WO1998011211A2 - METHOD FOR USING OLIGONUCLEOTIDES HAVING MODIFIED CpG DINUCLEOSIDES - Google Patents

METHOD FOR USING OLIGONUCLEOTIDES HAVING MODIFIED CpG DINUCLEOSIDES Download PDF

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Publication number
WO1998011211A2
WO1998011211A2 PCT/US1997/016017 US9716017W WO9811211A2 WO 1998011211 A2 WO1998011211 A2 WO 1998011211A2 US 9716017 W US9716017 W US 9716017W WO 9811211 A2 WO9811211 A2 WO 9811211A2
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WO
WIPO (PCT)
Prior art keywords
cpg
oligonucleotides
oligonucleotide
phosphorothioate
gene expression
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.)
Ceased
Application number
PCT/US1997/016017
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English (en)
French (fr)
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WO1998011211A3 (en
Inventor
Sudhir Agrawal
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Aceragen Inc
Original Assignee
Hybridon Inc
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 to DE69720481T priority Critical patent/DE69720481T2/de
Priority to DK97941505T priority patent/DK0928335T3/da
Priority to EP97941505A priority patent/EP0928335B1/en
Priority to AT97941505T priority patent/ATE236248T1/de
Priority to CA002265917A priority patent/CA2265917C/en
Priority to JP51382298A priority patent/JP5265067B2/ja
Application filed by Hybridon Inc filed Critical Hybridon Inc
Priority to AU43399/97A priority patent/AU4339997A/en
Publication of WO1998011211A2 publication Critical patent/WO1998011211A2/en
Publication of WO1998011211A3 publication Critical patent/WO1998011211A3/en
Priority to US09/103,745 priority patent/US20030036516A1/en
Anticipated expiration legal-status Critical
Ceased legal-status Critical Current

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    • 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
    • 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
    • C12N2310/30—Chemical structure
    • C12N2310/31—Chemical structure of the backbone
    • 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
    • C12N2310/311—Phosphotriesters
    • 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
    • C12N2310/312—Phosphonates
    • 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
    • C12N2310/314—Phosphoramidates
    • 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
    • C12N2310/315—Phosphorothioates
    • 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
    • C12N2310/33—Chemical structure of the base
    • C12N2310/334—Modified C
    • C12N2310/3341—5-Methylcytosine

Definitions

  • USA 7j5: 280-284 and 285-288 (1978) disclose that a 13-mer synthetic oligonucleotide that is complementary to a part of the Rous sarcoma virus (RSV) genome can inhibit RSV replication in infected cell cultures and can inhibit RSV-mediated transformation of primary chick fibroblasts into malignant sarcoma cells. Since these early studies, the ability of antisense oligonucleotides to inhibit virus propagation has become firmly established.
  • US Patent No. 4,806,463 teaches that human immunodeficiency virus propagation can be inhibited by oligonucleotides that are complementary to any of various regions of the HIV genome. US Patent No.
  • all CpG dinucleosides present in the oligonucleotide are modified.
  • a CpG dinucleoside is "modified” if it is altered from the unmodified CpG dinucleoside such that it confers upon the oligonucleotide a reduced ability to cause splenomegaly and platelet depletion when administered to a mammal, relative to an otherwise identical oligonucleotide having an unmodified phosphorothioate CpG dinucleoside.
  • a 2 ' -O-substituted CpG is a CpG dinucleoside in which the 2 ' position of the pentose moiety is substituted, having an -O-lower alkyl group containing 1-6 saturated or unsaturated carbon atoms, or an -O-aryl or allyl group having 2-6 carbon atoms, wherein such alkyl, aryl or allyl group may be unsubstituted or may be substituted, e . g.
  • a 2 ' -5 ' CpG is a CpG dinucleoside in which the C nucleoside and the G nucleoside are covalently linked to each other through a 2 ' - ' internucleoside linkage.
  • the internucleoside linkage may be of any type, and is preferably a phosphorothioate or phosphodiester linkage.
  • compositions of the invention may be administered simultaneously, or sequentially a therapeutically effective amount of one or more of the therapeutic compositions of the invention to an individual as a single treatment episode.
  • the biological effects of splenomegaly, platelet depletion are reduced, relative to the same effects obtained upon administration of an otherwise identical composition containing the same quantity of an otherwise identical oligonucleotide, except that such oligonucleotide contains an unmodified CpG dinucleoside in place of the modified CpG dinucleoside.
  • This preferred biological effect can be monitored by measuring blood levels of platelets before and after oligonucleotide administration.
  • Oligonucleotide phosphorothioates were synthesized using an automated DNA synthesizer (Model 8700, Biosearch, Bedford, MA) using a beta-cyanoethyl phosphoramidite approach on a 10 micromole scale.
  • the intermediate phosphite linkage obtained after each coupling was oxidized using 3H, 1, 2-benzodithiole-3H-one-l, 1-dioxide (See Beaucage, In Protocols for Oligonucleotides and Analogs z Synthesis and Properties, Agrawal (editor) , Humana Press, Totowa, NJ, pp.
  • oligonucleotide was carried out according to standard procedures, (See Padmapriya et al . , Antisense Res. & Dev. 4.: 185-199 (1994)), except for oligonucleotides containing methylphosphonate-containing regions .
  • the CPG-bound oligonucleotide was treated with concentrated ammonium hydroxide for 1 hour at room temperature, and the supernatant was removed and evaporated to obtain a pale yellow residue, which was then treated with a mixture of ethylenedia ine/ethanol (1:1 v/v) for 6 hours at room temperature and dried again under reduced pressure .
  • CD-I mice and Fischer rats were injected intravenously daily for seven days with a dose ranging from 3-30 mg/kg body weight of CpG-containing phosphorothioate oligonucleotide, methylphosphonate CpG-containing phosphorothioate oligonucleotide, inverted CpG-containing phosphorothioate oligonucleotide, 5-methylC CpG-containing phosphorothioate oligonucleotide, 2 ' -O-substituted CpG, or saline as a control.

