WO2003062382A3 - Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals - Google Patents

Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals Download PDF

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Publication number
WO2003062382A3
WO2003062382A3 PCT/US2003/001460 US0301460W WO03062382A3 WO 2003062382 A3 WO2003062382 A3 WO 2003062382A3 US 0301460 W US0301460 W US 0301460W WO 03062382 A3 WO03062382 A3 WO 03062382A3
Authority
WO
WIPO (PCT)
Prior art keywords
animals
methods
polypeptide sequences
domesticated
polynucleotide
Prior art date
Application number
PCT/US2003/001460
Other languages
French (fr)
Other versions
WO2003062382A2 (en
Inventor
Walter Messier
Original Assignee
Evolutionary Genomics Llc
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
Priority claimed from US10/079,042 external-priority patent/US7252966B2/en
Application filed by Evolutionary Genomics Llc filed Critical Evolutionary Genomics Llc
Priority to CA002473555A priority Critical patent/CA2473555A1/en
Priority to BRPI0306968-0A priority patent/BR0306968A/en
Priority to AU2003217221A priority patent/AU2003217221B2/en
Priority to JP2003562250A priority patent/JP2005518199A/en
Priority to IL16289703A priority patent/IL162897A0/en
Priority to EP03713258A priority patent/EP1501942A4/en
Priority to KR10-2004-7011241A priority patent/KR20040081139A/en
Publication of WO2003062382A2 publication Critical patent/WO2003062382A2/en
Publication of WO2003062382A3 publication Critical patent/WO2003062382A3/en
Priority to AU2009200805A priority patent/AU2009200805A1/en

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    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • C12Q1/6895—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for plants, fungi or algae
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07K—PEPTIDES
    • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
    • C07K14/415—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from plants
    • 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
    • C12N15/82—Vectors or expression systems specially adapted for eukaryotic hosts for plant cells, e.g. plant artificial chromosomes (PACs)
    • C12N15/8241—Phenotypically and genetically modified plants via recombinant DNA technology
    • C12N15/8261—Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6809—Methods for determination or identification of nucleic acids involving differential detection
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/13—Plant traits
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q2600/00—Oligonucleotides characterized by their use
    • C12Q2600/158—Expression markers
    • 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
    • Y02A40/00—Adaptation technologies in agriculture, forestry, livestock or agroalimentary production
    • Y02A40/10—Adaptation technologies in agriculture, forestry, livestock or agroalimentary production in agriculture
    • Y02A40/146—Genetically Modified [GMO] plants, e.g. transgenic plants

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  • Life Sciences & Earth Sciences (AREA)
  • Chemical & Material Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Organic Chemistry (AREA)
  • Genetics & Genomics (AREA)
  • Engineering & Computer Science (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Zoology (AREA)
  • Wood Science & Technology (AREA)
  • Biotechnology (AREA)
  • Molecular Biology (AREA)
  • Analytical Chemistry (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biochemistry (AREA)
  • Biophysics (AREA)
  • General Engineering & Computer Science (AREA)
  • General Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Microbiology (AREA)
  • Biomedical Technology (AREA)
  • Botany (AREA)
  • Immunology (AREA)
  • Gastroenterology & Hepatology (AREA)
  • Cell Biology (AREA)
  • Medicinal Chemistry (AREA)
  • Plant Pathology (AREA)
  • Mycology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Micro-Organisms Or Cultivation Processes Thereof (AREA)
  • Breeding Of Plants And Reproduction By Means Of Culturing (AREA)
  • Peptides Or Proteins (AREA)
  • Preparation Of Compounds By Using Micro-Organisms (AREA)

Abstract

The present invention provides methods for identifying polynucleotide and polypeptide sequences which may be associated with commercially or aesthetically relevant traits in domesticated plants or animals. The methods employ comparison of homologous genes from the domesticated organism and its ancestor to identify evolutionarily significant changes and evolutionarily neutral changes. Sequences thus identified may be useful in enhancing commercially or aesthetically desirable traits in domesticated organisms or their wild ancestors.
PCT/US2003/001460 2002-01-16 2003-01-16 Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals WO2003062382A2 (en)

Priority Applications (8)

