WO2003051901A3 - Pseudonucleotide comprising an intercalator - Google Patents

Pseudonucleotide comprising an intercalator Download PDF

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Publication number
WO2003051901A3
WO2003051901A3 PCT/DK2002/000876 DK0200876W WO03051901A3 WO 2003051901 A3 WO2003051901 A3 WO 2003051901A3 DK 0200876 W DK0200876 W DK 0200876W WO 03051901 A3 WO03051901 A3 WO 03051901A3
Authority
WO
WIPO (PCT)
Prior art keywords
intercalator
methods
oligonucleotides
nucleic acid
mixture
Prior art date
Application number
PCT/DK2002/000876
Other languages
French (fr)
Other versions
WO2003051901A2 (en
Inventor
Ulf Bech Christensen
Erik Bjerregaard Pedersen
Original Assignee
Unest As
Ulf Bech Christensen
Erik Bjerregaard Pedersen
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 Unest As, Ulf Bech Christensen, Erik Bjerregaard Pedersen filed Critical Unest As
Priority to AU2002358464A priority Critical patent/AU2002358464B2/en
Priority to EP02792708A priority patent/EP1468007A2/en
Priority to CN028282140A priority patent/CN1653079B/en
Priority to US10/499,479 priority patent/US20060014144A1/en
Publication of WO2003051901A2 publication Critical patent/WO2003051901A2/en
Publication of WO2003051901A3 publication Critical patent/WO2003051901A3/en
Priority to US12/534,743 priority patent/US20100121056A1/en

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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
    • C12N15/11—DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
    • C12N15/113—Non-coding nucleic acids modulating the expression of genes, e.g. antisense oligonucleotides; Antisense DNA or RNA; Triplex- forming oligonucleotides; Catalytic nucleic acids, e.g. ribozymes; Nucleic acids used in co-suppression or gene silencing
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07H—SUGARS; DERIVATIVES THEREOF; NUCLEOSIDES; NUCLEOTIDES; NUCLEIC ACIDS
    • C07H19/00—Compounds containing a hetero ring sharing one ring hetero atom with a saccharide radical; Nucleosides; Mononucleotides; Anhydro-derivatives thereof
    • C07H19/02—Compounds containing a hetero ring sharing one ring hetero atom with a saccharide radical; Nucleosides; Mononucleotides; Anhydro-derivatives thereof sharing nitrogen
    • C07H19/04—Heterocyclic radicals containing only nitrogen atoms as ring hetero atom
    • C—CHEMISTRY; METALLURGY
    • C07—ORGANIC CHEMISTRY
    • C07H—SUGARS; DERIVATIVES THEREOF; NUCLEOSIDES; NUCLEOTIDES; NUCLEIC ACIDS
    • C07H21/00—Compounds containing two or more mononucleotide units having separate phosphate or polyphosphate groups linked by saccharide radicals of nucleoside groups, e.g. nucleic acids
    • 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
    • C12N15/1003—Extracting or separating nucleic acids from biological samples, e.g. pure separation or isolation methods; Conditions, buffers or apparatuses therefor
    • C12N15/1006—Extracting or separating nucleic acids from biological samples, e.g. pure separation or isolation methods; Conditions, buffers or apparatuses therefor by means of a solid support carrier, e.g. particles, polymers
    • 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
    • C12Q1/6813—Hybridisation assays
    • C12Q1/6832—Enhancement of hybridisation reaction
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K38/00—Medicinal preparations containing peptides
    • 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
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/10—Type of nucleic acid
    • C12N2310/13—Decoys
    • 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
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/30—Chemical structure
    • C12N2310/31—Chemical structure of the backbone
    • C12N2310/318—Chemical structure of the backbone where the PO2 is completely replaced, e.g. MMI or formacetal
    • C12N2310/3181—Peptide nucleic acid, PNA
    • 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
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/30—Chemical structure
    • C12N2310/32—Chemical structure of the sugar
    • C12N2310/321—2'-O-R Modification
    • 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
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/30—Chemical structure
    • C12N2310/32—Chemical structure of the sugar
    • C12N2310/323—Chemical structure of the sugar modified ring structure
    • C12N2310/3231—Chemical structure of the sugar modified ring structure having an additional ring, e.g. LNA, ENA
    • 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
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/30—Chemical structure
    • C12N2310/35—Nature of the modification
    • C12N2310/351—Conjugate
    • C12N2310/3511—Conjugate intercalating or cleaving agent
    • 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
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/30—Chemical structure
    • C12N2310/35—Nature of the modification
    • C12N2310/351—Conjugate
    • C12N2310/3517—Marker; Tag

