BRPI0818507B8 - Método de otimização de uma sequência nucleotídica para expressão em um organismo alvo - Google Patents

Método de otimização de uma sequência nucleotídica para expressão em um organismo alvo

Info

Publication number
BRPI0818507B8
BRPI0818507B8 BRPI0818507A BRPI0818507A BRPI0818507B8 BR PI0818507 B8 BRPI0818507 B8 BR PI0818507B8 BR PI0818507 A BRPI0818507 A BR PI0818507A BR PI0818507 A BRPI0818507 A BR PI0818507A BR PI0818507 B8 BRPI0818507 B8 BR PI0818507B8
Authority
BR
Brazil
Prior art keywords
sequences
nucleotide sequence
methods
sequence
synthetic
Prior art date
Application number
BRPI0818507A
Other languages
English (en)
Inventor
J Tomso Daniel
Original Assignee
Athenix Corp
Basf Se
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 Athenix Corp, Basf Se filed Critical Athenix Corp
Publication of BRPI0818507A2 publication Critical patent/BRPI0818507A2/pt
Publication of BRPI0818507B1 publication Critical patent/BRPI0818507B1/pt
Publication of BRPI0818507B8 publication Critical patent/BRPI0818507B8/pt

Links

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
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding

Landscapes

  • Life Sciences & Earth Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Health & Medical Sciences (AREA)
  • Medical Informatics (AREA)
  • Engineering & Computer Science (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Theoretical Computer Science (AREA)
  • Biophysics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Biotechnology (AREA)
  • Evolutionary Biology (AREA)
  • General Health & Medical Sciences (AREA)
  • Computer Vision & Pattern Recognition (AREA)
  • Evolutionary Computation (AREA)
  • Analytical Chemistry (AREA)
  • Artificial Intelligence (AREA)
  • Bioethics (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Data Mining & Analysis (AREA)
  • Databases & Information Systems (AREA)
  • Epidemiology (AREA)
  • Chemical & Material Sciences (AREA)
  • Public Health (AREA)
  • Software Systems (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Breeding Of Plants And Reproduction By Means Of Culturing (AREA)
  • Agricultural Chemicals And Associated Chemicals (AREA)
  • Saccharide Compounds (AREA)
  • Enzymes And Modification Thereof (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)

Abstract

MODELOS COMPUTACIONAIS PARA DESENHO DE GENE SINTÉTICO. A presente invenção é delineada por métodos para desenhar sequências nucleotídicas sintéticas que codificam polipeptídeos de interesse. Os métodos envolvem a organização de um banco de dados de sequências como grupo de sequências de oligômero de N-comprimento e a compilação de uma lista de escores de probabilidade para cada sequência de N-comprimento. Os escores de probabilidade são usados para substituir uma ou mais sequências de escore mais alto na sequência nucleotídica parental para gerar uma sequência otimizada. A sequência nucleotídica de interesse pode ser ainda otimizada pela remoção tanto das regiões de leitura abertas não intencionais como de elementos de DNA curtos indesejados, e/ou substituição de sequências de oligômero para alcançar um conteúdo G:C específico. Estes métodos podem ser usados para otimizar a expressão de genes heterólogos em qualquer organismo, particularmente em plantas. O método gera sequências sintéticas com uma composição similar àquela de um banco de dados alvo. Estas sequências sintéticas podem ser usadas, por exemplo, para regular a atividade pesticida ou a resistência à herbicida em organismos, particularmente plantas ou células vegetais.
BRPI0818507A 2007-10-09 2008-10-09 Método de otimização de uma sequência nucleotídica para expressão em um organismo alvo BRPI0818507B8 (pt)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US97872907P 2007-10-09 2007-10-09
PCT/US2008/079343 WO2009049045A1 (en) 2007-10-09 2008-10-09 Computational methods for synthetic gene design

Publications (3)

Publication Number Publication Date
BRPI0818507A2 BRPI0818507A2 (pt) 2015-06-16
BRPI0818507B1 BRPI0818507B1 (pt) 2019-09-17
BRPI0818507B8 true BRPI0818507B8 (pt) 2022-07-05

Family

ID=40193507

Family Applications (1)

Application Number Title Priority Date Filing Date
BRPI0818507A BRPI0818507B8 (pt) 2007-10-09 2008-10-09 Método de otimização de uma sequência nucleotídica para expressão em um organismo alvo

Country Status (11)

Country Link
US (1) US8175813B2 (pt)
EP (1) EP2208157B1 (pt)
CN (1) CN101821744B (pt)
AT (1) ATE504045T1 (pt)
AU (1) AU2008310806A1 (pt)
BR (1) BRPI0818507B8 (pt)
CA (1) CA2702084C (pt)
DE (1) DE602008005920D1 (pt)
MX (1) MX2010003878A (pt)
WO (1) WO2009049045A1 (pt)
ZA (1) ZA201002472B (pt)

