WO2009009743A3 - Sequence optimization for expression of a foreign gene - Google Patents

Sequence optimization for expression of a foreign gene Download PDF

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Publication number
WO2009009743A3
WO2009009743A3 PCT/US2008/069818 US2008069818W WO2009009743A3 WO 2009009743 A3 WO2009009743 A3 WO 2009009743A3 US 2008069818 W US2008069818 W US 2008069818W WO 2009009743 A3 WO2009009743 A3 WO 2009009743A3
Authority
WO
WIPO (PCT)
Prior art keywords
expression
tissue
interest
organism
target gene
Prior art date
Application number
PCT/US2008/069818
Other languages
French (fr)
Other versions
WO2009009743A2 (en
Inventor
Arnold Levine
Raul Rabadan
Michael Krasnitz
Original Assignee
Inst Advance Study
Arnold Levine
Raul Rabadan
Michael Krasnitz
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 Inst Advance Study, Arnold Levine, Raul Rabadan, Michael Krasnitz filed Critical Inst Advance Study
Publication of WO2009009743A2 publication Critical patent/WO2009009743A2/en
Publication of WO2009009743A3 publication Critical patent/WO2009009743A3/en

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Classifications

    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
    • Y—GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
    • Y02—TECHNOLOGIES OR APPLICATIONS FOR MITIGATION OR ADAPTATION AGAINST CLIMATE CHANGE
    • Y02A—TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE
    • Y02A90/00—Technologies having an indirect contribution to adaptation to climate change
    • Y02A90/10—Information and communication technologies [ICT] supporting adaptation to climate change, e.g. for weather forecasting or climate simulation

Abstract

The invention relates to methods useful for optimizing expression of a foreign gene in an organism or tissue of interest. In particular, the invention relates to methods for ranking genes expressed in an organism or tissue of interest and methods for modifying nucleotide sequences for particular uses by making changes in codon usage to modulate expression of a gene. In one aspect, the invention provides a method for optimizing a the nucleotide sequence for expression in a specific organism or tissue by recursively overlapping the nucleotide sequence of a target gene with the nucleotide sequences of ranked genes in a tissue of interest. In another aspect, the method provides for the construction of an optimized version of the target gene which retains the original amino acid coding information of the target gene.
PCT/US2008/069818 2007-07-12 2008-07-11 Sequence optimization for expression of a foreign gene WO2009009743A2 (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US94934907P 2007-07-12 2007-07-12
US60/949,349 2007-07-12

Publications (2)

Publication Number Publication Date
WO2009009743A2 WO2009009743A2 (en) 2009-01-15
WO2009009743A3 true WO2009009743A3 (en) 2009-04-09

Family

ID=40229499

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2008/069818 WO2009009743A2 (en) 2007-07-12 2008-07-11 Sequence optimization for expression of a foreign gene

Country Status (1)

Country Link
WO (1) WO2009009743A2 (en)

Cited By (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN108363904A (en) * 2018-02-07 2018-08-03 南京林业大学 A kind of CodonNX systems and its optimization method for the optimization of xylophyta genetic codon

Families Citing this family (7)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN102912034A (en) * 2011-08-04 2013-02-06 广州格拉姆生物科技有限公司 RT-LAMP (Reverse Transcription-Loop-mediated Isothermal Amplification) kit used for detecting pig Kobu virus and preparation method thereof
EP2620446A1 (en) 2012-01-27 2013-07-31 Laboratorios Del Dr. Esteve, S.A. Immunogens for HIV vaccination
US20140244228A1 (en) * 2012-09-19 2014-08-28 Agency For Science, Technology And Research Codon optimization of a synthetic gene(s) for protein expression
US10724040B2 (en) 2015-07-15 2020-07-28 The Penn State Research Foundation mRNA sequences to control co-translational folding of proteins
WO2021094984A1 (en) 2019-11-14 2021-05-20 Aelix Therapeutics, S.L. Dosage regimens for vaccines
CN114561366B (en) * 2022-03-30 2023-06-20 西南民族大学 Goat kuraria virus isolate and application thereof
CN116949067B (en) * 2023-09-20 2023-11-21 深圳万可森生物科技有限公司 Nerve necrosis virus CP4 protein coding gene, preparation method and application

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20060134629A1 (en) * 2000-03-20 2006-06-22 Link Charles J Methods and compositions for elucidating protein expression profiles in cells
US20070104713A1 (en) * 2000-10-06 2007-05-10 Strittmatter Stephen M Nogo receptor homologs
US20070122817A1 (en) * 2005-02-28 2007-05-31 George Church 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
US20060134629A1 (en) * 2000-03-20 2006-06-22 Link Charles J Methods and compositions for elucidating protein expression profiles in cells
US20070104713A1 (en) * 2000-10-06 2007-05-10 Strittmatter Stephen M Nogo receptor homologs
US20070122817A1 (en) * 2005-02-28 2007-05-31 George Church Methods for assembly of high fidelity synthetic polynucleotides

Non-Patent Citations (2)

* Cited by examiner, † Cited by third party
Title
"BLAST Searching Tutorial, NCBI (NCBI), Human Genome Project", 3 January 2003 (2003-01-03), Retrieved from the Internet <URL:http://www.ornl.gov/sci/techresources/Human_Genome/posters/chromosome/blast.shtml> [retrieved on 20090125] *
HAYES ET AL.: "Combining computational and experimental screening for rapid optimization of protein properties.", PNAS, vol. 99, no. 25, pages 15926 - 15931 *

Cited By (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
CN108363904A (en) * 2018-02-07 2018-08-03 南京林业大学 A kind of CodonNX systems and its optimization method for the optimization of xylophyta genetic codon

Also Published As

Publication number Publication date
WO2009009743A2 (en) 2009-01-15

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