RNA-based recognition and targeting: sowing the seeds of specificity

In Vivo Cleavage Map Illuminates the Central Role of RNase E in Coding and Non-coding RNA Pathways

(2017) Yanjie Chao et al.   MOLECULAR CELL

Hfq: the flexible RNA matchmaker

(2016) Taylor B Updegrove et al.   CURRENT OPINION IN MICROBIOLOGY

Global RNA recognition patterns of post‐transcriptional regulators Hfq and CsrA revealed by UV crosslinkingin vivo

(2016) Erik Holmqvist et al.   EMBO JOURNAL

Global Mapping of Small RNA-Target Interactions in Bacteria

(2016) Sahar Melamed et al.   MOLECULAR CELL

A 3′ UTR-Derived Small RNA Provides the Regulatory Noncoding Arm of the Inner Membrane Stress Response

(2016) Yanjie Chao et al.   MOLECULAR CELL

Dual RNA-seq unveils noncoding RNA functions in host–pathogen interactions

(2016) Alexander J. Westermann et al.   NATURE

Grad-seq guides the discovery of ProQ as a major small RNA-binding protein

(2016) Alexandre Smirnov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Silencing of natural transformation by an RNA chaperone and a multitarget small RNA

(2016) Laetitia Attaiech et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2016) F. Jiang et al.   SCIENCE

A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome

(2015) Bastian Fromm et al.   Annual Review of Genetics

Single-Molecule Imaging Reveals that Argonaute Reshapes the Binding Properties of Its Nucleic Acid Guides

(2015) William E. Salomon et al.   CELL

A Dynamic Search Process Underlies MicroRNA Targeting

(2015) Stanley D. Chandradoss et al.   CELL

Crystal Structure of Staphylococcus aureus Cas9

(2015) Hiroshi Nishimasu et al.   CELL

Regulatory small RNAs from the 3′ regions of bacterial mRNAs

(2015) Masatoshi Miyakoshi et al.   CURRENT OPINION IN MICROBIOLOGY

The structural biology of CRISPR-Cas systems

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

Alternative Hfq-sRNA interaction modes dictate alternative mRNA recognition

(2015) D. J. Schu et al.   EMBO JOURNAL

Human Argonaute 2 Has Diverse Reaction Pathways on Target RNAs

(2015) Myung Hyun Jo et al.   MOLECULAR CELL

CRISPR-Cas immunity in prokaryotes

(2015) Luciano A. Marraffini   NATURE

Towards a molecular understanding of microRNA-mediated gene silencing

(2015) Stefanie Jonas et al.   NATURE REVIEWS GENETICS

An updated evolutionary classification of CRISPR–Cas systems

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

Small RNA-based feedforward loop with AND-gate logic regulates extrachromosomal DNA transfer inSalmonella

(2015) Kai Papenfort et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comprehensive analysis reveals how single nucleotides contribute to noncoding RNA function in bacterial quorum sensing

(2015) Steven T. Rutherford et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Determination of in vivo target search kinetics of regulatory noncoding RNA

(2015) J. Fei et al.   SCIENCE

A Cas9-guide RNA complex preorganized for target DNA recognition

(2015) F. Jiang et al.   SCIENCE

miRNA–target chimeras reveal miRNA 3′-end pairing as a major determinant of Argonaute target specificity

(2015) Michael J. Moore et al.   Nature Communications

Predicting effective microRNA target sites in mammalian mRNAs

(2015) Vikram Agarwal et al.   eLife

Messenger RNA Degradation in Bacterial Cells

(2014) Monica P. Hui et al.   Annual Review of Genetics

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

The Noncoding RNA Revolution—Trashing Old Rules to Forge New Ones

(2014) Thomas R. Cech et al.   CELL

Global Transcriptional Start Site Mapping Using Differential RNA Sequencing Reveals Novel Antisense RNAs in Escherichia coli