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* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US20130060481A1 (en) * 2010-01-15 2013-03-07 Board of Regents of the Nevada System of Higher Ed ucation,on behalf of The Desert Reserach Institut Systems and Methods for Identifying Structurally or Functionally Significant Nucleotide Sequences
US9321814B2 (en) 2011-03-30 2016-04-26 Athenix Corp. AXMI238 toxin gene and methods for its use
WO2012135501A2 (en) 2011-03-30 2012-10-04 Athenix Corp. Axmi232, axmi233, and axmi249 toxin genes and methods for their use
ES2743322T3 (es) 2011-04-05 2020-02-18 BASF Agricultural Solutions Seed US LLC Gen insecticida variante AXMI115 y procedimientos de uso
EP2736923A1 (en) 2011-07-28 2014-06-04 Athenix Corp. Axmi270 toxin gene and methods for its use
UA122657C2 (uk) 2011-07-29 2020-12-28 Атенікс Корп. Ген пестициду axmi279 та спосіб його застосування
MX362455B (es) 2012-03-08 2019-01-18 Athenix Corp Gen de la toxina axmi335 de bacillus thuringiensis y sus metodos de uso.
EP2822962A1 (en) 2012-03-08 2015-01-14 Athenix Corp. Axmi345 delta-endotoxin gene and methods for its use
UA117731C2 (uk) 2012-06-29 2018-09-25 Атенікс Корп. Токсин axmi277 проти нематод та його застосування
WO2014036238A1 (en) 2012-08-30 2014-03-06 Athenix Corp. Axmi-234 and axmi-235 toxin genes and methods for their use
HUE039836T2 (hu) 2013-02-13 2019-02-28 Athenix Corp AXMI184 alkalmazása gyökérféreg rovarok kontrollálására
WO2014138339A2 (en) 2013-03-07 2014-09-12 Athenix Corp. Toxin genes and methods for their use
UY35696A (es) 2013-08-09 2015-03-27 Athenix Corp ?molécula de adn recombinante que comprende al gen de toxina axmi440, vector, célula huésped, plantas, composiciones y métodos relacionados?.
WO2015038262A2 (en) 2013-08-09 2015-03-19 Athenix Corp. Axmi281 toxin gene and methods for its use
WO2015077525A1 (en) 2013-11-25 2015-05-28 Bayer Cropscience Lp Use of axmi-011 for the control of hemipteran insects
EA033842B1 (ru) 2013-12-09 2019-12-02 Атеникс Корп. Гены токсинов axmi477, axmi482, axmi486 и axmi525 и способы их применения
WO2016106184A1 (en) * 2014-12-22 2016-06-30 AgBiome, Inc. Methods for making a synthetic gene
WO2017017673A2 (en) * 2015-07-28 2017-02-02 Yeda Research And Development Co. Ltd. Stable proteins and methods for designing same
US10468119B2 (en) 2015-07-28 2019-11-05 Yeda Research And Development Co. Ltd. Stable proteins and methods for designing same
US11151497B2 (en) * 2016-04-27 2021-10-19 Zymergen Inc. Microbial strain design system and methods for improved large-scale production of engineered nucleotide sequences
CA3234859A1 (en) 2016-11-23 2018-05-31 BASF Agricultural Solutions Seed US LLC Axmi669 and axmi991 toxin genes and methods for their use
US20190364908A1 (en) 2016-12-22 2019-12-05 BASF Agricultural Solutions Seed US LLC Use of cry14 for the control of nematode pests
US11286498B2 (en) 2017-01-18 2022-03-29 BASF Agricultural Solutions Seed US LLC Use of BP005 for the control of plant pathogens
AR110757A1 (es) 2017-01-18 2019-05-02 Bayer Cropscience Lp Gen de toxina bp005 y procedimientos para su uso
US11049590B1 (en) 2020-02-12 2021-06-29 Peptilogics, Inc. Artificial intelligence engine architecture for generating candidate drugs
CN113793639B (zh) * 2021-08-03 2024-01-05 杭州瑞丰生物科技有限公司 一种管理玉米螟对Bt毒素抗性的方法

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US6015891A (en) * 1988-09-09 2000-01-18 Mycogen Plant Science, Inc. Synthetic insecticidal crystal protein gene having a modified frequency of codon usage
NZ230375A (en) 1988-09-09 1991-07-26 Lubrizol Genetics Inc Synthetic gene encoding b. thuringiensis insecticidal protein
DE69033816T2 (de) 1989-02-24 2002-08-08 Monsanto Technology Llc Synthetische pflanzengene und verfahren zu ihrer herstellung
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Also Published As

Publication number Publication date
ATE504045T1 (de) 2011-04-15
ZA201002472B (en) 2011-06-29
CA2702084A1 (en) 2009-04-16
WO2009049045A1 (en) 2009-04-16
AU2008310806A1 (en) 2009-04-16
US8175813B2 (en) 2012-05-08
CA2702084C (en) 2017-07-25
BRPI0818507B1 (pt) 2019-09-17
US20090137409A1 (en) 2009-05-28
CN101821744A (zh) 2010-09-01
MX2010003878A (es) 2010-10-15
DE602008005920D1 (en) 2011-05-12
EP2208157A1 (en) 2010-07-21
BRPI0818507A2 (pt) 2015-06-16
CN101821744B (zh) 2013-05-22
EP2208157B1 (en) 2011-03-30

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B06F Objections, documents and/or translations needed after an examination request according [chapter 6.6 patent gazette]
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Free format text: EXIGENCIA DE PRE-EXAME.

B09A Decision: intention to grant [chapter 9.1 patent gazette]
B16A Patent or certificate of addition of invention granted [chapter 16.1 patent gazette]

Free format text: PRAZO DE VALIDADE: 10 (DEZ) ANOS CONTADOS A PARTIR DE 17/09/2019, OBSERVADAS AS CONDICOES LEGAIS. (CO) 10 (DEZ) ANOS CONTADOS A PARTIR DE 17/09/2019, OBSERVADAS AS CONDICOES LEGAIS

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