IP Library Granted Patent US 12,553,063
Granted Patent B2
US 12,553,063 · App. 17/602,313 · Granted Feb 17, 2026

CAS13 family AAV vectors and uses thereof

Inventors: Guangping Gao (Worcester, MA); Alexander Brown (Worcester, MA)
Assignee: University of Massachusetts
C12N15/86A61P1/16C12N9/22C12N9/6424C12N15/113C12N15/907C12N2310/20C12N2330/51C12N2750/14143C12Y304/21
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Quick Facts
Patent No.
US 12,553,063
App. No.
17/602,313
Granted
Feb 17, 2026
Kind
B2
Abstract

Aspects of the disclosure relate to compositions and methods for multiplexed gene silencing in a cell or subject. In some embodiments, the disclosure provides an isolated nucleic acid or an rAAV encoding a transgene comprising a RNA-guided nuclease (RGN) operably linked to a first promoter, and a second promoter operably linked to a multi guide-RNA (multi-gRNA) expression cassette encoding one or more gRNAs targeting a gene associated with hypercholesterolemia or dyslipidemia. In some embodiments, the disclosure provides methods of treating a subject having hypercholesterolemia or dyslipidemia by administering the compositions.

Claims (27)

1 . An isolated nucleic acid encoding a transgene flanked by adeno-associated virus (AAV) inverted terminal repeats (ITRs), wherein the transgene comprises:

(i) a first nucleic acid sequence encoding an RNA-guided nuclease (RGN) comprising one or more sequences operably linked to a CB6 promoter; and

(ii) a second nucleic acid sequence comprising a multi guide-RNA (multi-gRNA) expression cassette encoding two or more gRNAs, each gRNA comprising the nucleotide sequence as set forth in any one of SEQ ID NOs: 1-56.

2 . The isolated nucleic acid of claim 1 , wherein the RGN is a Cas13 family protein or a variant thereof.

3 . The isolated nucleic acid of claim 1 , wherein the RGN is a Cas13RX or a dCas13 protein.

4 . The isolated nucleic acid of claim 1 , wherein the multi-gRNA cassette is operably linked to a second promoter.

5 . The isolated nucleic acid of claim 4 , wherein the second promoter is a U6 promoter.

6 . The isolated nucleic acid of claim 1 , wherein the multi-gRNA expression cassette encodes 3, 4, or 5 gRNAs.

7 . The isolated nucleic acid of claim 1 , wherein the multi-gRNA expression cassette comprises the following structure:

DR 30 -[guide sequence-DR 36 -guide sequence-DR 36 ] n -T

wherein:

DR 30 is a Cas13 direct repeat (DR) sequence comprising 30 nucleotides;

the guide sequence comprises between 10 and 35 nucleotides;

DR 36 is a Cas13 direct repeat (DR) sequence comprising 36 nucleotides; and

T is a terminator sequence; and

wherein n is an integer between 1 and 50.

8 . The isolated nucleic acid of claim 1 , wherein the transgene comprises one or more miRNA binding sites.

9 . The isolated nucleic acid of claim 1 , wherein at least one of the AAV ITRs is an AAV2 ITR.

10 . A recombinant adeno-associated virus (rAAV) comprising:

(i) the isolated nucleic acid of claim 1 ; and

(ii) a capsid protein.

11 . The rAAV of claim 10 , wherein the capsid protein has a tropism for liver tissue.

12 . The rAAV of claim 10 , wherein the capsid protein is an AAV8 or AAV9 capsid protein.

13 . The rAAV of claim 10 , wherein the rAAV is formulated for delivery to the liver.

14 . A composition comprising an isolated nucleic acid of claim 1 and a pharmaceutically acceptable excipient.

15 . A host cell comprising an isolated nucleic acid of claim 1 .

16 . The host cell of claim 15 , wherein the cell is a mammalian cell, bacterial cell, yeast cell, or insect cell.

Assignments (1)
ASSIGNMENT OF ASSIGNOR'S INTEREST Recorded Mar 7, 2022
From: GAO, GUANGPING; BROWN, ALEXANDER
To: UNIVERSITY OF MASSACHUSETTS
Reel/Frame 059183/0950 →
Continuity (2)
Provisional Application 62833191 · Apr 12, 2019
Related Publication 20220186257A1 · Jun 16, 2022
References Cited (51)
US 5399363A · Liversidge et al. · 1995 [cited by applicant]
US 5543158A · Gref et al. · 1996 [cited by applicant]
US 5552157A · Yagi et al. · 1996 [cited by applicant]
US 5565213A · Nakamori et al. · 1996 [cited by applicant]
US 5567434A · Szoka · 1996 [cited by applicant]
US 5641515A · Ramtoola et al. · 1997 [cited by applicant]
US 5656016A · Ogden · 1997 [cited by applicant]
US 5697899A · Hillman et al. · 1997 [cited by applicant]
US 5738868A · Shinkarenko · 1998 [cited by applicant]
US 5741516A · Webb et al. · 1998 [cited by applicant]
US 5770219A · Chiang et al. · 1998 [cited by applicant]
US 5779708A · Wu · 1998 [cited by applicant]
US 5783208A · Venkateshwaran et al. · 1998 [cited by applicant]
US 5795587A · Gao et al. · 1998 [cited by applicant]
US 5797898A · Santini et al. · 1998 [cited by applicant]
US 6177403B1 · Stedman et al. · 2001 [cited by applicant]
US 20180066279A9 · Gao et al. · 2018 [cited by applicant]
Xu, Lingfei, et al. “CMV-β-Actin Promoter Directs Higher Expression from an Adeno-Associated Viral Vector in the Liver than the Cytomegalovirus or Elongation Factor 1α Promoter and Results in Therapeutic Levels of Human… [cited by examiner]
Shen, Xuan, et al. “Characterization of the Relationship of AAV Capsid Domain Swapping to Liver Transduction Efficiency.” Molecular Therapy, vol. 15, No. 11, Nov. 2007, pp. 1955-1962. DOI.org (Crossref), https://doi.org… [cited by examiner]
McCarty, Douglas M. “Self-Complementary AAV Vectors; Advances and Applications.” Molecular Therapy, vol. 16, No. 10, Oct. 2008, pp. 1648-1656. DOI.org (Crossref), https://doi.org/10.1038/mt.2008.171. (Year: 2008). [cited by examiner]
Senís, Elena, et al. “CRISPR/Cas9-mediated Genome Engineering: An Adeno-associated Viral (AAV) Vector Toolbox.” Biotechnology Journal, vol. 9, No. 11, Nov. 2014, pp. 1402-1412. DOI.org (Crossref), https://doi.org/10.100… [cited by examiner]
Abudayyeh, Omar O., et al. “RNA Targeting with CRISPR-Cas13.” Nature, vol. 550, No. 7675, Oct. 2017, pp. 280-284. DOI.org (Crossref), https://doi.org/10.1038/nature24049. (Year: 2017). [cited by examiner]
Jarrett, Kelsey E., et al. “Somatic Genome Editing with CRISPR/Cas9 Generates and Corrects a Metabolic Disease.” Scientific Reports, vol. 7, No. 1, Mar. 2017, p. 44624. DOI.org (Crossref), https://doi.org/10.1038/srep44… [cited by examiner]
Petit, Lolita, et al. “Rod Outer Segment Development Influences AAV-Mediated Photoreceptor Transduction After Subretinal Injection.” Human Gene Therapy, vol. 28, No. 6, Jun. 2017, pp. 464-481. DOI.org (Crossref), https:… [cited by examiner]
Mendell, Jerry R., et al. “Single-Dose Gene-Replacement Therapy for Spinal Muscular Atrophy.” New England Journal of Medicine, vol. 377, No. 18, Nov. 2017, pp. 1713-1722. DOI.org (Crossref), https://doi.org/10.1056/NEJM… [cited by examiner]
Cao, Jian, et al. “The Multiplexed CRISPR Targeting Platforms.” Drug Discovery Today: Technologies, vol. 28, Aug. 2018, pp. 53-61. DOI.org (Crossref), https://doi.org/10.1016/j.ddtec.2018.01.001. (Year: 2018). [cited by examiner]
Schindele, Patrick, et al. “Transforming Plant Biology and Breeding with CRISPR /Cas9, Cas12 and Cas13.” FEBS Letters, vol. 592 , No. 12, Jun. 2018, pp. 1954-1967. DOI.org (Crossref), https://doi.org/10.1002/1873-3468.1… [cited by examiner]
Liu, Wenyi, et al. “Applications and Challenges of CRISPR-Cas Gene-Editing to Disease Treatment in Clinics.” Precision Clinical Medicine, vol. 4, No. 3, Sep. 2021, pp. 179-191. DOI.org (Crossref), https://doi.org/10.109… [cited by examiner]
International Search Report and Written Opinion for Application No. PCT/US2020/027774, mailed Jul. 21, 2020. [cited by applicant]
International Preliminary Report on Patentability for Application No. PCT/US2020/027774, mailed Oct. 21, 2021. [cited by applicant]
Bourlais et al., Ophthalmic drug delivery systems—recent advances. Prog Retin Eye Res. Jan. 1998;17(1):33-58. doi: 10.1016/s1350-9462(97)00002-5. [cited by applicant]
Gossen et al., Tight control of gene expression in mammalian cells by tetracycline-responsive promoters. Proc Natl Acad Sci U S A. Jun. 15, 1992;89(12):5547-51. doi: 10.1073/pnas.89.12.5547. [cited by applicant]
Hansal et al.,. Cutting Edge: Induction of antigen-specific hyporesponsiveness by transplantation of hemopoietic cells containing an MHC class I transgene regulated by a lymphocyte-specific promoter. J Immunol. Aug. 1, … [cited by applicant]
Harvey et al., Inducible control of gene expression: prospects for gene therapy. Curr Opin Chem Biol. Aug. 1998;2(4):512-8. doi: 10.1016/s1367-5931(98)80128-2. [cited by applicant]
Konermann et al., Transcriptome Engineering with RNA-Targeting Type VI-D CRISPR Effectors. Cell. Apr. 19, 2018;173(3):665-676.e14. Suppl. Info. 7pages. doi: 10.1016/j.cell.2018.02.033. Epub Mar. 15, 2018. [cited by applicant]
Magari et al., Pharmacologic control of a humanized gene therapy system implanted into nude mice. J Clin Invest. Dec. 1, 1997;100(11):2865-72. doi: 10.1172/JCI119835. [cited by applicant]
No et al., Ecdysone-inducible gene expression in mammalian cells and transgenic mice. Proc Natl Acad Sci U S A. Apr. 16, 1996;93(8):3346-51. doi: 10.1073/pnas.93.8.3346. [cited by applicant]
Piccioli et al., Neuroantibodies: ectopic expression of a recombinant anti-substance P antibody in the central nervous system of transgenic mice. Neuron. Aug. 1995;15(2):373-84. doi: 10.1016/0896-6273(95)90041-1. [cited by applicant]
Piccioli et al., Neuroantibodies: molecular cloning of a monoclonal antibody against substance P for expression in the central nervous system. Proc Natl Acad Sci U S A. Jul. 1, 1991;88(13):5611-5. doi: 10.1073/pnas.88.1… [cited by applicant]
Wang et al., Ligand-inducible and liver-specific target gene expression in transgenic mice. Nat Biotechnol. Mar. 1997;15(3):239-43. doi: 10.1038/nbt0397-239. [cited by applicant]
Wang et al., Positive and negative regulation of gene expression in eukaryotic cells with an inducible transcriptional regulator. Gene Ther. May 1997;4(5):432-41. doi: 10.1038/sj.gt.3300402. [cited by applicant]
Yoon et al., Streamlined ex vivo and in vivo genome editing in mouse embryos using recombinant adeno-associated viruses. Nat Commun. Jan. 29, 2018;9(1):412. Suppl. Info. 20 pages. doi: 10.1038/s41467-017-02706-7. [cited by applicant]
Extended European Search Report for Application No. 20788338.0, mailed Jun. 1, 2023. [cited by applicant]
Chadwick et al., Reduced Blood Lipid Levels With In Vivo CRISPR-Cas9 Base Editing of ANGPTL3. Circulation. Feb. 27, 2018;137(9):975-977. doi: 10.1161/CIRCULATIONAHA.117.031335. [cited by applicant]
Fitzgerald et al., A Highly Durable RNAi Therapeutic Inhibitor of PCSK9. N Engl J Med. May 4, 2017;376(18):e38. doi: 10.1056/NEJMc1703361. [cited by applicant]
Granados-Riveron et al., CRISPR-Cas13 Precision Transcriptome Engineering in Cancer. Cancer Res. Aug. 1, 2018;78(15):4107-4113. doi: 10.1158/0008-5472.CAN-18-0785. Epub Jul. 18, 2018. [cited by applicant]
Jarrett et al., Somatic genome editing with CRISPR/Cas9 generates and corrects a metabolic disease. Sci Rep. Mar. 16, 2017:7:44624. doi: 10.1038/srep44624. [cited by applicant]
Koornneef et al., Apolipoprotein B knockdown by AAV-delivered shRNA lowers plasma cholesterol in mice. Mol Ther. Apr. 2011;19(4):731-40. doi: 10.1038/mt.2011.6. Epub Feb. 8, 2011. [cited by applicant]
Thakore et al., RNA-guided transcriptional silencing in vivo with S. aureus CRISPR-Cas9 repressors. Nat Commun. Apr. 26, 2018;9(1):1674. doi: 10.1038/s41467-018-04048-4. [cited by applicant]
Wang et al., Meganuclease targeting of PCSK9 in macaque liver leads to stable reduction in serum cholesterol. Nat Biotechnol. Sep. 2018;36(8):717-725. doi: 10.1038/nbt.4182. Epub Jul. 9, 2018. [cited by applicant]
Zhou et al., Deletion of the B-B' and C-C' regions of inverted terminal repeats reduces rAAV productivity but increases transgene expression. Sci Rep. Jul. 14, 2017;7(1):5432. doi: 10.1038/s41598-017-04054-4. [cited by applicant]