Chemistry of Class 1 CRISPR-Cas effectors: Binding, editing, and regulation

Structure and Mechanism of a Cyclic Trinucleotide-Activated Bacterial Endonuclease Mediating Bacteriophage Immunity

(2020) Rebecca K. Lau et al.   MOLECULAR CELL

HORMA Domain Proteins and a Trip13-like ATPase Regulate Bacterial cGAS-like Enzymes to Mediate Bacteriophage Immunity

(2020) Qiaozhen Ye et al.   MOLECULAR CELL

An anti-CRISPR viral ring nuclease subverts type III CRISPR immunity

(2020) Januka S. Athukoralage et al.   NATURE

Cas3/I-C mediated target DNA recognition and cleavage during CRISPR interference are independent of the composition and architecture of Cascade surveillance complex

(2020) Siddharth Nimkar et al.   NUCLEIC ACIDS RESEARCH

Structure and mechanism of a Type III CRISPR defence DNA nuclease activated by cyclic oligoadenylate

(2020) Stephen A. McMahon et al.   Nature Communications

The inner junction complex of the cilia is an interaction hub that involves tubulin post-translational modifications

(2020) Ahmad Abdelzaher Zaki Khalifa et al.   eLife

Cas3 Protein—A Review of a Multi-Tasking Machine

(2020) Liu He et al.   Genes

Regulation of the RNA and DNA nuclease activities required for Pyrococcus furiosus Type III-B CRISPR–Cas immunity

(2020) Kawanda Foster et al.   NUCLEIC ACIDS RESEARCH

Inhibition mechanisms of AcrF9, AcrF8, and AcrF6 against type I-F CRISPR–Cas complex revealed by cryo-EM

(2020) Kaiming Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Unconstrained genome targeting with near-PAMless engineered CRISPR-Cas9 variants

(2020) Russell T. Walton et al.   SCIENCE

Activation and self-inactivation mechanisms of the cyclic oligoadenylate-dependent CRISPR ribonuclease Csm6

(2020) Carmela Garcia-Doval et al.   Nature Communications

AcrIF9 tethers non-sequence specific dsDNA to the CRISPR RNA-guided surveillance complex

(2020) Marscha Hirschi et al.   Nature Communications

Structures and Strategies of Anti-CRISPR-Mediated Immune Suppression

(2020) Tanner Wiegand et al.   Annual Review of Microbiology

Non-specific degradation of transcripts promotes plasmid clearance during type III-A CRISPR–Cas immunity

(2019) Jakob T. Rostøl et al.   Nature Microbiology

Structure Reveals a Mechanism of CRISPR-RNA-Guided Nuclease Recruitment and Anti-CRISPR Viral Mimicry

(2019) MaryClare F. Rollins et al.   MOLECULAR CELL

­Target sequence requirements of a type III-B CRISPR-Cas immune system

(2019) Kaitlin Johnson et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Type III CRISPR Ancillary Ribonuclease Degrades Its Cyclic Oligoadenylate Activator

(2019) Januka S. Athukoralage et al.   JOURNAL OF MOLECULAR BIOLOGY

Introducing a Spectrum of Long-Range Genomic Deletions in Human Embryonic Stem Cells Using Type I CRISPR-Cas

(2019) Adam E. Dolan et al.   MOLECULAR CELL

Broad-spectrum enzymatic inhibition of CRISPR-Cas12a

(2019) Gavin J. Knott et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A seed motif for target RNA capture enables efficient immune defence by a type III-B CRISPR-Cas system

(2019) Saifu Pan et al.   RNA Biology

Regulation of cyclic oligoadenylate synthesis by the S. epidermidis Cas10-Csm complex

(2019) Mohamed Nasef et al.   RNA

Consolidation alters motor sequence-specific distributed representations

(2019) Basile Pinsard et al.   eLife

CRISPR-Cas III-A Csm6 CARF Domain Is a Ring Nuclease Triggering Stepwise cA4 Cleavage with ApA>p Formation Terminating RNase Activity

