CA2168409A1 - G cap-stabilized oligonucleotides - Google Patents

G cap-stabilized oligonucleotides

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Publication number
CA2168409A1
CA2168409A1 CA002168409A CA2168409A CA2168409A1 CA 2168409 A1 CA2168409 A1 CA 2168409A1 CA 002168409 A CA002168409 A CA 002168409A CA 2168409 A CA2168409 A CA 2168409A CA 2168409 A1 CA2168409 A1 CA 2168409A1
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Prior art keywords
alkyl
oligonucleotide
uracil
ribose
particularly preferably
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CA002168409A
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French (fr)
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CA2168409C (en
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Anuschirwan Peyman
Eugen Uhlmann
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Hoechst AG
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Hoechst AG
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    • C12N15/09Recombinant DNA-technology
    • C12N15/11DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
    • C12N15/113Non-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
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
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    • A61P31/12Antivirals
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    • C12N15/09Recombinant DNA-technology
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    • C12N15/1131Non-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 against viruses
    • C12N15/1132Non-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 against viruses against retroviridae, e.g. HIV
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    • C12N15/1131Non-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 against viruses
    • C12N15/1133Non-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 against viruses against herpetoviridae, e.g. HSV
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    • C12N15/1135Non-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 against oncogenes or tumor suppressor genes
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    • C12N15/113Non-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
    • C12N15/1136Non-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 against growth factors, growth regulators, cytokines, lymphokines or hormones
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    • C12N15/09Recombinant DNA-technology
    • C12N15/11DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
    • C12N15/113Non-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
    • C12N15/1138Non-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 against receptors or cell surface proteins
    • AHUMAN NECESSITIES
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    • C12N2310/00Structure or type of the nucleic acid
    • C12N2310/10Type of nucleic acid
    • C12N2310/15Nucleic acids forming more than 2 strands, e.g. TFOs
    • C12N2310/151Nucleic acids forming more than 2 strands, e.g. TFOs more than 3 strands, e.g. tetrads, H-DNA
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    • C12N2310/00Structure or type of the nucleic acid
    • C12N2310/30Chemical structure
    • C12N2310/31Chemical structure of the backbone
    • C12N2310/315Phosphorothioates

Abstract

The invention relates to oligonucleotides of the formula 5'-(CAP)-(oligo)-(CAP)-3 where (Oligo) is a nucleotide sequence of from 10 to 40 nucleotides in length, and CAP is Gm, where m is an integer of from zero to ten, preferably of from two to six, particularly preferably of from three to five and very particularly preferably four, and where the two CAP's which are present in the molecule can be defined independently of each other and must be different in the case where m is zero at the 5' or 3' end and the end of the "Oligo" sequence is not formed by a guanine, to a process for their preparation, to pharmaceuticals con-taining the novel oligonucleotides, and to their use for preparing a pharmaceutical for treating diseases or for preparing a diagnostic agent.

Claims (16)