Abstract

The present invention relates to intercalator pseudonucleotides. Intercalator pseudonucleotides according to the invention are capable of being incorporated into the backbone of a nucleic acid or nucleic acid analogue and they comprise an intercalator comprising a flat conjugated system capable of co-stacking with nucleobases of DNA. The invention also relates to oligonucleotides or oligonucleotide analogues comprising at least one intercalator pseudo nucleotide. The invention furthermore relates to methods of synthesising intercalator pseudo nucleotides and methods of synthesising oligonucleotides or oligonucleotide analogues comprising at least one intercalator pseudonucleotide. In addtition, the invention describes methods of separating sequence specific DNA(s) from a mixture comprising nucleic acids, methods of detecting a sequence specific DNA (target DNA) in a mixture comprising nucleic acids and/or nucleic acid analogues and methods of detecting a sequence specific RNA in a mixture comprising nucleic acids and/or nucleic acid analogues. In particular said methods may involve the use of oligonucleotides comprising intercalator pseudo nucleotides. The invention furthermore relates to pairs of oligonucleotides or oligonucleotide analogues capable of hybridising to one another, wherein said pairs comprise at least one intercalator pseudonucleotide. Methods for inhibiting a DNAse and/or a RNAse and methods of modulating transcription of one or more specific genes are also described.
PCT/DK2002/000876 2001-12-18 2002-12-18 Pseudonucleotide comprising an intercalator WO2003051901A2 (en)

Priority Applications (5)

Application Number Priority Date Filing Date Title
AU2002358464A AU2002358464B2 (en) 2001-12-18 2002-12-18 Pseudonucleotide comprising an intercalator
EP02792708A EP1468007A2 (en) 2001-12-18 2002-12-18 Pseudonucleotide comprising an intercalator
CN028282140A CN1653079B (en) 2001-12-18 2002-12-18 Intercalator containing pseudonucleotide(s)
US10/499,479 US20060014144A1 (en) 2001-12-18 2002-12-18 Pseudonucleotide comprising an intercalator
US12/534,743 US20100121056A1 (en) 2001-12-18 2009-08-03 Pseudonucleotide comprising an intercalator

Applications Claiming Priority (18)

Application Number Priority Date Filing Date Title
DKPA200101898 2001-12-18
DKPA200101900 2001-12-18
DKPA200101898 2001-12-18
DKPA200101897 2001-12-18
DKPA200101897 2001-12-18
DKPA200101899 2001-12-18
DKPA200101899 2001-12-18
DKPA200101900 2001-12-18
US36554502P 2002-03-20 2002-03-20
US60/365,545 2002-03-20
DKPA200201575 2002-10-14
DKPA200201578 2002-10-14
DKPA200201577 2002-10-14
DKPA200201576 2002-10-14
DKPA200201575 2002-10-14
DKPA200201576 2002-10-14
DKPA200201577 2002-10-14
DKPA200201578 2002-10-14

Related Child Applications (1)

Application Number Title Priority Date Filing Date
US12/534,743 Continuation US20100121056A1 (en) 2001-12-18 2009-08-03 Pseudonucleotide comprising an intercalator

Publications (2)

Publication Number Publication Date
WO2003051901A2 WO2003051901A2 (en) 2003-06-26
WO2003051901A3 true WO2003051901A3 (en) 2003-11-27

Family

ID=27576036

Family Applications (4)

Application Number Title Priority Date Filing Date
PCT/DK2002/000875 WO2003052133A2 (en) 2001-12-18 2002-12-18 Oligonucleotide analogues comprising intercalator pseudonucleotides
PCT/DK2002/000876 WO2003051901A2 (en) 2001-12-18 2002-12-18 Pseudonucleotide comprising an intercalator
PCT/DK2002/000877 WO2003052134A2 (en) 2001-12-18 2002-12-18 Oligonucleotides comprising intercalator pseudonucleotide(s) for detection of nucleic acids and mutants hereof
PCT/DK2002/000874 WO2003052132A2 (en) 2001-12-18 2002-12-18 Linear and hairpin oligonucleotide analogues comprising intercalator pseudonucleotides

Family Applications Before (1)

Application Number Title Priority Date Filing Date
PCT/DK2002/000875 WO2003052133A2 (en) 2001-12-18 2002-12-18 Oligonucleotide analogues comprising intercalator pseudonucleotides

Family Applications After (2)

Application Number Title Priority Date Filing Date
PCT/DK2002/000877 WO2003052134A2 (en) 2001-12-18 2002-12-18 Oligonucleotides comprising intercalator pseudonucleotide(s) for detection of nucleic acids and mutants hereof
PCT/DK2002/000874 WO2003052132A2 (en) 2001-12-18 2002-12-18 Linear and hairpin oligonucleotide analogues comprising intercalator pseudonucleotides

Country Status (4)

Country Link
EP (1) EP1468007A2 (en)
CN (1) CN1653079B (en)
AU (4) AU2002358464B2 (en)
WO (4) WO2003052133A2 (en)

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Also Published As

Publication number Publication date
CN1653079A (en) 2005-08-10
AU2002358464A1 (en) 2003-06-30
AU2002358462A1 (en) 2003-06-30
AU2002358464B2 (en) 2006-04-27
AU2002358463A8 (en) 2003-06-30
WO2003052133A2 (en) 2003-06-26
EP1468007A2 (en) 2004-10-20
AU2002358463A1 (en) 2003-06-30
WO2003052134A2 (en) 2003-06-26
WO2003052134A3 (en) 2004-03-25
WO2003051901A2 (en) 2003-06-26
WO2003052132A2 (en) 2003-06-26
AU2002361946A8 (en) 2003-06-30
AU2002358462A8 (en) 2003-06-30
WO2003052132A3 (en) 2003-10-09
CN1653079B (en) 2010-06-16
WO2003052133A3 (en) 2003-10-02
AU2002361946A1 (en) 2003-06-30

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