Application Number Priority Date Filing Date Title
CA002473555A CA2473555A1 (en) 2002-01-16 2003-01-16 Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals
BRPI0306968-0A BR0306968A (en) 2002-01-16 2003-01-16 methods for identifying evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals
AU2003217221A AU2003217221B2 (en) 2002-01-16 2003-01-16 Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals
JP2003562250A JP2005518199A (en) 2002-01-16 2003-01-16 A method for identifying evolutionary significant changes in polynucleotide and polypeptide sequences in cultivated plants and domesticated animals
IL16289703A IL162897A0 (en) 2002-01-16 2003-01-16 Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animal
EP03713258A EP1501942A4 (en) 2002-01-16 2003-01-16 Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals
KR10-2004-7011241A KR20040081139A (en) 2002-01-16 2003-01-16 Method to Identify Evolutionary Significant Changes in Polynucleotide and Polypeptide Sequences in Domesticated Plants and Animals
AU2009200805A AU2009200805A1 (en) 2002-01-16 2009-02-27 Methods to identify evolutionary significant changes in polynucleotides and polypeptide sequences in domesticated plants and animals

Applications Claiming Priority (8)

Application Number Priority Date Filing Date Title
US34908802P 2002-01-16 2002-01-16
US60/349,088 2002-01-16
US34966102P 2002-01-17 2002-01-17
US60/349,661 2002-01-17
US10/079,042 US7252966B2 (en) 1999-01-29 2002-02-19 EG307 polynucleotides and uses thereof
US10/079,042 2002-02-19
US36854102P 2002-03-29 2002-03-29
US60/368,541 2002-03-29

Publications (2)

Publication Number Publication Date
WO2003062382A2 WO2003062382A2 (en) 2003-07-31
WO2003062382A3 true WO2003062382A3 (en) 2004-12-09

Family

ID=27617766

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2003/001460 WO2003062382A2 (en) 2002-01-16 2003-01-16 Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals

Country Status (9)

Country Link
EP (1) EP1501942A4 (en)
JP (1) JP2005518199A (en)
KR (1) KR20040081139A (en)
CN (1) CN1630731A (en)
AU (2) AU2003217221B2 (en)
BR (1) BR0306968A (en)
CA (1) CA2473555A1 (en)
IL (1) IL162897A0 (en)
WO (1) WO2003062382A2 (en)

Families Citing this family (4)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
AU2006230352A1 (en) * 2005-03-29 2006-10-05 Evolutionary Genomics Llc EG1117 and EG307 polynucleotides and uses thereof
AU2006287239A1 (en) * 2005-09-02 2007-03-08 Evolutionary Genomics, Inc. EG8798 and EG9703 polynucleotides and uses thereof
CN102888398B (en) * 2011-07-22 2014-03-05 中国农业科学院生物技术研究所 Flanking sequence of exogenous insertion fragment of transgenic rice variety Bar68-1 and application thereof
CN102934548B (en) * 2011-08-15 2014-07-02 东北农业大学 Method for auxiliary identification of drought resistant maize

Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6228586B1 (en) * 1998-01-30 2001-05-08 Genoplex, Inc. Methods to identify polynucleotide and polypeptide sequences which may be associated with physiological and medical conditions
US6245969B1 (en) * 1997-06-24 2001-06-12 Joanne Chory Receptor kinase, Bin1
US6274319B1 (en) * 1999-01-29 2001-08-14 Walter Messier Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals

Family Cites Families (1)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
DE60036645T2 (en) * 1999-08-05 2008-07-17 Evolutionary Genomics LLC, Lafayette METHODS FOR IDENTIFYING EVOLUTIONARY SIGNIFICANT CHANGES IN POLYNUCLEOTIDE AND POLYPEPTIDE SEQUENCES IN DOMESTICED PLANTS AND ANIMALS

Patent Citations (3)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6245969B1 (en) * 1997-06-24 2001-06-12 Joanne Chory Receptor kinase, Bin1
US6228586B1 (en) * 1998-01-30 2001-05-08 Genoplex, Inc. Methods to identify polynucleotide and polypeptide sequences which may be associated with physiological and medical conditions
US6274319B1 (en) * 1999-01-29 2001-08-14 Walter Messier Methods to identify evolutionarily significant changes in polynucleotide and polypeptide sequences in domesticated plants and animals

Also Published As

Publication number Publication date
CN1630731A (en) 2005-06-22
EP1501942A2 (en) 2005-02-02
AU2009200805A1 (en) 2009-03-26
KR20040081139A (en) 2004-09-20
BR0306968A (en) 2006-04-11
CA2473555A1 (en) 2003-07-31
AU2003217221B2 (en) 2008-11-27
WO2003062382A2 (en) 2003-07-31
JP2005518199A (en) 2005-06-23
IL162897A0 (en) 2005-11-20
EP1501942A4 (en) 2006-06-07

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