CA2166058A1 - Oligonucleotide modulation of protein kinase c - Google Patents
Oligonucleotide modulation of protein kinase cInfo
- Publication number
- CA2166058A1 CA2166058A1 CA002166058A CA2166058A CA2166058A1 CA 2166058 A1 CA2166058 A1 CA 2166058A1 CA 002166058 A CA002166058 A CA 002166058A CA 2166058 A CA2166058 A CA 2166058A CA 2166058 A1 CA2166058 A1 CA 2166058A1
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- pkc
- oligonucleotide
- seq
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- 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
- C12N15/1137—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 against enzymes
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- C12Q2600/00—Oligonucleotides characterized by their use
- C12Q2600/158—Expression markers
Abstract
Compositions and methods are provided for the treatment and diagnosis of diseases associated with protein kinase C. Oligonucleotides are provided which are specifically hybridizable with a PKC gene or mRNA. Oligonucleotides specifically hybridizable with a particular PKC isozyme, set of isozymes or mRNA transcript are provided. Methods of treating conditions amenable to therapeutic intervention by modulating protein kinase C expression with an oligonucleotide specifically hybridizable with a PKC gene or mRNA are disclosed. Compositions and methods are provided for the treatment, detection and diagnosis of diseases associated with protein kinase Calpha and specific transcripts thereof. New nucleic acid sequences are provided which encode 3' untranslated regions of human protein kinase Calpha. Polynucleotide probes for PKCalpha are also disclosed.
Description
WO 95/02069 2i ~ 6 ~ 8 PCT/US94/07770 OLIGONUCLEOTIDE MODULATION OF PROTEIN KINASE C
FIELD OF THE lNV~iNllON
This invention relates to therapies, diagnostics, and research reagents for disease states which respond to modulation of the expression of protein kinase C. In particular, this invention relates to antisense oligonucleotides specifically hybridizable with nucleic acids relating to protein kinase C. These oligonucleotides have been found to modulate the expression of protein kinase C. Palliation and therapeutic effect result.
R2~ 0UND OF THE lN V~;N l'lON
The phosphorylation of proteins plays a key role in the transduction of extracellular signals into the cell.
The enzymes, called kinases, which effect such phosphorylations are targets for the action of growth factors, hormones, and other agents involved in cellular metabolism, proliferation and differentiation. One of the major signal transduction pathways involves the enzyme protein kinase C (PKC), which is known to have a critical influence on cell proliferation and differentiation. PKC
is activated by diacylglycerols (DAGs), which are metabolites released in signal transduction.
Interest in PKC was stimulated by the finding that PKC is the major, and perhaps only, cellular receptor through which a class of tumor-promoting agents called phorbol esters exert their pleiotropic effects on cells [Gescher et al., Anti-Cancer Drug Design 4: 93-105 (1989)].
Phorbols capable of tumor production can mimic the effect W095/02069 PCT~S94/07770 of DAG in activating PKC, suggesting that these tumor promoters act through PKC and that activation of this enzyme is at least partially responsible for the resulting tumorigenesis tParker et al., Science 233:853-866 (1986)].
Experimental evidence indicates that PKC plays a role in growth control in colon cancer. It is believed that specific bacteria in the intestinal tract convert lipids to DAG, thus activating PKC and altering cell proliferation. This may explain the correlation between high dietary fat and colon cancer [Weinstein, Cancer ~es.
(Suppl.) 51:5080s-5085s (1991)]. It has also been demonstrated that a greater proportion of the PKC in the colonic mucosa of patients with colorectal cancer is in an activated state compared to that of patients without cancer 15 [Sakanoue et al., Int. J. Cancer 48:803-806 (1991)].
Increased tumorigenicity is also correlated with overexpression of PKC in cultured cells inoculated into nude mice. A mutant form of PKC induces highly malignant tumor cells with increased metastatic potential.
Sphingosine and related inhibitors of PKC activity have been shown to inhibit tumor cell grcwth and radiation-induced transformation in vivo [Endo et al., Cancer ~esearch 51:1613-1618 (1991); Borek et al., Proc. Natl.
Acad. Sci. 88:1953-1957 (1991)]. A number of experimental or clinically useful anti-cancer drugs show modulatory effects on PKC. Therefore, inhibitors of PKC may be important cancer-preventive or therapeutic agents. PKC has been suggested as a plausible target for more rational design of conventional anti-cancer drugs [Gescher, A. and Dale, I.L., Anti-Cancer Drug Design, 4:93-105 (1989)].
Experiments also indicate that PKC plays an important role in the pathophysiology of hyperproliferative skin disorders such as psoriasis and skin cancer.
Psoriasis is characterized by inflammation, hyperproliferation of the epidermis and decreased differentiation of cells. Various studies indicate a role for PKC in causing these symptoms. PKC stimulation in W095/02069 2 ~ PCT~S94/07770 cultured keratinocytes can be shown to cause hyperproliferation. Inflammation can be induced by phorbol esters and is regulated by PKC. DAG is implicated in the involvement of PKC in dermatological diseases, and is formed to an increased extent in psoriatic lesions.
Inhibitors of PKC have been shown to have both antiproliferative and antiinflammatory effects in vitro.
Some antipsoriasis drugs, such as cyclosporine A and anthralin, have been shown to inhibit PKC. Inhibition of PKC has been suggested as a therapeutic approach to the treatment of psoriasis [Hegemann, L. and G. Mahrle, Pharmacology of the Skin, H. Mukhtar, ed., p. 357-368, CRC
Press, Boca Raton, FL, 1992].
PKC is not a single enzyme, but a family of enzymes. At the present time at least seven isoforms (isozymes) of PKC have been identified: ~, $, ~
and ~. These isozymes have distinct patterns of tissue and organ localization (see Nishizuka, Nature, 334:661-665 (1988) for review) and may serve different physiological functions. For example, PKC-~ seems to be expressed only in the central nervous system. PKC-~ and -$ are expressed in most tissues, but have different patterns of expression in different cell types. For example, both PKC-~ and PKC-$
are expressed in, and have been purified from, human 2S epidermis. While PKC-~ has been detected mainly in keratinocytes of the basal layers of the epidermis, PKC-$
is found mainly in the middle layers of the epidermis and Langerhans cells. PKC-~ has been found predominantly in the skin and lungs, with levels of expression much higher in these tissues than in the brain. This is in contrast to other members of the PKC family which tend to be most abundantly expressed in the brain [Osada et al., J. Biol.
Chem. 265:22434-22440 (1990)]. Another PKC isozyme, PKC-~, is believed to play a critical role in control of proliferative cascades. This was demonstrated by using antisense RNA, peptide inhibitors or a 15-mer phosphorothioate antisense oligonucleotide targeted to the WO95/02069 PCT~S94/07770 _ AUG of Xenopus PKC- ~ to deplete PKC- ~ levels in Xenopus oocytes. These depleted oocytes were shown to be resistant to maturation in response to insulin, while the maturation pathway activated by progesterone was not affected. WO
93/20101. While the PKC isozymes listed here are preferred for targeting by the present invention, other isozymes of PKC are also comprehended by the present invention.
It is presently believed that different PKC isozymes may be involved in various disease processes depending on the organ or tissue in which they are expressed. For example, in psoriatic lesions there is an alteration in the ratio between PKC-~ and PKC-$, with preferential loss of PKC-B compared to normal skin [Hegemann, L. and G. Mahrle, Pharmacology of the Skin, H. Mukhtar, ed., p. 357-368, CRC
Press, Boca Raton, FL, 1992].
Even for a given isozyme, there may be multiple RNA
transcripts expressed from a single gene. In the case of PKC~, for example, two mRNA transcripts are seen: a long (approximately 8.5 kb) transcript and a short (approximately 4 kb) transcript. Multiple PKC~ transcripts are produced from the murine and the bovine PKC~ genes as well. The ratio between the long and short transcripts varies between species and is believed to vary between tissues as well. In addition, there may be some correlation between this ratio and the proliferative state of cells.
Although numerous compounds have been identified as PKC inhibitors (see Hidaka and Hagiwara, Trends in Pharm.
Sci. 8:162-164 (1987) for review), few have been found which inhibit PKC specifically. While the quinoline sulfonamide derivatives such as l-(5-isoquinolinesulfonyl)-
FIELD OF THE lNV~iNllON
This invention relates to therapies, diagnostics, and research reagents for disease states which respond to modulation of the expression of protein kinase C. In particular, this invention relates to antisense oligonucleotides specifically hybridizable with nucleic acids relating to protein kinase C. These oligonucleotides have been found to modulate the expression of protein kinase C. Palliation and therapeutic effect result.
R2~ 0UND OF THE lN V~;N l'lON
The phosphorylation of proteins plays a key role in the transduction of extracellular signals into the cell.
The enzymes, called kinases, which effect such phosphorylations are targets for the action of growth factors, hormones, and other agents involved in cellular metabolism, proliferation and differentiation. One of the major signal transduction pathways involves the enzyme protein kinase C (PKC), which is known to have a critical influence on cell proliferation and differentiation. PKC
is activated by diacylglycerols (DAGs), which are metabolites released in signal transduction.
Interest in PKC was stimulated by the finding that PKC is the major, and perhaps only, cellular receptor through which a class of tumor-promoting agents called phorbol esters exert their pleiotropic effects on cells [Gescher et al., Anti-Cancer Drug Design 4: 93-105 (1989)].
Phorbols capable of tumor production can mimic the effect W095/02069 PCT~S94/07770 of DAG in activating PKC, suggesting that these tumor promoters act through PKC and that activation of this enzyme is at least partially responsible for the resulting tumorigenesis tParker et al., Science 233:853-866 (1986)].
Experimental evidence indicates that PKC plays a role in growth control in colon cancer. It is believed that specific bacteria in the intestinal tract convert lipids to DAG, thus activating PKC and altering cell proliferation. This may explain the correlation between high dietary fat and colon cancer [Weinstein, Cancer ~es.
(Suppl.) 51:5080s-5085s (1991)]. It has also been demonstrated that a greater proportion of the PKC in the colonic mucosa of patients with colorectal cancer is in an activated state compared to that of patients without cancer 15 [Sakanoue et al., Int. J. Cancer 48:803-806 (1991)].
Increased tumorigenicity is also correlated with overexpression of PKC in cultured cells inoculated into nude mice. A mutant form of PKC induces highly malignant tumor cells with increased metastatic potential.
Sphingosine and related inhibitors of PKC activity have been shown to inhibit tumor cell grcwth and radiation-induced transformation in vivo [Endo et al., Cancer ~esearch 51:1613-1618 (1991); Borek et al., Proc. Natl.
Acad. Sci. 88:1953-1957 (1991)]. A number of experimental or clinically useful anti-cancer drugs show modulatory effects on PKC. Therefore, inhibitors of PKC may be important cancer-preventive or therapeutic agents. PKC has been suggested as a plausible target for more rational design of conventional anti-cancer drugs [Gescher, A. and Dale, I.L., Anti-Cancer Drug Design, 4:93-105 (1989)].
Experiments also indicate that PKC plays an important role in the pathophysiology of hyperproliferative skin disorders such as psoriasis and skin cancer.
Psoriasis is characterized by inflammation, hyperproliferation of the epidermis and decreased differentiation of cells. Various studies indicate a role for PKC in causing these symptoms. PKC stimulation in W095/02069 2 ~ PCT~S94/07770 cultured keratinocytes can be shown to cause hyperproliferation. Inflammation can be induced by phorbol esters and is regulated by PKC. DAG is implicated in the involvement of PKC in dermatological diseases, and is formed to an increased extent in psoriatic lesions.
Inhibitors of PKC have been shown to have both antiproliferative and antiinflammatory effects in vitro.
Some antipsoriasis drugs, such as cyclosporine A and anthralin, have been shown to inhibit PKC. Inhibition of PKC has been suggested as a therapeutic approach to the treatment of psoriasis [Hegemann, L. and G. Mahrle, Pharmacology of the Skin, H. Mukhtar, ed., p. 357-368, CRC
Press, Boca Raton, FL, 1992].
PKC is not a single enzyme, but a family of enzymes. At the present time at least seven isoforms (isozymes) of PKC have been identified: ~, $, ~
and ~. These isozymes have distinct patterns of tissue and organ localization (see Nishizuka, Nature, 334:661-665 (1988) for review) and may serve different physiological functions. For example, PKC-~ seems to be expressed only in the central nervous system. PKC-~ and -$ are expressed in most tissues, but have different patterns of expression in different cell types. For example, both PKC-~ and PKC-$
are expressed in, and have been purified from, human 2S epidermis. While PKC-~ has been detected mainly in keratinocytes of the basal layers of the epidermis, PKC-$
is found mainly in the middle layers of the epidermis and Langerhans cells. PKC-~ has been found predominantly in the skin and lungs, with levels of expression much higher in these tissues than in the brain. This is in contrast to other members of the PKC family which tend to be most abundantly expressed in the brain [Osada et al., J. Biol.
Chem. 265:22434-22440 (1990)]. Another PKC isozyme, PKC-~, is believed to play a critical role in control of proliferative cascades. This was demonstrated by using antisense RNA, peptide inhibitors or a 15-mer phosphorothioate antisense oligonucleotide targeted to the WO95/02069 PCT~S94/07770 _ AUG of Xenopus PKC- ~ to deplete PKC- ~ levels in Xenopus oocytes. These depleted oocytes were shown to be resistant to maturation in response to insulin, while the maturation pathway activated by progesterone was not affected. WO
93/20101. While the PKC isozymes listed here are preferred for targeting by the present invention, other isozymes of PKC are also comprehended by the present invention.
It is presently believed that different PKC isozymes may be involved in various disease processes depending on the organ or tissue in which they are expressed. For example, in psoriatic lesions there is an alteration in the ratio between PKC-~ and PKC-$, with preferential loss of PKC-B compared to normal skin [Hegemann, L. and G. Mahrle, Pharmacology of the Skin, H. Mukhtar, ed., p. 357-368, CRC
Press, Boca Raton, FL, 1992].
Even for a given isozyme, there may be multiple RNA
transcripts expressed from a single gene. In the case of PKC~, for example, two mRNA transcripts are seen: a long (approximately 8.5 kb) transcript and a short (approximately 4 kb) transcript. Multiple PKC~ transcripts are produced from the murine and the bovine PKC~ genes as well. The ratio between the long and short transcripts varies between species and is believed to vary between tissues as well. In addition, there may be some correlation between this ratio and the proliferative state of cells.
Although numerous compounds have been identified as PKC inhibitors (see Hidaka and Hagiwara, Trends in Pharm.
Sci. 8:162-164 (1987) for review), few have been found which inhibit PKC specifically. While the quinoline sulfonamide derivatives such as l-(5-isoquinolinesulfonyl)-
2-methylpiperazine (H-7) inhibit PKC at micromolar concentrations, they exhibit similar enzyme inhibition kinetics for PKC and the CAMP-dependent and cGMP-dependent protein kinases. Staurosporine, an alkaloid product of Streptomyces sp., and its analogs, are the most potent in ~itro inhibitors of PKC identified to date. However, they W095/02069 ~ 0S~ PCT~S94/07770 exhibit only limited selectivity among different protein kinases [Gescher, Anti-Cancer Drug Design 4:93-105 (1989)].
Certain ceramides and sphingosine derivatives have been shown to have PKC inhibitory activity and to have promise for therapeutic uses, however, there remains a long-felt need for specific inhibitors of the enzymes.
There is also a desire to inhibit specific PKC
isozymes, both as a research tool and as treatment for diseases which may be associated with particular isozymes.
Godson et al. [J. Biol. Chem. 268:11946-11950 (1993)]
recently disclosed use of stable transfection of antisense PKC-~ cDNA in cytomegalovirus promotor-based expression vectors to specifically decrease expression of PKC-~protein by approximately 70~. It was demonstrated that this inhibition causes a loss of phospholipase A2-mediated arachidonic acid release in response to the phorbol ester PMA. Attempts by the same researchers at inhibiting PKC
activity with oligodeoxynucleotides were ultimately unsuccessful due to degradation of oligonucleotides.
2 0 OBJECTS OF THE lN Vl!.N'l lON
It is a principal object of the invention to provide therapies for neoplastic, hyperproliferative, inflammatory and other disease states associated with protein kinase C.
Another object of the invention is to provide 2~ selective therapies for diseases associated with particular isozymes of protein kinase C.
It is a further object of the invention to provide antisense oligonucleotides which are capable of modulating the expression of protein kinase C.
Another object of the invention is to provide antisense oligonucleotides which are capable of selectively modulating the expression of particular isozymes of protein kinase C.
Yet another object is to provide means for diagnosis of diseases associated with protein kinase C.
WO9~/02069 PCT~S94/07770 A further object of the invention is to provide means for differential diagnosis of diseases associated with particular isozymes of protein kinase C.
A still further object of the invention is to provide research tools for the study of the effects of protein kinase C expression and diseases associated therewith.
An additional object of the invention is to provide research tools for the study of the effects of expression of particular isozymes of protein kinase C and diseases associated therewith.
It is an object of the invention to provide novel nucleic acid molecules encoding a 3'-untranslated region of human PKC~, including sequences unique to the long mRNA
transcript of PKC~.
Another object of the invention is to provide antisense oligonucleotides which are capable of selectively modulating the expression of particular mRNA transcripts of PKC~.
A further object of the invention is to provide polynucleotide probes for detection of human PKC.
A still further object of the invention is to provide polynucleotide probes for detection of particular mRNA transcripts of PKC~.
A further object of the invention is to provide means for differential diagnosis of diseases associated with particular mRNA transcripts of PKC~.
It is an object of the invention to provide therapies for neoplastic, hyperproliferative, inflammatory and other disease states associated with PKC~.
Another object of the invention is to provide selective therapies for diseases associated with particular mRNA transcripts of PKC~.
An additional object of the invention is to provide research tools for the study of the effects of expression of particular transcripts of PKC~ and diseases associated therewith.
W095/02~69 21 ~ 6 0~S PCT~S94/07770 These and other objects of this invention will become apparent from a review of the instant specification.
Figure l(a) and l(b) are graphical depictions of the effects on PKC expression of antisense oligonucleotides hybridizable with PKC-~. Oligonucleotides are arranged by PKC target region, 5' to 3'.
Figure 2 is a line graph showing dose-dependent reduction of PKC-~ protein levels after oligonucleotide treatment of A549 cells. = ISIS 4632; = ISIS 4649; =
ISIS 4636; = ISIS 4648.
Figure 3 is a bar graph showing reduction of PKC-~mRNA after treatment of A549 cells with oligonucleotides.
Hatched bars represent the 8.5 kb transcript, plain bars represent the 4.0 kb transcript.
Figure 4 is a line graph showing the relationship between deoxy gap length and activity of chimeric oligonucleotides against PKC.
Figure 5 is a line graph showing dose response curves ~or chimeric oligonucleotides (all SEQ ID NO: 3) with different deoxy gap lengths.
Figure 6 is a bar graph showing the effects of several 2'-O-methyl chimeric oligonucleotides of SEQ ID NO:
Certain ceramides and sphingosine derivatives have been shown to have PKC inhibitory activity and to have promise for therapeutic uses, however, there remains a long-felt need for specific inhibitors of the enzymes.
There is also a desire to inhibit specific PKC
isozymes, both as a research tool and as treatment for diseases which may be associated with particular isozymes.
Godson et al. [J. Biol. Chem. 268:11946-11950 (1993)]
recently disclosed use of stable transfection of antisense PKC-~ cDNA in cytomegalovirus promotor-based expression vectors to specifically decrease expression of PKC-~protein by approximately 70~. It was demonstrated that this inhibition causes a loss of phospholipase A2-mediated arachidonic acid release in response to the phorbol ester PMA. Attempts by the same researchers at inhibiting PKC
activity with oligodeoxynucleotides were ultimately unsuccessful due to degradation of oligonucleotides.
2 0 OBJECTS OF THE lN Vl!.N'l lON
It is a principal object of the invention to provide therapies for neoplastic, hyperproliferative, inflammatory and other disease states associated with protein kinase C.
Another object of the invention is to provide 2~ selective therapies for diseases associated with particular isozymes of protein kinase C.
It is a further object of the invention to provide antisense oligonucleotides which are capable of modulating the expression of protein kinase C.
Another object of the invention is to provide antisense oligonucleotides which are capable of selectively modulating the expression of particular isozymes of protein kinase C.
Yet another object is to provide means for diagnosis of diseases associated with protein kinase C.
WO9~/02069 PCT~S94/07770 A further object of the invention is to provide means for differential diagnosis of diseases associated with particular isozymes of protein kinase C.
A still further object of the invention is to provide research tools for the study of the effects of protein kinase C expression and diseases associated therewith.
An additional object of the invention is to provide research tools for the study of the effects of expression of particular isozymes of protein kinase C and diseases associated therewith.
It is an object of the invention to provide novel nucleic acid molecules encoding a 3'-untranslated region of human PKC~, including sequences unique to the long mRNA
transcript of PKC~.
Another object of the invention is to provide antisense oligonucleotides which are capable of selectively modulating the expression of particular mRNA transcripts of PKC~.
A further object of the invention is to provide polynucleotide probes for detection of human PKC.
A still further object of the invention is to provide polynucleotide probes for detection of particular mRNA transcripts of PKC~.
A further object of the invention is to provide means for differential diagnosis of diseases associated with particular mRNA transcripts of PKC~.
It is an object of the invention to provide therapies for neoplastic, hyperproliferative, inflammatory and other disease states associated with PKC~.
Another object of the invention is to provide selective therapies for diseases associated with particular mRNA transcripts of PKC~.
An additional object of the invention is to provide research tools for the study of the effects of expression of particular transcripts of PKC~ and diseases associated therewith.
W095/02~69 21 ~ 6 0~S PCT~S94/07770 These and other objects of this invention will become apparent from a review of the instant specification.
Figure l(a) and l(b) are graphical depictions of the effects on PKC expression of antisense oligonucleotides hybridizable with PKC-~. Oligonucleotides are arranged by PKC target region, 5' to 3'.
Figure 2 is a line graph showing dose-dependent reduction of PKC-~ protein levels after oligonucleotide treatment of A549 cells. = ISIS 4632; = ISIS 4649; =
ISIS 4636; = ISIS 4648.
Figure 3 is a bar graph showing reduction of PKC-~mRNA after treatment of A549 cells with oligonucleotides.
Hatched bars represent the 8.5 kb transcript, plain bars represent the 4.0 kb transcript.
Figure 4 is a line graph showing the relationship between deoxy gap length and activity of chimeric oligonucleotides against PKC.
Figure 5 is a line graph showing dose response curves ~or chimeric oligonucleotides (all SEQ ID NO: 3) with different deoxy gap lengths.
Figure 6 is a bar graph showing the effects of several 2'-O-methyl chimeric oligonucleotides of SEQ ID NO:
3 on PKC-~ mRNA levels. Hatched bars represent the 8.5 kb transcript, plain bars represent the 4.0 kb transcript.
Figure 7 is a bar graph and diagram showing the effects of several 2'-O-methyl and 2'-O-propyl chimeric oligonucleotides (6996, 7273) of SEQ ID NO: 3 on PKC-~ mRNA
levels. Hatched bars represent the 8.5 kb transcript, plain bars represent the 4.0 kb transcript.
Figure 8 is a bar graph and diagram showing the effects of additional 2'-O-methyl and 2'-O-propyl chimeric oligonucleotides (7008, 7294) of SEQ ID NO: 3 on PKC-~ mRNA
levels. Hatched bars represent the 8.5 kb transcript, plain bars represent the 4.0 kb transcript.
W095/02069 PCT~S9~/07770 j , . . ~
5~ 8 Figure 9 is a set of bar graphs showing the effect of additional oligonucleotides on PKC-~ mRNA levels. Figure 9A shows oligonucleotides 6632, 6653 and 6665. Figure 9B
shows oligonucleotides 3521 (for comparison), 7082, 7083 and 7084. Hatched bars represent the 8.5 kb transcript, plain bars represent the 4.0 kb transcript.
Figure 10 is a line graph showing anti-tumor activity of ISIS 3521. Each dashed line represents tumor volume in one ~n;m~l treated with control oligonucleotide;
each solid line represents tumor volume in one animal treated with ISIS 3521.
Figure 11 is a set of line graphs showing effect of oligonucleotides on growth of human MDA-MB231 tumors in nude mice. Figure llA shows results obtained with ISIS
3521; Figure llB shows results obtained with ISIS3527. Each line represents tumor volume in one animal. = control; o = oligonucleotide at 60 mg/kg ; ~ = oligonucleotide at 6 mg/kg.
Figure 12 is a bar graph showing effect of 20-mer phosphorothioate oligonucleotides on PKC-~ expression in A549 cells.
Figure 13 is a nucleotide sequence (SEQ ID NO: 104) of a portion of the 3' untranslated region of the human PKC~ gene beginning at the Bcl I site near the 3' end of the previously known sequence and extending in the 3' direction. Newly determined sequences begin at nucleotide 56 and are underlined (SEQ ID NO:105). Bold sequences are unique to the long mRNA transcript of PKC~ (SEQ ID NO:106).
Figure 14 is a line graph showing a time course of PKC~ mRNA levels in cells (shown as percent of control) after treatment with oligonucleotide 7911 (SEQ ID NO: 117).
Levels of both the short and long mRNA transcripts are indicated. Levels of short mRNA transcript are represented by solid lines. Levels of long mRNA transcript are represented by dotted lines. By 12 hours after treatment with ISIS 7911 (SEQ ID NO: 117), levels of both messages were reduced by over 80~.
W095/02~69 PCT~S94/07770 ~ 216~
g SUMM~Y OF THE lNv~NllON
In accordance with the present invention, oligonucleotides are provided that are specifically hybridizable with DNA or RNA deriving from the gene that encodes PKC. The oligonucleotide comprises nucleotide units sufficient in identity and number to effect such specific hybridization. This relationship is commonly denominated as "antisense". In one preferred embodiment, the oligonucleotides are specifically hybridizable with the translation initiation codon of the gene, and preferably comprise a seguence CAT. In another preferred embodiment, the oligonucleotides are specifically hybridizable with the 5~-untranslated or 3'-untranslated regions of the gene. In yet another preferred embodiment, oligonucleotides are provided that are specifically hybridizable with DNA or mRNA encoding a particular PKC isozyme or a particular set of PKC isozymes. Such oligonucleotides may be conveniently and desirably presented in a pharmaceutically acceptable carrier.