(2019) Ning Jia et al.   MOLECULAR CELL

Second Messenger cA4 Formation within the Composite Csm1 Palm Pocket of Type III-A CRISPR-Cas Csm Complex and Its Release Path

(2019) Ning Jia et al.   MOLECULAR CELL

Transposon-encoded CRISPR–Cas systems direct RNA-guided DNA integration

(2019) Sanne E. Klompe et al.   NATURE

Structural basis of Type IV CRISPR RNA biogenesis by a Cas6 endoribonuclease

(2019) Hannah N. Taylor et al.   RNA Biology

RNA-guided DNA insertion with CRISPR-associated transposases

(2019) Jonathan Strecker et al.   SCIENCE

Target preference of Type III-A CRISPR-Cas complexes at the transcription bubble

(2019) Tina Y. Liu et al.   Nature Communications

Cyclic GMP–AMP signalling protects bacteria against viral infection

(2019) Daniel Cohen et al.   NATURE

Targeted transcriptional modulation with type I CRISPR–Cas systems in human cells

(2019) Adrian Pickar-Oliver et al.   NATURE BIOTECHNOLOGY

Inhibition of Type III CRISPR-Cas Immunity by an Archaeal Virus-Encoded Anti-CRISPR Protein

(2019) Yuvaraj Bhoobalan-Chitty et al.   CELL

Harnessing type I CRISPR–Cas systems for genome engineering in human cells

(2019) Peter Cameron et al.   NATURE BIOTECHNOLOGY

Structure of Csx1-cOA4 complex reveals the basis of RNA decay in Type III-B CRISPR-Cas

(2019) Rafael Molina et al.   Nature Communications

Structural basis of DNA targeting by a transposon-encoded CRISPR–Cas system

(2019) Tyler S. Halpin-Healy et al.   NATURE

Evolutionary classification of CRISPR–Cas systems: a burst of class 2 and derived variants

(2019) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

CRISPR-Cas3 induces broad and unidirectional genome editing in human cells

(2019) Hiroyuki Morisaka et al.   Nature Communications

A jumbo phage that forms a nucleus-like structure evades CRISPR–Cas DNA targeting but is vulnerable to type III RNA-based immunity

(2019) Lucia M. Malone et al.   Nature Microbiology

Protein Inhibitors of CRISPR-Cas9

(2018) Joseph Bondy-Denomy   ACS Chemical Biology

Molecular Mechanisms of RNA Targeting by Cas13-containing Type VI CRISPR–Cas Systems

(2018) Mitchell R. O'Connell   JOURNAL OF MOLECULAR BIOLOGY

Repetitive DNA Reeling by the Cascade-Cas3 Complex in Nucleotide Unwinding Steps

(2018) Luuk Loeff et al.   MOLECULAR CELL

Systematic prediction of genes functionally linked to CRISPR-Cas systems by gene neighborhood analysis

(2018) Sergey A. Shmakov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The ribonuclease activity of Csm6 is required for anti-plasmid immunity by Type III-A CRISPR-Cas systems

(2018) Kawanda Foster et al.   RNA Biology

Comprehensive search for accessory proteins encoded with archaeal and bacterial type III CRISPR-cas gene cassettes reveals 39 new cas gene families

(2018) Shiraz A. Shah et al.   RNA Biology

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

(2018) Jonathan S. Gootenberg et al.   SCIENCE

Structure basis for RNA-guided DNA degradation by Cascade and Cas3

(2018) Yibei Xiao et al.   SCIENCE

Control of cyclic oligoadenylate synthesis in a type III CRISPR system

(2018) Christophe Rouillon et al.   eLife

The host-encoded RNase E endonuclease as the crRNA maturation enzyme in a CRISPR–Cas subtype III-Bv system

(2018) Juliane Behler et al.   Nature Microbiology

RNA Guide Complementarity Prevents Self-Targeting in Type VI CRISPR Systems

(2018) Alexander J. Meeske et al.   MOLECULAR CELL

Ring nucleases deactivate type III CRISPR ribonucleases by degrading cyclic oligoadenylate

