
- 2009-11-19 KR KR1020117014144A patent/KR101794298B1/ko not_active Expired - Fee Related
- 2009-11-19 AU AU2009316660A patent/AU2009316660B2/en not_active Ceased
- 2009-11-19 SG SG2011036274A patent/SG171760A1/en unknown
- 2009-11-19 MX MX2011005195A patent/MX2011005195A/es active IP Right Grant
- 2009-11-19 CA CA2744153A patent/CA2744153C/en active Active
- 2009-11-19 BR BRPI0922187-5A patent/BRPI0922187B1/pt active IP Right Grant
- 2009-11-19 JP JP2011537596A patent/JP2012509084A/ja active Pending
- 2009-11-19 CN CN200980154897.0A patent/CN102282255B/zh not_active Expired - Fee Related
- 2009-11-19 EP EP09764127.8A patent/EP2358875B1/en active Active
-
2010
- 2010-01-08 US US12/684,874 patent/US8110360B2/en active Active
-
2011
- 2011-05-17 ZA ZA2011/03637A patent/ZA201103637B/en unknown
-
2012
- 2012-03-26 US US13/430,322 patent/US8546136B2/en active Active
Also Published As
| Publication number | Publication date |
|---|---|
| US8110360B2 (en) | 2012-02-07 |
| US20100136633A1 (en) | 2010-06-03 |
| SG171760A1 (en) | 2011-07-28 |
| CA2744153A1 (en) | 2010-05-27 |
| ZA201103637B (en) | 2012-08-29 |
| JP2012509084A (ja) | 2012-04-19 |
| US8221982B2 (en) | 2012-07-17 |
| KR20110102351A (ko) | 2011-09-16 |
| US8546136B2 (en) | 2013-10-01 |
| AU2009316660A1 (en) | 2011-07-07 |
| BRPI0922187A2 (pt) | 2018-10-23 |
| BRPI0922187B1 (pt) | 2021-05-04 |
| EP2358875B1 (en) | 2015-08-12 |
| US20120245056A1 (en) | 2012-09-27 |
| AU2009316660B2 (en) | 2015-01-29 |
| MX2011005195A (es) | 2011-09-01 |
| US20100124768A1 (en) | 2010-05-20 |
| WO2010059763A1 (en) | 2010-05-27 |
| CN102282255B (zh) | 2014-05-07 |
| KR101794298B1 (ko) | 2017-11-20 |
| EP2358875A1 (en) | 2011-08-24 |
| CN102282255A (zh) | 2011-12-14 |
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Free format text: ST27 STATUS EVENT CODE: N-6-6-W10-W00-W100 (AS PROVIDED BY THE NATIONAL OFFICE); EVENT TEXT: LETTER SENT Effective date: 20260203 |