In accordance with other preferred embodiments, the oligonucleotides comprise one or more chemical modifications which convey some desired characteristic such as i.mproved target affinity, cellular uptake or stability in the presence of cellular nucleases. Examples of modifications having such utility are 2'-O-alkyl and 2'-fluoro sugar modifications and phosphorothioate backbone modi.fications.
Other aspects of the invention are directed to methods for modulating the expression of PKC or of a particular PKC isozyme or set of isozymes in cells or tissues. Additional aspects of the invention are directed to methods of detection in cells or tissues of the DNA or RNA that encodes PKC and specific detection in cells or tissues of RNA or DNA that encodes particular PKC isozymes.
Such methods comprise contacting cells or tissues suspected of containing said gene with oligonucleotides in accordance W095/02069 PCT~S9~/07770 with the invention in order to interfere with the effect of or to detect said RNA or DNA.
Other aspects of the invention are directed to methods for diagnostics and therapeutics of ~n;m~l s suspected of having a disease associated with PKC or one of its isozymes. Such methods comprise contacting the ~n; m~ 1 or cells or tissues or a bodily fluid from the animal with oligonucleotides in accordance with the invention in order to modulate the expression of PKC, to treat conditions associated with PKC, or to effect a diagnosis thereof.
This invention provides nucleic acid sequences that encode portions of the 3' untranslated region of human PKC~. Polynucleotide probes and methods of detecting PKC~
are also provided. In some embodiments of the present invention, nucleic acid sequences specific for a particular mRNA transcript of PKC~ are provided, as well as polynucleotide probes and methods for specific detection of this transcript.
In accordance with other embodiments of the present invention, antisense oligonucleotides are provided that are specifically hybridizable with nucleic acids encoding PKC~.
In still other embodiments, antisense oligonucleotides are provided which are specifically hybridizable with a particular mRNA transcript of PKC~. Such oligonucleotides may be conveniently and desirably presented in a pharmaceutically acceptable carrier.
In accordance with still other aspects of the invention are provided methods for modulating the expression of PKC~ or of a particular PKC~ mRNA transcript in cells. Additional aspects of the invention are directed to methods of detection in cells of nucleic acids that encode PKC~ and specific detection in cells of nucleic acids that encode particular PKC~ transcripts. Such methods comprise contacting the cells with oligonucleotides in accordance with the invention in order to interfere with the effect of or to detect said nucleic acid.
WO9S/02069 ~ PCT1594/07770 In still other embodiments of the invention are provided methods for treating animals having a disease associated with expression of PKC~ or one of its transcripts. Such methods comprise contacting the animal with a therapeutically effective amount of oligonucleotides in accordance with the invention in order to modulate the expression of PKC~, to treat conditions associated with PKC~, or to effect a diagnosis thereof.
DETATT ~n DESCRIPTION OF THE lNV~LlON
Antisense oligonucleotides are now accepted as therapeutic agents having promise for the treatment of many human diseases. Oligonucleotides specifically bind (hybridize) to the complementary sequence of DNA, pre-mRNA
or mature mRNA, as defined by Watson-Crick base pairing, 15 interfering with the flow of genetic information from DNA
to protein. The properties of antisense oligonucleotides which make them specific for their target sequence also make them extraordinarily versatile. Because antisense oligonucleotides are long ch~; ns of monomeric units, they may be readily synthesized for any target RNA sequence.
Numerous recent studies have documented the utility cf antisense oligonucleotides as biochemical tools for studying target proteins (Rothenberg et al., J. Natl.
Cancer Inst., 81: 1539-1544 (1989); Zon, G., Pharmaceutical 25 Res., 5 : 539-549 (1988) . Because of recent advances in oligonucleotide chemistry and synthesis of oligonucleotides which exhibit enhanced cell uptake, target binding affinity and nuclease resistance, it is now possible to consider the use of antisense oligonucleotides as a novel form of 30 therapeutics. For example, antisense oligonucleotides targeted to c-myb have been used to completely eliminate myeloid leukemia cells from bone marrow derived from patients with acute myelogenous leukemia. Gewirtz and Calabretta, U.S. Patent 5,098,890. An antisense 35 oligonucleotide has been shown to have clinical efficacy in WO9~/02069 PCT~S94/07770 5~ ~
humans for treatment of cytomegalovirus retinitis infections. ~
Antisense oligonucleotides offer an ideal solution to the problems encountered in prior art approaches to the treatment of conditions associated with PKC. They can be designed to selectively inhibit a given isozyme or particular set of isozymes, or to inhibit all members of a given family of isozymes.
Current agents which modulate the activity or metabolism of protein kinase C exhibit many unacceptable side effects due to their lack of specificity, or they exhibit only limited effectiveness in inhibiting the enzyme. The instant invention circumvents problems encountered by prior workers by modulating the production of the enzyme, rather than inhibiting the enzyme directly, to achieve the therapeutic effect. In the instant invention, the oligonucleotide is designed to hybridize directly to mRNA or to a gene, ultimately modulating the amount of PKC protein made from the gene. "Hybridization,"
in the context of this invention, means hydrogen bonding, also known as Watson-Crick base pairing, between complementary bases, usually on opposite nucleic acid strands or two regions of a nucleic acid strand, to form a double-stranded duplex. Guanine and cytosine are examples of complementary bases which are known to form three hydrogen bonds between them. ~nine and thymine are examples of complementary bases which are known to form two hydrogen bonds between them. "Specifically hybridizable'~
and "substantially complementary" are terms which indicate a sufficient degree of complementarity to avoid non-specific binding of the oligonucleotide (or polynucleotide probe) to non-target sequences under conditions in which specific binding is desired, i.e., under physiological conditions in the case of in vivo assays and therapeutic treatment, or, in the case of in vitro assays, under conditions in which the assays are conducted. It is understood that an oligonucleotide or polynucleotide probe WO95/02069 - 13 - PC~594/07770 need not be lO0~ complementary to its target nucleic acid sequence to be specifically hybridizable.
The relationship between an oligonucleotide and its complementary (or "target") nucleic acid is commonly denoted as "antisense."
It is preferred to target specific genes for antisense attack. It has been discovered that the genes coding for PKC ~ and ~ are particularly useful for this approach. Inhibition of PKC expression is expected to be useful for the treatment of diseases, particularly hyperproliferative and inflammatory disorders.
However, "modulation" in the context of this invention means either an increase or decrease (stimulation or inhibition) of PKC expression.
In the context of this invention, the term "oligonucleotide" refers to a polynucleotide formed from naturally occurring nucleobases and pentofuranosyl (sugar) groups joined by native phosphodiester bonds. This term effectively refers to naturally occurring species or synthetic species formed from naturally occurring subunits or their close homologs.
The term "oligonucleotide" may also refer to moieties which function similarly to naturally occurring oligonucleotides but which have non-naturally occurring portions. Thus, oligonucleotides may have altered sugar moieties, nucleobases or inter-sugar ("backbone"~ linkages.
Such modified or substituted oligonucleotides are often preferred over native forms because of properties such as, for example, enhanced cellular uptake, enhanced target binding affinity and increased stability in the presence of nucleases.
Specific examples of some preferred oligonucleotides envisioned for this invention are those which contain intersugar backbone linkages such as phosphotriesters, methyl phosphonates, short chain alkyl or cycloalkyl intersugar linkages or short chain heteroatomic or heterocyclic intersugar linkages. Most preferred are those WO 95/02069 . PCT/US94/07770 2~ 14-with CH2-NH-O-CH2, CH2-N (CH3) -O-CH2, CH2-O-N (CH3) -CH2, CH2-N ( CH3 ) -N ( CH3 )-CH2 and O-N( CH3 )-CH2-CH2 backbones (where phosphodiester is O-P-O-CH2). Phosphorothioates are also most preferred. Also preferred are oligonucleotides having morpholino backbone structures. Summerton, J.E. and Weller, D.D., U.S. Patent 5,034,506. In other preferred embodiments, such as the peptide nucleic acid (PNA -referred to by some as "protein nucleic acid") backbone, the phosphodiester backbone of the oligonucleotide may be replaced with a polyamide backbone wherein nucleosidic bases are bound directly or indirectly to aza nitrogen atoms or methylene groups in the polyamide backbone. see, e.g., P.E. Nielsen, M. Egholm, R. H . Berg, O. Buchardt, Science 1991, 254, 1497 and United States Patent Application Serial No. 08/054,363, filed April 26, 1993 and incorporated herein by reference. In accordance with other preferred embodiments, the phosphodiester bonds are substituted with structures which are chiral and enantiomerically specific. Persons of ordinary skill in the art will be able to select other linkages for use in practice of the invention.
Oligonucleotides may also include species which include at least one modified nucleobase. Thus, purines and pyrimidines other than those normally found in nature may be so employed. Similarly, modifications on the pentofuranosyl portion of the nucleotide subunits may also be effected, as long as the essential tenets of this invention are adhered to. Examples of such modifications are 2'-O-alkyl- and 2'-halogen-substituted nucleotides.
Some specific examples o modifications at the 2' position of sugar moieties which are useful in the present invention are OH, SH, SCH3, F, OCN, O(CH2)nNH2 or O(CH2)nCH3 where n is from 1 to about 10; C1 to Cl0 lower alkyl, substituted lower alkyl, alkaryl or aralkyl; Cl; Br; CN; CF3; OCF3; O-, S-, or N-alkyl; O-, S-, or N-alkenyl; SOCH3; SO2CH3 i ONO2 i NO2 i N3;
NH2; heterocycloalkyl; heterocycloalkaryl; aminoalkylamino;
polyalkylamino; substituted silyl; an RNA cleaving group;
wO95/02al69 PCT~S94/07770 ~61~8 a reporter groupi an intercalator; a group for improving the pharmacokinetic properties of an oligonucleotide; or a group for improving the pharmacodynamic properties of an oligonucleotide and other substituents having similar properties. One or more pentofuranosyl groups may be replaced by another sugar, by a sugar mimic such as cyclobutyl or by another moiety which takes the place of the sugar.
Chimeric or "gapped" oligonucleotides are also preferred embodiments of the invention. These oligonucleotides contain two or more chemically distinct regions, each comprising at least one nucleotide.
Typically, one or more region comprises modified nucleotides that confer one or more beneficial properties, for example, increased nuclease resistance, increased uptake into cells or increased binding affinity for the RNA
target. One or more unmodified or differently modified regions retain the ability to direct Rnase H cleavage.
~h;m~ric oligonucleotides are disclosed in PCT application US92/11339 which is assigned to the assignee of the instant application and which is incorporated by reference herein in its entirety. Examples of ch'm~ric oligonucleotides which are presently preferred are 2'-O-methyl or 2'-o-propyl oligonucleotides having a "deoxy gap" region of 2'-deoxynucleotides. Usually this deoxy gap region is lo~ated between the two 2~-alkyl regions. In these preferred embodiments, the internucleotide (backbone) linkages may be uniformly phosphorothioate or some combination of phosphorothioate and phosphodiester linkages.
All such oligonucleotides are best described as being functionally interchangeable with natural oligonucleotides (or synthesized oligonucleotides along natural lines), but having one or more differences from natural structure. All such oligonucleotides are comprehended by this invention so long as they function effectively to hybridize with the PKC RNA.
W095/02069 PCT~S94/07770 ~6~ 16 -The oligonucleotides in accordance with this invention preferably comprise from about 5 to about 50 nucleotide units. It is more preferred that such oligonucleotides comprise from about 8 to 30 nucleotide units, and still more preferred to have from about 12 to 25 nucleotide units. As will be appreciated, a nucleotide unit is a base-sugar combination (or a combination of analogous structures) suitably bound to an adjacent nucleotide unit through phosphodiester or other bonds forming a backbone structure.
The oligonucleotides used in accordance with this invention may be conveniently and routinely made through the well-known technique of solid phase synthesis.
Equipment for such synthesis is sold by several vendors including Applied Biosystems. Any other means for such synthesis may also be employed; the actual synthesis of the oligonucleotides is well within the talents of the routineer. It is also well known to use similar techni~ues to prepare other oligonucleotides such as phosphorothioates or alkylated derivatives. Other modified and substituted oligomers can be similarly synthesized.
In accordance with this invention, persons of ordinary skill in the art will understand that messenger RNA includes not only the coding region, which contains information to encode a protein using the three letter genetic code, but also associated ribonucleotides which form a region known to such persons as the 5'-untranslated region, the 3'-untranslated region, the 5' cap region and intron/exon junction ribonucleotides. Thus, oligonucleotides may be formulated in accordance with this invention which are targeted wholly or in part to these associated ribonucleotides as well as to the coding ribonucleotides. In preferred embodiments, the oligonucleotide is specifically hybridizable with a transcription initiation site, a translation initiation site, a 5' cap region, an intron/exon junction, coding W095/02069 PCT~S94/07770 sequences or sequences in the 5'- or 3'-untranslated region .
The oligonucleotides of this invention are designed to be hybridizable with the PKC gene or with messenger RNA derived from the PKC gene. Such hybridization, when accomplished, interferes with the normal roles of the messenger RNA to cause a modulation of its function in the cell. The functions of messenger RNA
to be interfered with may include all vital functions such as translocation of the RNA to the site for protein translation, actual translation of protein from the RNA, splicing of the RNA to yield one or more mRNA species, and possibly even independent catalytic activity which may be engaged in by the RNA. The overall effect of such 1~ interference with the RNA function is to modulate expression of the PKC gene.
The oligonucleotides of this invention can be used in diagnostics, therapeutics, prophylaxis, and as research reagents and kits. Since the oligonucleotides of this invention hybridize to the PKC gene and its mRNA, sandwich and other assays can easily be constructed to exploit this fact. Furthermore, since the oligonucleotides of this invention hybridize specifically to particular isozymes of the PKC mRNA, such assays can be devised for screening of cells and tissues for particular PKC isozymes. Such assays can be utilized for diagnosis of diseases associated with various PKC forms. Provision of means for detecting hybridization of oligonucleotide with the PKC gene can routinely be accomplished. Such provision may include enzyme conjugation, radiolabelling or any other suitable detection systems. Kits for detecting the presence or absence of PKC may also be prepared.
For therapeutic or prophylactic treatment, oligonucleotides are administered in accordance with this 3~ invention. Oligonucleotides may be formulated in a pharmaceutical composition, which may include carriers, thickeners, diluents, buffers, preservatives, surface W095/02069 PCT~S94/07770 ~66a~3~ - 18 -active agents and the like in addition to the oligonucleotide. Pharmaceutical compositions may also include one or more active ingredients such as antimicrobial agents, antiinflammatory agents, anesthetics, and the like in addition to oligonucleotides.
The pharmaceutical composition may be administered in a number of ways depending on whether local or systemic treatment is desired, and on the area to be treated.
~m; n; stration may be done topically (including ophthalmically, vaginally, rectally, intranasally), orally, by inhalation, or parenterally, for example by intravenous drip or subcutaneous, intraperitoneal or intramuscular injection.
Formulations for topical administration may include ointments, lotions, creams, gels, drops, suppositories, sprays, liquids and powders. Conventional pharmaceutical carriers, aqueous, powder or oily bases, thickeners and the like may be necessary or desirable. Coated condoms may also be useful.
Compositions for oral administration include powders or granules, suspensions or solutions in water or non-aqueous media, capsules, sachets, or tablets. Thickeners, flavorings, diluents, emulsifiers, dispersing aids or binders may be desirable.
Formulations for parenteral administration may include sterile aqueous solutions which may also contain buffers, diluents and other suitable additives.
Dosing is dependent on severity and responsiveness of the condition to be treated, but will normally be one or more doses per day, with course of treatment lasting from several days to several months or until a cure is effected or a diminution of disease state is achieved. Persons of ordinary skill can easily determine optimum dosages, dosing methodologies and repetition rates.
The present invention also provides a nucleic acid molecule having a sequence which encodes the 3'-untranslated region of human PKC~ is provided (Figure 13).
W095/02069 ~ PCT~S94/07770 ~66~
This sequence was determined from cDNA clones prepared from human A549 cells, beginning with a clone overlapping the 3~-most end of the previously published PKC~ sequence [Finkenzeller et al., Nucl. Acids Res. 18:2183 (1990);
Genbank accession number X52479] and extending in the 3' direction. A polyadenylation site which was reached after 1080 nucleotides (nucleotide 1136 in Figure 13); has been identified as the 3' end of the short (4 kb) mRNA
transcript of PKC~. An additional 676 nucleotides of sequence in the 3' direction were determined, which sequence is unique to the long (8kb) mRNA transcript of PKC~. The nucleic acid molecule of the present invention may preferrably be comprised of deoxyribonucleic acids and may be double-stranded in some aspects of the present invention. Also in accordance with the present invention, said nucleic acid molecules are isolated. "Isolated" as the term is used herein, in meant to refer to molecules which have been purified or synthesized so as to be substantially homogenous. The term does not exclude the possibility that certain impurities may be present in the composition, but is, instead, meant to refer to the absence of non-relevant nucleic acid sequences.
In accordance with the present invention polynucleotide probes specifically hybridizable to a portion of the 3' untranslated region of the human PKC~
gene are provided. Polynucleotide probes specifically hybridizable to a portion of the long mRNA transcript of PKCa are also provided. Such probes may be used for diagnostic or research purposes to detect or quantitate the expression of PKC~. Probes may be used to speci~ically detect or quantitate the long transcript of PKC~. Said polynucleotide probes may range in length from about 5 to about 50 nucleotide units. In more preferred embodiments of the present invention the probes may be from about 8 to about 30 nucleotide units in length. Ideally, said probes range in length from about 12 to about 25 nucleotide units.
It is recognized that since polynucleotide probes of the W095/02069 PC~S94/07770 present invention ideally do not exceed 50 nucleotides in length, said probes may specifically hybridize to only a portion of the targeted sequence. The portion of the PKC~
sequence to be targeted can be identified by one skilled in the art. Most suitably, a target sequence is chosen which is unique, thereby decreasing background noise attributable to hybridization by the probe other than to the target. By way of example, one skilled in the art would be unlikely to select a repeating sequence of adenine nucleotide units as this is a common sequence occurring in many genes. The practitioner might choose to perform a search and comparison of sequences found in a sequence depository such as Genbank in order to identify and design a useful probe.
Such methods are conventionally used to identify unique sequences. These unique sequences, when used as probes, need not necessarily be crucial to the regulation of the expression of PKC~.
The following examples illustrate the present invention and are not intended to limit the same.
EXAMPLES
Example 1 Oligonucleotide synthesis:
Unmodified DNA oligonucleotides were synthesized on an automated DNA synthesizer (Applied Biosystems model 380B) using standard phosphoramidite chemistry with oxidation by iodine. ~-cyanoethyldiisopropyl-phosphoramidites were purchased from Applied Biosystems (Foster City, CA). For phosphorothioate oligonucleotides, the standard oxidation bottle was replaced by a 0.2 M
solution of 3H-1,2-benzodithiole-3-one 1,1-dioxide in acetonitrile for the stepwise thiation of the phosphite linkages. The thiation cycle wait step was increased to 68 seconds and was followed by the capping step.
2'-O-methyl phosphorothioate oligonucleotides were synthesized according to the procedures set forth above substituting 2'-O-methyl ~-cyanoethyldiisopropyl phosphoramidites (Chemgenes, Needham, MA) for standard WO95/02069 ~ Q~ ~ PCT~S94/07770 phosphoramidites and increasing the wait cycle after the pulse delivery of tetrazole and base to 360 seconds.
Similarly, 2'-O-propyl phosphorothioate oligonucleotides may be prepared by slight modifications of this procedure.
After cleavage from the controlled pore glass column (Applied Biosystems) and deblocking in concentrated ammonium hydroxide at 55C for 18 hours, the oli~onucleotides were purified by precipitation twice out of 0.5 M NaCl with 2.S volumes ethanol. Analytical gel electrophoresis was accomplished in 20~ acrylamide, 8 M
urea, 45 mM Tris-borate buffer, Ph 7Ø
The oligonucleotides tested are presented in Table 1. Sequence data are from the cDNA sequence published by Finkenzeller et al., Nucl . Acids Res. 18:2183 (1990);
Genbank accession number X52479. The sequence numbers given under the oligonucleotides are relative to the first residue to be sequenced on the cDNA, which is 28 residues upstream of the ATG start codon.
Table 1 OLIGONUCLEOTIDES TARGETED TO HUMAN PRC-~
SEQ Sequence Target ISIS #
ID
1 CCC CAA CCA CCT CTT GCT CC 5' 3520 19 1 Untranslated 2 GTT CTC GCT GGT GAG TTT CA 3' 3521 2063 2044 Untranslated 3 AAA ACG TCA GCC ATG GTC CC Translation 3522 41 22 init. codon
Figure 7 is a bar graph and diagram showing the effects of several 2'-O-methyl and 2'-O-propyl chimeric oligonucleotides (6996, 7273) of SEQ ID NO: 3 on PKC-~ mRNA
levels. Hatched bars represent the 8.5 kb transcript, plain bars represent the 4.0 kb transcript.
Figure 8 is a bar graph and diagram showing the effects of additional 2'-O-methyl and 2'-O-propyl chimeric oligonucleotides (7008, 7294) of SEQ ID NO: 3 on PKC-~ mRNA
levels. Hatched bars represent the 8.5 kb transcript, plain bars represent the 4.0 kb transcript.
W095/02069 PCT~S9~/07770 j , . . ~
5~ 8 Figure 9 is a set of bar graphs showing the effect of additional oligonucleotides on PKC-~ mRNA levels. Figure 9A shows oligonucleotides 6632, 6653 and 6665. Figure 9B
shows oligonucleotides 3521 (for comparison), 7082, 7083 and 7084. Hatched bars represent the 8.5 kb transcript, plain bars represent the 4.0 kb transcript.
Figure 10 is a line graph showing anti-tumor activity of ISIS 3521. Each dashed line represents tumor volume in one ~n;m~l treated with control oligonucleotide;
each solid line represents tumor volume in one animal treated with ISIS 3521.
Figure 11 is a set of line graphs showing effect of oligonucleotides on growth of human MDA-MB231 tumors in nude mice. Figure llA shows results obtained with ISIS
3521; Figure llB shows results obtained with ISIS3527. Each line represents tumor volume in one animal. = control; o = oligonucleotide at 60 mg/kg ; ~ = oligonucleotide at 6 mg/kg.
Figure 12 is a bar graph showing effect of 20-mer phosphorothioate oligonucleotides on PKC-~ expression in A549 cells.
Figure 13 is a nucleotide sequence (SEQ ID NO: 104) of a portion of the 3' untranslated region of the human PKC~ gene beginning at the Bcl I site near the 3' end of the previously known sequence and extending in the 3' direction. Newly determined sequences begin at nucleotide 56 and are underlined (SEQ ID NO:105). Bold sequences are unique to the long mRNA transcript of PKC~ (SEQ ID NO:106).
Figure 14 is a line graph showing a time course of PKC~ mRNA levels in cells (shown as percent of control) after treatment with oligonucleotide 7911 (SEQ ID NO: 117).
Levels of both the short and long mRNA transcripts are indicated. Levels of short mRNA transcript are represented by solid lines. Levels of long mRNA transcript are represented by dotted lines. By 12 hours after treatment with ISIS 7911 (SEQ ID NO: 117), levels of both messages were reduced by over 80~.
W095/02~69 PCT~S94/07770 ~ 216~
g SUMM~Y OF THE lNv~NllON
In accordance with the present invention, oligonucleotides are provided that are specifically hybridizable with DNA or RNA deriving from the gene that encodes PKC. The oligonucleotide comprises nucleotide units sufficient in identity and number to effect such specific hybridization. This relationship is commonly denominated as "antisense". In one preferred embodiment, the oligonucleotides are specifically hybridizable with the translation initiation codon of the gene, and preferably comprise a seguence CAT. In another preferred embodiment, the oligonucleotides are specifically hybridizable with the 5~-untranslated or 3'-untranslated regions of the gene. In yet another preferred embodiment, oligonucleotides are provided that are specifically hybridizable with DNA or mRNA encoding a particular PKC isozyme or a particular set of PKC isozymes. Such oligonucleotides may be conveniently and desirably presented in a pharmaceutically acceptable carrier.
In accordance with other preferred embodiments, the oligonucleotides comprise one or more chemical modifications which convey some desired characteristic such as i.mproved target affinity, cellular uptake or stability in the presence of cellular nucleases. Examples of modifications having such utility are 2'-O-alkyl and 2'-fluoro sugar modifications and phosphorothioate backbone modi.fications.
Other aspects of the invention are directed to methods for modulating the expression of PKC or of a particular PKC isozyme or set of isozymes in cells or tissues. Additional aspects of the invention are directed to methods of detection in cells or tissues of the DNA or RNA that encodes PKC and specific detection in cells or tissues of RNA or DNA that encodes particular PKC isozymes.
Such methods comprise contacting cells or tissues suspected of containing said gene with oligonucleotides in accordance W095/02069 PCT~S9~/07770 with the invention in order to interfere with the effect of or to detect said RNA or DNA.
Other aspects of the invention are directed to methods for diagnostics and therapeutics of ~n;m~l s suspected of having a disease associated with PKC or one of its isozymes. Such methods comprise contacting the ~n; m~ 1 or cells or tissues or a bodily fluid from the animal with oligonucleotides in accordance with the invention in order to modulate the expression of PKC, to treat conditions associated with PKC, or to effect a diagnosis thereof.
This invention provides nucleic acid sequences that encode portions of the 3' untranslated region of human PKC~. Polynucleotide probes and methods of detecting PKC~
are also provided. In some embodiments of the present invention, nucleic acid sequences specific for a particular mRNA transcript of PKC~ are provided, as well as polynucleotide probes and methods for specific detection of this transcript.
