Small RNAs for defence and regulation in archaea

Characterization of the CRISPR/Cas Subtype I-A System of the Hyperthermophilic Crenarchaeon Thermoproteus tenax

(2012) A. Plagens et al.   JOURNAL OF BACTERIOLOGY

Identification of Novel Positive-Strand RNA Viruses by Metagenomic Analysis of Archaea-Dominated Yellowstone Hot Springs

(2012) B. Bolduc et al.   JOURNAL OF VIROLOGY

Structure and Mechanism of the CMR Complex for CRISPR-Mediated Antiviral Immunity

(2012) Jing Zhang et al.   MOLECULAR CELL

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

The impact of CRISPR repeat sequence on structures of a Cas6 protein-RNA complex

(2012) Ruiying Wang et al.   PROTEIN SCIENCE

High throughput sequencing reveals a plethora of small RNAs including tRNA derived fragments inHaloferax volcanii

(2012) Ruth Heyer et al.   RNA Biology

Structure of the Cmr2 Subunit of the CRISPR-Cas RNA Silencing Complex

(2012) Alexis I. Cocozaki et al.   STRUCTURE

CRISPR-Cas Systems in Bacteria and Archaea: Versatile Small RNAs for Adaptive Defense and Regulation

(2011) Devaki Bhaya et al.   Annual Review of Genetics

Regulatory RNAs inHaloferax volcanii: Figure 1

(2011) Susan Fischer et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

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

CRISPR-based adaptive immune systems

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

Structure and activity of the Cas3 HD nuclease MJ0384, an effector enzyme of the CRISPR interference

(2011) Natalia Beloglazova et al.   EMBO JOURNAL

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

(2011) Tomas Sinkunas et al.   EMBO JOURNAL

Using CRISPRs as a metagenomic tool to identify microbial hosts of a diffuse flow hydrothermal vent viral assemblage

(2011) Rika E. Anderson et al.   FEMS MICROBIOLOGY ECOLOGY

Structural and Biochemical Analysis of Nuclease Domain of Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR)-associated Protein 3 (Cas3)

(2011) Sabin Mulepati et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural and Functional Characterization of an Archaeal Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR)-associated Complex for Antiviral Defense (CASCADE)

(2011) Nathanael G. Lintner et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

In vivo activity of CRISPR-mediated virus defence in a hyperthermophilic archaeon

(2011) Andrea Manica et al.   MOLECULAR MICROBIOLOGY

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

Recognition and maturation of effector RNAs in a CRISPR interference pathway

(2011) Emily M Gesner et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

An RNA-induced conformational change required for CRISPR RNA cleavage by the endoribonuclease Cse3

(2011) Dipali G Sashital et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Structural basis for CRISPR RNA-guided DNA recognition by Cascade

(2011) Matthijs M Jore et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Mature clustered, regularly interspaced, short palindromic repeats RNA (crRNA) length is measured by a ruler mechanism anchored at the precursor processing site

(2011) A. Hatoum-Aslan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Challenges of ligand identification for riboswitch candidates

(2011) Michelle M. Meyer et al.   RNA Biology

Interaction of the Cas6 Riboendonuclease with CRISPR RNAs: Recognition and Cleavage

(2011) Ruiying Wang et al.   STRUCTURE

Transfer RNA-derived fragments: origins, processing, and functions

(2011) Andrew Sobala et al.   Wiley Interdisciplinary Reviews-RNA

Use of Cellular CRISPR (Clusters of Regularly Interspaced Short Palindromic Repeats) Spacer-Based Microarrays for Detection of Viruses in Environmental Samples

(2010) J. C. Snyder et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Archaeal Lsm Protein Binds to Small RNAs

(2010) Susan Fischer et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Dynamic properties of the Sulfolobus CRISPR/Cas and CRISPR/Cmr systems when challenged with vector-borne viral and plasmid genes and protospacers

(2010) Soley Gudbergsdottir et al.   MOLECULAR MICROBIOLOGY

Identification and characterization ofE. coliCRISPR-caspromoters and their silencing by H-NS

(2010) Ümit Pul et al.   MOLECULAR MICROBIOLOGY

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

(2010) Luciano A. Marraffini et al.   NATURE

Mammalian microRNAs predominantly act to decrease target mRNA levels

(2010) Huili Guo et al.   NATURE

Small RNAs in Haloarchaea: Identification, differential expression and biological function

(2010) Julia Straub et al.   RNA Biology

Human tRNA-derived small RNAs in the global regulation of RNA silencing

(2010) D. Haussecker et al.   RNA

Sequence- and Structure-Specific RNA Processing by a CRISPR Endonuclease

(2010) Rachel E. Haurwitz et al.   SCIENCE

Small RNAs of the halophilic archaeonHaloferax volcanii: Figure 1

(2009) Jörg Soppa et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Expanding and understanding the genetic toolbox of the hyperthermophilic genusSulfolobus

(2009) Michaela Wagner et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

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

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

(2009) Caryn R. Hale et al.   CELL

Regulatory RNAs in Bacteria

(2009) Lauren S. Waters et al.   CELL

Bacterial chromosome-encoded small regulatory RNAs

(2009) Sabine Brantl   Future Microbiology

A novel class of small RNAs: tRNA-derived RNA fragments (tRFs)

(2009) Yong Sun Lee et al.   GENES & DEVELOPMENT

A single-base resolution map of an archaeal transcriptome

(2009) O. Wurtzel et al.   GENOME RESEARCH

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

(2009)   MICROBIOLOGY-SGM

An ssDNA virus infecting archaea: a new lineage of viruses with a membrane envelope

(2009) Maija K. Pietilä et al.   MOLECULAR MICROBIOLOGY

The transcriptionally active regions in the genome ofBacillus subtilis

(2009) Simon Rasmussen et al.   MOLECULAR MICROBIOLOGY

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

(2009) Martin Jinek et al.   NATURE

A unique virus release mechanism in the Archaea

(2009) A. Bize et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Deep sequencing analysis of the Methanosarcina mazei Go1 transcriptome in response to nitrogen availability

(2009) D. Jager et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs

(2009) C. Cole et al.   RNA

IntaRNA: efficient prediction of bacterial sRNA targets incorporating target site accessibility and seed regions

(2008) Anke Busch et al.   BIOINFORMATICS

RNA-splicing endonuclease structure and function

(2008) K. Calvin et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Cas6 is an endoribonuclease that generates guide RNAs for invader defense in prokaryotes

(2008) J. Carte et al.   GENES & DEVELOPMENT

Prokaryotic silencing (psi)RNAs in Pyrococcus furiosus

(2008) C. Hale et al.   RNA

Small CRISPR RNAs Guide Antiviral Defense in Prokaryotes

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