Thio-siRNA aptamers
First Claim
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1. An isolated thioaptamer that mediates gene silencing, wherein the thioaptamer comprises a double-stranded hybrid thioaptamer.
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Abstract
The present invention includes thioaptamers that are partially thio-modified, methods and compositions for the isolation, selection, improvement, characterization and use of RNA and DNA thioaptamers for gene silencing, including degradative and non-degradative interference with translation.
83 Citations
57 Claims
- 1. An isolated thioaptamer that mediates gene silencing, wherein the thioaptamer comprises a double-stranded hybrid thioaptamer.
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12. An isolated thioaptamer selected from the group consisting of SEQ ID NO.:
- 26 to SEQ ID NO.;
57.
- 26 to SEQ ID NO.;
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13. An isolated thioaptamer that mediates gene silencing, wherein the thioaptamer comprises a combination of short interfering DNA (siDNA);
- a micro, interfering DNA (miDNA);
a small, temporal DNA (stDNA);
a short, hairpin DNA (shDNA);
short interfering RNA (siRNA);
a micro, interfering RNA (mRNA);
a small, temporal RNA (stRNA);
or a short, hairpin RNA (shRNA). - View Dependent Claims (14, 15, 16, 17)
- a micro, interfering DNA (miDNA);
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18. A method of mediating gene silencing of a target gene in a cell or organism comprising the steps of:
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introducing a double-stranded hybrid thioaptamer into the cell or organism; and
maintaining the cell or organism under conditions in which gene silencing occurs, thereby mediating expression of the target gene in the cell or organism. - View Dependent Claims (19, 20, 21, 22)
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23. A method of examining the function of a gene in a cell or organism comprising the steps of:
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introducing a double-stranded hybrid thioaptamer that targets an mRNA of the gene for gene silencing into the cell or organism, thereby producing a test cell or test organism;
maintaining the test cell or test organism under conditions under which gene silencing of mRNA of the gene occurs, thereby producing a test cell or test organism in which mRNA of the gene is silenced; and
observing the phenotype of the test cell or test organism against an appropriate control cell or control organism to provide information about the function of the gene. - View Dependent Claims (24)
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25. A method of assessing whether a gene product is a suitable target for drug discovery comprising the steps of:
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introducing an double-stranded hybrid thioaptamer that mediates gene silencing into a cell or organism under conditions in which gene silencing of an mRNA for the target gene results in decreased expression of the gene; and
determining the effect of the decreased expression of the gene on the cell or organism, wherein if decreased expression has an effect, then the gene product is a target for drug discovery. - View Dependent Claims (26)
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27. A pharmaceutical composition comprising a double-stranded hybrid thioaptamer that mediates thioaptamer gene silencing and an appropriate carrier.
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28. A method for reducing the expression of a gene in a cell, comprising the steps of:
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selecting a double-stranded hybrid thioaptamer that mediates gene silencing of the gene to which it corresponds; and
introducing the thioaptamer into the cell, wherein the thioaptamer mediates RNA interference of a targeted sequence. - View Dependent Claims (29, 30, 31)
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32. A method for attenuating expression of a target gene in cultured cells, comprising the step of:
introducing a double-stranded hybrid thioaptamer into the cells in an amount sufficient to attenuate expression of the target gene, wherein the double-stranded hybrid thioaptamer comprises a nucleotide sequence that hybridizes under stringent conditions to a nucleotide sequence of the target gene and mediates attenuation of protein expression for a gene to which it corresponds. - View Dependent Claims (33)
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34. A method of producing a double-stranded hybrid thioaptamer comprising the steps of:
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combining a double-stranded hybrid thioaptamer precursor with a soluble extract that mediates gene silencing, thereby producing a precursor-extract mixture; and
maintaining the precursor-extract mixture under conditions in which the double-stranded hybrid thioaptamer is processed to the mature thioaptamer. - View Dependent Claims (35, 36, 37, 38)
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39. A method of mediating gene silencing of a target gene in a cell or organism comprising the steps of:
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introducing a thioaptamer into the cell or organism, wherein the thioaptamer comprises a combination of short interfering DNA (siDNA);
a micro, interfering DNA (miDNA);
a small, temporal DNA (stDNA);
a short, hairpin DNA (shDNA);
short interfering RNA (siRNA);
a micro, interfering RNA (mRNA);
a small, temporal RNA (stRNA);
or a short, hairpin RNA (shRNA); and
maintaining the cell or organism under conditions in which gene silencing occurs, thereby mediating expression of the target gene in the cell or organism. - View Dependent Claims (40, 41, 42, 43, 44)
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45. A method of examining the function of a gene in a cell or organism comprising the steps of:
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introducing a thioaptamer comprises a combination of short interfering DNA (siDNA);
a micro, interfering DNA (miDNA);
a small, temporal DNA (stDNA);
a short, hairpin DNA (shDNA);
short interfering RNA (siRNA);
a micro, interfering RNA (mRNA);
a small, temporal RNA (stRNA);
or a short, hairpin RNA (shRNA) that targets an mRNA of the gene for gene silencing into the cell or organism, thereby producing a test cell or test organism;
maintaining the test cell or test organism under conditions under which gene silencing of mRNA of the gene occurs, thereby producing a test cell or test organism in which mRNA of the gene is silenced; and
observing the phenotype of the test cell or test organism against an appropriate control cell or control organism to provide information about the function of the gene.
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46. A method of assessing whether a gene product is a suitable target for drug discovery comprising the steps of:
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introducing a thioaptamer comprises a combination of short interfering DNA (siDNA);
a micro, interfering DNA (miDNA);
a small, temporal DNA (stDNA);
a short, hairpin DNA (shDNA);
short interfering RNA (siRNA);
a micro, interfering RNA (mRNA);
a small, temporal RNA (stRNA);
or a short, hairpin RNA (shRNA) that mediates gene silencing into a cell or organism under conditions in which gene silencing of an mRNA for the target gene results in decreased expression of the gene; and
determining the effect of the decreased expression of the gene on the cell or organism, wherein if decreased expression has an effect, then the gene product is a target for drug discovery.
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47. A pharmaceutical composition comprising a thioaptamer that mediates thioaptamer gene silencing and an appropriate carrier, wherein the thioaptamer comprises a combination of short interfering DNA (siDNA);
- a micro, interfering DNA (miDNA);
a small, temporal DNA (stDNA);
a short, hairpin DNA (shDNA);
short interfering RNA (siRNA);
a micro, interfering RNA (mRNA);
a small, temporal RNA (stRNA);
or a short, hairpin RNA (shRNA).
- a micro, interfering DNA (miDNA);
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48. A method for reducing the expression of a gene in a cell, comprising the steps of:
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selecting a thioaptamer comprises a combination of short interfering DNA (siDNA);
a micro, interfering DNA (miDNA);
a small, temporal DNA (stDNA);
a short, hairpin DNA (shDNA);
short interfering RNA (siRNA);
a micro, interfering RNA (mRNA);
a small, temporal RNA (stRNA);
or a short, hairpin RNA (shRNA) that mediates gene silencing of the gene to which it corresponds; and
introducing the thioaptamer into the cell, wherein the thioaptamer mediates RNA interference of a targeted sequence. - View Dependent Claims (49, 50)
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51. A method for attenuating expression of a target gene in cultured cells, comprising the step of:
introducing a thioaptamer comprises a combination of short interfering DNA (siDNA);
a micro, interfering DNA (miDNA);
a small, temporal DNA (stDNA);
a short, hairpin DNA (shDNA);
short interfering RNA (siRNA);
a micro, interfering RNA (mRNA);
a small, temporal RNA (stRNA);
or a short, hairpin RNA (shRNA) into the cells in an amount sufficient to attenuate expression of the target gene, wherein the thioaptamer comprises a nucleotide sequence that hybridizes under stringent conditions to a nucleotide sequence of the target gene and mediates attenuation of protein expression for a gene to which it corresponds.- View Dependent Claims (52)
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53. A method of producing a thioaptamer comprising the steps of:
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combining a combination of short interfering DNA (siDNA);
a micro, interfering DNA (miDNA);
a small, temporal DNA (stDNA);
a short, hairpin DNA (shDNA);
short interfering RNA (siRNA);
a micro, interfering RNA (mRNA);
a small, temporal RNA (stRNA);
or a short, hairpin RNA (shRNA) thioaptamer precursor with a soluble extract that mediates gene silencing, thereby producing a precursor-extract mixture; and
maintaining the precursor-extract mixture under conditions in which a combination of short interfering DNA (siDNA);
a micro, interfering DNA (miDNA);
a small, temporal DNA (stDNA);
a short, hairpin DNA (shDNA);
short interfering RNA (siRNA);
a micro, interfering RNA (mRNA);
a small, temporal RNA (stRNA);
or a short, hairpin RNA (shRNA) thioaptamer is processed to the mature thioaptamer. - View Dependent Claims (54, 55, 56, 57)
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Specification