In accordance with other embodiments of the present invention, antisense oligonucleotides are provided that are specifically hybridizable with nucleic acids encoding PKC~.
In still other embodiments, antisense oligonucleotides are provided which are specifically hybridizable with a particular mRNA transcript of PKC~. Such oligonucleotides may be conveniently and desirably presented in a pharmaceutically acceptable carrier.
In accordance with still other aspects of the invention are provided methods for modulating the expression of PKC~ or of a particular PKC~ mRNA transcript in cells. Additional aspects of the invention are directed to methods of detection in cells of nucleic acids that encode PKC~ and specific detection in cells of nucleic acids that encode particular PKC~ transcripts. Such methods comprise contacting the cells with oligonucleotides in accordance with the invention in order to interfere with the effect of or to detect said nucleic acid.
WO9S/02069 ~ PCT1594/07770 In still other embodiments of the invention are provided methods for treating animals having a disease associated with expression of PKC~ or one of its transcripts. Such methods comprise contacting the animal with a therapeutically effective amount of oligonucleotides in accordance with the invention in order to modulate the expression of PKC~, to treat conditions associated with PKC~, or to effect a diagnosis thereof.
DETATT ~n DESCRIPTION OF THE lNV~LlON
Antisense oligonucleotides are now accepted as therapeutic agents having promise for the treatment of many human diseases. Oligonucleotides specifically bind (hybridize) to the complementary sequence of DNA, pre-mRNA
or mature mRNA, as defined by Watson-Crick base pairing, 15 interfering with the flow of genetic information from DNA
to protein. The properties of antisense oligonucleotides which make them specific for their target sequence also make them extraordinarily versatile. Because antisense oligonucleotides are long ch~; ns of monomeric units, they may be readily synthesized for any target RNA sequence.
Numerous recent studies have documented the utility cf antisense oligonucleotides as biochemical tools for studying target proteins (Rothenberg et al., J. Natl.
Cancer Inst., 81: 1539-1544 (1989); Zon, G., Pharmaceutical 25 Res., 5 : 539-549 (1988) . Because of recent advances in oligonucleotide chemistry and synthesis of oligonucleotides which exhibit enhanced cell uptake, target binding affinity and nuclease resistance, it is now possible to consider the use of antisense oligonucleotides as a novel form of 30 therapeutics. For example, antisense oligonucleotides targeted to c-myb have been used to completely eliminate myeloid leukemia cells from bone marrow derived from patients with acute myelogenous leukemia. Gewirtz and Calabretta, U.S. Patent 5,098,890. An antisense 35 oligonucleotide has been shown to have clinical efficacy in WO9~/02069 PCT~S94/07770 5~ ~
humans for treatment of cytomegalovirus retinitis infections. ~
Antisense oligonucleotides offer an ideal solution to the problems encountered in prior art approaches to the treatment of conditions associated with PKC. They can be designed to selectively inhibit a given isozyme or particular set of isozymes, or to inhibit all members of a given family of isozymes.
Current agents which modulate the activity or metabolism of protein kinase C exhibit many unacceptable side effects due to their lack of specificity, or they exhibit only limited effectiveness in inhibiting the enzyme. The instant invention circumvents problems encountered by prior workers by modulating the production of the enzyme, rather than inhibiting the enzyme directly, to achieve the therapeutic effect. In the instant invention, the oligonucleotide is designed to hybridize directly to mRNA or to a gene, ultimately modulating the amount of PKC protein made from the gene. "Hybridization,"
in the context of this invention, means hydrogen bonding, also known as Watson-Crick base pairing, between complementary bases, usually on opposite nucleic acid strands or two regions of a nucleic acid strand, to form a double-stranded duplex. Guanine and cytosine are examples of complementary bases which are known to form three hydrogen bonds between them. ~nine and thymine are examples of complementary bases which are known to form two hydrogen bonds between them. "Specifically hybridizable'~
and "substantially complementary" are terms which indicate a sufficient degree of complementarity to avoid non-specific binding of the oligonucleotide (or polynucleotide probe) to non-target sequences under conditions in which specific binding is desired, i.e., under physiological conditions in the case of in vivo assays and therapeutic treatment, or, in the case of in vitro assays, under conditions in which the assays are conducted. It is understood that an oligonucleotide or polynucleotide probe WO95/02069 - 13 - PC~594/07770 need not be lO0~ complementary to its target nucleic acid sequence to be specifically hybridizable.
The relationship between an oligonucleotide and its complementary (or "target") nucleic acid is commonly denoted as "antisense."
It is preferred to target specific genes for antisense attack. It has been discovered that the genes coding for PKC ~ and ~ are particularly useful for this approach. Inhibition of PKC expression is expected to be useful for the treatment of diseases, particularly hyperproliferative and inflammatory disorders.
However, "modulation" in the context of this invention means either an increase or decrease (stimulation or inhibition) of PKC expression.
In the context of this invention, the term "oligonucleotide" refers to a polynucleotide formed from naturally occurring nucleobases and pentofuranosyl (sugar) groups joined by native phosphodiester bonds. This term effectively refers to naturally occurring species or synthetic species formed from naturally occurring subunits or their close homologs.
The term "oligonucleotide" may also refer to moieties which function similarly to naturally occurring oligonucleotides but which have non-naturally occurring portions. Thus, oligonucleotides may have altered sugar moieties, nucleobases or inter-sugar ("backbone"~ linkages.
Such modified or substituted oligonucleotides are often preferred over native forms because of properties such as, for example, enhanced cellular uptake, enhanced target binding affinity and increased stability in the presence of nucleases.
Specific examples of some preferred oligonucleotides envisioned for this invention are those which contain intersugar backbone linkages such as phosphotriesters, methyl phosphonates, short chain alkyl or cycloalkyl intersugar linkages or short chain heteroatomic or heterocyclic intersugar linkages. Most preferred are those WO 95/02069 . PCT/US94/07770 2~ 14-with CH2-NH-O-CH2, CH2-N (CH3) -O-CH2, CH2-O-N (CH3) -CH2, CH2-N ( CH3 ) -N ( CH3 )-CH2 and O-N( CH3 )-CH2-CH2 backbones (where phosphodiester is O-P-O-CH2). Phosphorothioates are also most preferred. Also preferred are oligonucleotides having morpholino backbone structures. Summerton, J.E. and Weller, D.D., U.S. Patent 5,034,506. In other preferred embodiments, such as the peptide nucleic acid (PNA -referred to by some as "protein nucleic acid") backbone, the phosphodiester backbone of the oligonucleotide may be replaced with a polyamide backbone wherein nucleosidic bases are bound directly or indirectly to aza nitrogen atoms or methylene groups in the polyamide backbone. see, e.g., P.E. Nielsen, M. Egholm, R. H . Berg, O. Buchardt, Science 1991, 254, 1497 and United States Patent Application Serial No. 08/054,363, filed April 26, 1993 and incorporated herein by reference. In accordance with other preferred embodiments, the phosphodiester bonds are substituted with structures which are chiral and enantiomerically specific. Persons of ordinary skill in the art will be able to select other linkages for use in practice of the invention.
Oligonucleotides may also include species which include at least one modified nucleobase. Thus, purines and pyrimidines other than those normally found in nature may be so employed. Similarly, modifications on the pentofuranosyl portion of the nucleotide subunits may also be effected, as long as the essential tenets of this invention are adhered to. Examples of such modifications are 2'-O-alkyl- and 2'-halogen-substituted nucleotides.
Some specific examples o modifications at the 2' position of sugar moieties which are useful in the present invention are OH, SH, SCH3, F, OCN, O(CH2)nNH2 or O(CH2)nCH3 where n is from 1 to about 10; C1 to Cl0 lower alkyl, substituted lower alkyl, alkaryl or aralkyl; Cl; Br; CN; CF3; OCF3; O-, S-, or N-alkyl; O-, S-, or N-alkenyl; SOCH3; SO2CH3 i ONO2 i NO2 i N3;
NH2; heterocycloalkyl; heterocycloalkaryl; aminoalkylamino;
polyalkylamino; substituted silyl; an RNA cleaving group;
wO95/02al69 PCT~S94/07770 ~61~8 a reporter groupi an intercalator; a group for improving the pharmacokinetic properties of an oligonucleotide; or a group for improving the pharmacodynamic properties of an oligonucleotide and other substituents having similar properties. One or more pentofuranosyl groups may be replaced by another sugar, by a sugar mimic such as cyclobutyl or by another moiety which takes the place of the sugar.
Chimeric or "gapped" oligonucleotides are also preferred embodiments of the invention. These oligonucleotides contain two or more chemically distinct regions, each comprising at least one nucleotide.
Typically, one or more region comprises modified nucleotides that confer one or more beneficial properties, for example, increased nuclease resistance, increased uptake into cells or increased binding affinity for the RNA
target. One or more unmodified or differently modified regions retain the ability to direct Rnase H cleavage.
~h;m~ric oligonucleotides are disclosed in PCT application US92/11339 which is assigned to the assignee of the instant application and which is incorporated by reference herein in its entirety. Examples of ch'm~ric oligonucleotides which are presently preferred are 2'-O-methyl or 2'-o-propyl oligonucleotides having a "deoxy gap" region of 2'-deoxynucleotides. Usually this deoxy gap region is lo~ated between the two 2~-alkyl regions. In these preferred embodiments, the internucleotide (backbone) linkages may be uniformly phosphorothioate or some combination of phosphorothioate and phosphodiester linkages.
All such oligonucleotides are best described as being functionally interchangeable with natural oligonucleotides (or synthesized oligonucleotides along natural lines), but having one or more differences from natural structure. All such oligonucleotides are comprehended by this invention so long as they function effectively to hybridize with the PKC RNA.
W095/02069 PCT~S94/07770 ~6~ 16 -The oligonucleotides in accordance with this invention preferably comprise from about 5 to about 50 nucleotide units. It is more preferred that such oligonucleotides comprise from about 8 to 30 nucleotide units, and still more preferred to have from about 12 to 25 nucleotide units. As will be appreciated, a nucleotide unit is a base-sugar combination (or a combination of analogous structures) suitably bound to an adjacent nucleotide unit through phosphodiester or other bonds forming a backbone structure.
The oligonucleotides used in accordance with this invention may be conveniently and routinely made through the well-known technique of solid phase synthesis.
Equipment for such synthesis is sold by several vendors including Applied Biosystems. Any other means for such synthesis may also be employed; the actual synthesis of the oligonucleotides is well within the talents of the routineer. It is also well known to use similar techni~ues to prepare other oligonucleotides such as phosphorothioates or alkylated derivatives. Other modified and substituted oligomers can be similarly synthesized.
In accordance with this invention, persons of ordinary skill in the art will understand that messenger RNA includes not only the coding region, which contains information to encode a protein using the three letter genetic code, but also associated ribonucleotides which form a region known to such persons as the 5'-untranslated region, the 3'-untranslated region, the 5' cap region and intron/exon junction ribonucleotides. Thus, oligonucleotides may be formulated in accordance with this invention which are targeted wholly or in part to these associated ribonucleotides as well as to the coding ribonucleotides. In preferred embodiments, the oligonucleotide is specifically hybridizable with a transcription initiation site, a translation initiation site, a 5' cap region, an intron/exon junction, coding W095/02069 PCT~S94/07770 sequences or sequences in the 5'- or 3'-untranslated region .
The oligonucleotides of this invention are designed to be hybridizable with the PKC gene or with messenger RNA derived from the PKC gene. Such hybridization, when accomplished, interferes with the normal roles of the messenger RNA to cause a modulation of its function in the cell. The functions of messenger RNA
to be interfered with may include all vital functions such as translocation of the RNA to the site for protein translation, actual translation of protein from the RNA, splicing of the RNA to yield one or more mRNA species, and possibly even independent catalytic activity which may be engaged in by the RNA. The overall effect of such 1~ interference with the RNA function is to modulate expression of the PKC gene.
The oligonucleotides of this invention can be used in diagnostics, therapeutics, prophylaxis, and as research reagents and kits. Since the oligonucleotides of this invention hybridize to the PKC gene and its mRNA, sandwich and other assays can easily be constructed to exploit this fact. Furthermore, since the oligonucleotides of this invention hybridize specifically to particular isozymes of the PKC mRNA, such assays can be devised for screening of cells and tissues for particular PKC isozymes. Such assays can be utilized for diagnosis of diseases associated with various PKC forms. Provision of means for detecting hybridization of oligonucleotide with the PKC gene can routinely be accomplished. Such provision may include enzyme conjugation, radiolabelling or any other suitable detection systems. Kits for detecting the presence or absence of PKC may also be prepared.
For therapeutic or prophylactic treatment, oligonucleotides are administered in accordance with this 3~ invention. Oligonucleotides may be formulated in a pharmaceutical composition, which may include carriers, thickeners, diluents, buffers, preservatives, surface W095/02069 PCT~S94/07770 ~66a~3~ - 18 -active agents and the like in addition to the oligonucleotide. Pharmaceutical compositions may also include one or more active ingredients such as antimicrobial agents, antiinflammatory agents, anesthetics, and the like in addition to oligonucleotides.
The pharmaceutical composition may be administered in a number of ways depending on whether local or systemic treatment is desired, and on the area to be treated.
~m; n; stration may be done topically (including ophthalmically, vaginally, rectally, intranasally), orally, by inhalation, or parenterally, for example by intravenous drip or subcutaneous, intraperitoneal or intramuscular injection.
Formulations for topical administration may include ointments, lotions, creams, gels, drops, suppositories, sprays, liquids and powders. Conventional pharmaceutical carriers, aqueous, powder or oily bases, thickeners and the like may be necessary or desirable. Coated condoms may also be useful.
Compositions for oral administration include powders or granules, suspensions or solutions in water or non-aqueous media, capsules, sachets, or tablets. Thickeners, flavorings, diluents, emulsifiers, dispersing aids or binders may be desirable.
Formulations for parenteral administration may include sterile aqueous solutions which may also contain buffers, diluents and other suitable additives.
Dosing is dependent on severity and responsiveness of the condition to be treated, but will normally be one or more doses per day, with course of treatment lasting from several days to several months or until a cure is effected or a diminution of disease state is achieved. Persons of ordinary skill can easily determine optimum dosages, dosing methodologies and repetition rates.
The present invention also provides a nucleic acid molecule having a sequence which encodes the 3'-untranslated region of human PKC~ is provided (Figure 13).
W095/02069 ~ PCT~S94/07770 ~66~
This sequence was determined from cDNA clones prepared from human A549 cells, beginning with a clone overlapping the 3~-most end of the previously published PKC~ sequence [Finkenzeller et al., Nucl. Acids Res. 18:2183 (1990);
Genbank accession number X52479] and extending in the 3' direction. A polyadenylation site which was reached after 1080 nucleotides (nucleotide 1136 in Figure 13); has been identified as the 3' end of the short (4 kb) mRNA
transcript of PKC~. An additional 676 nucleotides of sequence in the 3' direction were determined, which sequence is unique to the long (8kb) mRNA transcript of PKC~. The nucleic acid molecule of the present invention may preferrably be comprised of deoxyribonucleic acids and may be double-stranded in some aspects of the present invention. Also in accordance with the present invention, said nucleic acid molecules are isolated. "Isolated" as the term is used herein, in meant to refer to molecules which have been purified or synthesized so as to be substantially homogenous. The term does not exclude the possibility that certain impurities may be present in the composition, but is, instead, meant to refer to the absence of non-relevant nucleic acid sequences.
In accordance with the present invention polynucleotide probes specifically hybridizable to a portion of the 3' untranslated region of the human PKC~
gene are provided. Polynucleotide probes specifically hybridizable to a portion of the long mRNA transcript of PKCa are also provided. Such probes may be used for diagnostic or research purposes to detect or quantitate the expression of PKC~. Probes may be used to speci~ically detect or quantitate the long transcript of PKC~. Said polynucleotide probes may range in length from about 5 to about 50 nucleotide units. In more preferred embodiments of the present invention the probes may be from about 8 to about 30 nucleotide units in length. Ideally, said probes range in length from about 12 to about 25 nucleotide units.
It is recognized that since polynucleotide probes of the W095/02069 PC~S94/07770 present invention ideally do not exceed 50 nucleotides in length, said probes may specifically hybridize to only a portion of the targeted sequence. The portion of the PKC~
sequence to be targeted can be identified by one skilled in the art. Most suitably, a target sequence is chosen which is unique, thereby decreasing background noise attributable to hybridization by the probe other than to the target. By way of example, one skilled in the art would be unlikely to select a repeating sequence of adenine nucleotide units as this is a common sequence occurring in many genes. The practitioner might choose to perform a search and comparison of sequences found in a sequence depository such as Genbank in order to identify and design a useful probe.
Such methods are conventionally used to identify unique sequences. These unique sequences, when used as probes, need not necessarily be crucial to the regulation of the expression of PKC~.
The following examples illustrate the present invention and are not intended to limit the same.
EXAMPLES
Example 1 Oligonucleotide synthesis:
Unmodified DNA oligonucleotides were synthesized on an automated DNA synthesizer (Applied Biosystems model 380B) using standard phosphoramidite chemistry with oxidation by iodine. ~-cyanoethyldiisopropyl-phosphoramidites were purchased from Applied Biosystems (Foster City, CA). For phosphorothioate oligonucleotides, the standard oxidation bottle was replaced by a 0.2 M
solution of 3H-1,2-benzodithiole-3-one 1,1-dioxide in acetonitrile for the stepwise thiation of the phosphite linkages. The thiation cycle wait step was increased to 68 seconds and was followed by the capping step.
2'-O-methyl phosphorothioate oligonucleotides were synthesized according to the procedures set forth above substituting 2'-O-methyl ~-cyanoethyldiisopropyl phosphoramidites (Chemgenes, Needham, MA) for standard WO95/02069 ~ Q~ ~ PCT~S94/07770 phosphoramidites and increasing the wait cycle after the pulse delivery of tetrazole and base to 360 seconds.
Similarly, 2'-O-propyl phosphorothioate oligonucleotides may be prepared by slight modifications of this procedure.
After cleavage from the controlled pore glass column (Applied Biosystems) and deblocking in concentrated ammonium hydroxide at 55C for 18 hours, the oli~onucleotides were purified by precipitation twice out of 0.5 M NaCl with 2.S volumes ethanol. Analytical gel electrophoresis was accomplished in 20~ acrylamide, 8 M
urea, 45 mM Tris-borate buffer, Ph 7Ø
The oligonucleotides tested are presented in Table 1. Sequence data are from the cDNA sequence published by Finkenzeller et al., Nucl . Acids Res. 18:2183 (1990);
Genbank accession number X52479. The sequence numbers given under the oligonucleotides are relative to the first residue to be sequenced on the cDNA, which is 28 residues upstream of the ATG start codon.
Table 1 OLIGONUCLEOTIDES TARGETED TO HUMAN PRC-~
SEQ Sequence Target ISIS #
ID
1 CCC CAA CCA CCT CTT GCT CC 5' 3520 19 1 Untranslated 2 GTT CTC GCT GGT GAG TTT CA 3' 3521 2063 2044 Untranslated 3 AAA ACG TCA GCC ATG GTC CC Translation 3522 41 22 init. codon
4 GGA TTC ACT TCC ACT GCG GG 3/ 3526 - 30 2109 2090 Untranslated
5 GAG ACC CTG AAC AGT TGA TC 3' 3527 2211 2192 Untranslated
6 CCC GGG A~A ACG TCA GCC AT Translation 3674 47 28 init codon
7 CTG CCT CAG CGC CCC TTT GC Internal 3682 110 91 (C1) domain ~,~6~5~ 22-
8 AGT CGG TGC AGT GGC TGG AG Internal 3686 193 174 ( C1) domain
9 GCA GAG GCT GGG GAC ATT GA Internal 3687 480 461 (C1) domain
10 GGG CTG GGG AGG TGT TTG TT 3 ' 3695 2080 2061 Untranslated
11 CAC TGC GGG GAG GGC TGG GG 3 ' 3875 2098 2079 Untranslated
12 AGC CGT GGC CTT AAA ATT TT 3 ' 3878 2137 2118 Untranslated
13 ATT TTC AGG CCT CCA TAT GG 3 ' 3879 2168 2149 Untranslated
14 A~G AGA GAG ACC CTG AAC AG 3 ' 3884 2217 2198 Untranslated
15 GAT AAT GTT CTT GGT TGT AA 3 ' 3885 2235 2216 Untranslated
16 ATG GGG TGC ACA AAC TGG GG Internal 3886 2027 2008 (C3) domain
17 GTC AGC CAT GGT CCC CCC CC Translation 3890 36 17 init. codon
18 CGC CGT GGA GTC GTT GCC CG Internal 3891 63 44 (V1) domain
19 TCA AAT GGA GGC TGC CCG GC Internal 3892 1643 1624 (C3) domain
20 TGG AAT CAG ACA CAA GCC GT 3 ' 3947 2151 2132 Untranslated Example 2 Cell culture and treatment with phorbol esters and oligonucleotides targeted to PRC-~:
PKC protein half-lives have been reported to vary from 6.7 hours to over 24 hours [Young et al., Biochem. J.
244 : 775-779 (1987); Ballester et al., J. Biol . Chem.
260:15194-15199 (1985)]. These long half-lives make inhibiting steady-state levels of PKC-~ an unwieldy approach when screening antisense oligonucleotides, due to 35 the long incubation times which would be required. We have therefore made use of the ability of phorbol esters to reversibly lower intracellular levels of PKC. Treatment of W095/02069 ~ PCT~S94107770 cells with phorbol esters causes an initial activation of ~ kinase activity, followed by a down-regulation of PKC. For PKC-~ this down-regulation has been shown to be a direct c consequence of an increased rate of proteolysis of the 5 kinase with no apparent change in synthetic rate.
We determined that in human lung carcinoma (A549) cells, treatment with the phorbol ester 12,13-dibutyrate (PDBu), using a modification of the method of Krug et al., [Krug et al., J. Biol . Chem. 262:11852-11856 (1987)]
10 lowered cellular levels of PKC-~, without affecting PKC-~
mRNA levels, and that this effect was reversible. The basis of the assay to screen for potency of oli~onucleotides targeting PKC-~ is to initially lower PKC-~ protein levels by chronic treatment with PDBu, remove 15 PDBu by extensively washing the cells (hence allowing the cells to synthesize fresh PKC-~ protein), and incubate the cells with oligonucleotides intended to inhibit the resynthesis of new PKC-~ protein.
Procedure: A549 cells (obtained from the American 20 Type Culture Collection, Bethesda MD) were grown to confluence in 6-well plates (Falcon Labware, Lincoln Park, NJ) in Dulbecco's modified Eagle's medium (DME) containing 1 g glucose/liter and 10~ fetal calf serum (FCS, Irvine Scientific, Santa Ana, CA).
Cells were treated with 500 nM PDBu (Sigma Chem.
Co., St. Louis, MO) for 12-16 hours (overnight). Cells were then washed three times in DME at 37C, and 1 ml DMA
containing 20 ~l DOTMA (Lipofectin reagent, BRL, Bethesda, MD) was added. Oligonucleotides were added to a concentration of 1 ~M and the cells were incubated for a further 4 hours at 37C.
Cells were washed once in 3 ml DME containing 0.1 mg/ml BSA and a further 2 ml DME containing 0.1 mg/ml BSA
was added. Oligonucleotides (1 ~M) were added and the cells were incubated at 37C for 24 hours.
Cells were washed three times in phosphate-buffered saline (PBS) and cellular proteins were extracted in 120 ~l W095/02069 PCT~S94/07770 ~6~ 24 _ sample buffer (60 mM Tris pH 6.8, 2~ SDS, lO~ glycerol, lO
mM dithiothreitol) and boiled for 5 minutes. Intracellular levels of PKC-~ protein were determined by immunoblotting.
Example 3 T~--lnohlot asRay for P~C expression:
Cell extracts were electrophoresed on 10~ SDS-PAGE
mini-gels. The resolved proteins were transferred to Immobilon-P membrane (Millipore, Bedford MA) by electrophoretic transfer and the membrane was blocked for 60 minutes in TBS (Tris-HCl pH 7.4, 150 mM NaCl) containing 5~ nonfat milk. The membrane was then incubated for 16 hours at 4C with monoclonal antibodies raised against PKC-(UBI, Lake Placid NY) diluted to 0.2 ~g/ml in TBScontaining 0.2~ nonfat milk. This was followed by three washes in TBS plus 0.2~ nonfat milk. The membrane was then incubated for one hour with 12~I-labelled goat anti-mouse secondary antibody (ICN Radiochemicals, Irvine CA).
Membranes were then washed extensively in TBS plus 0.2~
nonfat milk. Bands were visualized and quantitated using a Phosphorimager (Molecular Dynamics, Sunnyvale, CA). PKC-~
appears as a single band with a molecular weight of 80 kD.
Each oligonucleotide was tested three times, intriplicate, and the results of the experiments were normalized against percentage of protein present as compared to cells which were not treated with oligonucleotide (Figures la and lb). The five most effective oligonucleotides target the AUG start codon and regions slightly upstream and downstream from it (Sequence Nos. 1, 3, 17, 7, 6). The next most effective oligo-nucleotides are targeted toward the 3' untranslated region of the RNA (oligos 2, 5, 14).
WO9S/02~69 ~ f 6~ PCT~S94/07770 Example 4 Other isozymeB o~ PKC:
~Results with oligonucleotides targeting human PKC-~
demonstrated that the most effective target sequences were -those surrounding the translation initiation codon and the 3~ untranslated region. It is believed that these sequences will also be effective targets for oligo-nucleotides directed against other isozymes of PKC.
Antisense oligonucleotides which are likely to be effective inhibitors of PKC are identified below. These oligonucleotides are synthesized as in Example 1, and can be screened as in Examples 2 and 3, using appropriate antibodies where available. Alternatively, a reporter gene assay system can be established, transiently co-expressing the desired isozyme of PKC with luciferase under the influence of the TPA-responsive enhancer or other suitable promoter. PKC expression is then assayed by measuring luciferase activity using standard procedures. Luciferase is extracted from cells by lysis with the detergent Triton X-100, as described by Greenberg, M.E., in Current Protocols in Molecular Biology, (F.M. Ausubel, R. Brent, R.E. Kingston, D.D. Moore, J.A. Smith, J.G. Seidman and K.
Strahl, eds.), John Wiley and Sons, NY (1987). A Dynatech ML1000 luminometer is used to measure peak luminescence upon addition of luciferin (Sigma) to 625 ~M.
PRC-~, typeS I and II
Sequence data are ~rom Kubo et al., FEBS Lett. 223:
138-142 (1987); Genbank accession numbers X06318, M27545, X07109. Sequences are numbered from the first 5' base sequenced on the cDNA. PKC-B types I and II are the result of alternative mRNA splicing of a single gene product.
This results in proteins with identical amino termini (5~
-end of the mRNA); however, there is sequence divergence in the carboxy termini (3' end of the mRNA). The following oligonucleotides, targeted to the translation initiation codon, are expected to modulate expression of both PKC-~types I and II:
W095t02069 PCT~S94/07770 ~6~QS~ - 26 -OLIGONUCLEOTIDES TARGETED TO PRC-g TYPES I AND II
SEQ ID Sequence Target
PKC protein half-lives have been reported to vary from 6.7 hours to over 24 hours [Young et al., Biochem. J.
244 : 775-779 (1987); Ballester et al., J. Biol . Chem.
260:15194-15199 (1985)]. These long half-lives make inhibiting steady-state levels of PKC-~ an unwieldy approach when screening antisense oligonucleotides, due to 35 the long incubation times which would be required. We have therefore made use of the ability of phorbol esters to reversibly lower intracellular levels of PKC. Treatment of W095/02069 ~ PCT~S94107770 cells with phorbol esters causes an initial activation of ~ kinase activity, followed by a down-regulation of PKC. For PKC-~ this down-regulation has been shown to be a direct c consequence of an increased rate of proteolysis of the 5 kinase with no apparent change in synthetic rate.
We determined that in human lung carcinoma (A549) cells, treatment with the phorbol ester 12,13-dibutyrate (PDBu), using a modification of the method of Krug et al., [Krug et al., J. Biol . Chem. 262:11852-11856 (1987)]
10 lowered cellular levels of PKC-~, without affecting PKC-~
mRNA levels, and that this effect was reversible. The basis of the assay to screen for potency of oli~onucleotides targeting PKC-~ is to initially lower PKC-~ protein levels by chronic treatment with PDBu, remove 15 PDBu by extensively washing the cells (hence allowing the cells to synthesize fresh PKC-~ protein), and incubate the cells with oligonucleotides intended to inhibit the resynthesis of new PKC-~ protein.
Procedure: A549 cells (obtained from the American 20 Type Culture Collection, Bethesda MD) were grown to confluence in 6-well plates (Falcon Labware, Lincoln Park, NJ) in Dulbecco's modified Eagle's medium (DME) containing 1 g glucose/liter and 10~ fetal calf serum (FCS, Irvine Scientific, Santa Ana, CA).
Cells were treated with 500 nM PDBu (Sigma Chem.
Co., St. Louis, MO) for 12-16 hours (overnight). Cells were then washed three times in DME at 37C, and 1 ml DMA
containing 20 ~l DOTMA (Lipofectin reagent, BRL, Bethesda, MD) was added. Oligonucleotides were added to a concentration of 1 ~M and the cells were incubated for a further 4 hours at 37C.
Cells were washed once in 3 ml DME containing 0.1 mg/ml BSA and a further 2 ml DME containing 0.1 mg/ml BSA
was added. Oligonucleotides (1 ~M) were added and the cells were incubated at 37C for 24 hours.
Cells were washed three times in phosphate-buffered saline (PBS) and cellular proteins were extracted in 120 ~l W095/02069 PCT~S94/07770 ~6~ 24 _ sample buffer (60 mM Tris pH 6.8, 2~ SDS, lO~ glycerol, lO
mM dithiothreitol) and boiled for 5 minutes. Intracellular levels of PKC-~ protein were determined by immunoblotting.
Example 3 T~--lnohlot asRay for P~C expression:
Cell extracts were electrophoresed on 10~ SDS-PAGE
mini-gels. The resolved proteins were transferred to Immobilon-P membrane (Millipore, Bedford MA) by electrophoretic transfer and the membrane was blocked for 60 minutes in TBS (Tris-HCl pH 7.4, 150 mM NaCl) containing 5~ nonfat milk. The membrane was then incubated for 16 hours at 4C with monoclonal antibodies raised against PKC-(UBI, Lake Placid NY) diluted to 0.2 ~g/ml in TBScontaining 0.2~ nonfat milk. This was followed by three washes in TBS plus 0.2~ nonfat milk. The membrane was then incubated for one hour with 12~I-labelled goat anti-mouse secondary antibody (ICN Radiochemicals, Irvine CA).
Membranes were then washed extensively in TBS plus 0.2~
nonfat milk. Bands were visualized and quantitated using a Phosphorimager (Molecular Dynamics, Sunnyvale, CA). PKC-~
appears as a single band with a molecular weight of 80 kD.
Each oligonucleotide was tested three times, intriplicate, and the results of the experiments were normalized against percentage of protein present as compared to cells which were not treated with oligonucleotide (Figures la and lb). The five most effective oligonucleotides target the AUG start codon and regions slightly upstream and downstream from it (Sequence Nos. 1, 3, 17, 7, 6). The next most effective oligo-nucleotides are targeted toward the 3' untranslated region of the RNA (oligos 2, 5, 14).
WO9S/02~69 ~ f 6~ PCT~S94/07770 Example 4 Other isozymeB o~ PKC:
~Results with oligonucleotides targeting human PKC-~
demonstrated that the most effective target sequences were -those surrounding the translation initiation codon and the 3~ untranslated region. It is believed that these sequences will also be effective targets for oligo-nucleotides directed against other isozymes of PKC.
Antisense oligonucleotides which are likely to be effective inhibitors of PKC are identified below. These oligonucleotides are synthesized as in Example 1, and can be screened as in Examples 2 and 3, using appropriate antibodies where available. Alternatively, a reporter gene assay system can be established, transiently co-expressing the desired isozyme of PKC with luciferase under the influence of the TPA-responsive enhancer or other suitable promoter. PKC expression is then assayed by measuring luciferase activity using standard procedures. Luciferase is extracted from cells by lysis with the detergent Triton X-100, as described by Greenberg, M.E., in Current Protocols in Molecular Biology, (F.M. Ausubel, R. Brent, R.E. Kingston, D.D. Moore, J.A. Smith, J.G. Seidman and K.
Strahl, eds.), John Wiley and Sons, NY (1987). A Dynatech ML1000 luminometer is used to measure peak luminescence upon addition of luciferin (Sigma) to 625 ~M.
PRC-~, typeS I and II
Sequence data are ~rom Kubo et al., FEBS Lett. 223:
138-142 (1987); Genbank accession numbers X06318, M27545, X07109. Sequences are numbered from the first 5' base sequenced on the cDNA. PKC-B types I and II are the result of alternative mRNA splicing of a single gene product.
This results in proteins with identical amino termini (5~
-end of the mRNA); however, there is sequence divergence in the carboxy termini (3' end of the mRNA). The following oligonucleotides, targeted to the translation initiation codon, are expected to modulate expression of both PKC-~types I and II:
W095t02069 PCT~S94/07770 ~6~QS~ - 26 -OLIGONUCLEOTIDES TARGETED TO PRC-g TYPES I AND II
SEQ ID Sequence Target
21 CAT CTT GCG CGC GGG GAG CC Translation init.
22 TGC GCG CGG GGA GCC GGA GC " "
23 CGA GAG GTG CCG GCC CCG GG " "
10 24 CTC TCC TCG CCC TCG CTC GG "
The following antisense oligonucleotides are targeted to the 3~-untranslated region of PKC-$ type I:
OLIGONUCLEOTIDES TARGETED TO PRC-g TYPE I
SEQ.ID Sequence Target TGG AGT TTG CAT TCA CCT AC 3' Untranslated 26 A~A GGC CTC TAA GAC AAG CT " "
27 GCC AGC ATG TGC ACC GTG AA " "
28 ACA CCC CAG GCT CAA CGA TG " "
25 29 CCG AAG CTT ACT CAC AAT TT " "
The following antisense oligonucleotides are targeted to the 3'-untranslated region of PKC-~ Type II:
WO95/020G9 21 ~ PCT~S94/07770 OLIGONUCLEOTIDES TARGETED TO P~C-$ TYPE II
SEQ. ID Sequence Target ACT TAG CTC TTG ACT TCG GG 3' Untranslated 31 ATG CTG CGG AAA ATA AAT TG "
32 ATT TTA TTT TGA GCA TGT TC " "
10 33 TTT GGG GAT GAG GGT GAG CA "
34 CCC ATT CCC ACA GGC CTG AG "
PRC-~:
Sequence data are from Coussens et al., Science 233:859-866 (1986); Genbank accession number M13977.
Sequences are numbered from the first 5' base sequenced in the cDNA. The full sequence is not available: the extreme 3~ end of the open reading frame and the 3' untranslated region are missing. Consequently these regions are not presently available as antisense targets.
OLIGONUCLEOTIDES TARGETED TO P~C-~
SEQ.:ID Sequence Target 25 35 CGG AGC GCG CCA GGC AGG GA 5' Untranslated 36 CCT TTT CCC AGA CCA GCC AT Translation init.
37 GGC CCC AGA AAC GTA GCA GG 5' of start codon 38 GGA TCC TGC CTT TCT TGG GG 5' Untranslated 39 CAG CCA TGG CCC CAG AAA CG Translation init.
W095/02069 PCT~S9~/07770 ~6~5~ 28 -P~CC- 77 Sequence data for PKC-~ are from Bacher and colleagues [Bacher et al., Mol . Cell . Biol . 11:126-133 tl991)]i Genbank accession number M55284. They assign their isozyme the name PKC-L; however the sequence is almost identical to that of mouse PKC-~, so the latter nomenclature is used here for consistency. Sequences are numbered from the first 5' base sequenced in the cDNA.
OLIGONUCLEOTIDES TARGETED TO P~C-~
SEQ.ID Sequence Target CGA CAT GCC GGC GCC GCT GC Translation init.
41 CAG ACG ACA TGC CGG CGC CG " "
42 GCC TGC TTC GCA GCG GGA GA " ~' 43 ACA GGT GCA GGA GTC GAG GC " "
20 44 GTC CCG TCT CAG GCC AGC CC " "
CCT CAC CGA TGC GGA CCC TC " "
46 ATT GAA CTT CAT GGT GCC AG "
47 TCT CAC TCC CCA TAA GGC TA 3' Untranslated 48 TTC CTT TGG GTT CTC GTG CC " "
30 49 TTC CAT CCT TCG ACA GAG TT " "
AGG CTG ATG CTG GGA AGG TC " "
51 GTT CTA AGG CTG ATG CTG GG " "
W095/02069 ~J 6 ~ ~ ~ & PCT~S94/07770 Example 5 Dose response of phosphorothioate/2r-O-methyl oligonucleotide effects on PKC-~ protein synthesis:
A series of phosphorothioate, fully 2'-O-methyl oligonucleotides having SEQ ID NO: 1, 2, 3 and 5 were synthesized. A549 cells were treated with 500 nM PDBu for 18 hours to downregulate PKC-~ synthesis, washed to remove PDBu and then treated with oligonucleotide and DOTMA/DOPE
cationic liposomes. Medium was replaced after four hours and the cells were allowed to recover for another 20 hours.
Proteins were extracted and PKC-~ protein levels were determined by immunoblotting as described in Example 3.
Results were quantified with a phosphorimager (Molecular Dynamics, Sunnyvale CA) and are shown in Figure 2 expressed as percent of control (saline treatment). ISIS 4649 (SEQ ID
NO: 3; squares) reduced PKC-~ protein levels by 85-90~ at 500 nM and had an IC50 of approximately 260 nM.
Example 6 Effect of antisense oligonucleotides on PKC-~mRNA levels:
A549 cells were treated with phosphorothioate oligonucleotides at 500 nM for four hours in the presence of the cationic lipids DOTMA/DOPE, washed and allowed to recover for an additional 20 hours. Total RNA was extracted and 20~g of each was resolved on 1.2~ gels and transferred to nylon membranes. These blots were probed with a 32p radiolabeled PKC-~ cDNA probe and then stripped and reprobed with a radiolabeled G3PDH probe to confirm equal RNA loading. Each oligonucleotide ~3520, 3521, 3522 and 3527) was used in duplicate. The two major PKC-~transcripts (8.5 kb and 4.0 kb) were examined and quantified with a PhosphorImager (Molecular Dynamics, Sunnyvale CA). Results are shown in Figure 3.
Oligonucleotides 3521 (SEQ ID NO: 2), 3522 (SEQ ID NO: 3) and 3527 (SEQ ID NO: 5) gave better than 50~ reduction of PKC-~ mRNA levels. Oligonucleotides 3521 and 3527 gave approximately 80~ reduction of the smaller transcript and over 90~ reduction of the larger transcript.
W095/02069 PCT~S94/07770 ~ 30 -Example 7 ~h;meric (deoxy gapped) 2'-O-methyl oligonucleotides:
Oligonucleotides 3521 (SEQ ID NO: 2), 3522 (SEQ
ID NO: 3) and 3527 (SEQ ID NO: 5) were chosen for further study and modification. Oligonucleotides having these se~uences were synthesized as uniformly phosphorothioate chimeric oligonucleotides having a centered deoxy gap of various lengths flanked by 2'-O-methylated regions. These oligonucleotides (500 nM concentration) were tested for effects on PKC-~ mRNA levels by Northern blot analysis.
~esults are shown in Figure 4. Deoxy gaps of eight nucleotides or more gave maximal reduction of PKC-~ mRNA
levels (both transcripts) in all cases. The oligo-nucleotide having SEQ ID NO: 3 reduced PKC-~ mRNA by approximately 83~ with a deoxy gap length of four nucleotides, and gave nearly complete reduction of PKC-~mRNA with a deoxy gap length of six or more.
Dose-response curves for these oligonucleotides are shown in Figure 5. The 2'-O-methyl ~h;meric oligonucleotides with four- or six-nucleotide deoxy gaps have an IC50 for PKC-~ mRNA reduction (concentration of oligonucleotide needed to give a 50~ reduction in PKC-~mRNA levels) of 200-250 nM, as did the full-deoxy oligonucleotide (all are phosphorothioates throughout). The 2'-O-methyl chimeric oligonucleotide with an 8-nucleotide deoxy gap had an IC50 of approximately 85 nM.
Several variations of this chimeric oligonucleotide (SEQ. ID N0: 3) were compared for a~ility to lower PK~-~ mRNA levels. These oligonucleotides are shown in Table 7.
W095/02069 ~l ~ 6 B ~ 8 PCT~S94/07770 Table 7 Chimeric 2'-O-methyl/deoxy P=S oligonucleotides ~old= 2'-O-methyl; s= P=S linkage, o= P=O linkage OLIGO ~ SEQUENCE SEQ ID NO:
5 3522 AsAsAsAsCsGsTsCsAsGsCsCsAsTsGsGsTsCsCsC 3 5352 A~A~AR~CsGsTsCsAsGsCsCsAsTsGsGsTsCsCsC 3 6996 Ao~oAnAoCoGsTsCSASGSCSCSASTSGOGOTOCOCoC 3 7008 A~AovAoAoCoGsTsCsAsGsCsCsAsTsGoGoToCoCsC 3 7024 AR~oAoAocoGsTocsAoGscocsAsTsGoGoTococsc 3 Effects of these oligonucleotides on PKC-~ mRNA levels is shown in Figure 6. Oligonucleotides 7008, 3522 and 5352 show reduction of PKC-~ mRNA, with 5352 being most active.
A series of 2'-O-propyl chimeric oligonucleotides was synthesized having SEQ ID NO: 3. These oligonucleotides are shown in Table 8.
Table 8 Chimeric 2'-O-propyl/deoxy P=S oligonucleotides bold= 2'-0-propyl; s= P=S linkage, o= P=O linkage OLIGO ~ SEQUENCE SEQ ID NO:
7199 A~A~A~A~CsGsTsCsAsGsCsCsAsTsGsGsTsCsCsC 3 7273 AoAoAoAocoGsTscsAsGscscsAsTsGoGoTocococ 3 7294 A~AoAoAoCoGsTsCsAsGsCsCsAsTsGoGoToCoCsC 3 7295 A~Ao~QAoCoGsToCsAoGsCoCsAsTsGoGoToCoCsC 3 These 2'-O-propyl chimeric oligonucleotides were compared to the 2'-O-methyl chimeric oligonucleotides.
Oligonucleotides 7273 and 7294 were more active than their 2'-O-methyl counterparts at lowering PKC-~ mRNA levels.
This is shown in Figures 7 and 8.
~ Example 8 Additional oligonucleotides which decrease PKC-~ mRNA:
Additional phosphorothioate oligonucleotides targeted to the human PKC-~ 3' untranslated region were W095/02069 PCT~S94/07770 6~
designed and synthesized. These sequences are shown in Table 9.
Table 9 ~h;m~ric 2'-O-propyl/deoxy P=S oligonucleotides targeted to PKC-~ 3'-UTR
bold= 2'-O-propyl; s= P=S linkage, o= P=O linkage OLIGO # SEQUENCE SEQ ID NO:
6632 TsTsCs TsCsGs CsTsGs GsTsGs AsGsTs TsTsC 52 6653 TsTsCs TsCsGs CsTsGs GsTsGs AsGsTQ TsTsC 52 6665 ToToCo TsCsGs CsTsGs GsTsGs AsGsTo ToToC 52 7082 TsCsTs CsGsCs TsGsGs TsGsAs GsTsTs TsC 53 7083 TsCsTs CsGsCs TsGsGs TsGsAs GsTsTs TsC 53 7084 ToCoTo CsGsCs TsGsGs TsGsAs GsToTo ToC 53 As shown in Figure 9, oligonucleotides 6632, 6653, 7082 and 7083 are most active in reducing PKC-~ mRNA levels.
Example 9 Culture of human A549 lung tumor cells:
The human lung carcinoma cell line A549 was obtained from the American Type Culture Collection (Bethesda MD). Cells were grown in Dulbecco's Modified Eagle's Medium (Irvine Scientific, Irvine CA) containing 1 gm glucose/liter and 10~ fetal calf serum (Irvine Scientific). Cells were trypsinized and washed and resuspended in the same medium for introduction into mice.
Example 10 Effect of ISIS 3521 on the growth of h.lm~n A549 tumor cells in nude mice:
200 ~l of A549 cells (5 x 106 cells) were implanted subcutaneously in the inner thigh of nude mice.
ISIS 3521, a phosphorothioate oligonucleotide with Sequence ID NO 2 was administered twice weekly for four weeks, beginning one week following tumor cell inoculation.
Oligonucleotides were formulated with cationic lipids (DMRIE/DOPE) and given subcutaneously in the vicinity of the tumor. Oligonucleotide dosage was 5 mg/kg with 60 mg/kg cationic lipid. Tumor size was recorded weekly.
W095/02~69 ~ b ~ PCT~S94/07770 As shown in Figure 10, tumor growth was almost completely inhibited in two of the three mice, and reduced compared to control in the third mouse. This inhibition of ~ tumor growth by ISIS 3521 is statistically significant. The S control oligonucleotide tISIS 1082) is a 21-mer phosphorothioate oligonucleotide without significant sequence homology to the PKC mRNA target.
A~m; nl stration of oligonucleotides to mice whose tumors had already reached detectable size had no discernable effect on subsequent tumor growth.
Exanple 11 Effect of antisense oligonucleotides on growth of h~ n MDA-MB2 31 tumors in nude mice:
MDA-MB231 human breast carcinoma cells were obtained from the American Type Culture Collection (Be~hesda, MD). Serially transplanted MDA-MB231 tumors were established subcutaneously in nude mice. Beginning two weeks later, oligonucleotides 3521 and 3527, a phosphorothioate oligonucleotide having Sequence ID NO. 5, in saline, were administered intravenously daily for 14 days at dosages of 60 mg/kg and 6 mg/kg. Control oligonucleotide ISIS 1082 was also administered at these doses, and a saline control was also given. Tumor growth rates wre monitored for the two-week period of oliyonucleotide administration. As shown in Figure 11, both PKC-~ oligonucleotides (3521 and 3527) significantly inhibit tumor growth at dosages of 60 mg/kg and 6 mg/kg.
The control oligonucleotide (ISIS 1082) also showed some reduction in tumor growth, but this effect was less than with antisense oligonucleotides even at high doses, and considerably less at the lower dose. A lower-dose study was conducted using the same oligonucleotides at 6 mg/kg and 0.6 mg/kg. At 0.6 mg/kg ISIS 3521 significantly reduced tumor growth. At this concentration, ISIS 3527 also reduced tumor growth, but this result was not statistically -significant.
W095/02069 PCT~S94/07770 Example 12 Effect of oligonucleotides on the growth of murine Lewis lung carcinoma in mice:
Serially transplanted murine Lewis lung carcinomas were established in mice. Oligonucleotides 3521 and 3527 were administered intravenously every day for 14 days at doses of 6 mg/kg and 0.6 mg/kg. Tumor growth rates were monitored for the two-week period of oligonucleotide administration. As expected, these oligonucleotides, which are targeted to human PKC sequences, had insignificant effects on the mouse-derived tumors.
Example 13 Effects of antisense oligonucleotide ISIS
4189 on endogenous PKC-~ expression in hairless mice:
In order to study oligonucleotide effects on endogenous PKC mRNA levels in normal animals, it was necessary to employ an oligonucleotide complementary to the murine PKC-~. ISIS 4189 is a 20-mer phosphorothioate oligonucleotide targeted to the AUG codon of mouse PKC-~.
This region is without homology to the human PKC sequence and the oligonucleotide has no effect on expression of PKC-~ in human cells. ISIS 4189 has an IC50 of 200 nM for mRNAreduction in C127 mouse breast epithelial cells. ISIS 4189 in saline was administered intraperitoneally to hairless mice at concentrations of 1, 10 or 100 mg/kg body weight.
Injections were given daily for seven days. Tissues from liver, kidney, spleen, lung and skin were removed and PKC-~mRNA and protein levels were determined. Histopathological ~m;n~tion was also performed on liver, kidney and lung samples. ISIS 4189 at 100 mg/kg inhibited endogenous PKC-~mRNA levels in the mouse liver to 10-15~ of control ~saline) levels.
Example 14 Screening of antisense oligonucleotides complementary to human PRC-~:
A series of 20-mer phosphorothioate oligonucleotides complementary to human PKC-~ were synthesized. These oligonucleotides were screened at a WO9~/02~69 ~ Q S 8 PCT~S94/07770 concentration of 500 nM for ability to decrease PKC-~ mRNA
levels in human A549 cells, using a Northern blot assay.
The oligonucleotide sequences are shown in Table 10 and the results are shown in Figure 12.
OLIGONUCLEOTIDES TARGETED TO HUMAN PKC-~ mRNA
ISIS# Sequence Target SEQ ID
NO:
6443 GCC TGC TTC GCA GCG GGA GA 5' UTR 42 6432 ACA GGT GCA GGA GTC GAG GC 5' UTR 43 6433 GTC CCG TCT CAG GCC AGC CC5' UTR 44 6435 CCT CAC CGA TGC GGA CCC TC Coding 45 6441 ATT GAA CTT CAT GGT GCC AG Coding 46 6581 TCT CAC TCC CCA TAA GGC TA 3' UTR 47 6580 TTC CTT TGG GTT CTC GTG CC 3' UTR 48 6436 AAC TCG AGG TGG CCG CCG TC Coding 54 6439 CGC CTT CGC ATA GCC CTT TG Coding 55 6444 GGA AGG GGT GAT TGC GGG CC Coding 56 6445 AAC ACG CCC ATT GCC CAC CA Coding 57 6446 GTC TCA AGA TGG CGT GCT CG Coding 58 6553 GCG ATG GTT CAG CTG GGC CC Coding 59 6605 GCC CTC TCT CTC ACT CCC CA 3' UTR 60 657g CTG GGA AGG TCC GAT AGA GG 3' UTR 61 6603 AAG GCT GAT GCT GGG AAG GT 3' UTR 62 Oligonucleotides 6432, 6443, 6431, 6442, 6435, 6434, 6445, 6553, 6581 and 6603 reduced PKC-~ mRNA levels by ~ greater than 50~. The most potent oligonucleotides were ISIS 6581 (targeting 3' untranslated region) and ISIS 6445 (targeting coding region) which gave nearly complete loss of PKC mRNA in this assay.
W095/02069 PCT~S94/07770 2~
Example 15 Screening of antisense oligonucleotides complementary to human PKC-~: ~
A series of 20-mer phosphorothioate oligonucleotides complementary to human PKC-~ were synthesized as described in Example 1. The source of the target sequence was Genbank locus HSPKCZ, accession number Z15108 (Hug, H.). These oligonucleotides were screened at a concentration of 500 nM
for ability to decrease PKC-~ mRNA levels in human A549 cells, substantially as described in Example 6 using a Northern blot assay. The oligonucleotide sequences and results of the screen are shown in Table 11.
Table 11 INHIBITION OF mRNA EXPRESSION IN HUMAN A549 CELLS
USING ANTISENSE OLIGONUCLEOTIDES COMPLEMENTARY TO PKC-Z
Oligo ~ Sequence Target region %Inhib. Seq.ID
9008 CCCCGTAATGCGCCTTGAGG Coding 68 64 9009 CTGTCCACCCACTTGAGGGT Coding 19 65 9010 GCTTCCTCCATCTTCTGGCT Coding 35 66 9011 CGGTACAGCTTCCTCCATCT Coding 58 67 9012 TTGGAAGAGGTGGCCGTTGG Coding 80 68 9013 CCTGTTAAAGCGCTTGGCTT Coding 71 69 9014 TGCAGGTCAGCGGGACGAGG Coding 41 70 9015 GCTCTTGGGAAGGCATGACA Coding 59 71 9016 TTCTTCAACCGCACCAGGAG Coding 0 72 9017 TTCTTCAACCGCACCAGGAG Coding 73 73 9018 CTCTGCCTCTGCATGTGGAA Coding 63 74 9019 TCCTTGCACATGCCGTAGTC Coding 31 75 9020 TCCACGCTGAACCCGTACTC Coding 80 76 9021 GGAGCGCCCGGCCATCATCT Coding 81 77 9022 GGGCTCGCTGGTGAACTGTG Coding 83 78 9023 GACGCACGCGGCCTCACACC Stop 82 79 9024 GGGTCAATCACGCGTGTCCA 3' UTR 70 80 9025 TCGGAGCCGTGCCCAGCCTG 3' UTR 82 81 9026 CGGGCCAGGTGTGAGGGACT 3' UTR 40 82 9027 CCGCGACGCAGGCACAGCAG 3' UTR 38 83 9028 TGGA~ACCGCATGACAGCCC 3' UTR 54 84 9029 GGTCAGTGCATCGAGTTCTG 3' UTR 79 85 W095/02069 2 i ~ g ~ g PCT~S94/07770 In this experiment, oligonucleotides 9007, 9008, 9011, 9012, 9013, 9015, 9017, 9018, 9020, 9021, 9022, 9023, 9024, 9025, 9028 and 9029 showed at least 50~ inhibition of mRNA
levels and are presently preferred.
Example 16 Screening of antisense oligonucleotides complementary to l ~n PRC- c:
A series of 20-mer phosphorothioate oligonucleotides complementary to human PKC-~ were synthesized as described in Example 1. The source of the target sequence was Genbank locus HSPKCE, accession number X65293 (Burns et al.). These oligonucleotides were screened at a concentration of 500 nM
for ability to decrease PKC-~ mRNA levels in htlm~n A549 cells, substantially as described in Example 6 using a Northern blot assay. The oligonucleotide sequences and5 results of the screen are shown in Table 12.
Table 12 I~HIBITION OF mRNA EXPRESSION IN HUMAN A549 CELLS USING
ANTISENSE OLIGONUCLEOTIDES COMPLEMENTARY TO PRC-E MRNA
Oligo # Sequence Target region %Inhib Seq.ID
7934 GTCCCACCGCATGGCGCAGC Coding 0 87 7935 GTTTGGCCGATGCGCGAGTC Coding 0 88 7936 TGCAGTTGGCCACGAAGTCG Coding 0 89 8032 GTGGGGCATGTTGACGCTGA Coding 0 go 8031 C QGAGCAGGGACCCACAGT Coding 0 91 7939 TCTCCTCGGTTGTCAAATGA Coding 0 92 7940 CGGTGCTCCTCTCCTCGGTT Coding 0 93 7941 AGCCAAAATCCTCTTCTCTG Coding o 94 7942 QTGAGGGCCGATGTGACCT Coding 62 95 7943 ATCCCTTCCTTGCACATCCC Coding 4 96 7944 CCCCAGGGCCCACCAGTCCA Coding 42 97 7945 AG QCCCC QGGGCCCACCA Coding 56 98 7946 CGTACAT QGCACCCCCAGG Coding 55 99 7947 C QGCCATCATCTCGTACAT Coding 15 100 7948 TGC QCACAGCCCAGGCGCA Coding 55 101 7949 TCAGGGCATCAGGTCTTCAC Stop 0 102 7950 CTCTCAGGGCATCAGGTCTT Stop 0 103 W095/02069 ~ 5g PCT~S94/07770 In ~h~g experiment, oligonucleotides 7942, 7944, 7945, 7946 and 7948 showed at least 40~ inhibition of mRNA levels and are presently preferred.
Example 17 DNA sequencing of the 3' untranslated region of human PKC~
A549 cells (obtained from the American Type Culture Collection, Bethesda MD) were grown to confluence in 6-well plates tFalcon Labware, Lincoln Park, NJ) in Dulbecco's modified Eagle's medium (DME) containing 1 g glucose/liter and 10~ fetal calf serum (FCS, Irvine Scientific, Santa Ana, CA). Cells were harvested and total RNA was isolated using standard methods. Sambrook, J., Fritsch, E., and T.
Maniatis (1989). Molecular Cloning: a laboratory manual.
Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y., Ch. 7).
cDNA was made from the RNA using the 3' RACE
technique of Frohman et al. [Frohman, M.A., Dush, M.K. and G.R. Martin (1988) Proc. Natl. Acad. Sci. U.S.A. 85:8998-9002] and the 3' RACE kit from Gibco/BRL (Bethesda, MD).
For making the first strand of cDNA, an oligo dT primer was used. For subsequent amplification from the site of the poly(A) tail, the oligonucleotide provided in the kit or an identical oligonucleotide (ISIS 5586; SEQ ID NO: 107: 5'-GGCCACGCGTCGACTAGTA~ -3'). For amplification from the interior of the known sequence, ISIS
6288 was used (SEQ ID NO: 108: 5'-GGGGTAGAATGCGGCGGCAGTATGAAACTCACCAGCG-3'). The DNA
resulting from the PCR reaction was gel-purified, digested with Sal I and Bcl I, and then cloned into the Bluescript plasmid (Stratagene, La Jolla, CA) using standard techniques (Sambrook et al., 1989). The cloned DNA was sequenced using a Sequenase Kit from USB.
The new sequence obtained, from the Bcl I site near the 3' end of the previously known sequence (GenBank accession number x52479) to the most frequently obtained site of polyadenylation is shown as nucleotides 56-1136 in W095/02069 ~1 ~ 6 ~ PCT~S94/07770 Figure 13. This site is believed to be the 3' end of the short (4kb) PKC~ message.
To extend this sequence and hence obtain sequences specific for the long PKC~ message (8.5 kb), the technique of Inverse PCR was performed. Ochman, H., Gerber, A.S. and D.L. Hartl (1988) Genetics 120:621-623. This technique was perormed three times using a three sets of primers and restriction enzymes. Each round resulted in about 200 bases of new sequencei the total of the new sequence (SEQ
ID NO: 104) is shown in bold type (nucleotides 1137-1812) in Figure 13. This sequence is shown extending in the 3' direction beginning at the Bcl I site (TGATCA) near the end of ~he previously published PKC~ cDNA sequence.
Fin]~enzeller et al., Nucl . Acids Res. 18:2183 (1990);
Genbank accession number X52479. Newly determined sequences begin at nucleotide 56 and are underlined (SEQ ID NO:105).
The most common site of polyadenylation, believed to be the 3' end of the short (4 kb) mRNA transcript, is at nucleotide 1136. Sequences downstream from this site, and the:refore unique to the long message, are in bold (SEQ ID
NO:106).
Exa~ple 18 Antisen~e oligonucleotides targeted to novel sequences in the 3' UTR of P~C~
A series of phosphorothioate antisense oligonucleotides, complementary to the novel sequence obtained as described in Example 17, were designed and synthesized. These oligonucleotides were screened on the basis of their ability to cause the reduction or elimination of PKC~ RNA in A549 cells 24 hours after the start of treatment. A549 cells were treated with phosphorothioate oligonucleotides at 500 nM for four hours in the presence of the cationic lipids DOTMA/DOPE, washed and allowed to recover for an additional 20 hours. Total RN~ was extracted and 20~g of each was resolved on 1.2~
gels and transferred to nylon membranes. These blots were probed with a 32p radiolabeled PKC-~ cDNA probe and then W095/02069 PCT~S94/07770 stripped and reprobed with a radiolabeled G3PDH probe to confirm equal RNA loading. The two major PKC-~ transcripts (8.5 kb and 4.0 kb) were Px~m;ned and quantified with a PhosphorImager (Molecular Dynamics, Sunnyvale CA). The oligonucleotides and their activities are shown in Table 13.
Table 13 Inhibition of PKC~ mRNA (both long and short) by phosphorothioate antisense oligonucleotides (500 nM) Expressed as percent of control mRNA level ISIS# Sequence Activity ~get region SEQ
ID NO:
7416 CAGTGCCCATGTGCAGGGAG 100~ PKC~ long mRNA 109 7417 AGAACCTGCACAAATAGAGC 100~ PKC~ long mRNA 110 7418 AGAAACAAGAACCTGCACAA 100~ PKC~ long mRNA 111 7419 GCAAGGGATTCAGCTAAAAC 100~ PKC~ long mRNA 112 7420 AGGGAGGGAAAGCACAGAAG 100~ PKC~ long mRNA 113 7902 AGGGAGGGAAAGCACAGAAG 90~ PKC~ long mRNA 113 7907 TCAGCTCAAAAATAGTCCTC 85~ PKC~ long mRNA 114 7908 CGAAAGGTGACATGAAGA~A 100~ PKC~ long mRNA 115 7909 GGCGGAGGAACCAGGACGAA 90~ PKC~ long mRNA 116 7911 GCAATGCCACGTGTGTACCA 50~ PKC~ long mRNA 117 7912 TGCAAAACGTATTAAAATCC 100~ PKC~ short mRNA 118 7913 TTATAAACATGCAAAATTCA 100~ PKC~ short mRNA 119 ISIS 7911 (SEQ ID NO: 117) reduced PKC~ mRNA levels (both long and short messages) in this preliminary experiment by 50~ compared to control. This oligonucleotide is therefore preferred. Further analysis demonstrated that ISIS 7911 selectively reduced the amount of long (8.5 kb) message during the first six hours of treatment, with a fourfold selectivity at 3 hours post-treatment. By 12 hours after treatment with ISIS 7911, levels of both messages were reduced by over 80~. Time-course data are shown in Figure 14.
W095/02069 ~ PCT~S94/07770 SEQUENCE LISTING
(1) GENERAL INFORMATION:
(i) APPLICANT: Nicholas Dean, C. Frank Bennett and Russell T.
Boggs (ii) TITLE OF INVENTION: Oligonucleotide Modulation of Protein Kinase C
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(2) INFORMATION FOR SEQ ID NO: 88:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 88:
(2) INFORMATION FOR SEQ ID NO: 89:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 89:
SUBSTITUTE SltEET (RUI E 26) W095/02069 2 ~ ~ ~ Q ~ PCT~Sg4l07770 (2) INFORMATION FOR SEQ ID NO: 90:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 90:
(2) INFORMATION FOR SEQ ID NO: 91:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 91:
(2) INFORMATION FOR SEQ ID NO: 92:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear ~ (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 92:
(2) INFORMATION FOR SEQ ID NO: 93:
SU~ITUTE Sl IE~T (RULE 26) W095/02069 PCT~S94/07770 (i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear ~iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 93:
(2) INFORMATION FOR SEQ ID NO: 94:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 94:
(2) INFORMATION FOR SEQ ID NO: 95:
(i) SEQUENCE CHARACTERISTICS:
(A) ~ENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) S_QUENCE DESCRIPTION: SEQ ID NO: 95:
(2) INFOR~L~TION FOR SEQ ID NO: 96:
(i) S-QUENCE CHARACTERISTICS:
SllBSrlTUTE SHEET (RULE 26) W095/02069 ~ 8 PCT~S94/07770 (A) LENGTH: 20 (B) TYPE: nucleic acid (C) .CTRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 96:
(2) INFORMATION FOR SEQ ID NO: 97:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 97:
(2) INFORMATION FOR SEQ ID NO: 98:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-CENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 98:
(2) INFORMATICN FOR SEQ ID NO: 99:
(i) SEQUENCE CHARACTERISTICS:
(A) T - NGTH: 20 SU~ITUTE SHEET (RULE 26) W095/02069 PCT~S94/07770 7a _ (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 99:
(2) INFORMATION FOR SEQ ID NO: 100:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 100:
(2) INFORMATION FOR SEQ ID NO: 101:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 101:
(2) INFORMATION FOR SEQ ID NO: 102:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid SUBSTITUTE ~tEET (RUI E 26) W095/02069 216~ 8 PCT~S94/07770 (C) STRANDEDNESS: single ~D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 102:
(2) INFORMATION FOR SEQ ID NO: 103:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 103:
(2) INFORMATION FOR SEQ ID NO:104:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 1812 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: double (D) TOPOLOGY: linear (ii) MOLECULE TYPE: DNA (genomic) (xi) SEQUENCE DESCRIPTION: SEQ ID NO:104:
TGATCAACTG TTCAGGGTCT CTCTCTTACA ACCAAGAACA TTATCTTAGT GGAAGATGGT
ACGTCATGCT CAGTGTCCAG TTTAATTCTG TAGAAGTTAC GTCTGGCTCT AGGTTAACCC
TTCCTAGAAA GCAAGCAGAC TGTTGCCCCA TTTTGGGTAC AATTTGATAT ACTTTCCATA
SU~STITUTE SHEEr (RU~E 26) W095/02069 . ~ PCT~S94/07770 ~6~ 76 -CCCTCCATCT GTGGATTTTT CAGCATTGGA ATCCCCCAAC CAGAGATGTT AAAGTGAGCT
GTCCCAGGAA ACATCTCCAC CCAAGACGTC TTTGGAATCC AAGAACAGGA AGCCAAGAGA
GTGAGCAGGG AGGGATTGGG GGTGGGGGGA GGCCTCAAAA TACCGACTGC GTCCATTCTC
TGCCTCCATG GAAACAGCCC CTAGAATCTG AAAGGCCGGG ATAAACCTAA TCACTGTTCC
CAAACATTGA CAAATCCTAA CCCAACCATG GTCCAGCAGT TACCAGTTTA AACAAAAAAA
ACCTCAGATG AGTGTTGGGT GAATCTGTCA TCTGGTACCC TCCTTGGTTG ATAACTGTCT
TGATACTTTT CATTCTTTGT AAGAGGCCAA ATCGTCTAAG GACGTTGCTG AACAAGCGTG
TGAAATCATT TCAGATCAAG GATAAGCCAG TGTGTACATA TGTTCATTTT AATCTCTGGG
AGATTATTTT TCCATCCAGG GTGCCATCAG TAATCATGCC ACTACTCACC AGTGTTGTTC
GCCAACACCC ACCCCCACAC ACACCAACAT TTTGCTGCCT ACCTTGTTAT CCTTCTCAAG
AAGCTGAAGT GTACGCCCTC TCCCCTTTTG TGCTTATTTA TTTAATAGGC TGCAGTGTCG
CTTATGAAAG TACGATGTAC AGTAACTTAA TGGAAGTGCT GACTCTAGCA TCAGCCTCTA
CCGATTGATT TTCCTCCCTT CTCTAGCCCT GGATGTCCAC TTAGGGATAA AAAGAATATG
GTTTTGGTTC CCATTTCTAG TTCACGTTGA ATGACAGGCC TGGAGCTGTA GAATCAGGAA
WO9~1020'69 PCT~S94/07770 ACCCGGATGC CTAACAGCTC AAAGATGTTT TGTTAATAGA AGGATTTTAA TACGTTTTGC
AAATGCATCA TGCAATGAAT TTTGCATGTT TATAATAAAC CTTAATAACA AGTGAATAGA
AGGATTTTAA TAC~llll'GC AAATGCATCA TGCAATGAAT TTTGCATGTT TATAATAAAC
CTTAATA~CA AGTGAATCTA TATTATTGAT ATAATCGTAT CAAGTATAAA GAGAGTATTA
TAATAAT~TT ATAAGACACA ATTGTGCTCT ATTTGTGCAG GTTCTTGTTT CTAATCCTCT
TTTCTAATTA AGTTTTAGCT GAATCCCTTG CTTCTGTGCT TTCCCTCCCT GCACATGGGC
ACTGTATCAG ATAGATTACT TTTTAAATGT AGATAAAATT TCAAAAATGA ATGGCTAGTT
TACGTGATAG ATTAGGCTCT TACTACATAT GTGTGTGTAT ATATATGTAT TTGATTCTAC
CTGCAAACAA Alllll'ATTG GTGAGGACTA TTTTTGAGCT GACACTCCCT CTTAGTTTCT
1~60 TCATGTCACC TTTCGTCCTG GTTCCTCCGC CACTCTTCCT CTTGGGGACA ACAGGAAGTG
TCTGATTCCA GTCTGGCCTA GTACGTTGGT ACACACGTGG CATTGCGCAG CACCTGGGCT
GACCTTTGTG TGTAGCGTGT GTGTGTGTTT CCTTCTTCCC TTCAGCCTGT GACTGTTGCT
GACTCCAGGG GTGGGAGGGA TGGGGAGACT CCCCTCTTGC TGTGTGTACT GGACACGCAG
GAAGCATGCT GA
W095/02069 PCT~S9~/07770 (2) INFORMATION FOR SEQ ID NO:105:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 1757 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: double (D) TOPOLOGY: linear (ii) MOLECULE TYPE: DNA (genomic) (xi) SEQUENCE DESCRIPTION: SEQ ID NO:105:
ATGGTACGTC ATGCTCAGTG TCCAGTTTAA TTCTGTAGAA GTTACGTCTG GCTCTAGGTT
AACCCTTCCT AGAAAGCAAG CAGACTGTTG CCCCATTTTG GGTACAATTT GATATACTTT
CCATACCCTC CATCTGTGGA TTTTTCAGCA TTGGAATCCC CCAACCAGAG ATGTTAAAGT
GAGCTGTCCC AGGAAACATC TCCACCCAAG ACGTCTTTGG AATCCAAGAA CAGGAAGCCA
AGAGAGTGAG CAGGGAGGGA TTGGGGGTGG GGGGAGGCCT CAAAATACCG ACTGCGTCCA
TTCTCTGCCT CCATGGAAAC AGCCCCTAGA ATCTGAAAGG CCGGGATAAA CCTAATCACT
GTTCCCAAAC ATTGACAAAT CCTAACCCAA CCATGGTCCA GCAGTTACCA GTTTAAACAA
AAAAAACCTC AGATGAGTGT TGGGTGAATC TGTCATCTGG TACCCTCCTT GGTTGATAAC
TGTCTTGATA CTTTTCATTC TTTGTAAGAG GCCAAATCGT CTAAGGACGT TGCTGAACAA
GCGTGTGA~A TCATTTCAGA TCAAGGATAA GCCAGTGTGT ACATATGTTC ATTTTAATCT
W095/02069 2 ~ ~ ~ Q ~ ~ PCT~S94/07770 CTGGGAGATT ATTTTTCCAT CCAGGGTGCC ATCAGTAATC ATGCCACTAC TCACCAGTGT
TGTTCGCCAA CACCCACCCC CACACACACC AACATTTTGC TGCCTACCTT GTTATCCTTC
TCAAGA~.GCT GAAGTGTACG CCCTCTCCCC TTTTGTGCTT ATTTATTTAA TAGGCTGCAG
TGTCGCTTAT GAAAGTACGA TGTACAGTAA CTTAATGGAA GTGCTGACTC TAGCATCAGC
CTCTACCGAT TGATTTTCCT CCCTTCTCTA GCCCTGGATG TCCACTTAGG GATAAAbAGA
ATATGGTTTT GGTTCCCATT TCTAGTTCAC GTTGAATGAC AGGCCTGGAG CTGTAGAATC
AGGAAACCCG GATGCCTAAC AGCTCAAAGA TGTTTTGTTA ATAGAAGGAT TTTAATACGT
TTTGCAAATG CATCATGCAA TGAATTTTGC ATGTTTATAA TAAACCTTAA TAACAAGTGA
ATAGAAGGAT TTTAATACGT TTTGCAbATG CATCATGCAA TGAATTTTGC ATGTTTATAA
TAAACCTTAA TAACAAGTGA ATCTATATTA TTGATATAAT CGTATCAAGT ATAAAGAGAG
TATTATAATA ATTTTATAAG ACACAATTGT GCTCTATTTG TGCAGGTTCT TGTTTCTAAT
CCTCTTTTCT AATTAAGTTT TAGCTGAATC CCTTGCTTCT GTGCTTTCCC TCCCTGCACA
TGGGCACTGT ATCAGATAGA TTA~lllllA AATGTAGATA AAATTTCAAA AATGAATGGC
TAGTTTACGT GATAGATTAG GCTCTTACTA CATATGTGTG TGTATATATA TGTATTTGAT
W095/02069 PCT~S94/07770 2 ~S 6~ 80 - ~
TCTACCTGCA AACAAATTTT TATTGGTGAG GACTATTTTT GAGCTGACAC TCCCTCTTAG
TTTCTTCATG TCACCTTTCG TCCTGGTTCC TCCGCCACTC TTCCTCTTGG GGACAACAGG
AAGTGTCTGA TTCCAGTCTG GCCTAGTACG TTGGTACACA CGTGGCATTG CGCAGCACCT
GGGCTGACCT TTGTGTGTAG CGTGTGTGTG TGTTTCCTTC TTCCCTTCAG CCTGTGACTG
TTGCTGACTC CAGGGGTGGG AGGGATGGGG AGACTCCCCT CTTGCTGTGT GTACTGGACA
CGCAGGAAGC ATGCTGA
17~7 (2) INFORMATION FOR SEQ ID NO:106:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 676 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: double (D) TOPOLOGY: linear (ii) MOLECULE TYPE: DNA (genomic) (xi) SEQUENCE DESCRIPTION: SEQ ID NO:106:
TAGAAGGATT TTAATACGTT TTGCAAATGC ATCATGCAAT GAATTTTGCA TGTTTATA~T
AAACCTTAAT AACAAGTGAA TCTATATTAT TGATATAATC GTATCAAGTA TAAAGAGAGT
ATTATAATAA TTTTATAAGA CACAATTGTG CTCTATTTGT GCAGGTTCTT GTTTCTAATC
W095/020,69 PCT~S94/07770 ~ 8 CTCTTTTCTA ATTAAGTTTT AGCTGAATCC CTTGCTTCTG TGCTTTCCCT CCCTGCACAT
GGGCACTGTA TCAGATAGAT TA~llll~ AA ATGTAGATAA AATTTCAAAA ATGAATGGCT
AGTTTACGTG ATAGATTAGG CTCTTACTAC ATATGTGTGT GTATATATAT GTATTTGATT
CTACCTGCAA ACA~ATTTTT ATTGGTGAGG ACTATTTTTG AGCTGACACT CCCTCTTAGT
TTCTTCATGT CACCTTTCGT CCTGGTTCCT CCGCCACTCT TCCTCTTGGG GACAACAGGA
AGTGTCTGAT TCCAGTCTGG CCTAGTACGT TGGTACACAC GTGGCATTGC GCAGCACCTG' GGCTGACCTT TGTGTGTAGC GTGTGTGTGT GTTTCCTTCT TCCCTTCAGC CTGTGACTGT
TGCTGACTCC AGGGGTGGGA GGGATGGGGA GACTCCCCTC TTGCTGTGTG TACTGGACAC
GCAGGAAGCA TGCTGA
(2) INFORMATION FOR SEQ ID NO: 107:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 37 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: no (xi) SEQUENCE DESCRIPTION: SEQ ID NO:107:
GGCCACGCGT CGACTAGTAC ~l"l"l"l"l"l"l"l"l"l~l"l"l"l"l"l"l~ 37 W095/02069 PCT~S94/07770 2 ~ 82 -(2) INFORMATION FOR SEQ ID NO: 108:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 37 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: no (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 108:
(2) INFORMATION FOR SEQ ID NO: 109:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 109:
(2) INFORMATION FOR SEQ ID NO: 110:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 110:
(2) INFORMATION FOR SEQ ID NO: 111:
W095/02069 ~ PCT~S94/07770 .
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 111:
(2) INFORMATION FOR SEQ ID NO: 112:
(i~ SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 112:
(2) INFORMATION FOR SEQ ID NO: 113:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes ~ (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 113:
(2) INFORMATION FOR SEQ ID NO: 114:
(i) SEQUENCE CHARACTERISTICS:
WO9~/02069 PCT~S94/07770 (A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 114:
(2) INFORMATION FOR SEQ ID NO: 115:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 115:
(2) INFORMATION FOR SEQ ID NO: 116:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 116:
(2) INFORMATION FOR SEQ ID NO: 117:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 W095/020S9 ~ PCT~S94/07770 .
(B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 117:
(2) INFORMATION FOR SEQ ID NO: 118:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 118:
(2) INFORMATION FOR SEQ ID NO: 119:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPO~OGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 119:
TTAl'AAACAT GCAAAATTCA 20
10 24 CTC TCC TCG CCC TCG CTC GG "
The following antisense oligonucleotides are targeted to the 3~-untranslated region of PKC-$ type I:
OLIGONUCLEOTIDES TARGETED TO PRC-g TYPE I
SEQ.ID Sequence Target TGG AGT TTG CAT TCA CCT AC 3' Untranslated 26 A~A GGC CTC TAA GAC AAG CT " "
27 GCC AGC ATG TGC ACC GTG AA " "
28 ACA CCC CAG GCT CAA CGA TG " "
25 29 CCG AAG CTT ACT CAC AAT TT " "
The following antisense oligonucleotides are targeted to the 3'-untranslated region of PKC-~ Type II:
WO95/020G9 21 ~ PCT~S94/07770 OLIGONUCLEOTIDES TARGETED TO P~C-$ TYPE II
SEQ. ID Sequence Target ACT TAG CTC TTG ACT TCG GG 3' Untranslated 31 ATG CTG CGG AAA ATA AAT TG "
32 ATT TTA TTT TGA GCA TGT TC " "
10 33 TTT GGG GAT GAG GGT GAG CA "
34 CCC ATT CCC ACA GGC CTG AG "
PRC-~:
Sequence data are from Coussens et al., Science 233:859-866 (1986); Genbank accession number M13977.
Sequences are numbered from the first 5' base sequenced in the cDNA. The full sequence is not available: the extreme 3~ end of the open reading frame and the 3' untranslated region are missing. Consequently these regions are not presently available as antisense targets.
OLIGONUCLEOTIDES TARGETED TO P~C-~
SEQ.:ID Sequence Target 25 35 CGG AGC GCG CCA GGC AGG GA 5' Untranslated 36 CCT TTT CCC AGA CCA GCC AT Translation init.
37 GGC CCC AGA AAC GTA GCA GG 5' of start codon 38 GGA TCC TGC CTT TCT TGG GG 5' Untranslated 39 CAG CCA TGG CCC CAG AAA CG Translation init.
W095/02069 PCT~S9~/07770 ~6~5~ 28 -P~CC- 77 Sequence data for PKC-~ are from Bacher and colleagues [Bacher et al., Mol . Cell . Biol . 11:126-133 tl991)]i Genbank accession number M55284. They assign their isozyme the name PKC-L; however the sequence is almost identical to that of mouse PKC-~, so the latter nomenclature is used here for consistency. Sequences are numbered from the first 5' base sequenced in the cDNA.
OLIGONUCLEOTIDES TARGETED TO P~C-~
SEQ.ID Sequence Target CGA CAT GCC GGC GCC GCT GC Translation init.
41 CAG ACG ACA TGC CGG CGC CG " "
42 GCC TGC TTC GCA GCG GGA GA " ~' 43 ACA GGT GCA GGA GTC GAG GC " "
20 44 GTC CCG TCT CAG GCC AGC CC " "
CCT CAC CGA TGC GGA CCC TC " "
46 ATT GAA CTT CAT GGT GCC AG "
47 TCT CAC TCC CCA TAA GGC TA 3' Untranslated 48 TTC CTT TGG GTT CTC GTG CC " "
30 49 TTC CAT CCT TCG ACA GAG TT " "
AGG CTG ATG CTG GGA AGG TC " "
51 GTT CTA AGG CTG ATG CTG GG " "
W095/02069 ~J 6 ~ ~ ~ & PCT~S94/07770 Example 5 Dose response of phosphorothioate/2r-O-methyl oligonucleotide effects on PKC-~ protein synthesis:
A series of phosphorothioate, fully 2'-O-methyl oligonucleotides having SEQ ID NO: 1, 2, 3 and 5 were synthesized. A549 cells were treated with 500 nM PDBu for 18 hours to downregulate PKC-~ synthesis, washed to remove PDBu and then treated with oligonucleotide and DOTMA/DOPE
cationic liposomes. Medium was replaced after four hours and the cells were allowed to recover for another 20 hours.
Proteins were extracted and PKC-~ protein levels were determined by immunoblotting as described in Example 3.
Results were quantified with a phosphorimager (Molecular Dynamics, Sunnyvale CA) and are shown in Figure 2 expressed as percent of control (saline treatment). ISIS 4649 (SEQ ID
NO: 3; squares) reduced PKC-~ protein levels by 85-90~ at 500 nM and had an IC50 of approximately 260 nM.
Example 6 Effect of antisense oligonucleotides on PKC-~mRNA levels:
A549 cells were treated with phosphorothioate oligonucleotides at 500 nM for four hours in the presence of the cationic lipids DOTMA/DOPE, washed and allowed to recover for an additional 20 hours. Total RNA was extracted and 20~g of each was resolved on 1.2~ gels and transferred to nylon membranes. These blots were probed with a 32p radiolabeled PKC-~ cDNA probe and then stripped and reprobed with a radiolabeled G3PDH probe to confirm equal RNA loading. Each oligonucleotide ~3520, 3521, 3522 and 3527) was used in duplicate. The two major PKC-~transcripts (8.5 kb and 4.0 kb) were examined and quantified with a PhosphorImager (Molecular Dynamics, Sunnyvale CA). Results are shown in Figure 3.
Oligonucleotides 3521 (SEQ ID NO: 2), 3522 (SEQ ID NO: 3) and 3527 (SEQ ID NO: 5) gave better than 50~ reduction of PKC-~ mRNA levels. Oligonucleotides 3521 and 3527 gave approximately 80~ reduction of the smaller transcript and over 90~ reduction of the larger transcript.
W095/02069 PCT~S94/07770 ~ 30 -Example 7 ~h;meric (deoxy gapped) 2'-O-methyl oligonucleotides:
Oligonucleotides 3521 (SEQ ID NO: 2), 3522 (SEQ
ID NO: 3) and 3527 (SEQ ID NO: 5) were chosen for further study and modification. Oligonucleotides having these se~uences were synthesized as uniformly phosphorothioate chimeric oligonucleotides having a centered deoxy gap of various lengths flanked by 2'-O-methylated regions. These oligonucleotides (500 nM concentration) were tested for effects on PKC-~ mRNA levels by Northern blot analysis.
~esults are shown in Figure 4. Deoxy gaps of eight nucleotides or more gave maximal reduction of PKC-~ mRNA
levels (both transcripts) in all cases. The oligo-nucleotide having SEQ ID NO: 3 reduced PKC-~ mRNA by approximately 83~ with a deoxy gap length of four nucleotides, and gave nearly complete reduction of PKC-~mRNA with a deoxy gap length of six or more.
Dose-response curves for these oligonucleotides are shown in Figure 5. The 2'-O-methyl ~h;meric oligonucleotides with four- or six-nucleotide deoxy gaps have an IC50 for PKC-~ mRNA reduction (concentration of oligonucleotide needed to give a 50~ reduction in PKC-~mRNA levels) of 200-250 nM, as did the full-deoxy oligonucleotide (all are phosphorothioates throughout). The 2'-O-methyl chimeric oligonucleotide with an 8-nucleotide deoxy gap had an IC50 of approximately 85 nM.
Several variations of this chimeric oligonucleotide (SEQ. ID N0: 3) were compared for a~ility to lower PK~-~ mRNA levels. These oligonucleotides are shown in Table 7.
W095/02069 ~l ~ 6 B ~ 8 PCT~S94/07770 Table 7 Chimeric 2'-O-methyl/deoxy P=S oligonucleotides ~old= 2'-O-methyl; s= P=S linkage, o= P=O linkage OLIGO ~ SEQUENCE SEQ ID NO:
5 3522 AsAsAsAsCsGsTsCsAsGsCsCsAsTsGsGsTsCsCsC 3 5352 A~A~AR~CsGsTsCsAsGsCsCsAsTsGsGsTsCsCsC 3 6996 Ao~oAnAoCoGsTsCSASGSCSCSASTSGOGOTOCOCoC 3 7008 A~AovAoAoCoGsTsCsAsGsCsCsAsTsGoGoToCoCsC 3 7024 AR~oAoAocoGsTocsAoGscocsAsTsGoGoTococsc 3 Effects of these oligonucleotides on PKC-~ mRNA levels is shown in Figure 6. Oligonucleotides 7008, 3522 and 5352 show reduction of PKC-~ mRNA, with 5352 being most active.
A series of 2'-O-propyl chimeric oligonucleotides was synthesized having SEQ ID NO: 3. These oligonucleotides are shown in Table 8.
Table 8 Chimeric 2'-O-propyl/deoxy P=S oligonucleotides bold= 2'-0-propyl; s= P=S linkage, o= P=O linkage OLIGO ~ SEQUENCE SEQ ID NO:
7199 A~A~A~A~CsGsTsCsAsGsCsCsAsTsGsGsTsCsCsC 3 7273 AoAoAoAocoGsTscsAsGscscsAsTsGoGoTocococ 3 7294 A~AoAoAoCoGsTsCsAsGsCsCsAsTsGoGoToCoCsC 3 7295 A~Ao~QAoCoGsToCsAoGsCoCsAsTsGoGoToCoCsC 3 These 2'-O-propyl chimeric oligonucleotides were compared to the 2'-O-methyl chimeric oligonucleotides.
Oligonucleotides 7273 and 7294 were more active than their 2'-O-methyl counterparts at lowering PKC-~ mRNA levels.
This is shown in Figures 7 and 8.
~ Example 8 Additional oligonucleotides which decrease PKC-~ mRNA:
Additional phosphorothioate oligonucleotides targeted to the human PKC-~ 3' untranslated region were W095/02069 PCT~S94/07770 6~
designed and synthesized. These sequences are shown in Table 9.
Table 9 ~h;m~ric 2'-O-propyl/deoxy P=S oligonucleotides targeted to PKC-~ 3'-UTR
bold= 2'-O-propyl; s= P=S linkage, o= P=O linkage OLIGO # SEQUENCE SEQ ID NO:
6632 TsTsCs TsCsGs CsTsGs GsTsGs AsGsTs TsTsC 52 6653 TsTsCs TsCsGs CsTsGs GsTsGs AsGsTQ TsTsC 52 6665 ToToCo TsCsGs CsTsGs GsTsGs AsGsTo ToToC 52 7082 TsCsTs CsGsCs TsGsGs TsGsAs GsTsTs TsC 53 7083 TsCsTs CsGsCs TsGsGs TsGsAs GsTsTs TsC 53 7084 ToCoTo CsGsCs TsGsGs TsGsAs GsToTo ToC 53 As shown in Figure 9, oligonucleotides 6632, 6653, 7082 and 7083 are most active in reducing PKC-~ mRNA levels.
Example 9 Culture of human A549 lung tumor cells:
The human lung carcinoma cell line A549 was obtained from the American Type Culture Collection (Bethesda MD). Cells were grown in Dulbecco's Modified Eagle's Medium (Irvine Scientific, Irvine CA) containing 1 gm glucose/liter and 10~ fetal calf serum (Irvine Scientific). Cells were trypsinized and washed and resuspended in the same medium for introduction into mice.
Example 10 Effect of ISIS 3521 on the growth of h.lm~n A549 tumor cells in nude mice:
200 ~l of A549 cells (5 x 106 cells) were implanted subcutaneously in the inner thigh of nude mice.
ISIS 3521, a phosphorothioate oligonucleotide with Sequence ID NO 2 was administered twice weekly for four weeks, beginning one week following tumor cell inoculation.
Oligonucleotides were formulated with cationic lipids (DMRIE/DOPE) and given subcutaneously in the vicinity of the tumor. Oligonucleotide dosage was 5 mg/kg with 60 mg/kg cationic lipid. Tumor size was recorded weekly.
W095/02~69 ~ b ~ PCT~S94/07770 As shown in Figure 10, tumor growth was almost completely inhibited in two of the three mice, and reduced compared to control in the third mouse. This inhibition of ~ tumor growth by ISIS 3521 is statistically significant. The S control oligonucleotide tISIS 1082) is a 21-mer phosphorothioate oligonucleotide without significant sequence homology to the PKC mRNA target.
A~m; nl stration of oligonucleotides to mice whose tumors had already reached detectable size had no discernable effect on subsequent tumor growth.
Exanple 11 Effect of antisense oligonucleotides on growth of h~ n MDA-MB2 31 tumors in nude mice:
MDA-MB231 human breast carcinoma cells were obtained from the American Type Culture Collection (Be~hesda, MD). Serially transplanted MDA-MB231 tumors were established subcutaneously in nude mice. Beginning two weeks later, oligonucleotides 3521 and 3527, a phosphorothioate oligonucleotide having Sequence ID NO. 5, in saline, were administered intravenously daily for 14 days at dosages of 60 mg/kg and 6 mg/kg. Control oligonucleotide ISIS 1082 was also administered at these doses, and a saline control was also given. Tumor growth rates wre monitored for the two-week period of oliyonucleotide administration. As shown in Figure 11, both PKC-~ oligonucleotides (3521 and 3527) significantly inhibit tumor growth at dosages of 60 mg/kg and 6 mg/kg.
The control oligonucleotide (ISIS 1082) also showed some reduction in tumor growth, but this effect was less than with antisense oligonucleotides even at high doses, and considerably less at the lower dose. A lower-dose study was conducted using the same oligonucleotides at 6 mg/kg and 0.6 mg/kg. At 0.6 mg/kg ISIS 3521 significantly reduced tumor growth. At this concentration, ISIS 3527 also reduced tumor growth, but this result was not statistically -significant.
W095/02069 PCT~S94/07770 Example 12 Effect of oligonucleotides on the growth of murine Lewis lung carcinoma in mice:
Serially transplanted murine Lewis lung carcinomas were established in mice. Oligonucleotides 3521 and 3527 were administered intravenously every day for 14 days at doses of 6 mg/kg and 0.6 mg/kg. Tumor growth rates were monitored for the two-week period of oligonucleotide administration. As expected, these oligonucleotides, which are targeted to human PKC sequences, had insignificant effects on the mouse-derived tumors.
Example 13 Effects of antisense oligonucleotide ISIS
4189 on endogenous PKC-~ expression in hairless mice:
In order to study oligonucleotide effects on endogenous PKC mRNA levels in normal animals, it was necessary to employ an oligonucleotide complementary to the murine PKC-~. ISIS 4189 is a 20-mer phosphorothioate oligonucleotide targeted to the AUG codon of mouse PKC-~.
This region is without homology to the human PKC sequence and the oligonucleotide has no effect on expression of PKC-~ in human cells. ISIS 4189 has an IC50 of 200 nM for mRNAreduction in C127 mouse breast epithelial cells. ISIS 4189 in saline was administered intraperitoneally to hairless mice at concentrations of 1, 10 or 100 mg/kg body weight.
Injections were given daily for seven days. Tissues from liver, kidney, spleen, lung and skin were removed and PKC-~mRNA and protein levels were determined. Histopathological ~m;n~tion was also performed on liver, kidney and lung samples. ISIS 4189 at 100 mg/kg inhibited endogenous PKC-~mRNA levels in the mouse liver to 10-15~ of control ~saline) levels.
Example 14 Screening of antisense oligonucleotides complementary to human PRC-~:
A series of 20-mer phosphorothioate oligonucleotides complementary to human PKC-~ were synthesized. These oligonucleotides were screened at a WO9~/02~69 ~ Q S 8 PCT~S94/07770 concentration of 500 nM for ability to decrease PKC-~ mRNA
levels in human A549 cells, using a Northern blot assay.
The oligonucleotide sequences are shown in Table 10 and the results are shown in Figure 12.
OLIGONUCLEOTIDES TARGETED TO HUMAN PKC-~ mRNA
ISIS# Sequence Target SEQ ID
NO:
6443 GCC TGC TTC GCA GCG GGA GA 5' UTR 42 6432 ACA GGT GCA GGA GTC GAG GC 5' UTR 43 6433 GTC CCG TCT CAG GCC AGC CC5' UTR 44 6435 CCT CAC CGA TGC GGA CCC TC Coding 45 6441 ATT GAA CTT CAT GGT GCC AG Coding 46 6581 TCT CAC TCC CCA TAA GGC TA 3' UTR 47 6580 TTC CTT TGG GTT CTC GTG CC 3' UTR 48 6436 AAC TCG AGG TGG CCG CCG TC Coding 54 6439 CGC CTT CGC ATA GCC CTT TG Coding 55 6444 GGA AGG GGT GAT TGC GGG CC Coding 56 6445 AAC ACG CCC ATT GCC CAC CA Coding 57 6446 GTC TCA AGA TGG CGT GCT CG Coding 58 6553 GCG ATG GTT CAG CTG GGC CC Coding 59 6605 GCC CTC TCT CTC ACT CCC CA 3' UTR 60 657g CTG GGA AGG TCC GAT AGA GG 3' UTR 61 6603 AAG GCT GAT GCT GGG AAG GT 3' UTR 62 Oligonucleotides 6432, 6443, 6431, 6442, 6435, 6434, 6445, 6553, 6581 and 6603 reduced PKC-~ mRNA levels by ~ greater than 50~. The most potent oligonucleotides were ISIS 6581 (targeting 3' untranslated region) and ISIS 6445 (targeting coding region) which gave nearly complete loss of PKC mRNA in this assay.
W095/02069 PCT~S94/07770 2~
Example 15 Screening of antisense oligonucleotides complementary to human PKC-~: ~
A series of 20-mer phosphorothioate oligonucleotides complementary to human PKC-~ were synthesized as described in Example 1. The source of the target sequence was Genbank locus HSPKCZ, accession number Z15108 (Hug, H.). These oligonucleotides were screened at a concentration of 500 nM
for ability to decrease PKC-~ mRNA levels in human A549 cells, substantially as described in Example 6 using a Northern blot assay. The oligonucleotide sequences and results of the screen are shown in Table 11.
Table 11 INHIBITION OF mRNA EXPRESSION IN HUMAN A549 CELLS
USING ANTISENSE OLIGONUCLEOTIDES COMPLEMENTARY TO PKC-Z
Oligo ~ Sequence Target region %Inhib. Seq.ID
9008 CCCCGTAATGCGCCTTGAGG Coding 68 64 9009 CTGTCCACCCACTTGAGGGT Coding 19 65 9010 GCTTCCTCCATCTTCTGGCT Coding 35 66 9011 CGGTACAGCTTCCTCCATCT Coding 58 67 9012 TTGGAAGAGGTGGCCGTTGG Coding 80 68 9013 CCTGTTAAAGCGCTTGGCTT Coding 71 69 9014 TGCAGGTCAGCGGGACGAGG Coding 41 70 9015 GCTCTTGGGAAGGCATGACA Coding 59 71 9016 TTCTTCAACCGCACCAGGAG Coding 0 72 9017 TTCTTCAACCGCACCAGGAG Coding 73 73 9018 CTCTGCCTCTGCATGTGGAA Coding 63 74 9019 TCCTTGCACATGCCGTAGTC Coding 31 75 9020 TCCACGCTGAACCCGTACTC Coding 80 76 9021 GGAGCGCCCGGCCATCATCT Coding 81 77 9022 GGGCTCGCTGGTGAACTGTG Coding 83 78 9023 GACGCACGCGGCCTCACACC Stop 82 79 9024 GGGTCAATCACGCGTGTCCA 3' UTR 70 80 9025 TCGGAGCCGTGCCCAGCCTG 3' UTR 82 81 9026 CGGGCCAGGTGTGAGGGACT 3' UTR 40 82 9027 CCGCGACGCAGGCACAGCAG 3' UTR 38 83 9028 TGGA~ACCGCATGACAGCCC 3' UTR 54 84 9029 GGTCAGTGCATCGAGTTCTG 3' UTR 79 85 W095/02069 2 i ~ g ~ g PCT~S94/07770 In this experiment, oligonucleotides 9007, 9008, 9011, 9012, 9013, 9015, 9017, 9018, 9020, 9021, 9022, 9023, 9024, 9025, 9028 and 9029 showed at least 50~ inhibition of mRNA
levels and are presently preferred.
Example 16 Screening of antisense oligonucleotides complementary to l ~n PRC- c:
A series of 20-mer phosphorothioate oligonucleotides complementary to human PKC-~ were synthesized as described in Example 1. The source of the target sequence was Genbank locus HSPKCE, accession number X65293 (Burns et al.). These oligonucleotides were screened at a concentration of 500 nM
for ability to decrease PKC-~ mRNA levels in htlm~n A549 cells, substantially as described in Example 6 using a Northern blot assay. The oligonucleotide sequences and5 results of the screen are shown in Table 12.
Table 12 I~HIBITION OF mRNA EXPRESSION IN HUMAN A549 CELLS USING
ANTISENSE OLIGONUCLEOTIDES COMPLEMENTARY TO PRC-E MRNA
Oligo # Sequence Target region %Inhib Seq.ID
7934 GTCCCACCGCATGGCGCAGC Coding 0 87 7935 GTTTGGCCGATGCGCGAGTC Coding 0 88 7936 TGCAGTTGGCCACGAAGTCG Coding 0 89 8032 GTGGGGCATGTTGACGCTGA Coding 0 go 8031 C QGAGCAGGGACCCACAGT Coding 0 91 7939 TCTCCTCGGTTGTCAAATGA Coding 0 92 7940 CGGTGCTCCTCTCCTCGGTT Coding 0 93 7941 AGCCAAAATCCTCTTCTCTG Coding o 94 7942 QTGAGGGCCGATGTGACCT Coding 62 95 7943 ATCCCTTCCTTGCACATCCC Coding 4 96 7944 CCCCAGGGCCCACCAGTCCA Coding 42 97 7945 AG QCCCC QGGGCCCACCA Coding 56 98 7946 CGTACAT QGCACCCCCAGG Coding 55 99 7947 C QGCCATCATCTCGTACAT Coding 15 100 7948 TGC QCACAGCCCAGGCGCA Coding 55 101 7949 TCAGGGCATCAGGTCTTCAC Stop 0 102 7950 CTCTCAGGGCATCAGGTCTT Stop 0 103 W095/02069 ~ 5g PCT~S94/07770 In ~h~g experiment, oligonucleotides 7942, 7944, 7945, 7946 and 7948 showed at least 40~ inhibition of mRNA levels and are presently preferred.
Example 17 DNA sequencing of the 3' untranslated region of human PKC~
A549 cells (obtained from the American Type Culture Collection, Bethesda MD) were grown to confluence in 6-well plates tFalcon Labware, Lincoln Park, NJ) in Dulbecco's modified Eagle's medium (DME) containing 1 g glucose/liter and 10~ fetal calf serum (FCS, Irvine Scientific, Santa Ana, CA). Cells were harvested and total RNA was isolated using standard methods. Sambrook, J., Fritsch, E., and T.
Maniatis (1989). Molecular Cloning: a laboratory manual.
Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y., Ch. 7).
cDNA was made from the RNA using the 3' RACE
technique of Frohman et al. [Frohman, M.A., Dush, M.K. and G.R. Martin (1988) Proc. Natl. Acad. Sci. U.S.A. 85:8998-9002] and the 3' RACE kit from Gibco/BRL (Bethesda, MD).
For making the first strand of cDNA, an oligo dT primer was used. For subsequent amplification from the site of the poly(A) tail, the oligonucleotide provided in the kit or an identical oligonucleotide (ISIS 5586; SEQ ID NO: 107: 5'-GGCCACGCGTCGACTAGTA~ -3'). For amplification from the interior of the known sequence, ISIS
6288 was used (SEQ ID NO: 108: 5'-GGGGTAGAATGCGGCGGCAGTATGAAACTCACCAGCG-3'). The DNA
resulting from the PCR reaction was gel-purified, digested with Sal I and Bcl I, and then cloned into the Bluescript plasmid (Stratagene, La Jolla, CA) using standard techniques (Sambrook et al., 1989). The cloned DNA was sequenced using a Sequenase Kit from USB.
The new sequence obtained, from the Bcl I site near the 3' end of the previously known sequence (GenBank accession number x52479) to the most frequently obtained site of polyadenylation is shown as nucleotides 56-1136 in W095/02069 ~1 ~ 6 ~ PCT~S94/07770 Figure 13. This site is believed to be the 3' end of the short (4kb) PKC~ message.
To extend this sequence and hence obtain sequences specific for the long PKC~ message (8.5 kb), the technique of Inverse PCR was performed. Ochman, H., Gerber, A.S. and D.L. Hartl (1988) Genetics 120:621-623. This technique was perormed three times using a three sets of primers and restriction enzymes. Each round resulted in about 200 bases of new sequencei the total of the new sequence (SEQ
ID NO: 104) is shown in bold type (nucleotides 1137-1812) in Figure 13. This sequence is shown extending in the 3' direction beginning at the Bcl I site (TGATCA) near the end of ~he previously published PKC~ cDNA sequence.
Fin]~enzeller et al., Nucl . Acids Res. 18:2183 (1990);
Genbank accession number X52479. Newly determined sequences begin at nucleotide 56 and are underlined (SEQ ID NO:105).
The most common site of polyadenylation, believed to be the 3' end of the short (4 kb) mRNA transcript, is at nucleotide 1136. Sequences downstream from this site, and the:refore unique to the long message, are in bold (SEQ ID
NO:106).
Exa~ple 18 Antisen~e oligonucleotides targeted to novel sequences in the 3' UTR of P~C~
A series of phosphorothioate antisense oligonucleotides, complementary to the novel sequence obtained as described in Example 17, were designed and synthesized. These oligonucleotides were screened on the basis of their ability to cause the reduction or elimination of PKC~ RNA in A549 cells 24 hours after the start of treatment. A549 cells were treated with phosphorothioate oligonucleotides at 500 nM for four hours in the presence of the cationic lipids DOTMA/DOPE, washed and allowed to recover for an additional 20 hours. Total RN~ was extracted and 20~g of each was resolved on 1.2~
gels and transferred to nylon membranes. These blots were probed with a 32p radiolabeled PKC-~ cDNA probe and then W095/02069 PCT~S94/07770 stripped and reprobed with a radiolabeled G3PDH probe to confirm equal RNA loading. The two major PKC-~ transcripts (8.5 kb and 4.0 kb) were Px~m;ned and quantified with a PhosphorImager (Molecular Dynamics, Sunnyvale CA). The oligonucleotides and their activities are shown in Table 13.
Table 13 Inhibition of PKC~ mRNA (both long and short) by phosphorothioate antisense oligonucleotides (500 nM) Expressed as percent of control mRNA level ISIS# Sequence Activity ~get region SEQ
ID NO:
7416 CAGTGCCCATGTGCAGGGAG 100~ PKC~ long mRNA 109 7417 AGAACCTGCACAAATAGAGC 100~ PKC~ long mRNA 110 7418 AGAAACAAGAACCTGCACAA 100~ PKC~ long mRNA 111 7419 GCAAGGGATTCAGCTAAAAC 100~ PKC~ long mRNA 112 7420 AGGGAGGGAAAGCACAGAAG 100~ PKC~ long mRNA 113 7902 AGGGAGGGAAAGCACAGAAG 90~ PKC~ long mRNA 113 7907 TCAGCTCAAAAATAGTCCTC 85~ PKC~ long mRNA 114 7908 CGAAAGGTGACATGAAGA~A 100~ PKC~ long mRNA 115 7909 GGCGGAGGAACCAGGACGAA 90~ PKC~ long mRNA 116 7911 GCAATGCCACGTGTGTACCA 50~ PKC~ long mRNA 117 7912 TGCAAAACGTATTAAAATCC 100~ PKC~ short mRNA 118 7913 TTATAAACATGCAAAATTCA 100~ PKC~ short mRNA 119 ISIS 7911 (SEQ ID NO: 117) reduced PKC~ mRNA levels (both long and short messages) in this preliminary experiment by 50~ compared to control. This oligonucleotide is therefore preferred. Further analysis demonstrated that ISIS 7911 selectively reduced the amount of long (8.5 kb) message during the first six hours of treatment, with a fourfold selectivity at 3 hours post-treatment. By 12 hours after treatment with ISIS 7911, levels of both messages were reduced by over 80~. Time-course data are shown in Figure 14.
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(i) SEQUENCE CHARACTERISTICS
(A) LENGTH 20 W095/02069 ~ S~ PCT~S94/07770 .