1.) An oligonucleotide of the formula 5'-(CAP)-(Oligo)-(CAP)-3' where (Oligo) is a nucleotide sequence of from 10 to 40 nucleotides in length, and CAP is Gm, where m is an integer of from zero to ten, preferably of from two to six, particularly preferably of from three to five and very particularly preferably four, and where the two CAP's which are present in the molecule can be defined independently of each other and must be different in the case where m is zero at the 5' or 3' end and the end of the "Oligo" sequence is not formed by a guanine.
2.) An oligonucleotide as claimed in claim 1, wherein the nucleotide sequence of the "(Oligo)" moiety originates from those regions of genes which are important for the transcription of DNA or the trans-lation of the corresponding mRNA.
3.) An oligonucleotide as claimed in claims 1 and 2, wherein (Oligo) is ACACCCAATTCTGAAAATGG (I), AGGTCCCTGTTCGGGCGCCA (II), GTCGACACCCAATTCTGAAAATGGATAA (III), GCTATGTCGACACCCAATTCTGAAA (IV), GTCGCTGTCTCCGCTTCTTCTTCCTG (V), GTCTCCGCTTCTTCTTCCTGCCATAGG (VI), GCGGGGCTCCATGGGGGTCG (VII), CAGCTGCAACCCAGC (VIII), GGCTGCTGGAGCGGGGCACAC (IX), AACGTTGAGGGGCAT (X), GTGCCGGGGTCTTCGGGC (XI), GGAGAACATCATGGTCGAAAG (XII), CCCGAGAACATCATGGTCGAAG (XIII), GGGGAAAGCCCGGCAAGGGG (XIV), CACCCGCCTTGGCCTCCCAC (XV), GGGACTCCGGCGCAGCGC (XVI), GGCAAACTTTCTTTTCCTCC (XVII), GGGAAGGAGGAGGATGAGG (XVIII), GGCAGTCATCCAGCTTCGGAG (XIX), GCAGTAAGCATCCATATC (XX), CCCCCACCACTTCCCCTCTC (XXI), CTCCCCCACCACTTCCCCTC (XXII), GCTGGGAGCCATAGCGAGG (XXIII), ACTGCTGCCTCTTGTCTCAGG (XXIV), CAATCAATGACTTCAAGAGTTC (XXV), GGTCCCTGTTCGGGCGCCA (XXVI), GTGCCGGGGTCTTCGGG (XXVII), GGAGGATGCTGAGGAGG (XXVIII), GGAGGATGCTGAGG (XXIX), CAGGAGGATGCTGAGGAGG (XXX), GGCTGCCATGGTCCC (XXXI), TCATGGTGTCCTTTGCAGCC (XXXII), TCATGGTGTCCTTTGCAG (XXXIII) or AAGTTCATGGTTTCGG (XXXIV).
4.) An oligonucleotide as claimed in claims 1 and 2, which has one of the sequences C*A*GGAGGAT*-GC*T*-GAGGA*G*G, preferably G*G*G*CAGGAGGAT*GC*T*
GAGGAGG*G*G*G and PY-G*G*G*GGAGGAT*GC*TGAGG*G*G*G, and particularly preferably G*G*G*GGAGGAT*GC*T*-GAGGAGG*G*G*G and G*G*G*GGAGGAT*GC*TGAGG*G*G*G.
5.) An oligonucleotide as claimed in claims 1 to 3, which oligonucleotide is modified.
6.) An oligonucleotide as claimed in claim 5, wherein from 2 to 10 non-terminal pyrimidine nucleosides are modified.
7.) An oligonucleotide as claimed in claim 6, wherein the oligonucleotide is modified at the 5'-terminal and/or 3'-terminal nucleotide.
8.) An oligonucleotide as claimed in one of claims 5 to 7, wherein one or more groups of at least 1 to 4 nucleotides which are connected to each other is/
are not modified.
9.) An oligonucleotide as claimed in one of claims 5 to 8, wherein the modification is defined as (a) complete or partial replacement of the 3' and/
or 5' phosphoric diester bridges, and/or (b) complete or partial replacement of the 3' or 5' phosphoric diester bridges by "dephospho"
bridges, and/or (c) complete or partial replacement of the sugar phosphate backbone, and/or (d) complete or partial replacement of the .beta.-D-2'-deoxyribose units, and/or (e) complete or partial replacement of the natural nucleoside bases.
10.) An oligonucleotide as claimed in claim 9, wherein the modification is defined as (a) a phosphorothioate, phosphorodithioate, (NR1R2)-phosphoramidate, boranophosphate, phosphate-(C1-C21)-O-alkyl ester, phosphate-[(C6-C12)aryl-(C1-C21)-O-alkyl] ester, 2,2,2-trichlorodimethylethylphosphonate, (C1-C8)-alkylphosphonate or (C6-C12)-arylphosphonate bridge, preferably a phosphorothioate, phos-phorodithioate, (NR1R2)-phosphoramidate, phos-phate-O-methyl ester, phosphate-O-ethyl ester, phosphate-O-isopropyl ester, methylphosphonate or phenylphosphonate bridge, particularly preferably a phosphorothioate, phosphorodithio-ate or methylphosphonate bridge, and very particularly preferably a phosphorothioate bridge, where R1 and R2 are, independently of each other, hydrogen, or (C1-C18)-alkyl, (C6-C20)-aryl, (C6 C14)-aryl-(C1-C8)-alkyl or -(CH2)C-[NH(CH2)c]d-NR3R3, in which c is an integer of from 2 to 6, and d is an integer of from 0 to 6, and R3 are, independently of each other, hydrogen, (C1-C6)-alkyl or (C1-C4)-alkoxy-C1-C6-alkyl; prefer-ably, R1 and R2 are hydrogen, (C1-C8)-alkyl or methoxyethyl, particularly preferably hydrogen, (C1-C4)-alkyl or methoxyethyl, or R1 and R2, together with the nitrogen atom carrying them, form a 5-6-membered heterocyclic ring which can additionally contain a further hetero atom from the series O, S and N;
(b) formacetal, 3'-thioformacetal, methylhydroxyl-amine, oxime, methylenedimethylhydrazo, dimethylenesulfone or silyl groups, preferably formacetal and 3'-thioformacetals;
