Role of free DNA ends and protospacer adjacent motifs for CRISPR DNA uptake in Pyrococcus furiosus

CRISPR–Cas systems exploit viral DNA injection to establish and maintain adaptive immunity

(2017) Joshua W. Modell et al.   NATURE

Mechanisms of gene flow in archaea

(2017) Alexander Wagner et al.   NATURE REVIEWS MICROBIOLOGY

High tolerance to self-targeting of the genome by the endogenous CRISPR-Cas system in an archaeon

(2017) Aris-Edda Stachler et al.   NUCLEIC ACIDS RESEARCH

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

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

Adaptation in CRISPR-Cas Systems

(2016) Samuel H. Sternberg et al.   MOLECULAR CELL

Diverse CRISPR-Cas responses and dramatic cellular DNA changes and cell death in pKEF9-conjugatedSulfolobusspecies

(2016) Guannan Liu et al.   NUCLEIC ACIDS RESEARCH

Interference-driven spacer acquisition is dominant over naive and primed adaptation in a native CRISPR–Cas system

(2016) Raymond H. J. Staals et al.   Nature Communications

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

(2015) Jiuyu Wang et al.   CELL

The structural biology of CRISPR-Cas systems

(2015) Fuguo Jiang et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Cas9 function and host genome sampling in Type II-A CRISPR–Cas adaptation

(2015) Yunzhou Wei et al.   GENES & DEVELOPMENT

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

How bacteria get spacers from invaders

(2015) Ido Yosef et al.   NATURE

CRISPR-Cas immunity in prokaryotes

(2015) Luciano A. Marraffini   NATURE

CRISPR adaptation biases explain preference for acquisition of foreign DNA

(2015) Asaf Levy et al.   NATURE

Horizontal gene transfer: building the web of life

(2015) Shannon M. Soucy et al.   NATURE REVIEWS GENETICS

An updated evolutionary classification of CRISPR–Cas systems

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

Foreign DNA acquisition by the I-F CRISPR–Cas system requires all components of the interference machinery

(2015) Daria Vorontsova et al.   NUCLEIC ACIDS RESEARCH

Three CRISPR-Cas immune effector complexes coexist inPyrococcus furiosus

(2015) Sonali Majumdar et al.   RNA

The RNA- and DNA-targeting CRISPR–Cas immune systems ofPyrococcus furiosus

(2015) Rebecca M. Terns et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Unravelling the structural and mechanistic basis of CRISPR–Cas systems

(2014) John van der Oost et al.   NATURE REVIEWS MICROBIOLOGY

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

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

Detection and characterization of spacer integration intermediates in type I-E CRISPR–Cas system

(2014) Zihni Arslan et al.   NUCLEIC ACIDS RESEARCH

Protospacer recognition motifs

(2013) Shiraz A. Shah et al.   RNA Biology

Cytotoxic Chromosomal Targeting by CRISPR/Cas Systems Can Reshape Bacterial Genomes and Expel or Remodel Pathogenicity Islands

(2013) Reuben B. Vercoe et al.   PLoS Genetics

The CRISPRs, They Are A-Changin': How Prokaryotes Generate Adaptive Immunity

(2012) Edze R. Westra et al.   Annual Review of Genetics

Recombinogenic Properties of Pyrococcus furiosus Strain COM1 Enable Rapid Selection of Targeted Mutants

(2012) Joel Farkas et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Genome Sequencing of a Genetically Tractable Pyrococcus furiosus Strain Reveals a Highly Dynamic Genome

(2012) S. L. Bridger et al.   JOURNAL OF BACTERIOLOGY

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

R Loops: From Transcription Byproducts to Threats to Genome Stability

(2012) Andrés Aguilera et al.   MOLECULAR CELL

Proteins and DNA elements essential for the CRISPR adaptation process in Escherichia coli

(2012) Ido Yosef et al.   NUCLEIC ACIDS RESEARCH

CRISPR Interference Directs Strand Specific Spacer Acquisition

(2012) Daan C. Swarts et al.   PLoS One

Memory of viral infections by CRISPR-Cas adaptive immune systems: Acquisition of new information

(2012) Peter C. Fineran et al.   VIROLOGY

Molecular memory of prior infections activates the CRISPR/Cas adaptive bacterial immunity system

(2012) Kirill A. Datsenko et al.   Nature Communications

Natural Competence in the Hyperthermophilic ArchaeonPyrococcus furiosusFacilitates Genetic Manipulation: Construction of Markerless Deletions of Genes Encoding the Two Cytoplasmic Hydrogenases

(2011) Gina L. Lipscomb et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Defining Components of the Chromosomal Origin of Replication of the Hyperthermophilic Archaeon Pyrococcus furiosus Needed for Construction of a Stable Replicating Shuttle Vector

(2011) Joel Farkas et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

CRISPR-based adaptive immune systems

(2011) Michael P Terns et al.   CURRENT OPINION IN MICROBIOLOGY

Parallel evolution of transcriptome architecture during genome reorganization

(2011) S. H. Yoon et al.   GENOME RESEARCH

High-temperature protein G is essential for activity of the Escherichia coli clustered regularly interspaced short palindromic repeats (CRISPR)/Cas system

(2011) I. Yosef et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Shuttle Vector-Based Transformation System for Pyrococcus furiosus

(2010) I. Waege et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

A dual function of the CRISPR-Cas system in bacterial antivirus immunity and DNA repair

(2010) Mohan Babu et al.   MOLECULAR MICROBIOLOGY

Self-targeting by CRISPR: gene regulation or autoimmunity?

(2010) Adi Stern et al.   TRENDS IN GENETICS

Distribution of CRISPR spacer matches in viruses and plasmids of crenarchaeal acidothermophiles and implications for their inhibitory mechanism

(2009) Shiraz Ali Shah et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Short motif sequences determine the targets of the prokaryotic CRISPR defence system

(2009)   MICROBIOLOGY-SGM

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY