Origins and evolution of CRISPR-Cas systems

Protein Inhibitors of CRISPR-Cas9

(2018) Joseph Bondy-Denomy   ACS Chemical Biology

Toxins, Targets, and Triggers: An Overview of Toxin-Antitoxin Biology

(2018) Alexander Harms et al.   MOLECULAR CELL

Genome editing by natural and engineered CRISPR-associated nucleases

(2018) Wen Y. Wu et al.   Nature Chemical Biology

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

Vast diversity of prokaryotic virus genomes encoding double jelly-roll major capsid proteins uncovered by genomic and metagenomic sequence analysis

(2018) Natalya Yutin et al.   Virology Journal

Widespread anti-CRISPR proteins in virulent bacteriophages inhibit a range of Cas9 proteins

(2018) Alexander P. Hynes et al.   Nature Communications

Control of cyclic oligoadenylate synthesis in a type III CRISPR system

(2018) Christophe Rouillon et al.   eLife

Anti-CRISPR proteins encoded by archaeal lytic viruses inhibit subtype I-D immunity

(2018) Fei He et al.   Nature Microbiology

Ring nucleases deactivate type III CRISPR ribonucleases by degrading cyclic oligoadenylate

(2018) Januka S. Athukoralage et al.   NATURE

Comparative genomics and evolution of trans-activating RNAs in Class 2 CRISPR-Cas systems

(2018) Guilhem Faure et al.   RNA Biology

Mobile Genetic Elements and Evolution of CRISPR-Cas Systems: All the Way There and Back

(2017) Eugene V. Koonin et al.   Genome Biology and Evolution

Building the Class 2 CRISPR-Cas Arsenal

(2017) Kevin M. Lewis et al.   MOLECULAR CELL

The Anti-CRISPR Story: A Battle for Survival

(2017) Karen L. Maxwell   MOLECULAR CELL

Mutations in Cas9 Enhance the Rate of Acquisition of Viral Spacer Sequences during the CRISPR-Cas Immune Response

(2017) Robert Heler et al.   MOLECULAR CELL

Structural Basis for Guide RNA Processing and Seed-Dependent DNA Targeting by CRISPR-Cas12a

(2017) Daan C. Swarts et al.   MOLECULAR CELL

C2c1-sgRNA Complex Structure Reveals RNA-Guided DNA Cleavage Mechanism

(2017) Liang Liu et al.   MOLECULAR CELL

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

(2017) Aaron A. Smargon et al.   MOLECULAR CELL

Type III CRISPR–Cas systems produce cyclic oligoadenylate second messengers

(2017) Ole Niewoehner et al.   NATURE

Anti-CRISPR: discovery, mechanism and function

(2017) April Pawluk et al.   NATURE REVIEWS MICROBIOLOGY

Diversity and evolution of class 2 CRISPR–Cas systems

(2017) Sergey Shmakov et al.   NATURE REVIEWS MICROBIOLOGY

Coupling transcriptional activation of CRISPR–Cas system and DNA repair genes by Csa3a in Sulfolobus islandicus

(2017) Tao Liu 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

CRISPR-Cas: Adapting to change

(2017) Simon A. Jackson et al.   SCIENCE

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

(2017) Migle Kazlauskiene et al.   SCIENCE

On the Origin of Reverse Transcriptase-Using CRISPR-Cas Systems and Their Hyperdiverse, Enigmatic Spacer Repertoires

(2017) Sukrit Silas et al.   mBio

A decade of discovery: CRISPR functions and applications

(2017) Rodolphe Barrangou et al.   Nature Microbiology

The Reverse Transcriptases Associated with CRISPR-Cas Systems

(2017) Nicolás Toro et al.   Scientific Reports

Coupling immunity and programmed cell suicide in prokaryotes: Life-or-death choices

(2016) Eugene V. Koonin et al.   BIOESSAYS

Crystal Structure of Cpf1 in Complex with Guide RNA and Target DNA

(2016) Takashi Yamano et al.   CELL

Structure and Engineering of Francisella novicida Cas9

(2016) Hisato Hirano et al.   CELL

PAM-Dependent Target DNA Recognition and Cleavage by C2c1 CRISPR-Cas Endonuclease