(2018) Januka S. Athukoralage et al.   NATURE

Evolved Cas9 variants with broad PAM compatibility and high DNA specificity

(2018) Johnny H. Hu et al.   NATURE

A Type III-B Cmr effector complex catalyzes the synthesis of cyclic oligoadenylate second messengers by cooperative substrate binding

(2018) Wenyuan Han et al.   NUCLEIC ACIDS RESEARCH

PAM identification by CRISPR-Cas effector complexes: diversified mechanisms and structures

(2018) Daniel Gleditzsch et al.   RNA Biology

CRISPR-Cas guides the future of genetic engineering

(2018) Gavin J. Knott et al.   SCIENCE

Structure Studies of the CRISPR-Csm Complex Reveal Mechanism of Co-transcriptional Interference

(2018) Lilan You et al.   CELL

Type III-A CRISPR-Cas Csm Complexes: Assembly, Periodic RNA Cleavage, DNase Activity Regulation, and Autoimmunity

(2018) Ning Jia et al.   MOLECULAR CELL

Type IV CRISPR RNA processing and effector complex formation in Aromatoleum aromaticum

(2018) Ahsen Özcan et al.   Nature Microbiology

The Revolution Continues: Newly Discovered Systems Expand the CRISPR-Cas Toolkit

(2017) Karthik Murugan et al.   MOLECULAR CELL

Structural Variation of Type I-F CRISPR RNA Guided DNA Surveillance

(2017) Patrick Pausch et al.   MOLECULAR CELL

Type III CRISPR–Cas systems produce cyclic oligoadenylate second messengers

(2017) Ole Niewoehner et al.   NATURE

Cmr1 enables efficient RNA and DNA interference of a III-B CRISPR–Cas system by binding to target RNA and crRNA

(2017) Yingjun Li et al.   NUCLEIC ACIDS RESEARCH

Recruitment of CRISPR-Cas systems by Tn7-like transposons

(2017) Joseph E. Peters et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A cyclic oligonucleotide signaling pathway in type III CRISPR-Cas systems

(2017) Migle Kazlauskiene et al.   SCIENCE

Type III CRISPR-Cas Immunity: Major Differences Brushed Aside

(2017) Gintautas Tamulaitis et al.   TRENDS IN MICROBIOLOGY

Raising the flag on marine alien fouling species

(2017) Koebraa Peters et al.   Management of Biological Invasions

RNA and DNA Targeting by a Reconstituted Thermus thermophilus Type III-A CRISPR-Cas System

(2017) Tina Y. Liu et al.   PLoS One

Degradation of Phage Transcripts by CRISPR-Associated RNases Enables Type III CRISPR-Cas Immunity

(2016) Wenyan Jiang et al.   CELL

Structure of Csm2 elucidates the relationship between small subunits of CRISPR-Cas effector complexes

(2016) Česlovas Venclovas   FEBS LETTERS

RNA-activated DNA cleavage by the Type III-B CRISPR–Cas effector complex

(2016) Michael A. Estrella et al.   GENES & DEVELOPMENT

Bipartite recognition of target RNAs activates DNA cleavage by the Type III-B CRISPR–Cas system

(2016) Joshua R. Elmore et al.   GENES & DEVELOPMENT

Spatiotemporal Control of Type III-A CRISPR-Cas Immunity: Coupling DNA Degradation with the Target RNA Recognition

(2016) Migle Kazlauskiene et al.   MOLECULAR CELL

Structural basis for promiscuous PAM recognition in type I–E Cascade from E. coli

(2016) Robert P. Hayes et al.   NATURE

Structural basis of Cas3 inhibition by the bacteriophage protein AcrF3

(2016) Xiaofei Wang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A type III-B CRISPR-Cas effector complex mediating massive target DNA destruction

(2016) Wenyuan Han et al.   NUCLEIC ACIDS RESEARCH

Molecular determinants for CRISPR RNA maturation in the Cas10–Csm complex and roles for non-Cas nucleases

(2016) Forrest C. Walker et al.   NUCLEIC ACIDS RESEARCH

Structural basis for the endoribonuclease activity of the type III-A CRISPR-associated protein Csm6

(2016) Ole Niewoehner et al.   RNA

Diverse evolutionary roots and mechanistic variations of the CRISPR-Cas systems

(2016) Prarthana Mohanraju et al.   SCIENCE

Major bacterial lineages are essentially devoid of CRISPR-Cas viral defence systems

(2016) David Burstein et al.   Nature Communications

Structural basis of Cas3 inhibition by the bacteriophage protein AcrF3

(2016) Xiaofei Wang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Efficient CRISPR-Mediated Post-transcriptional Gene Silencing in a Hyperthermophilic Archaeon Using Multiplexed crRNA Expression

(2016) Z. Zebec et al.   G3-Genes Genomes Genetics

Surveillance and Processing of Foreign DNA by the Escherichia coli CRISPR-Cas System

(2015) Sy Redding et al.   CELL

Co-transcriptional DNA and RNA Cleavage during Type III CRISPR-Cas Immunity

(2015) Poulami Samai et al.   CELL

A Conserved Structural Chassis for Mounting Versatile CRISPR RNA-Guided Immune Responses

(2015) Ryan N. Jackson et al.   MOLECULAR CELL

Crystal Structure of the CRISPR-Cas RNA Silencing Cmr Complex Bound to a Target Analog

(2015) Takuo Osawa et al.   MOLECULAR CELL

Crystal Structures of the E. coli Transcription Initiation Complexes with a Complete Bubble

(2015) Yuhong Zuo et al.   MOLECULAR CELL

Multiple mechanisms for CRISPR–Cas inhibition by anti-CRISPR proteins

(2015) Joseph Bondy-Denomy et al.   NATURE

R loops: new modulators of genome dynamics and function

(2015) José M. Santos-Pereira et al.   NATURE REVIEWS GENETICS

An updated evolutionary classification of CRISPR–Cas systems

(2015) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

Mechanism of foreign DNA recognition by a CRISPR RNA-guided surveillance complex from Pseudomonas aeruginosa

(2015) MaryClare F. Rollins et al.   NUCLEIC ACIDS RESEARCH

Harnessing Type I and Type III CRISPR-Cas systems for genome editing

(2015) Yingjun Li et al.   NUCLEIC ACIDS RESEARCH

The CRISPR-associated Csx1 protein ofPyrococcus furiosusis an adenosine-specific endoribonuclease

(2015) Nolan F. Sheppard et al.   RNA

Structures of the CRISPR-Cmr complex reveal mode of RNA target positioning

(2015) D. W. Taylor et al.   SCIENCE

Directional R-Loop Formation by the CRISPR-Cas Surveillance Complex Cascade Provides Efficient Off-Target Site Rejection

(2015) Marius Rutkauskas et al.   Cell Reports

Structure of a bacterial RNA polymerase holoenzyme open promoter complex

(2015) Brian Bae et al.   eLife

Fitting CRISPR-associated Cas3 into the Helicase Family Tree

(2014) Ryan N. Jackson et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

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

(2014) Caryn R. Hale et al.   GENES & DEVELOPMENT

RNA Targeting by the Type III-A CRISPR-Cas Csm Complex of Thermus thermophilus

(2014) Raymond H.J. Staals et al.   MOLECULAR CELL

Programmable RNA Shredding by the Type III-A CRISPR-Cas System of Streptococcus thermophilus

(2014) Gintautas Tamulaitis et al.   MOLECULAR CELL

Conditional tolerance of temperate phages via transcription-dependent CRISPR-Cas targeting

(2014) Gregory W. Goldberg et al.   NATURE

Structures of CRISPR Cas3 offer mechanistic insights into Cascade-activated DNA unwinding and degradation

(2014) Yanwu Huo et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

CRISPR-mediated targeted mRNA degradation in the archaeon Sulfolobus solfataricus

(2014) Ziga Zebec et al.   NUCLEIC ACIDS RESEARCH

Repurposing endogenous type I CRISPR-Cas systems for programmable gene repression

(2014) Michelle L. Luo et al.   NUCLEIC ACIDS RESEARCH

CasA mediates Cas3-catalyzed target degradation during CRISPR RNA-guided interference

(2014) M. L. Hochstrasser et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Crystal structure of a CRISPR RNA-guided surveillance complex bound to a ssDNA target

(2014) S. Mulepati et al.   SCIENCE

Crystal structure of the CRISPR RNA-guided surveillance complex from Escherichia coli

(2014) R. N. Jackson et al.   SCIENCE

Remarkable Mechanisms in Microbes to Resist Phage Infections

(2014) Ron L. Dy et al.   Annual Review of Virology

Repurposing CRISPR as an RNA-Guided Platform for Sequence-Specific Control of Gene Expression

(2013) Lei S. Qi et al.   CELL

A Ruler Protein in a Complex for Antiviral Defense Determines the Length of Small Interfering CRISPR RNAs

(2013) Asma Hatoum-Aslan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

In VitroReconstitution of anEscherichia coliRNA-guided Immune System Reveals Unidirectional, ATP-dependent Degradation of DNA Target

(2013) Sabin Mulepati et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structure and Activity of the RNA-Targeting Type III-B CRISPR-Cas Complex of Thermus thermophilus

(2013) Raymond H.J. Staals et al.   MOLECULAR CELL

A novel interference mechanism by a type IIIB CRISPR-Cmr module inSulfolobus

(2013) Ling Deng et al.   MOLECULAR MICROBIOLOGY

Principles and Concepts of DNA Replication in Bacteria, Archaea, and Eukarya

(2013) M. O'Donnell et al.   Cold Spring Harbor Perspectives in Biology

Type I-E CRISPR-Cas Systems Discriminate Target from Non-Target DNA through Base Pairing-Independent PAM Recognition

(2013) Edze R. Westra et al.   PLoS Genetics

Essential Features and Rational Design of CRISPR RNAs that Function with the Cas RAMP Module Complex to Cleave RNAs

(2012) Caryn R. Hale et al.   MOLECULAR CELL

CRISPR Immunity Relies on the Consecutive Binding and Degradation of Negatively Supercoiled Invader DNA by Cascade and Cas3

(2012) Edze R. Westra et al.   MOLECULAR CELL

R Loops: From Transcription Byproducts to Threats to Genome Stability

(2012) Andrés Aguilera et al.   MOLECULAR CELL

A Programmable Dual-RNA-Guided DNA Endonuclease in Adaptive Bacterial Immunity

(2012) M. Jinek et al.   SCIENCE

Cas3 is a single-stranded DNA nuclease and ATP-dependent helicase in the CRISPR/Cas immune system

(2011) Tomas Sinkunas et al.   EMBO JOURNAL

RNA-guided complex from a bacterial immune system enhances target recognition through seed sequence interactions

(2011) B. Wiedenheft et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Self versus non-self discrimination during CRISPR RNA-directed immunity

(2010) Luciano A. Marraffini et al.   NATURE

Nucleases: diversity of structure, function and mechanism

(2010) Wei Yang   QUARTERLY REVIEWS OF BIOPHYSICS

RNA-Guided RNA Cleavage by a CRISPR RNA-Cas Protein Complex

(2009) Caryn R. Hale et al.   CELL

CRISPR families of the crenarchaeal genus Sulfolobus: bidirectional transcription and dynamic properties

(2009) Reidun K. Lillestøl et al.   MOLECULAR MICROBIOLOGY

A three-dimensional view of the molecular machinery of RNA interference

(2009) Martin Jinek et al.   NATURE

CRISPR Interference Limits Horizontal Gene Transfer in Staphylococci by Targeting DNA

(2008) Luciano A. Marraffini et al.   SCIENCE