DOE Patents title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: RNA-guided nucleic acid modifying enzymes and methods of use thereof

Abstract

The present disclosure provides CasX proteins, nucleic acids encoding the CasX proteins, and modified host cells comprising the CasX proteins and/or nucleic acids encoding same. CasX proteins are useful in a variety of applications, which are provided. The present disclosure provides CasX guide RNAs that bind to and provide sequence specificity to the CasX proteins, nucleic acids encoding the CasX guide RNAs, and modified host cells comprising the CasX guide RNAs and/or nucleic acids encoding same. CasX guide RNAs are useful in a variety of applications, which are provided. The present disclosure provides archaeal Cas9 polypeptides and nucleic acids encoding same, as well as their associated archaeal Cas9 guide RNAs and nucleic acids encoding same.

Inventors:
; ; ; ;
Issue Date:
Research Org.:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE; National Science Foundation (NSF)
OSTI Identifier:
2293753
Patent Number(s):
11795472
Application Number:
16/422,824
Assignee:
The Regents of the University of California (Oakland, CA)
DOE Contract Number:  
1244557; AC02-05CH11231
Resource Type:
Patent
Resource Relation:
Patent File Date: 05/24/2019
Country of Publication:
United States
Language:
English

Citation Formats

Doudna, Jennifer A., Banfield, Jillian, Burstein, David, Harrington, Lucas Benjamin, and Strutt, Steven C. RNA-guided nucleic acid modifying enzymes and methods of use thereof. United States: N. p., 2023. Web.
Doudna, Jennifer A., Banfield, Jillian, Burstein, David, Harrington, Lucas Benjamin, & Strutt, Steven C. RNA-guided nucleic acid modifying enzymes and methods of use thereof. United States.
Doudna, Jennifer A., Banfield, Jillian, Burstein, David, Harrington, Lucas Benjamin, and Strutt, Steven C. Tue . "RNA-guided nucleic acid modifying enzymes and methods of use thereof". United States. https://www.osti.gov/servlets/purl/2293753.
@article{osti_2293753,
title = {RNA-guided nucleic acid modifying enzymes and methods of use thereof},
author = {Doudna, Jennifer A. and Banfield, Jillian and Burstein, David and Harrington, Lucas Benjamin and Strutt, Steven C.},
abstractNote = {The present disclosure provides CasX proteins, nucleic acids encoding the CasX proteins, and modified host cells comprising the CasX proteins and/or nucleic acids encoding same. CasX proteins are useful in a variety of applications, which are provided. The present disclosure provides CasX guide RNAs that bind to and provide sequence specificity to the CasX proteins, nucleic acids encoding the CasX guide RNAs, and modified host cells comprising the CasX guide RNAs and/or nucleic acids encoding same. CasX guide RNAs are useful in a variety of applications, which are provided. The present disclosure provides archaeal Cas9 polypeptides and nucleic acids encoding same, as well as their associated archaeal Cas9 guide RNAs and nucleic acids encoding same.},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {Tue Oct 24 00:00:00 EDT 2023},
month = {Tue Oct 24 00:00:00 EDT 2023}
}

Works referenced in this record:

An updated evolutionary classification of CRISPR–Cas systems
journal, September 2015


SnapShot: Class 2 CRISPR-Cas Systems
journal, January 2017


Biology and Applications of CRISPR Systems: Harnessing Nature’s Toolbox for Genome Engineering
journal, January 2016


CRISPR enzymes and systems
patent, October 2017


Origins and evolution of CRISPR-Cas systems
journal, March 2019


RNA-Guided Nucleic Acid Modifying Enzymes and Methods of Use Thereof
patent-application, October 2019


CRISPR effector system based diagnostics
patent, April 2019


Two Distant Catalytic Sites Are Responsible for C2c2 RNase Activities
journal, January 2017


Methods and compositions for detecting a target RNA
patent, July 2019


Compositions and methods for visual ribonuclease detection assays
patent, August 2004


A CRISPR/Cas system mediates bacterial innate immune evasion and virulence
journal, April 2013


Computational Complexity, Protein Structure Prediction, and the Levinthal Paradox
book, January 1994


C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector
journal, June 2016


RNA Targeting by Functionally Orthogonal Type VI-A CRISPR-Cas Enzymes
journal, May 2017


Multiplexed and portable nucleic acid detection platform with Cas13, Cas12a, and Csm6
journal, February 2018


Use of DNAzymes for analysis of an RNA sample
patent, August 2014


RNA-guided nucleic acid modifying enzymes and methods of use thereof
patent, February 2020


Nucleic acid detection with CRISPR-Cas13a/C2c2
journal, April 2017


Diversity and evolution of class 2 CRISPR–Cas systems
journal, January 2017


Methods And Compositions For Rna-Directed Target Dna Modification And For Rna-Directed Modulation Of Transcription
patent-application, March 2014


Compositions and Methods for Modifying Genomes
patent-application, August 2017


Nicking and Extension Amplification Reaction for the Exponential Amplification of Nucleic Acids
patent-application, April 2014


RNA-Guided Nucleic Acid Modifying Enzymes and Methods of Use Thereof
patent-application, September 2019


Compositions and methods for modifying genomes
patent, June 2019


Expanding the CRISPR Toolbox: Targeting RNA with Cas13b
journal, February 2017


Methods and Compositions for Using Argonaute to Modify a Single Stranded Target Nucleic Acid
patent-application, June 2017


CasX enzymes comprise a distinct family of RNA-guided genome editors
journal, February 2019