(2016) Hui Yang et al.   CELL

Naturally Occurring Off-Switches for CRISPR-Cas9

(2016) April Pawluk et al.   CELL

Biology and Applications of CRISPR Systems: Harnessing Nature’s Toolbox for Genome Engineering

(2016) Addison V. Wright et al.   CELL

Self-synthesizing transposons: unexpected key players in the evolution of viruses and defense systems

(2016) Mart Krupovic et al.   CURRENT OPINION IN MICROBIOLOGY

Dual nuclease activity of a Cas2 protein in CRISPR-Cas subtype I-B ofLeptospira interrogans

(2016) Bhuvan Dixit et al.   FEBS LETTERS

Recent Mobility of Casposons, Self-Synthesizing Transposons at the Origin of the CRISPR-Cas Immunity

(2016) Mart Krupovic et al.   Genome Biology and Evolution

Cas3-Derived Target DNA Degradation Fragments Fuel Primed CRISPR Adaptation

(2016) Tim Künne et al.   MOLECULAR CELL

The CRISPR-associated DNA-cleaving enzyme Cpf1 also processes precursor CRISPR RNA

(2016) Ines Fonfara et al.   NATURE

The crystal structure of Cpf1 in complex with CRISPR RNA

(2016) De Dong et al.   NATURE

Two distinct RNase activities of CRISPR-C2c2 enable guide-RNA processing and RNA detection

(2016) Alexandra East-Seletsky et al.   NATURE

Multiplex gene editing by CRISPR–Cpf1 using a single crRNA array

(2016) Bernd Zetsche et al.   NATURE BIOTECHNOLOGY

CRISPR–Cas adaptation: insights into the mechanism of action

(2016) Gil Amitai et al.   NATURE REVIEWS MICROBIOLOGY

Direct CRISPR spacer acquisition from RNA by a natural reverse transcriptase-Cas1 fusion protein

(2016) S. Silas et al.   SCIENCE

Structures of a CRISPR-Cas9 R-loop complex primed for DNA cleavage

(2016) F. Jiang et al.   SCIENCE

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

(2016) Prarthana Mohanraju et al.   SCIENCE

C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector

(2016) Omar O. Abudayyeh et al.   SCIENCE

Inactivation of CRISPR-Cas systems by anti-CRISPR proteins in diverse bacterial species

(2016) April Pawluk et al.   Nature Microbiology

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

(2015) Sy Redding et al.   CELL

Structural and Mechanistic Basis of PAM-Dependent Spacer Acquisition in CRISPR-Cas Systems

(2015) Jiuyu Wang et al.   CELL

Crystal Structure of Staphylococcus aureus Cas9

(2015) Hiroshi Nishimasu et al.   CELL

Cpf1 Is a Single RNA-Guided Endonuclease of a Class 2 CRISPR-Cas System

(2015) Bernd Zetsche et al.   CELL

ISC, a Novel Group of Bacterial and Archaeal DNA Transposons That Encode Cas9 Homologs

(2015) Vladimir V. Kapitonov et al.   JOURNAL OF BACTERIOLOGY

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

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

Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems

(2015) Sergey Shmakov et al.   MOLECULAR CELL

Foreign DNA capture during CRISPR–Cas adaptive immunity

(2015) James K. Nuñez et al.   NATURE

Cas9 specifies functional viral targets during CRISPR–Cas adaptation

(2015) Robert Heler et al.   NATURE

An updated evolutionary classification of CRISPR–Cas systems

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

The casposon-encoded Cas1 protein fromAciduliprofundum booneiis a DNA integrase that generates target site duplications

(2015) Alison B. Hickman et al.   NUCLEIC ACIDS RESEARCH

Comparative genomic analyses reveal a vast, novel network of nucleotide-centric systems in biological conflicts, immunity and signaling

(2015) A. Maxwell Burroughs et al.   NUCLEIC ACIDS RESEARCH

Different genome stability proteins underpin primed and naïve adaptation inE. coliCRISPR-Cas immunity