(2014) Maureen K. Thomason et al.   JOURNAL OF BACTERIOLOGY

Unambiguous Identification of miRNA:Target Site Interactions by Different Types of Ligation Reactions

(2014) Stefanie Grosswendt et al.   MOLECULAR CELL

Identification of Bacteriophage-Encoded Anti-sRNAs in Pathogenic Escherichia coli

(2014) Jai J. Tree et al.   MOLECULAR CELL

Crystal structure of the RNA-guided immune surveillance Cascade complex in Escherichia coli

(2014) Hongtu Zhao et al.   NATURE

Structural basis of PAM-dependent target DNA recognition by the Cas9 endonuclease

(2014) Carolin Anders et al.   NATURE

DNA interrogation by the CRISPR RNA-guided endonuclease Cas9

(2014) Samuel H. Sternberg et al.   NATURE

Unravelling the structural and mechanistic basis of CRISPR–Cas systems

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

The evolutionary journey of Argonaute proteins

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

Structural model of an mRNA in complex with the bacterial chaperone Hfq

(2014) Yi Peng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Direct observation of R-loop formation by single RNA-guided Cas9 and Cascade effector complexes

(2014) Mark D. Szczelkun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolutionary patterns of Escherichia coli small RNAs and their regulatory interactions

(2014) A. Peer et al.   RNA

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

(2014) S. Mulepati et al.   SCIENCE

Structural basis for microRNA targeting

(2014) N. T. Schirle et al.   SCIENCE

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

Planting the seed: target recognition of short guide RNAs

(2014) Tim Künne et al.   TRENDS IN MICROBIOLOGY

Recognition of the small regulatory RNA RydC by the bacterial Hfq protein

(2014) Daniela Dimastrogiovanni et al.   eLife

Regulatory RNAs and target mRNA decay in prokaryotes

(2013) David Lalaouna et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Mapping the Human miRNA Interactome by CLASH Reveals Frequent Noncanonical Binding

(2013) Aleksandra Helwak et al.   CELL

Small RNA-Mediated Activation of Sugar Phosphatase mRNA Regulates Glucose Homeostasis

(2013) Kai Papenfort et al.   CELL

An Infection-Relevant Transcriptomic Compendium for Salmonella enterica Serovar Typhimurium

(2013) Carsten Kröger et al.   Cell Host & Microbe

A small RNA activates CFA synthase by isoform-specific mRNA stabilization

(2013) Kathrin Sophie Fröhlich et al.   EMBO JOURNAL

Bacterial Small RNA-based Negative Regulation: Hfq and Its Accomplices

(2013) Nicholas De Lay et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Processing-Independent CRISPR RNAs Limit Natural Transformation in Neisseria meningitidis

(2013) Yan Zhang et al.   MOLECULAR CELL

Argonaute proteins: functional insights and emerging roles

(2013) Gunter Meister   NATURE REVIEWS GENETICS

Conserved arginines on the rim of Hfq catalyze base pair formation and exchange

(2013) Subrata Panja et al.   NUCLEIC ACIDS RESEARCH

Eukaryotic Argonautes come into focus

(2013) Claus-D. Kuhn et al.   TRENDS IN BIOCHEMICAL SCIENCES

High-Resolution Transcriptome Maps Reveal Strain-Specific Regulatory Features of Multiple Campylobacter jejuni Isolates

(2013) Gaurav Dugar et al.   PLoS Genetics

Post-Transcriptional Control of the Escherichia coli PhoQ-PhoP Two-Component System by Multiple sRNAs Involves a Novel Pairing Region of GcvB

(2013) Audrey Coornaert et al.   PLoS Genetics

Argonaute Divides Its RNA Guide into Domains with Distinct Functions and RNA-Binding Properties