Highly Sensitive Nuclease Assays Based on Chemically Modified DNA or RNA
journal, July 2014


CRISPR-Cas: an adaptive immunity system in prokaryotes
journal, December 2009


RNA editing with CRISPR-Cas13
journal, October 2017


The Molecular Architecture for RNA-Guided RNA Cleavage by Cas13a
journal, August 2017


Classification and evolution of type II CRISPR-Cas systems
journal, April 2014


Methods and Compositions for Modifying a Single Stranded Target Nucleic Acid
patent-application, October 2016


Diversity, classification and evolution of CRISPR-Cas systems
journal, June 2017


Hairpin-Forming Peptide Nucleic Acid Oligomers
journal, June 1998


CRISPR-Cas12a target binding unleashes indiscriminate single-stranded DNase activity
journal, February 2018


Delivery strategies of the CRISPR-Cas9 gene-editing system for therapeutic applications
journal, November 2017


Phylogeny of Cas9 determines functional exchangeability of dual-RNA and Cas9 among orthologous type II CRISPR-Cas systems
journal, November 2013


Virus-Induced Dormancy in the Archaeon Sulfolobus islandicus
journal, May 2015


Novel CRISPR Enzymes and Systems
patent-application, July 2017


New CRISPR-Cas systems discovered
journal, February 2017


Multiplex Genome Engineering Using CRISPR/Cas Systems
journal, January 2013


RNA-Targeting System
patent-application, October 2017


Cas9-mediated targeting of viral RNA in eukaryotic cells
journal, April 2015


Crystal Structure of Cpf1 in Complex with Guide RNA and Target DNA
journal, May 2016


Novel CRISPR Enzymes and Systems
patent-application, November 2017


Cpf1 Is a Single RNA-Guided Endonuclease of a Class 2 CRISPR-Cas System
journal, October 2015


Method and system for treating cancer cachexia
patent, August 2017


Compositions and Methods of Engineered CRISPR-CAS9 Systems Using Split-Nexus CAS9-Associated Polynucleotides
patent-application, February 2017


Programmed DNA destruction by miniature CRISPR-Cas14 enzymes
journal, October 2018


Novel CRISPR Enzymes and Systems
patent-application, July 2016


Enigmatic, ultrasmall, uncultivated Archaea
journal, April 2010


RNA targeting with CRISPR–Cas13
journal, October 2017


CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III
journal, March 2011


New CRISPR–Cas systems from uncultivated microbes
journal, December 2016


CRISPR/CAS Systems for Genomic Modification and Gene Modulation
patent-application, September 2014


Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system
journal, October 2016


Methods and Compositions for RNA-Directed Target DNA Modification and for RNA-Directed Modulation of Transcription
patent-application, May 2016


Target RNA capture and cleavage by the Cmr type III-B CRISPR–Cas effector complex
journal, November 2014


Methods for Identifying Class 2 CRISPR-CAS Systems
patent-application, June 2021


Guide-bound structures of an RNA-targeting A-cleaving CRISPR–Cas13a enzyme
journal, September 2017


Nucleic Acids For Multiplex Organism Detection and Methods Of Use And Making The Same
patent-application, October 2013


Diverse evolutionary roots and mechanistic variations of the CRISPR-Cas systems
journal, August 2016


RNA-Guided RNA Cleavage by a CRISPR RNA-Cas Protein Complex
journal, November 2009


Methods and materials for detecting viral or microbial infections
patent, December 2013


CAS9-based Isothermal Method of Detection of Specific DNA Sequence
patent-application, July 2015


CRISPR-dCas9 mediated TET1 targeting for selective DNA demethylation at BRCA1 promoter
journal, June 2016


Compositions and Methods for Improving Homogeneity of DNA Generated Using a CRISPR/Cas9 Cleavage System
patent-application, July 2017


Hypersensitive substrate for ribonucleases
journal, September 1999


CRISPR Effector System Based Diagnostics
patent-application, November 2018


Specific and sensitive detection of nucleic acids and RNases using gold nanoparticle–RNA–fluorescent dye conjugates
journal, January 2007


Evolutionary classification of CRISPR–Cas systems: a burst of class 2 and derived variants
journal, December 2019


Class 2 CRISPR–Cas RNA-guided endonucleases: Swiss Army knives of genome editing
journal, October 2017


Methods and compositions for detecting a target RNA
patent, December 2019


Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems
journal, November 2015


Compositions And Methods Of Nucleic Acid-Targeting Nucleic Acids
patent-application, February 2017


Two distinct RNase activities of CRISPR-C2c2 enable guide-RNA processing and RNA detection
journal, September 2016


Cas13b Is a Type VI-B CRISPR-Associated RNA-Guided RNase Differentially Regulated by Accessory Proteins Csx27 and Csx28
journal, February 2017


Method for Generating Barcoded Combinatorial Libraries
patent-application, December 2017


Molecular Mechanisms of RNA Targeting by Cas13-containing Type VI CRISPR–Cas Systems
journal, January 2019


Dead Guides for Crisper Transcription Factors
patent-application, November 2017


RNA-Guided Genome Editing in Plants Using a CRISPR–Cas System
journal, November 2013


Type V CRISPR/Cas effector proteins for cleaving ssDNAs and detecting target DNAs
patent, April 2019


RNA-Guided Nucleic Acid Modifying Enzymes and Methods of Use Thereof
patent-application, January 2020


CASZ Compositions and Methods of Use
patent-application, March 2020