(2015) Ivana Ivančić-Baće et al.   NUCLEIC ACIDS RESEARCH

Cutting it close: CRISPR-associated endoribonuclease structure and function

(2015) Megan L. Hochstrasser et al.   TRENDS IN BIOCHEMICAL SCIENCES

The basic building blocks and evolution of CRISPR–Cas systems

(2015) Kira S. Makarova et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Structural and functional characterization of Streptococcus pyogenes Cas2 protein under different pH conditions

(2014) Donghyun Ka et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Casposons: a new superfamily of self-synthesizing DNA transposons at the origin of prokaryotic CRISPR-Cas immunity

(2014) Mart Krupovic et al.   BMC BIOLOGY

Crystal Structure of Cas9 in Complex with Guide RNA and Target DNA

(2014) Hiroshi Nishimasu et al.   CELL

Development and Applications of CRISPR-Cas9 for Genome Engineering

(2014) Patrick D. Hsu et al.   CELL

CRISPR-Cas Systems: Prokaryotes Upgrade to Adaptive Immunity

(2014) Rodolphe Barrangou et al.   MOLECULAR CELL

Evolution of adaptive immunity from transposable elements combined with innate immune systems

(2014) Eugene V. Koonin et al.   NATURE REVIEWS GENETICS

Polintons: a hotbed of eukaryotic virus, transposon and plasmid evolution

(2014) Mart Krupovic et al.   NATURE REVIEWS MICROBIOLOGY

The evolutionary journey of Argonaute proteins

(2014) Daan C Swarts et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Cas1–Cas2 complex formation mediates spacer acquisition during CRISPR–Cas adaptive immunity

(2014) James K Nuñez et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The RNase H-like superfamily: new members, comparative structural analysis and evolutionary classification

(2014) Karolina A. Majorek et al.   NUCLEIC ACIDS RESEARCH

Classification and evolution of type II CRISPR-Cas systems

(2014) Krzysztof Chylinski et al.   NUCLEIC ACIDS RESEARCH

Comprehensive Phylogenetic Analysis of Bacterial Reverse Transcriptases

(2014) Nicolás Toro et al.   PLoS One

Molecular insights into DNA interference by CRISPR-associated nuclease-helicase Cas3

(2014) Bei Gong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CRISPR adaptive immune systems of Archaea

(2014) Gisle Vestergaard et al.   RNA Biology

The new frontier of genome engineering with CRISPR-Cas9

(2014) J. A. Doudna et al.   SCIENCE

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

(2014) R. N. Jackson et al.   SCIENCE

Structures of Cas9 Endonucleases Reveal RNA-Mediated Conformational Activation

(2014) M. Jinek et al.   SCIENCE

Prokaryotic Argonautes defend genomes against invasive DNA

(2014) Junho K. Hur et al.   TRENDS IN BIOCHEMICAL SCIENCES

CARF and WYL domains: ligand-binding regulators of prokaryotic defense systems

(2014) Kira S. Makarova et al.   Frontiers in Genetics

CRISPR-Mediated Adaptive Immune Systems in Bacteria and Archaea

(2013) Rotem Sorek et al.   Annual Review of Biochemistry

Structure of a dimeric crenarchaeal Cas6 enzyme with an atypical active site for CRISPR RNA processing

(2013) Judith Reeks et al.   BIOCHEMICAL JOURNAL

CRISPR interference: a structural perspective

(2013) Judith Reeks et al.   BIOCHEMICAL JOURNAL

Ribonucleases in bacterial toxin–antitoxin systems

(2013) Gregory M. Cook et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Comprehensive analysis of the HEPN superfamily: identification of novel roles in intra-genomic conflicts, defense, pathogenesis and RNA processing

(2013) Vivek Anantharaman et al.   Biology Direct

Structure of an RNA Silencing Complex of the CRISPR-Cas Immune System

(2013) Michael Spilman et al.   MOLECULAR CELL

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

Structure of the CRISPR Interference Complex CSM Reveals Key Similarities with Cascade