(B) TYPE: nucleic acid (C) STRANDEDNESS: single r (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes ~i) SEQUENCE DESCRIPTION: SEQ ID NO: 40:
(2) INFORMATION FOR SEQ ID NO: 41:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 41:
(2) INFORMATION FOR SEQ ID NO: 42:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 42:
(2) INFORMATION FOR SEQ ID NO: 43:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid W095/02069 PCT~S94/07770 i~ 6~ 56 _ (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 43:
(2) INFORMATION FOR SEQ ID NO: 44:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 44:
(2) INFORMATION FOR SEQ ID NO: 45:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 45:
(2) INFORMATION FOR SEQ ID NO: 46:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single W095l02069 ~ 8 PCT~S91/07770 (D) TOPOLOGY: linear ~ (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 46:
(2) INFORMATION FOR SEQ ID NO: 47:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D~ TOPOLOGY: linear (iv) ANTI-SENSr.: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 47:
(2) INFORMATION FOR SEQ ID NO: 48:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 48:
(2) INFORMATION FOR SEQ ID NO: 49:
(i) SEQUENCE CH~RACTERISTICS:
- (A) LENGTH: 20 (Bi TYPE: nucleic acid (C) STRANDEDNESS: single (D~ TOPOLOGY: linear SU8STITUTE SltEET (RULE 26) W095/02069 PCT~S9~/07770 ~ r) ANTI-SENSE: yes (x ) SEQUENCE DESCRIPTION: SEQ ID NO: 49:
(2) INF3RMATION FOR SEQ ID NO: 50:
(i! SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (x-) SEQUENCE DESCRIPTION: SEQ ID NO: 50:
(2) INFORMATION FOR SEQ ID NO: 51:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-~ENSE: yes (x-) SEQUENCE DESCRIPTION: SEQ ID NO: 51:
GTTCT~GGC TGATGCTGGG 20 (2) INFC~TION FOR SEQ ID NO: 52:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 18 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear ` A~TI-S~NSE: yes SU8STITUTE SltEEr (RU~E 26) W095/02069 ~ 6 ~58 PCT~S94/07770 (xi) SEQUENCE DESCRIPTION: SEQ ID NO:52:
(2) INFORMATION FOR SEQ ID NO: 53:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 17 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 53:
(2) INFORMATION FOR SEQ ID NO: 54:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 54:
(2) INFORMATION FOR SEQ ID NO: 55:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 55:
SUBSTITUTE SHEET (RULE 26) W095/02069 PCT~S94/07770 (2) INFORMATION FOR SEQ ID NO: 55:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xl) SEQUENCE DESCRIPTION: SEQ ID NO: 56:
(2) INFORMATION FOR SEQ ID NO: 57:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 57:
(2) INFORMATION FOR SEQ ID NO: 58:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 58:
- S~ITUTE SHEET (RULE 26) WO9~/02069 PCT~S94/07770 21~
(2) INFORMATION FOR SEQ ID NO: 59:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 59:
(2) INFORMATION FOR SEQ ID NO: 60:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 60:
(2) INFORMATION FOR SEQ ID NO: 61:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear - (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 61:
(2) INFORMATION FOR SEQ ID NO: 62:
SUBSTITUTE SHE~T (RU~E 2~) W095/02069 PCT~S94/07770 2~ 62 -(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 62:
(2) INFORMATION FOR SEQ ID NO: 63 :
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 63:
(2) INFORMATION FOR SEQ ID NO:64 :
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 64:
(2) INFORMATION FOR SEQ ID NO: 65:
(i) SEQUENCE CHARACTERISTICS:
SU8STITUTE SltEET (RU~E 26) W095/02069 ~ 6~ ~ ~ PCT~S94/07770 (A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: 1 inear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 65:
(2) INFORMATION FOR SEQ ID NO: 66:
( i ) S r QUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: 1 inear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 66:
(2) INFOR~TION FOR SEQ ID NO: 67:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: l inear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 67:
(2) INFORr~TION FOR SEQ ID NO: 68:
(i) S-QUENCE CHARACTERISTICS:
(A) LENGTH: 20 SU13STITUTE Sl tE~T (RUI E 26) W095/02069 PCT~S94/07770 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: l inear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 68 (2) INFORM~TION FOR SEQ ID NO: 69:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPc: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: l inear ~iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 69:
(2) INFORMATION FOR SEQ ID NO: 70:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 70:
(2) INFORMATION FOR SEQ ID NO: 71:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid SU8STIIUTE S~EET (RULE 26) WO9~/02069 ~ 8 PCT~S94/07770 (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes ~xi) SEQUENCE DESCRIPTION: SEQ ID NO: 71:
(2) INFORMATION FOR SEQ ID NO: 72:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 72:
(2) INFORMATION FOR SEQ ID NO: 73:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 73:
(2) INFORMATION FOR SEQ ID NO: 74:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C~ STRANDEDNESS: single SU~TUTE SltE~T (RULE 26) W095/02069 PCT~S9~/07770 ~$~ 66 -(D) TOPOLOGY: linear ~iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 74:
(2) INFORMATION FOR SEQ ID NO: 75:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESC~IPTION: SEQ ID NO: 75:
(2) INFORMATION FOR SEQ ID NO: 76:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 76:
(2) INFORMATION FOR SEQ ID NO: 77:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single SUBSnTUTES~ ~ tRULE26) W095/02069 ~ PCT~S94/07770 (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi~ S~EQUENCE DESCRIPTION: SEQ ID NO: 77:
(2) INFORMATION FOR SEQ ID NO: 78:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 78:
GG&CTCGCTG GTGAACTGTG 20 (2) INFORMATION FOR SEQ ID NO: 79:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 79:
(2) INFORMATION FOR SEQ ID NO: 80:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear SU8SllllJTE SHEET (RULE 26) W095/02069 PCT~S94/07770 ~6~ 68 -(iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 80:
(2) INFORMATION FOR SEQ ID NO: 81:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 81:
(2) INFORMATION FOR SEQ ID NO: 82:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 82:
(2) INFORMATION FOR SEQ ID NO: 83:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes SUBSTITUTE SHEET (RU~E 26) W095/02069 21 ~ ~ ~ 5 ~ PCT~S94/07770 - 69 ~
(xi) SrQUENCE DESCRIPTION: SEQ ID NO: 83:
(2) INFOR.~TION FOR SEQ ID NO: 84:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid ~C) S TRANDEDNES S: single (D) TO POLOGY: l inear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 84:
(2) INFORMATION FOR SEQ ID NO: 85:
(i) SEQUENCE CHARACTERISTICS
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: l inear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 85:
(2) INFOR~TION FOR SEQ ID NO: 86:
(i) SEQUENCE CHARACTERISTICS
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TO POLOGY: l inear (iv) ~NTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 86:
SUBSrlllJTE SHEET (RU~E 26) W095l02069 PCT~S91/07770 (2) INFORMATION FOR SEQ ID NO: B7:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 ~B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 87:
(2) INFORMATION FOR SEQ ID NO: 88:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 88:
(2) INFORMATION FOR SEQ ID NO: 89:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 89:
SUBSTITUTE SltEET (RUI E 26) W095/02069 2 ~ ~ ~ Q ~ PCT~Sg4l07770 (2) INFORMATION FOR SEQ ID NO: 90:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 90:
(2) INFORMATION FOR SEQ ID NO: 91:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 91:
(2) INFORMATION FOR SEQ ID NO: 92:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear ~ (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 92:
(2) INFORMATION FOR SEQ ID NO: 93:
SU~ITUTE Sl IE~T (RULE 26) W095/02069 PCT~S94/07770 (i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear ~iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 93:
(2) INFORMATION FOR SEQ ID NO: 94:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 94:
(2) INFORMATION FOR SEQ ID NO: 95:
(i) SEQUENCE CHARACTERISTICS:
(A) ~ENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) S_QUENCE DESCRIPTION: SEQ ID NO: 95:
(2) INFOR~L~TION FOR SEQ ID NO: 96:
(i) S-QUENCE CHARACTERISTICS:
SllBSrlTUTE SHEET (RULE 26) W095/02069 ~ 8 PCT~S94/07770 (A) LENGTH: 20 (B) TYPE: nucleic acid (C) .CTRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 96:
(2) INFORMATION FOR SEQ ID NO: 97:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 97:
(2) INFORMATION FOR SEQ ID NO: 98:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-CENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 98:
(2) INFORMATICN FOR SEQ ID NO: 99:
(i) SEQUENCE CHARACTERISTICS:
(A) T - NGTH: 20 SU~ITUTE SHEET (RULE 26) W095/02069 PCT~S94/07770 7a _ (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 99:
(2) INFORMATION FOR SEQ ID NO: 100:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 100:
(2) INFORMATION FOR SEQ ID NO: 101:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 101:
(2) INFORMATION FOR SEQ ID NO: 102:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid SUBSTITUTE ~tEET (RUI E 26) W095/02069 216~ 8 PCT~S94/07770 (C) STRANDEDNESS: single ~D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 102:
(2) INFORMATION FOR SEQ ID NO: 103:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 103:
(2) INFORMATION FOR SEQ ID NO:104:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 1812 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: double (D) TOPOLOGY: linear (ii) MOLECULE TYPE: DNA (genomic) (xi) SEQUENCE DESCRIPTION: SEQ ID NO:104:
TGATCAACTG TTCAGGGTCT CTCTCTTACA ACCAAGAACA TTATCTTAGT GGAAGATGGT
ACGTCATGCT CAGTGTCCAG TTTAATTCTG TAGAAGTTAC GTCTGGCTCT AGGTTAACCC
TTCCTAGAAA GCAAGCAGAC TGTTGCCCCA TTTTGGGTAC AATTTGATAT ACTTTCCATA
SU~STITUTE SHEEr (RU~E 26) W095/02069 . ~ PCT~S94/07770 ~6~ 76 -CCCTCCATCT GTGGATTTTT CAGCATTGGA ATCCCCCAAC CAGAGATGTT AAAGTGAGCT
GTCCCAGGAA ACATCTCCAC CCAAGACGTC TTTGGAATCC AAGAACAGGA AGCCAAGAGA
GTGAGCAGGG AGGGATTGGG GGTGGGGGGA GGCCTCAAAA TACCGACTGC GTCCATTCTC
TGCCTCCATG GAAACAGCCC CTAGAATCTG AAAGGCCGGG ATAAACCTAA TCACTGTTCC
CAAACATTGA CAAATCCTAA CCCAACCATG GTCCAGCAGT TACCAGTTTA AACAAAAAAA
ACCTCAGATG AGTGTTGGGT GAATCTGTCA TCTGGTACCC TCCTTGGTTG ATAACTGTCT
TGATACTTTT CATTCTTTGT AAGAGGCCAA ATCGTCTAAG GACGTTGCTG AACAAGCGTG
TGAAATCATT TCAGATCAAG GATAAGCCAG TGTGTACATA TGTTCATTTT AATCTCTGGG
AGATTATTTT TCCATCCAGG GTGCCATCAG TAATCATGCC ACTACTCACC AGTGTTGTTC
GCCAACACCC ACCCCCACAC ACACCAACAT TTTGCTGCCT ACCTTGTTAT CCTTCTCAAG
AAGCTGAAGT GTACGCCCTC TCCCCTTTTG TGCTTATTTA TTTAATAGGC TGCAGTGTCG
CTTATGAAAG TACGATGTAC AGTAACTTAA TGGAAGTGCT GACTCTAGCA TCAGCCTCTA
CCGATTGATT TTCCTCCCTT CTCTAGCCCT GGATGTCCAC TTAGGGATAA AAAGAATATG
GTTTTGGTTC CCATTTCTAG TTCACGTTGA ATGACAGGCC TGGAGCTGTA GAATCAGGAA
WO9~1020'69 PCT~S94/07770 ACCCGGATGC CTAACAGCTC AAAGATGTTT TGTTAATAGA AGGATTTTAA TACGTTTTGC
AAATGCATCA TGCAATGAAT TTTGCATGTT TATAATAAAC CTTAATAACA AGTGAATAGA
AGGATTTTAA TAC~llll'GC AAATGCATCA TGCAATGAAT TTTGCATGTT TATAATAAAC
CTTAATA~CA AGTGAATCTA TATTATTGAT ATAATCGTAT CAAGTATAAA GAGAGTATTA
TAATAAT~TT ATAAGACACA ATTGTGCTCT ATTTGTGCAG GTTCTTGTTT CTAATCCTCT
TTTCTAATTA AGTTTTAGCT GAATCCCTTG CTTCTGTGCT TTCCCTCCCT GCACATGGGC
ACTGTATCAG ATAGATTACT TTTTAAATGT AGATAAAATT TCAAAAATGA ATGGCTAGTT
TACGTGATAG ATTAGGCTCT TACTACATAT GTGTGTGTAT ATATATGTAT TTGATTCTAC
CTGCAAACAA Alllll'ATTG GTGAGGACTA TTTTTGAGCT GACACTCCCT CTTAGTTTCT
1~60 TCATGTCACC TTTCGTCCTG GTTCCTCCGC CACTCTTCCT CTTGGGGACA ACAGGAAGTG
TCTGATTCCA GTCTGGCCTA GTACGTTGGT ACACACGTGG CATTGCGCAG CACCTGGGCT
GACCTTTGTG TGTAGCGTGT GTGTGTGTTT CCTTCTTCCC TTCAGCCTGT GACTGTTGCT
GACTCCAGGG GTGGGAGGGA TGGGGAGACT CCCCTCTTGC TGTGTGTACT GGACACGCAG
GAAGCATGCT GA
W095/02069 PCT~S9~/07770 (2) INFORMATION FOR SEQ ID NO:105:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 1757 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: double (D) TOPOLOGY: linear (ii) MOLECULE TYPE: DNA (genomic) (xi) SEQUENCE DESCRIPTION: SEQ ID NO:105:
ATGGTACGTC ATGCTCAGTG TCCAGTTTAA TTCTGTAGAA GTTACGTCTG GCTCTAGGTT
AACCCTTCCT AGAAAGCAAG CAGACTGTTG CCCCATTTTG GGTACAATTT GATATACTTT
CCATACCCTC CATCTGTGGA TTTTTCAGCA TTGGAATCCC CCAACCAGAG ATGTTAAAGT
GAGCTGTCCC AGGAAACATC TCCACCCAAG ACGTCTTTGG AATCCAAGAA CAGGAAGCCA
AGAGAGTGAG CAGGGAGGGA TTGGGGGTGG GGGGAGGCCT CAAAATACCG ACTGCGTCCA
TTCTCTGCCT CCATGGAAAC AGCCCCTAGA ATCTGAAAGG CCGGGATAAA CCTAATCACT
GTTCCCAAAC ATTGACAAAT CCTAACCCAA CCATGGTCCA GCAGTTACCA GTTTAAACAA
AAAAAACCTC AGATGAGTGT TGGGTGAATC TGTCATCTGG TACCCTCCTT GGTTGATAAC
TGTCTTGATA CTTTTCATTC TTTGTAAGAG GCCAAATCGT CTAAGGACGT TGCTGAACAA
GCGTGTGA~A TCATTTCAGA TCAAGGATAA GCCAGTGTGT ACATATGTTC ATTTTAATCT
W095/02069 2 ~ ~ ~ Q ~ ~ PCT~S94/07770 CTGGGAGATT ATTTTTCCAT CCAGGGTGCC ATCAGTAATC ATGCCACTAC TCACCAGTGT
TGTTCGCCAA CACCCACCCC CACACACACC AACATTTTGC TGCCTACCTT GTTATCCTTC
TCAAGA~.GCT GAAGTGTACG CCCTCTCCCC TTTTGTGCTT ATTTATTTAA TAGGCTGCAG
TGTCGCTTAT GAAAGTACGA TGTACAGTAA CTTAATGGAA GTGCTGACTC TAGCATCAGC
CTCTACCGAT TGATTTTCCT CCCTTCTCTA GCCCTGGATG TCCACTTAGG GATAAAbAGA
ATATGGTTTT GGTTCCCATT TCTAGTTCAC GTTGAATGAC AGGCCTGGAG CTGTAGAATC
AGGAAACCCG GATGCCTAAC AGCTCAAAGA TGTTTTGTTA ATAGAAGGAT TTTAATACGT
TTTGCAAATG CATCATGCAA TGAATTTTGC ATGTTTATAA TAAACCTTAA TAACAAGTGA
ATAGAAGGAT TTTAATACGT TTTGCAbATG CATCATGCAA TGAATTTTGC ATGTTTATAA
TAAACCTTAA TAACAAGTGA ATCTATATTA TTGATATAAT CGTATCAAGT ATAAAGAGAG
TATTATAATA ATTTTATAAG ACACAATTGT GCTCTATTTG TGCAGGTTCT TGTTTCTAAT
CCTCTTTTCT AATTAAGTTT TAGCTGAATC CCTTGCTTCT GTGCTTTCCC TCCCTGCACA
TGGGCACTGT ATCAGATAGA TTA~lllllA AATGTAGATA AAATTTCAAA AATGAATGGC
TAGTTTACGT GATAGATTAG GCTCTTACTA CATATGTGTG TGTATATATA TGTATTTGAT
W095/02069 PCT~S94/07770 2 ~S 6~ 80 - ~
TCTACCTGCA AACAAATTTT TATTGGTGAG GACTATTTTT GAGCTGACAC TCCCTCTTAG
TTTCTTCATG TCACCTTTCG TCCTGGTTCC TCCGCCACTC TTCCTCTTGG GGACAACAGG
AAGTGTCTGA TTCCAGTCTG GCCTAGTACG TTGGTACACA CGTGGCATTG CGCAGCACCT
GGGCTGACCT TTGTGTGTAG CGTGTGTGTG TGTTTCCTTC TTCCCTTCAG CCTGTGACTG
TTGCTGACTC CAGGGGTGGG AGGGATGGGG AGACTCCCCT CTTGCTGTGT GTACTGGACA
CGCAGGAAGC ATGCTGA
17~7 (2) INFORMATION FOR SEQ ID NO:106:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 676 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: double (D) TOPOLOGY: linear (ii) MOLECULE TYPE: DNA (genomic) (xi) SEQUENCE DESCRIPTION: SEQ ID NO:106:
TAGAAGGATT TTAATACGTT TTGCAAATGC ATCATGCAAT GAATTTTGCA TGTTTATA~T
AAACCTTAAT AACAAGTGAA TCTATATTAT TGATATAATC GTATCAAGTA TAAAGAGAGT
ATTATAATAA TTTTATAAGA CACAATTGTG CTCTATTTGT GCAGGTTCTT GTTTCTAATC
W095/020,69 PCT~S94/07770 ~ 8 CTCTTTTCTA ATTAAGTTTT AGCTGAATCC CTTGCTTCTG TGCTTTCCCT CCCTGCACAT
GGGCACTGTA TCAGATAGAT TA~llll~ AA ATGTAGATAA AATTTCAAAA ATGAATGGCT
AGTTTACGTG ATAGATTAGG CTCTTACTAC ATATGTGTGT GTATATATAT GTATTTGATT
CTACCTGCAA ACA~ATTTTT ATTGGTGAGG ACTATTTTTG AGCTGACACT CCCTCTTAGT
TTCTTCATGT CACCTTTCGT CCTGGTTCCT CCGCCACTCT TCCTCTTGGG GACAACAGGA
AGTGTCTGAT TCCAGTCTGG CCTAGTACGT TGGTACACAC GTGGCATTGC GCAGCACCTG' GGCTGACCTT TGTGTGTAGC GTGTGTGTGT GTTTCCTTCT TCCCTTCAGC CTGTGACTGT
TGCTGACTCC AGGGGTGGGA GGGATGGGGA GACTCCCCTC TTGCTGTGTG TACTGGACAC
GCAGGAAGCA TGCTGA
(2) INFORMATION FOR SEQ ID NO: 107:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 37 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: no (xi) SEQUENCE DESCRIPTION: SEQ ID NO:107:
GGCCACGCGT CGACTAGTAC ~l"l"l"l"l"l"l"l"l"l~l"l"l"l"l"l"l~ 37 W095/02069 PCT~S94/07770 2 ~ 82 -(2) INFORMATION FOR SEQ ID NO: 108:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 37 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: no (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 108:
(2) INFORMATION FOR SEQ ID NO: 109:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 109:
(2) INFORMATION FOR SEQ ID NO: 110:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 110:
(2) INFORMATION FOR SEQ ID NO: 111:
W095/02069 ~ PCT~S94/07770 .
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 111:
(2) INFORMATION FOR SEQ ID NO: 112:
(i~ SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 112:
(2) INFORMATION FOR SEQ ID NO: 113:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes ~ (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 113:
(2) INFORMATION FOR SEQ ID NO: 114:
(i) SEQUENCE CHARACTERISTICS:
WO9~/02069 PCT~S94/07770 (A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 114:
(2) INFORMATION FOR SEQ ID NO: 115:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 115:
(2) INFORMATION FOR SEQ ID NO: 116:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 116:
(2) INFORMATION FOR SEQ ID NO: 117:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 W095/020S9 ~ PCT~S94/07770 .
(B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 117:
(2) INFORMATION FOR SEQ ID NO: 118:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 118:
(2) INFORMATION FOR SEQ ID NO: 119:
(i) SEQUENCE CHARACTERISTICS:
(A) LENGTH: 20 (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPO~OGY: linear (iv) ANTI-SENSE: yes (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 119:
TTAl'AAACAT GCAAAATTCA 20
Claims (152)
1. An oligonucleotide having 5 to 50 nucleotide units specifically hybridizable with a PKC gene or PKC mRNA.
2. The oligonucleotide of claim 1 specifically hybridizable with a translation initiation site, 5' untranslated region, coding region or 3' untranslated region of the PKC gene.
3. The oligonucleotide of claim 1 wherein at least one of the intersugar linkages between nucleotide units of the oligonucleotide is a phosphorothioate.
4. The oligonucleotide of claim 1 wherein at least one of the nucleotides comprises a modification on the 2' position of the sugar.
5. The oligonucleotide of claim 4 wherein the modification is a 2'-O-alkyl or 2'-fluoro modification.
6. The oligonucleotide of claim 4 wherein the modification is a 2'-O-methyl or 2'-O-propyl modification.
7. The oligonucleotide of claim 1 which is a chimeric oligonucleotide.
8. The oligonucleotide of claim 1 wherein said gene or mRNA encodes at least one PKC isozyme.
9. The oligonucleotide of claim 8 wherein said isozyme is PKC-.alpha., PKC-, PKC-.gamma., PKC-?, PKC-? or PKC-.
10. The oligonucleotide of claim 9 wherein said gene or mRNA encodes PKC-.alpha..
11. The oligonucleotide of claim 10 comprising SEQ ID NO:
1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 52 or 53.
1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 52 or 53.
12. The oligonucleotide of claim 9 wherein said gene or mRNA encodes PKC-.
13. The oligonucleotide of claim 12 comprising SEQ ID NO:
21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33 or 34.
21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33 or 34.
14. The oligonucleotide of claim 9 wherein said gene or mRNA encodes PKC-.gamma..
15. The oligonucleotide of claim 14 comprising SEQ ID NO:
35, 36, 37, 38 or 39.
35, 36, 37, 38 or 39.
16. The oligonucleotide of claim 9 wherein said gene or mRNA encodes PKC-?.
17. The oligonucleotide of claim 16 comprising SEQ ID NO:
40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 54, 55, 56, 57, 58, 59, 60, 61 or 62.
40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 54, 55, 56, 57, 58, 59, 60, 61 or 62.
18. A pharmaceutical composition comprising the oligonucleotide of claim 1 and a pharmaceutically acceptable carrier or diluent.
19. A chimeric oligonucleotide having SEQ ID NO: 2.
20. The oligonucleotide of claim 19 wherein at least one of the intersugar linkages between nucleotide units of the oligonucleotide is a phosphorothioate.
21. The oligonucleotide of claim 19 wherein at least one of the nucleotide units comprises a modification on the 2' position of the sugar.
22. The oligonucleotide of claim 21 wherein the modification is a 2'-O-alkyl or 2'-fluoro modification.
23. The oligonucleotide of claim 22 wherein the modification is a 2'-O-methyl or 2'-O-propyl modification.
24. A pharmaceutical composition comprising the oligonucleotide of claim 19 and a pharmaceutically acceptable carrier or diluent.
25. A chimeric oligonucleotide having SEQ ID NO: 3.
26. The oligonucleotide of claim 25 wherein at least one of the intersugar linkages between nucleotide units of the oligonucleotide is a phosphorothioate.
27. The oligonucleotide of claim 25 wherein at least one of the nucleotides comprises a modification on the 2' position of the sugar.
28. The oligonucleotide of claim 27 wherein the modification is a 2'-O-alkyl or 2'-fluoro modification.
29. The oligonucleotide of claim 28 wherein the modification is a 2'-O-methyl or 2'-O-propyl modification.
30. A pharmaceutical composition comprising the oligonucleotide of claim 25 and a pharmaceutically acceptable carrier or diluent.
31. A chimeric oligonucleotide having SEQ ID NO: 5.
32. The oligonucleotide of claim 31 wherein at least one of the intersugar linkages between nucleotide units of the oligonucleotide is a phosphorothioate.
33. The oligonucleotide of claim 31 wherein at least one of the nucleotide units comprises a modification on the 2' position of the sugar.
34. The oligonucleotide of claim 33 wherein the modification is a 2'-O-alkyl or 2'-fluoro modification.
35. The oligonucleotide of claim 34 wherein the modification is a 2'-O-methyl or 2'-O-propyl modification.
36. A pharmaceutical composition comprising the oligonucleotide of claim 31 and a pharmaceutically acceptable carrier or diluent.
37. A method of modulating the expression of PKC in cells comprising contacting the cells with an oligonucleotide having from about 5 to about 50 nucleotide units, said oligonucleotide being specifically hybridizable with a PKC
gene or PKC mRNA.
gene or PKC mRNA.
38. The method of claim 37 wherein said oligonucleotide is specifically hybridizable with a translation initiation site, 5' untranslated region, coding region or 3' untranslated region of the PKC gene.
39. The method of claim 37 wherein at least one of the intersugar linkages between nucleotide units of the oligonucleotide is a phosphorothioate moiety.
40. The method of claim 37 wherein at least one of the nucleotides of the oligonucleotide comprises a modification on the 2' position of the sugar.
41. The method of claim 40 wherein the modification is a 2'-O-alkyl or 2'-fluoro modification.
42. The method of claim 41 wherein the modification is a 2'-O-methyl or 2'-O-propyl modification.
43. The method of claim 37 wherein the oligonucleotide is a chimeric oligonucleotide.
44. The method of claim 37 wherein said gene or mRNA
encodes at least one PKC isozyme.
encodes at least one PKC isozyme.
45. The method of claim 44 wherein said gene or mRNA
encodes PKC-.alpha., PKC-, PKC-.gamma., PKC-?, PKC-? or PKC-.
encodes PKC-.alpha., PKC-, PKC-.gamma., PKC-?, PKC-? or PKC-.
46. The method of claim 45 wherein said gene or mRNA
encodes PKC-.alpha..
encodes PKC-.alpha..
47. The method of claim 46 wherein said oligonucleotide comprises SEQ ID NO: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 52 or 53.
48. The method of claim 45 wherein said gene or mRNA
encodes PKC-.
encodes PKC-.
49. The method of claim 48 wherein said oligonucleotide comprises SEQ ID: 21, 22, 23, 24, 25, 25, 27, 28, 29, 30, 31, 32, 33 or 34.
50. The method of claim 45 wherein said gene or mRNA
encodes PKC-.gamma..
encodes PKC-.gamma..
51. The method of claim 50 wherein said oligonucleotide comprises SEQ ID NO: 35, 36, 37, 38 or 39.
52. The method of claim 45 wherein said gene or mRNA
encodes PKC-?.
encodes PKC-?.
53. The method of claim 52 wherein said oligonucleotide comprises SEQ ID NO: 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 54, 55, 56, 57, 58, 59, 60, 61 or 62.
54. A method of modulating the expression of PKC
comprising contacting cells with a chimeric oligonucleotide having SEQ ID NO: 2.
comprising contacting cells with a chimeric oligonucleotide having SEQ ID NO: 2.
55. A method of modulating the expression of PKC
comprising contacting cells with a chimeric oligonucleotide having SEQ ID NO: 3.
comprising contacting cells with a chimeric oligonucleotide having SEQ ID NO: 3.
56. A method of modulating the expression of PKC
comprising contacting cells with a chimeric oligonucleotide having SEQ ID NO: 5.
comprising contacting cells with a chimeric oligonucleotide having SEQ ID NO: 5.
57. A method of detecting in a sample the presence of a PKC gene or PKC mRNA comprising contacting the sample with an oligonucleotide having 5 to 50 nucleotide units specifically hybridizable with said gene or mRNA, and detecting hybridization.
58. The method of claim 57 wherein at least one of the intersugar linkages between nucleotide units of the oligonucleotide is a phosphorothioate.
59. The method of claim 57 wherein at least one of the nucleotides of the oligonucleotide comprises a modification on the 2' position of the sugar.
60. The method of claim 57 wherein said gene or mRNA
encodes at least one PKC isozyme.
encodes at least one PKC isozyme.
61. The method of claim 60 wherein said gene or mRNA
encodes PKC-.alpha., PKC-, PKC-.gamma., PKC-?, PKC-? or PKC-.
encodes PKC-.alpha., PKC-, PKC-.gamma., PKC-?, PKC-? or PKC-.
62. The method of claim 61 wherein said gene or mRNA
encodes PKC-.alpha..
encodes PKC-.alpha..
63. The method of claim 62 wherein said oligonucleotide comprises SEQ ID NO: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 52 or 53.
64. The method of claim 61 wherein said gene or mRNA
encodes PKC-.
encodes PKC-.
65. The method of claim 64 wherein said oligonucleotide comprises SEQ ID NO: 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33 or 34.
66. The method of claim 61 wherein said gene or mRNA
encodes PKC-.gamma..
encodes PKC-.gamma..
67. The method of claim 66 wherein said oligonucleotide comprises SEQ ID NO: 3 5, 3 6, 3 7, 3 8 or 39.
68. The method of claim 61 wherein said gene or RNA
encodes PKC-?.
encodes PKC-?.
69. The method of claim 68 wherein said oligonucleotide comprises SEQ ID NO: 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 54, 55, 56, 57, 58, 59, 60, 61 or 62.
70. A method of treating a condition associated with expression of PKC comprising administering to a mammal or cells thereof with a therapeutically effective amount of an oligonucleotide having 5 to 5 0 nucleotide units specifically hybridizable with a PKC gene or mRNA.
71. The method of claim 70 wherein said condition is a hyperproliferative disorder.
72. The method of claim 71 wherein said hyperproliferative disorder is psoriasis.
73. The method of claim 71 wherein said hyperproliferative disorder is colorectal cancer.
74. The method of claim 71 wherein said hyperproliferative disorder is lung cancer.
75. The method of claim 71 wherein said hyperproliferative disorder is breast cancer.
76. The method of claim 71 wherein said hyperproliferative disorder is skin cancer.
77. The method of claim 70 wherein said oligonucleotide is specifically hybridizable with a translation initiation site, 5' untranslated region, coding region or 3' untranslated region of the PKC gene or mRNA.
78. The method of claim 70 wherein at least one of the intersugar linkages between nucleotide units of the oligonucleotide is a phosphorothioate.
79. The method of claim 70 wherein at least one of the nucleotides of the oligonucleotide comprises a modification on the 2' position of the sugar.
80. The method of claim 79 wherein the modification is a 2'-O-alkyl or 2'-fluoro modification.
81. The method of claim 80 wherein the modification is a 2'-O-methyl or 2'-O-propyl modification.
82. The method of claim 70 wherein the oligonucleotide is a chimeric oligonucleotide.
83. The method of claim 70 wherein said oligonucleotide is in a pharmaceutically acceptable carrier or diluent.
84. The method of claim 83 wherein said carrier or diluent comprises a cationic lipid.
85. The method of claim 70 wherein said gene or mRNA
encodes at least one PKC isozyme.
encodes at least one PKC isozyme.
86. The method of claim 85 wherein said gene or mRNA
encodes PKC-.alpha., PKC-, PKC-.gamma., PKC-?, PKC-? or PKC-.
encodes PKC-.alpha., PKC-, PKC-.gamma., PKC-?, PKC-? or PKC-.
87. The method of claim 86 wherein said gene or mRNA
encodes PKC-.alpha..
encodes PKC-.alpha..
88. The method of claim 87 wherein said oligonucleotide comprises SEQ ID NO: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 52 or 53.
89. The method of claim 85 wherein said gene or mRNA
encodes PKC-.
encodes PKC-.
90. The method of claim 89 wherein said oligonucleotide comprises SEQ ID NO: 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33 or 34.
91. The method of claim 85 wherein said gene or mRNA
encodes PKC-.gamma..
encodes PKC-.gamma..
92. The method of claim 91 wherein said oligonucleotide comprises SEQ ID NO: 85, 36, 37, 38 or 39.
93. The method of claim 85 wherein said gene or RNA
encodes PKC-?.
encodes PKC-?.
94. The method of claim 93 wherein said oligonucleotide comprises SEQ ID NO: 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 54, 55, 56, 57, 58, 59, 60, 61 or 62.
95. A method of treating a condition associated with PKC
comprising administering to mammalian cells a therapeutically effective amount of an oligonucleotide having SEQ ID NO: 2, 3 or 5.
comprising administering to mammalian cells a therapeutically effective amount of an oligonucleotide having SEQ ID NO: 2, 3 or 5.
96. A method of diagnosing a condition associated with PKC
comprising contacting a sample from a mammal suspected of having a condition associated with PKC with an oligonucleotide having 5 to 50 nucleotide units specifically hybridizable with a PKC gene or mRNA, and detecting hybridization.
comprising contacting a sample from a mammal suspected of having a condition associated with PKC with an oligonucleotide having 5 to 50 nucleotide units specifically hybridizable with a PKC gene or mRNA, and detecting hybridization.
97. The method of claim 96 wherein said condition is a hyperproliferative disorder.
98. The method of claim 97 wherein said hyperproliferative disorder is psoriasis, colorectal cancer, lung cancer, breast cancer, or skin cancer.
99. The method of claim 96 wherein at least one of the intersugar linkages between nucleotide units of the oligonucleotide is a phosphorothioate.
100. The method of claim 96 wherein at least one of the nucleotides of the oligonucleotide comprises a modification on the 2' position of the sugar.
101. The method of claim 96 wherein the oligonucleotide is a chimeric oligonucleotide.
102. The method of claim 96 wherein said gene or mRNA
encodes at least one PKC isozyme.
encodes at least one PKC isozyme.
103. The method of claim 102 wherein said gene or mRNA
encodes PKC-.alpha., PKC-, PKC-.gamma., PKC-?, PKC-? or PKC-.
encodes PKC-.alpha., PKC-, PKC-.gamma., PKC-?, PKC-? or PKC-.
104. The method of claim 103 wherein said gene or mRNA
encodes PKC-.alpha..
encodes PKC-.alpha..
105. The method of claim 104 wherein said oligonucleotide comprises SEQ ID NO: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 52 or 53.
106. The method of claim 103 wherein said gene or mRNA
encodes PKC-.
encodes PKC-.
107. The method of claim 106 wherein said oligonucleotide comprises SEQ ID NO: 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33 or 34.
108. The method of claim 103 wherein said gene or mRNA
encodes PKC-.gamma..
encodes PKC-.gamma..
109. The method of claim 108 wherein said oligonucleotide comprises SEQ ID NO: 35, 36, 37, 38 or 39.
110. The method of claim 103 wherein said gene or mRNA
encodes PKC-?.
encodes PKC-?.
111. The method of claim 110 wherein said oligonucleotide comprises SEQ ID NO: 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 54, 55, 56, 57, 58, 59, 60, 61 or 62.
112. The oligonucleotide of claim 9 wherein said isozyme is PKC-?.
113. The oligonucleotide of claim 112 comprising SEQ ID NO:
63, 64, 67, 68, 69, 71, 73, 74, 76, 77, 78, 79, 80, 81, 84 or 85.
63, 64, 67, 68, 69, 71, 73, 74, 76, 77, 78, 79, 80, 81, 84 or 85.
114. The oligonucleotide of claim 9 wherein said isozyme is PKC-.
115 . The oligonucleotide of claim 114 comprising SEQ ID NO:
95, 97, 98, 99 or 101.
95, 97, 98, 99 or 101.
116. The method of claim 45 wherein said gene or mRNA
encodes PKC-?.
encodes PKC-?.
117. The method of claim 116 comprising SEQ ID NO: 63, 64, 67, 68, 69, 71, 73, 74, 76, 77, 78, 79, 80, 81, 84 or 85..
118. The method of claim 45 wherein said gene or mRNA
encodes PKC-.
encodes PKC-.
119. The method of claim 118 comprising SEQ ID NO: 95, 97, 98, 99 or 101.
120. The method of claim 61 wherein said gene or mRNA
encodes PKC-?.
encodes PKC-?.
121. The method of claim 120 comprising SEQ ID NO: 63, 64, 67, 68, 69, 71, 73, 74, 76, 77, 78, 79, 80, 81, 84 or 85.
122. The method of claim 61 wherein said gene or mRNA
encodes PKC-.
encodes PKC-.
123. The method of claim 122 comprising SEQ I3 NO: 95, 97, 98, 99 or 101.
124. The method of claim 86 wherein said gene or mRNA
encodes PKC-?.
encodes PKC-?.
125. The method of claim 124 comprising SEQ ID NO: 63, 64, 67, 68, 69, 71, 73, 74, 76, 77, 78, 79, 80, 81, 84 or 85.
126. The method of claim 86 wherein said gene or mRNA
encodes PKC-.
encodes PKC-.
127. The method of claim 126 comprising SEQ ID NO: 95, 97, 98, 99 or 101.
128. The method of claim 103 wherein said gene or mRNA
encodes PKC-?.
encodes PKC-?.
129. The method of claim 128 comprising SEQ ID NO: 63, 64, 67, 68, 69, 71, 73, 74, 76, 77, 78, 79, 80, 81, 84 or 85.
130. The method of claim 103 wherein said gene or mRNA
encodes PKC-.
encodes PKC-.
131. The method of claim 130 comprising SEQ ID NO: 95, 97, 98 , 99 or 101.
132. An isolated nucleic acid molecule comprising a sequence substantially homologous to the sequence set forth in SEQ ID NO: 105.
133. The nucleic acid molecule of claim 132 wherein said nucleic acid molecule is comprised of deoxyribonucleic acid subunits.
134. The nucleic acid molecule of claim 133 wherein said nucleic acid molecule is double-stranded.
135. An isolated nucleic acid molecule comprising a sequence substantially complementary to the sequence set forth in SEQ ID NO: 105.
136. An antisense oligonucleotide 5 to 50 nucleotides in length comprising a nucleotide sequence specifically hybridizable with a portion of the sequence set forth in SEQ
ID NO: 105.
ID NO: 105.
137. A pharmaceutical composition comprising the oligonucleotide of claim 136 and a pharmaceutically acceptable carrier.
138. A polynucleotide probe comprising a nucleotide sequence specifically hybridizable with a portion of the nucleic acid molecule of claim 132.
139. A polynucleotide probe comprising a nucleotide sequence specifically hybridizable with a portion of the nucleic acid molecule of claim 135.
140. An antisense oligonucleotide 5 to 50 nucleotides in length comprising a nucleotide sequence which is specifically hybridizable with the long mRNA transcript of human PKC.alpha. and which is not specifically hybridizable with the short mRNA
transcript of human PKC.alpha..
transcript of human PKC.alpha..
141. The antisense oligonucleotide of claim 140 comprising a nucleotide sequence specifically hybridizable with a portion of the sequence set forth in SEQ ID NO: 106.
142. The oligonucleotide of claim 141 comprising the sequence set forth in SEQ ID NO: 115.
143. A pharmaceutical composition comprising an oligonucleotide of claim 139 and a pharmaceutically acceptable carrier.
144. A polynucleotide probe comprising a nucleotide sequence specifically hybridizable to the long mRNA
transcript of human PKC.alpha..
transcript of human PKC.alpha..
145. The polynucleotide probe of claim 144 comprising a nucleotide sequence specifically hybridizable with a portion of the sequence set forth in SEQ ID NO: 115.
146. The polynucleotide probe of claim 145 comprising a sequence as set forth in SEQ ID NO: 115.
147. A method for detecting a gene coding for human PKC.alpha. in a sample comprising contacting the sample with a polynucleotide probe of claim 138 or claim 139 under conditions which allow for the formation of a polynucleotide duplex between the probe and said gene coding for PKC.alpha.; and detecting the presence or absence of a polynucleotide duplex whereby the presence of a polynucleotide duplex indicates the presence of said gene coding for human PKC.alpha. in said sample.
148. A method for detecting the long mRNA transcript of human PKC.alpha. in a sample comprising contacting the sample with the polynucleotide probe of claim 144 under conditions which allow the formation of a polynucleotide duplex between the probe and the long mRNA transcript of human PKC.alpha. and detecting the presence or absence of a polynucleotide duplex whereby the presence of a polynucleotide duplex indicates the presence of said long mRNA transcript of human PKC.alpha. in said sample.
149. A method for modulating the expression of PKC.alpha. in a cell containing a PKC.alpha. gene comprising contacting the cell with an antisense oligonucleotide 5 to 50 nucleotides in length, said antisense oligonucleotide comprising a nucleotide sequence specifically hybridizable with a portion of the sequence set forth in SEQ ID NO: 105.
150. A method for specifically modulating the expression of the long mRNA transcript of PKC.alpha. in a cell containing a PKC.alpha.
gene comprising contacting the cell with an antisense oligonucleotide 5 to 50 nucleotides in length, said antisense oligonucleotide comprising a nucleotide sequence specifically hybridizable with a portion of the sequence set forth in SEQ
ID NO: 106.
gene comprising contacting the cell with an antisense oligonucleotide 5 to 50 nucleotides in length, said antisense oligonucleotide comprising a nucleotide sequence specifically hybridizable with a portion of the sequence set forth in SEQ
ID NO: 106.
151. A method of treating an animal having a condition associated with PKC.alpha. comprising contacting said animal with a therapeutically effective amount of an antisense oligonucleotide 5 to 50 nucleotides in length, said antisense oligonucleotide comprising a nucleotide sequence specifically hybridizable with a portion of the sequence set forth in SEQ
ID NO: 105.
ID NO: 105.
152. A method of treating an animal having a condition associated with expression of PKC.alpha. comprising contacting said animal with a therapeutically effective amount of an antisense oligonucleotide 5 to 50 nucleotides in length, said antisense oligonucleotide comprising a nucleotide sequence specifically hybridizable with a portion of the sequence set forth in SEQ ID NO: 106.
Applications Claiming Priority (4)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| US08/089,996 | 1993-07-09 | ||
| US08/089,996 US5703054A (en) | 1992-03-16 | 1993-07-09 | Oligonucleotide modulation of protein kinase C |
| US08/199,779 US5681747A (en) | 1992-03-16 | 1994-02-22 | Nucleic acid sequences encoding protein kinase C and antisense inhibition of expression thereof |
| US08/199,779 | 1994-02-22 |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| CA2166058A1 true CA2166058A1 (en) | 1995-01-19 |
Family
ID=26781147
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| CA002166058A Abandoned CA2166058A1 (en) | 1993-07-09 | 1994-07-08 | Oligonucleotide modulation of protein kinase c |
Country Status (12)
| Country | Link |
|---|---|
| US (2) | US5681747A (en) |
| EP (1) | EP0714449A4 (en) |
| JP (4) | JP3553068B2 (en) |
| KR (1) | KR100211424B1 (en) |
| AU (1) | AU688354B2 (en) |
| BR (1) | BR9406931A (en) |
| CA (1) | CA2166058A1 (en) |
| FI (1) | FI960089A (en) |
| HU (1) | HU219017B (en) |
| NO (1) | NO960079L (en) |
| NZ (1) | NZ269653A (en) |
| WO (1) | WO1995002069A1 (en) |
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| GB9519109D0 (en) * | 1995-09-19 | 1995-11-22 | Ciba Geigy Ag | Compositions |
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| GB9618376D0 (en) | 1996-09-04 | 1996-10-16 | Ciba Geigy Ag | Pharmaceutical compositions |
| AU738352B2 (en) * | 1997-04-30 | 2001-09-13 | Isis Pharmaceuticals, Inc. | Oligonucleotides for enhanced bioavailability |
| US6312941B1 (en) | 1997-11-26 | 2001-11-06 | The Regents Of The University Of Michigan | Compositions and methods for identifying signaling pathway agonists and antagonists |
| US5968732A (en) * | 1997-12-31 | 1999-10-19 | Akzo Nobel, N.V. | Isothermal transcription based assay for the detection and genotyping of dengue virus |
| US6815187B1 (en) * | 1998-02-04 | 2004-11-09 | Beth Israel Deaconess Medical Center | Stimulation of angiogenesis via syndecan-4 cytoplasmic domain signaling pathway |
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| US6867294B1 (en) * | 1998-07-14 | 2005-03-15 | Isis Pharmaceuticals, Inc. | Gapped oligomers having site specific chiral phosphorothioate internucleoside linkages |
| US6277967B1 (en) | 1998-07-14 | 2001-08-21 | Isis Pharmaceuticals, Inc. | Carbohydrate or 2′-modified oligonucleotides having alternating internucleoside linkages |
| US6242589B1 (en) | 1998-07-14 | 2001-06-05 | Isis Pharmaceuticals, Inc. | Phosphorothioate oligonucleotides having modified internucleoside linkages |
| EP1108018A1 (en) * | 1998-08-31 | 2001-06-20 | AstraZeneca AB | Human deltex-like gene zdx |
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| CA2562673A1 (en) * | 2004-04-22 | 2005-11-03 | Yissum Research Development Company Of The Hebrew University Of Jerusal Em | Universal target sequences for sirna gene silencing |
| US7482158B2 (en) * | 2004-07-01 | 2009-01-27 | Mathison Brian H | Composite polynucleic acid therapeutics |
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| US5034506A (en) * | 1985-03-15 | 1991-07-23 | Anti-Gene Development Group | Uncharged morpholino-based polymers having achiral intersubunit linkages |
| US5194428A (en) * | 1986-05-23 | 1993-03-16 | Worcester Foundation For Experimental Biology | Inhibition of influenza virus replication by oligonucleotide phosphorothioates |
| US4806463A (en) * | 1986-05-23 | 1989-02-21 | Worcester Foundation For Experimental Biology | Inhibition of HTLV-III by exogenous oligonucleotides |
| US5276019A (en) * | 1987-03-25 | 1994-01-04 | The United States Of America As Represented By The Department Of Health And Human Services | Inhibitors for replication of retroviruses and for the expression of oncogene products |
| US5004810A (en) * | 1988-09-30 | 1991-04-02 | Schering Corporation | Antiviral oligomers |
| US5098890A (en) * | 1988-11-07 | 1992-03-24 | Temple University-Of The Commonwealth System Of Higher Education | Antisence oligonucleotides to c-myb proto-oncogene and uses thereof |
| US5087617A (en) * | 1989-02-15 | 1992-02-11 | Board Of Regents, The University Of Texas System | Methods and compositions for treatment of cancer using oligonucleotides |
| US5620963A (en) * | 1991-10-15 | 1997-04-15 | Isis Pharmaceuticals, Inc. | Oligonucleotides for modulating protein kinase C having phosphorothioate linkages of high chiral purity |
| US5166195A (en) * | 1990-05-11 | 1992-11-24 | Isis Pharmaceuticals, Inc. | Antisense inhibitors of the human immunodeficiency virus phosphorothioate oligonucleotides |
| US5135917A (en) * | 1990-07-12 | 1992-08-04 | Nova Pharmaceutical Corporation | Interleukin receptor expression inhibiting antisense oligonucleotides |
| EP1044987B1 (en) * | 1991-12-24 | 2006-02-15 | Isis Pharmaceuticals, Inc. | Gapped 2'-modified oligonucleotides |
| US5681747A (en) * | 1992-03-16 | 1997-10-28 | Isis Pharmaceuticals, Inc. | Nucleic acid sequences encoding protein kinase C and antisense inhibition of expression thereof |
| EP1310555A3 (en) * | 1992-03-16 | 2003-08-27 | Isis Pharmaceuticals, Inc. | Oligonucleotide modulation of protein kinase c |
| EP0592634A1 (en) * | 1992-04-06 | 1994-04-20 | Glaxo, S.A. | Inhibitor of protein kinase c |
| FR2706484B1 (en) * | 1993-06-11 | 1995-09-01 | Inst Nat Sante Rech Med | Protein kinase C mutant polypeptide, nucleic acid sequences encoding said polypeptide, and uses thereof. |
| AU7551694A (en) * | 1993-07-29 | 1995-02-28 | Isis Pharmaceuticals, Inc. | Oligomers for modulating protein kinase c |
-
1994
- 1994-02-22 US US08/199,779 patent/US5681747A/en not_active Expired - Fee Related
- 1994-07-08 KR KR1019960700090A patent/KR100211424B1/en not_active IP Right Cessation
- 1994-07-08 AU AU73981/94A patent/AU688354B2/en not_active Withdrawn - After Issue
- 1994-07-08 HU HU9600050A patent/HU219017B/en not_active IP Right Cessation
- 1994-07-08 WO PCT/US1994/007770 patent/WO1995002069A1/en not_active Application Discontinuation
- 1994-07-08 BR BR9406931A patent/BR9406931A/en not_active Application Discontinuation
- 1994-07-08 EP EP94923932A patent/EP0714449A4/en not_active Withdrawn
- 1994-07-08 JP JP50420195A patent/JP3553068B2/en not_active Expired - Fee Related
- 1994-07-08 CA CA002166058A patent/CA2166058A1/en not_active Abandoned
- 1994-07-08 NZ NZ269653A patent/NZ269653A/en unknown
- 1994-07-08 US US08/578,615 patent/US6015892A/en not_active Expired - Lifetime
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1996
- 1996-01-08 FI FI960089A patent/FI960089A/en not_active IP Right Cessation
- 1996-01-08 NO NO960079A patent/NO960079L/en not_active Application Discontinuation
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2000
- 2000-12-13 JP JP2000379249A patent/JP3349502B2/en not_active Expired - Fee Related
- 2000-12-13 JP JP2000379218A patent/JP3349500B2/en not_active Expired - Fee Related
- 2000-12-13 JP JP2000379234A patent/JP3349501B2/en not_active Expired - Fee Related
Also Published As
| Publication number | Publication date |
|---|---|
| US6015892A (en) | 2000-01-18 |
| JP2001224387A (en) | 2001-08-21 |
| JPH08507929A (en) | 1996-08-27 |
| JP3349500B2 (en) | 2002-11-25 |
| JP2001224386A (en) | 2001-08-21 |
| EP0714449A1 (en) | 1996-06-05 |
| BR9406931A (en) | 1996-09-10 |
| HU219017B (en) | 2001-01-29 |
| HUT75834A (en) | 1997-05-28 |
| JP3553068B2 (en) | 2004-08-11 |
| JP3349502B2 (en) | 2002-11-25 |
| AU688354B2 (en) | 1998-03-12 |
| JP2001231579A (en) | 2001-08-28 |
| NO960079L (en) | 1996-02-29 |
| NZ269653A (en) | 1997-12-19 |
| US5681747A (en) | 1997-10-28 |
| FI960089A (en) | 1996-03-07 |
| KR100211424B1 (en) | 1999-08-02 |
| JP3349501B2 (en) | 2002-11-25 |
| EP0714449A4 (en) | 1998-12-02 |
| HU9600050D0 (en) | 1996-03-28 |
| FI960089A0 (en) | 1996-01-08 |
| AU7398194A (en) | 1995-02-06 |
| WO1995002069A1 (en) | 1995-01-19 |
| NO960079D0 (en) | 1996-01-08 |
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