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  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
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  • Organic Chemistry (AREA)
  • Molecular Biology (AREA)
  • Biotechnology (AREA)
  • General Engineering & Computer Science (AREA)
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  • Bioinformatics & Cheminformatics (AREA)
  • Wood Science & Technology (AREA)
  • Microbiology (AREA)
  • Plant Pathology (AREA)
  • Biophysics (AREA)
  • Biochemistry (AREA)
  • General Health & Medical Sciences (AREA)
  • Physics & Mathematics (AREA)
  • Pharmaceuticals Containing Other Organic And Inorganic Compounds (AREA)
  • Saccharide Compounds (AREA)
  • Medicines That Contain Protein Lipid Enzymes And Other Medicines (AREA)
PCT/US1997/016017 1996-09-10 1997-09-10 METHOD FOR USING OLIGONUCLEOTIDES HAVING MODIFIED CpG DINUCLEOSIDES Ceased WO1998011211A2 (en)

Priority Applications (8)

Application Number Priority Date Filing Date Title
DK97941505T DK0928335T3 (da) 1996-09-10 1997-09-10 Fremgangsmåde til anvendelse af oligonukleotider med modificerede CpG-dinukleosider
EP97941505A EP0928335B1 (en) 1996-09-10 1997-09-10 METHOD FOR USING OLIGONUCLEOTIDES HAVING MODIFIED CpG DINUCLEOSIDES
AT97941505T ATE236248T1 (de) 1996-09-10 1997-09-10 Verfahren zur verwendung von oligonukleotiden mit modifizierten cpg dinukleosiden
CA002265917A CA2265917C (en) 1996-09-10 1997-09-10 Method for using oligonucleotides having modified cpg dinucleosides
JP51382298A JP5265067B2 (ja) 1996-09-10 1997-09-10 修飾ＣｐＧジヌクレオシドを有するオリゴヌクレオチドの使用方法
DE69720481T DE69720481T2 (de) 1996-09-10 1997-09-10 Verfahren zur verwendung von oligonukleotiden mit modifizierten cpg dinukleosiden
AU43399/97A AU4339997A (en) 1996-09-10 1997-09-10 Method for using oligonucleotides having modified cpg dinucleosides
US09/103,745 US20030036516A1 (en) 1997-09-10 1998-06-24 Method for using oligonucleotides having modified cpg dinucleotides

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US08/711,568 US5856462A (en) 1996-09-10 1996-09-10 Oligonucleotides having modified CpG dinucleosides
US08/711,568 1996-09-10

Publications (2)

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WO1998011211A2 true WO1998011211A2 (en) 1998-03-19
WO1998011211A3 WO1998011211A3 (en) 1998-04-16

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PCT/US1997/016017 Ceased WO1998011211A2 (en) 1996-09-10 1997-09-10 METHOD FOR USING OLIGONUCLEOTIDES HAVING MODIFIED CpG DINUCLEOSIDES

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US (1) US5856462A (enExample)
EP (1) EP0928335B1 (enExample)
JP (1) JP5265067B2 (enExample)
AT (1) ATE236248T1 (enExample)
AU (1) AU4339997A (enExample)
CA (1) CA2265917C (enExample)
DE (1) DE69720481T2 (enExample)
DK (1) DK0928335T3 (enExample)
ES (1) ES2190541T3 (enExample)
PT (1) PT928335E (enExample)
WO (1) WO1998011211A2 (enExample)

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WO2001012804A3 (en) * 1999-08-13 2001-09-07 Hybridon Inc MODULATION OF OLIGONUCLEOTIDE CpG-MEDIATED IMMUNE STIMULATION BY POSITIONAL MODIFICATION OF NUCLEOSIDES
EP1102786A4 (en) * 1998-08-03 2002-03-06 Univ East Carolina AGENT COMPRISING ANTISENSE OLIGONUCLEOTIDES WITH LOW ADENOSINE CONTENT, COMPOSITION, KIT AND TREATMENTS
EP1168919A4 (en) * 1999-04-06 2002-03-06 Univ East Carolina ANTISENSE OLIGONUCLEOTIDES WITH LOW ADENOSINE CONTENT, COMPOSITIONS, KIT AND TREATMENT METHOD FOR AIR DISORDERS ASSOCIATED WITH BRONCHOCONSTRICTION, PITAL INFLAMMATION, ALLERGIES AND SURFACTANT DEPLOYMENT
WO2001040478A3 (en) * 1999-12-06 2002-05-10 Pasteur Institut Isolated polynucleotides having a reduced or an increased content of epigenetic control motifs and uses thereof
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