(2013) Christophe Rouillon et al.   MOLECULAR CELL

ISDra2transposition inDeinococcus radioduransis downregulated by TnpB

(2013) Cécile Pasternak et al.   MOLECULAR MICROBIOLOGY

Adaptation of the Haloarcula hispanica CRISPR-Cas system to a purified virus strictly requires a priming process

(2013) Ming Li et al.   NUCLEIC ACIDS RESEARCH

Structure of the archaeal Cascade subunit Csa5

(2013) Judith Reeks et al.   RNA Biology

Structure of the Cmr2-Cmr3 Subcomplex of the Cmr RNA Silencing Complex

(2013) Yaming Shao et al.   STRUCTURE

A General Model for Toxin-Antitoxin Module Dynamics Can Explain Persister Cell Formation in E. coli

(2013) Lendert Gelens et al.   PLoS Computational Biology

Homologues of bacterial TnpB_IS605 are widespread in diverse eukaryotic transposable elements

(2013) Weidong Bao et al.   Mobile DNA

Comprehensive comparative-genomic analysis of Type 2 toxin-antitoxin systems and related mobile stress response systems in prokaryotes

(2012) Kira S Makarova et al.   Biology Direct

Live virus-free or die: coupling of antivirus immunity and programmed suicide or dormancy in prokaryotes

(2012) Kira S Makarova et al.   Biology Direct

Constructive neutral evolution: exploring evolutionary theory’s curious disconnect

(2012) Arlin Stoltzfus   Biology Direct

Crystal structure of Cmr2 suggests a nucleotide cyclase-related enzyme in type III CRISPR-Cas systems

(2012) Xing Zhu et al.   FEBS LETTERS

Bacteriophage genes that inactivate the CRISPR/Cas bacterial immune system

(2012) Joe Bondy-Denomy et al.   NATURE

Characterization of CRISPR RNA processing in Clostridium thermocellum and Methanococcus maripaludis

(2012) Hagen Richter et al.   NUCLEIC ACIDS RESEARCH

Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria

(2012) G. Gasiunas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2012) M. Jinek et al.   SCIENCE

RNA-Mediated Epigenetic Programming of Genome Rearrangements

(2011) Mariusz Nowacki et al.   Annual Review of Genomics and Human Genetics

Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems

(2011) Kira S Makarova et al.   Biology Direct

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

(2011) Tomas Sinkunas et al.   EMBO JOURNAL

Nature and Intensity of Selection Pressure on CRISPR-Associated Genes

(2011) N. Takeuchi et al.   JOURNAL OF BACTERIOLOGY

CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III

(2011) Elitza Deltcheva et al.   NATURE

Structures of the RNA-guided surveillance complex from a bacterial immune system

(2011) Blake Wiedenheft et al.   NATURE

Evolution and classification of the CRISPR–Cas systems

(2011) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

Archaeal CRISPR-based immune systems: exchangeable functional modules

(2011) Roger A. Garrett et al.   TRENDS IN MICROBIOLOGY

Toxin–antitoxin systems: why so many, what for?

(2010) Laurence Van Melderen   CURRENT OPINION IN MICROBIOLOGY

CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea

(2010) Luciano A. Marraffini et al.   NATURE REVIEWS GENETICS

Binding and cleavage of CRISPR RNA by Cas6

(2010) J. Carte et al.   RNA

Irremediable Complexity?

(2010) M. W. Gray et al.   SCIENCE

CRISPR-based adaptive and heritable immunity in prokaryotes

(2009) John van der Oost et al.   TRENDS IN BIOCHEMICAL SCIENCES

Bacterial Toxin–Antitoxin Systems: More Than Selfish Entities?

(2009) Laurence Van Melderen et al.   PLoS Genetics

A Novel Family of Sequence-specific Endoribonucleases Associated with the Clustered Regularly Interspaced Short Palindromic Repeats

(2008) Natalia Beloglazova et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Small CRISPR RNAs Guide Antiviral Defense in Prokaryotes

(2008) S. J. J. Brouns et al.   SCIENCE

Origins and evolution of eukaryotic RNA interference

(2008) S SHABALINA et al.   TRENDS IN ECOLOGY & EVOLUTION

Argonaute proteins: key players in RNA silencing

(2007) Gyorgy Hutvagner et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY