ENGINEERING AND OPTIMIZATION OF SYSTEMS, METHODS AND COMPOSITIONS FOR SEQUENCE MANIPULATION WITH FUNCTIONAL DOMAINS
First Claim
1. A method of altering expression of at least one gene product comprising introducing into a eukaryotic cell containing and expressing a DNA molecule having a target sequence and encoding the gene product an engineered, non-naturally occurring Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-CRISPR associated (Cas) system comprising one or more vectors comprising:
- a) a first regulatory element operable in a eukaryotic cell operably linked to at least one nucleotide sequence encoding a CRISPR-Cas system guide RNA that hybridizes with the target sequence, andb) a second regulatory element operable in a eukaryotic cell operably linked to a nucleotide sequence encoding a Type-II Cas9 protein,wherein components (a) and (b) are located on same or different vectors of the system,wherein the Cas9 protein comprises two or more mutations and is a DNA binding protein that does not direct cleavage of the DNA molecule,wherein the CRISPR-Cas system comprises a nucleotide sequence encoding one or more activator domains,whereby expression of the at least one gene product is altered; and
, wherein the Cas9 protein and the guide RNA do not naturally occur together.
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Abstract
The invention provides for engineering and optimization of systems, methods, and compositions for manipulation of sequences and/or activities of target sequences. Provided are vectors and vector systems, some of which encode one or more components of a CRISPR complex, as well as methods for the design and use of such vectors with additional functional domains. Also provided are methods of directing CRISPR complex formation in prokaryotic and eukaryotic cells to ensure enhanced specificity for target recognition and avoidance of toxicity.
173 Citations
30 Claims
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1. A method of altering expression of at least one gene product comprising introducing into a eukaryotic cell containing and expressing a DNA molecule having a target sequence and encoding the gene product an engineered, non-naturally occurring Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-CRISPR associated (Cas) system comprising one or more vectors comprising:
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a) a first regulatory element operable in a eukaryotic cell operably linked to at least one nucleotide sequence encoding a CRISPR-Cas system guide RNA that hybridizes with the target sequence, and b) a second regulatory element operable in a eukaryotic cell operably linked to a nucleotide sequence encoding a Type-II Cas9 protein, wherein components (a) and (b) are located on same or different vectors of the system, wherein the Cas9 protein comprises two or more mutations and is a DNA binding protein that does not direct cleavage of the DNA molecule, wherein the CRISPR-Cas system comprises a nucleotide sequence encoding one or more activator domains, whereby expression of the at least one gene product is altered; and
, wherein the Cas9 protein and the guide RNA do not naturally occur together. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12)
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13. A CRISPR-Cas system-mediated genome targeting method comprising introducing into a eukaryotic cell containing and expressing a DNA molecule having a target sequence and encoding at least one gene product an engineered, non-naturally occurring CRISPR-Cas system comprising one or more vectors comprising:
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a) a first regulatory element operable in a eukaryotic cell operably linked to at least one nucleotide sequence encoding a CRISPR-Cas system guide RNA that hybridizes with the target sequence, and b) a second regulatory element operable in a eukaryotic cell operably linked to a nucleotide sequence encoding a Type-II Cas9 protein, wherein components (a) and (b) are located on same or different vectors of the system, wherein the Cas9 protein comprises two or more mutations and is a DNA binding protein that does not direct cleavage of the DNA molecule, wherein the CRISPR-Cas system further comprises a nucleotide sequence encoding one or more heterologous functional domains, wherein the one or more heterologous functional domains is an activator domain, whereby expression of the at least one gene product is altered through the CRISPR-Cas system acting as to the DNA molecule comprising the guide RNA directing sequence-specific binding of the CRISPR-Cas system, whereby there is genome targeting; and
, wherein the Cas9 protein and the guide RNA do not naturally occur together. - View Dependent Claims (14, 15, 16, 17, 18, 19, 20, 21, 22, 23)
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24. An engineered, programmable, non-naturally occurring Type II CRISPR-Cas system comprising a Cas9 protein and at least one guide RNA that targets and hybridizes to a target sequence of a DNA molecule in a eukaryotic cell, wherein the DNA molecule encodes and the eukaryotic cell expresses at least one gene product, wherein the CRISPR-Cas system comprises a tracr sequence, wherein the Cas9 protein comprises two or more mutations and is a DNA binding protein that does not direct cleavage of the DNA molecule, wherein the CRISPR-Cas system further comprises a nucleotide sequence encoding one or more activator domains, whereby expression of the at least one gene product is altered;
- and, wherein the Cas9 protein and the guide RNA do not naturally occur together.
- View Dependent Claims (25, 26, 27, 28, 29, 30)
Specification