where, preferably, one, two or three phosphoric diester bridges are replaced at the 5' end and/or at the 3' end, preferably at the 5' end and at the 3' end, with it being preferable for the phosphoric diester bridges to be replaced at the pyrimidine positions;
(c) "morpholinonucleotiden-oligomer;
(d) .alpha.-D-2'-deoxyribose, L-2'-deoxyribose, 2'-F-2'-deoxyribose, 2'-O-(C1-C6)alkyl-ribose, 2'-O-(C2-C6)alkenyl-ribose, 2'-NH2-2'-deoxyribose, .beta.-D-xylofuranose, .alpha.-arabinofuranose, 2,4-di-deoxy-.beta.-D-erythrohexopyranose, or carbocyclic, open-chain or bicyclo sugar analogs, preferably as 2'-F-2'-deoxyribose, 2'-O-(C1-C6)alkyl-ribose, 2'-O-(C2-C6)alkenyl-ribose or 2'-NH2-2'-deoxyribose, particularly preferably as 2'-F-2'-deoxyribose, 2'-O-(C1-C4)alkyl-ribose, 2'-O-(C2-C4)alkenyl ribose or 2'-NH2-2'-deoxy-ribose, very particularly preferably as 2'-O-methyl-, 2'-O-allyl- or 2'-O-butyl-ribose, where, preferably, one, two or three ribose units are replaced at the 5' end and/or at the 3' end, preferably at the 5' end and at the 3' end, with the ribose units preferably being replaced at the pyrimidine positions;
(e) 5-(hydroxymethyl)uracil,5-aminouracil,pseudo-uracil, dihydrouracil, 5-(C1-C6)-alkyl-uracil, 5-(C2-C6)-alkenyl-uracil, 5-(C2-C6)-alkynyl-uracil, 5-(C1-C6)-alkyl-cytosine, 5-(C2-C6)-alkenyl-cytosine, 5-(C2-C6)-alkynyl-cytosine, 5-fluorouracil, 5-fluorocytosine, 5-chloro-uracil, 5-chlorocytosine, 5-bromouracil or 5-bromocytosine, preferably as 5-(C1-C6)-alkyl-uracil, 5-(C2-C6)-alkenyl-uracil, 5-(C2-C6)-alkynyl-uracil, 5-(C1-C6)-alkyl-cytosine, 5-(C2-C6)-alkenyl-cytosine, 5-(C2-C6)-alkynyl-cytosine, 5-fluorouracil, 5-fluorocytosine, 5-chlorouracil, 5-chlorocytosine, 5-bromouracil or 5-bromocytosine, particularly preferably as 5-(C3-C6)-alkyl-uracil, 5-(C2-C6)-alkenyl-uracil, 5-(C2-C6)-alkynyl-uracil, 5-(C1-C6)-alkyl-cytosine, 5-(C2-C6)-alkenyl-cytosine or 5-(C2-C6)-alkynyl-cytosine, very particularly preferably as 5-pentynylcytosine, 5-hexynyl-uracil or 5-hexynylcytosine, with the nucleoside bases not being replaced in the CAP regions, with preference being especially given to those of the abovementioned modifications included in groups a), b), c) and d), especially to those included in groups a) and d), and in particular to those included in group a).
11.) An oligonucleotide as claimed in one of claims 1 to 10, which is linked, at the 5' end and/or the 3' end, to molecules selected from the group consisting of polylysine, intercalators, such as pyrene, acridine, phenazine and phenanthridine, fluorescent compounds, such as fluorescein, crosslinkers, such as psoralene and azidoproflavin, lipophilic mole-cules, such as (C12-C20)-alkyl, lipids, such as 1,2-dihexadecyl-rac-glycerol, steroids, such as choles-terol or testosterone, vitamins, such as vitamin E, and polyethylene glycol or oligoethylene glycol, (C12-C18)-alkyl-phosphate diesters or -O-CH2-CH(OH)-O-(C12-C18)-alkyl, preferably from lipophilic mole-cules, such as (C12-C20)-alkyl, and steroids, such as cholesterol or testosterone, polyethylene glycol or oligoethylene glycol, vitamin E, intercalators, such as pyrene, and (C14-C18)-alkyl-phosphate diesters and -O-CH2-CH(OH)-O-(C12-C16)-alkyl.
12.) An oligonucleotide as claimed in one of claims 1 to 11, which contains 3'-3' inversions and/or 5'-5' inversions at the 5' end and/or 3' end.
13.) A process for preparing an oligonucleotide as claimed in one of claims 1 to 12, which comprises synthesizing it chemically.
14.) A pharmaceutical, which contains one or more oligo-nucleotides as claimed in one of claims 1 to 12 and a physiologically acceptable excipient and also, where appropriate, suitable additives and/or auxili-ary substances.
15.) The use of an oligonucleotide as claimed in one of claims 1 to 12 for preparing a pharmaceutical for treating diseases which are caused by viruses, for treating cancer or restenosis, or for treating diseases which are influenced by integrins or cell-cell adhesion receptors or which are triggered by diffusible factors such as TNF-alpha.
16.) The use of an oligonucleotide as claimed in one of claims 1 to 12 for preparing a diagnoetic agent for diseases which are caused by viruses, for cancer or restenosie, or for diseases which are influenced by integrins or cell-cell adhesion receptors or are triggered by diffusible factors such as TNF-alpha.
CA2168409A 1995-01-31 1996-01-30 G cap-stabilized oligonucleotides Expired - Fee Related CA2168409C (en)

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
DE19502912.7 1995-01-31
DE19502912A DE19502912A1 (en) 1995-01-31 1995-01-31 G-Cap Stabilized Oligonucleotides

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CA2168409C CA2168409C (en) 2010-06-29

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EP (1) EP0726274B1 (en)
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AT (1) ATE206715T1 (en)
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