(2012) Liang Meng Wee et al.   CELL

The Structure of Human Argonaute-2 in Complex with miR-20a

(2012) Elad Elkayam et al.   CELL

Structure of yeast Argonaute with guide RNA

(2012) Kotaro Nakanishi et al.   NATURE

Structural mechanism of Staphylococcus aureus Hfq binding to an RNA A-tract

(2012) Nicola Horstmann et al.   NUCLEIC ACIDS RESEARCH

The ancestral SgrS RNA discriminates horizontally acquired Salmonella mRNAs through a single G-U wobble pair

(2012) K. Papenfort et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Small RNA binding to the lateral surface of Hfq hexamers and structural rearrangements upon mRNA target recognition

(2012) E. Sauer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Crystal Structure of Human Argonaute2

(2012) N. T. Schirle et al.   SCIENCE

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

(2012) M. Jinek et al.   SCIENCE

The Base-Pairing RNA Spot 42 Participates in a Multioutput Feedforward Loop to Help Enact Catabolite Repression in Escherichia coli

(2011) Chase L. Beisel et al.   MOLECULAR CELL

Regulation by Small RNAs in Bacteria: Expanding Frontiers

(2011) Gisela Storz et al.   MOLECULAR CELL

Pervasive post-transcriptional control of genes involved in amino acid metabolism by the Hfq-dependent GcvB small RNA

(2011) Cynthia M. Sharma 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

Hfq and its constellation of RNA

(2011) Jörg Vogel et al.   NATURE REVIEWS MICROBIOLOGY

Transcriptome-wide Identification of RNA-Binding Protein and MicroRNA Target Sites by PAR-CLIP

(2010) Markus Hafner et al.   CELL

Mammalian microRNAs: experimental evaluation of novel and previously annotated genes

(2010) H. R. Chiang et al.   GENES & DEVELOPMENT

RNAs actively cycle on the Sm-like protein Hfq

(2010) A. Fender et al.   GENES & DEVELOPMENT

Recognition of heptameric seed sequence underlies multi-target regulation by RybB small RNA in Salmonella enterica

(2010) Roberto Balbontín et al.   MOLECULAR MICROBIOLOGY

Small RNA sorting: matchmaking for Argonautes

(2010) Benjamin Czech et al.   NATURE REVIEWS GENETICS

Evidence for an autonomous 5' target recognition domain in an Hfq-associated small RNA

(2010) K. Papenfort et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bacterial Small RNA Regulators: Versatile Roles and Rapidly Evolving Variations

(2010) S. Gottesman et al.   Cold Spring Harbor Perspectives in Biology

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

Enhancement of the Seed-Target Recognition Step in RNA Silencing by a PIWI/MID Domain Protein

(2009) James S. Parker et al.   MOLECULAR CELL

Specific and pleiotropic patterns of mRNA regulation by ArcZ, a conserved, Hfq-dependent small RNA

(2009) Kai Papenfort et al.   MOLECULAR MICROBIOLOGY

Nucleation, propagation and cleavage of target RNAs in Ago silencing complexes

(2009) Yanli Wang et al.   NATURE

Biogenesis of small RNAs in animals

(2009) V. Narry Kim et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A search for small noncoding RNAs in Staphylococcus aureus reveals a conserved sequence motif for regulation

(2009) Thomas Geissmann et al.   NUCLEIC ACIDS RESEARCH

Structure of Escherichia coli Hfq bound to polyriboadenylate RNA

(2009) T. M. Link et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Small RNAs establish gene expression thresholds

(2008) Erel Levine et al.   CURRENT OPINION IN MICROBIOLOGY

Most mammalian mRNAs are conserved targets of microRNAs

(2008) R. C. Friedman et al.   GENOME RESEARCH

Small RNA Binding to 5′ mRNA Coding Region Inhibits Translational Initiation

(2008) Marie Bouvier et al.   MOLECULAR CELL

Structure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex

(2008) Yanli Wang et al.   NATURE

Structure of the guide-strand-containing argonaute silencing complex

(2008) Yanli Wang et al.   NATURE