RNA aptamers as genetic control devices: The potential of riboswitches as synthetic elements for regulating gene expression

Regulation of Gene Expression in Diverse Cyanobacterial Species by Using Theophylline-Responsive Riboswitches

(2014) Amy T. Ma et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Preface — Riboswitches

(2014) Tina M. Henkin   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Synthetic riboswitches — A tool comes of age

(2014) Florian Groher et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Development and Applications of CRISPR-Cas9 for Genome Engineering

(2014) Patrick D. Hsu et al.   CELL

MicroRNAs in liver cancer: a model for investigating pathogenesis and novel therapeutic approaches

(2014) E Callegari et al.   CELL DEATH AND DIFFERENTIATION

Sequence Elements Distal to the Ligand Binding Pocket Modulate the Efficiency of a Synthetic Riboswitch

(2014) Julia E. Weigand et al.   CHEMBIOCHEM

The Expanding View of RNA and DNA Function

(2014) Ronald R. Breaker et al.   CHEMISTRY & BIOLOGY

A Disconnect between High-Affinity Binding and Efficient Regulation by Antifolates and Purines in the Tetrahydrofolate Riboswitch

(2014) Jeremiah J. Trausch et al.   CHEMISTRY & BIOLOGY

Microbial production of amino acids and derived chemicals: Synthetic biology approaches to strain development

(2014) Volker F Wendisch   CURRENT OPINION IN BIOTECHNOLOGY

A CRISPR view of development

(2014) Melissa M. Harrison et al.   GENES & DEVELOPMENT

Modular Riboswitch Toolsets for Synthetic Genetic Control in Diverse Bacterial Species

(2014) Christopher J. Robinson et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Detecting and characterizing circular RNAs

(2014) William R Jeck et al.   NATURE BIOTECHNOLOGY

Unravelling the structural and mechanistic basis of CRISPR–Cas systems

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

A family of synthetic riboswitches adopts a kinetic trapping mechanism

(2014) Dennis M. Mishler et al.   NUCLEIC ACIDS RESEARCH

Artificial riboswitches for gene expression and replication control of DNA and RNA viruses

(2014) Patrick Ketzer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A riboswitch-containing sRNA controls gene expression by sequestration of a response regulator

(2014) S. DebRoy et al.   SCIENCE

Sequestration of a two-component response regulator by a riboswitch-regulated noncoding RNA

(2014) J. R. Mellin et al.   SCIENCE

Physiological roles of long noncoding RNAs: insight from knockout mice

(2014) Lingjie Li et al.   TRENDS IN CELL BIOLOGY

Development ofβ-Lactamase as a Tool for Monitoring Conditional Gene Expression by a Tetracycline-Riboswitch inMethanosarcina acetivorans

(2014) Shemsi Demolli et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

Aptamers: versatile probes for flow cytometry

(2013) Michael Meyer et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

A Decade of Riboswitches

(2013) Alexander Serganov et al.   CELL

Nucleotides Adjacent to the Ligand-Binding Pocket are Linked to Activity Tuning in the Purine Riboswitch

(2013) Colby D. Stoddard et al.   JOURNAL OF MOLECULAR BIOLOGY

The Role of miRNAs in Regulating Gene Expression Networks

(2013) Allan M. Gurtan et al.   JOURNAL OF MOLECULAR BIOLOGY

Nucleic acid aptamers as high affinity ligands in biotechnology and biosensorics

(2013) Tina Šmuc et al.   JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS

Synthetic riboswitches for the conditional control of gene expression in Streptomyces coelicolor

(2013) M. M. Rudolph et al.   MICROBIOLOGY-SGM

Three-state mechanism couples ligand and temperature sensing in riboswitches

(2013) Anke Reining et al.   NATURE

Stable RNA interference rules for silencing

(2013) Christof Fellmann et al.   NATURE CELL BIOLOGY

Engineering modular ‘ON’ RNA switches using biological components

(2013) Pablo Ceres et al.   NUCLEIC ACIDS RESEARCH

Theophylline-Dependent Riboswitch as a Novel Genetic Tool for Strict Regulation of Protein Expression in Cyanobacterium Synechococcus elongatus PCC 7942

(2013) Yoichi Nakahira et al.   PLANT AND CELL PHYSIOLOGY

A riboswitch-regulated antisense RNA in Listeria monocytogenes

(2013) J. R. Mellin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Thermozymes

(2013) Athanasios Saragliadis et al.   RNA Biology

Regulatory RNAs

(2013) Jorge Vazquez-Anderson et al.   RNA Biology

Microbials for the production of monoclonal antibodies and antibody fragments

(2013) Oliver Spadiut et al.   TRENDS IN BIOTECHNOLOGY

Controlling Mammalian Gene Expression by Allosteric Hepatitis Delta Virus Ribozymes

(2013) Yoko Nomura et al.   ACS Synthetic Biology

Modularity of Select Riboswitch Expression Platforms Enables Facile Engineering of Novel Genetic Regulatory Devices

(2013) Pablo Ceres et al.   ACS Synthetic Biology

Development of a 2,4-Dinitrotoluene-Responsive Synthetic Riboswitch in E. coli Cells

(2012) Molly E. Davidson et al.   ACS Chemical Biology

RNA-Based Therapeutics: Current Progress and Future Prospects

(2012) John C. Burnett et al.   CHEMISTRY & BIOLOGY

Synthetic RNA switches as a tool for temporal and spatial control over gene expression

(2012) Andrew L Chang et al.   CURRENT OPINION IN BIOTECHNOLOGY

Engineered riboswitches: Expanding researchers' toolbox with synthetic RNA regulators

(2012) Alexander Wittmann et al.   FEBS LETTERS

Post-transcriptional Boolean computation by combining aptazymes controlling mRNA translation initiation and tRNA activation

(2012) Benedikt Klauser et al.   Molecular BioSystems

De novo design of a synthetic riboswitch that regulates transcription termination

(2012) M. Wachsmuth et al.   NUCLEIC ACIDS RESEARCH

Synthetic riboswitches for external regulation of genes transferred by replication-deficient and oncolytic adenoviruses

(2012) Patrick Ketzer et al.   NUCLEIC ACIDS RESEARCH

A Riboswitch-Based Inducible Gene Expression System for Mycobacteria

(2012) Jessica C. Seeliger et al.   PLoS One

Riboswitches for Intracellular Study of Genes Involved in Francisella Pathogenesis

(2012) C. M. K. Reynoso et al.   mBio

Salmonella entericaserovars Typhimurium and Typhi as model organisms

(2012) Preeti Garai et al.   Virulence

Riboswitches: Discovery of Drugs That Target Bacterial Gene-Regulatory RNAs

(2011) Katherine E. Deigan et al.   ACCOUNTS OF CHEMICAL RESEARCH

Carba-sugars Activate the glmS-Riboswitch ofStaphylococcus aureus

(2011) Christina E. Lünse et al.   ACS Chemical Biology

Rational design of SAM analogues targeting SAM-II riboswitch aptamer

(2011) Young Wan Ham et al.   BIOORGANIC & MEDICINAL CHEMISTRY LETTERS

Biological targeting and innovative therapeutic interventions with phage-displayed peptides and structured nucleic acids (aptamers)

(2011) Davoud Ahmadvand et al.   CURRENT OPINION IN BIOTECHNOLOGY

Selection of tetracycline inducible self-cleaving ribozymes as synthetic devices for gene regulation in yeast

(2011) Alexander Wittmann et al.   Molecular BioSystems

The glmS riboswitch integrates signals from activating and inhibitory metabolites in vivo

(2011) Peter Y Watson et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Rational design of artificial riboswitches based on ligand-dependent modulation of internal ribosome entry in wheat germ extract and their applications as label-free biosensors

(2011) A. Ogawa   RNA

A Parsimonious Model for Gene Regulation by miRNAs

(2011) S. Djuranovic et al.   SCIENCE

Emerging Applications of Riboswitches in Chemical Biology

(2010) Shana Topp et al.   ACS Chemical Biology

Highly Modular Structure and Ligand Binding by Conformational Capture in a Minimalistic Riboswitch

(2010) Elke Duchardt-Ferner et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Synthetic Riboswitches That Induce Gene Expression in Diverse Bacterial Species

(2010) S. Topp et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A synthetic riboswitch with chemical band-pass response

(2010) Norihito Muranaka et al.   CHEMICAL COMMUNICATIONS

A ligand-dependent hammerhead ribozyme switch for controlling mammalian gene expression

(2010) Simon Ausländer et al.   Molecular BioSystems

Mechanistic insights into an engineered riboswitch: a switching element which confers riboswitch activity

(2010) Julia E. Weigand et al.   NUCLEIC ACIDS RESEARCH

Reengineering orthogonally selective riboswitches

(2010) N. Dixon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Inducible gene expression from the plastid genome by a synthetic riboswitch

(2010) A. Verhounig et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Allosteric Self-Splicing Ribozyme Triggered by a Bacterial Second Messenger

(2010) E. R. Lee et al.   SCIENCE

Riboswitches and the RNA World

(2010) R. R. Breaker   Cold Spring Harbor Perspectives in Biology

RNA Interference: From Basic Research to Therapeutic Applications

(2009) Jens Kurreck   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Ligand-induced sequestering of branchpoint sequence allows conditional control of splicing

(2009) Dong-Suk Kim et al.   BMC MOLECULAR BIOLOGY

A trans-Acting Riboswitch Controls Expression of the Virulence Regulator PrfA in Listeria monocytogenes

(2009) Edmund Loh et al.   CELL

NMR Chemical Exchange as a Probe for Ligand-Binding Kinetics in a Theophylline-Binding RNA Aptamer

(2009) Michael P. Latham et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Conditional RNA Interference Mediated by Allosteric Ribozyme

(2009) Deepak Kumar et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Improved Aptazyme Design and In Vivo Screening Enable Riboswitching in Bacteria

(2008) Markus Wieland et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Modulating endogenous gene expression of mammalian cells via RNA–small molecule interaction

(2008) Nazgul Tuleuova et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Artificial Riboswitches: Synthetic mRNA-Based Regulators of Gene Expression

(2008) Markus Wieland et al.   CHEMBIOCHEM

Structural Basis for Specific, High-Affinity Tetracycline Binding by an In Vitro Evolved Aptamer and Artificial Riboswitch

(2008) Hong Xiao et al.   CHEMISTRY & BIOLOGY

Mining logic gates in prokaryotic transcriptional regulation networks

(2008) Rafael Silva-Rocha et al.   FEBS LETTERS

Engineering Complex Riboswitch Regulation by Dual Genetic Selection

(2008) Vandana Sharma et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Model-guided design of ligand-regulated RNAi for programmable control of gene expression

(2008) Chase L Beisel et al.   Molecular Systems Biology

A flow cytometry-based screen for synthetic riboswitches

(2008) Sean A. Lynch et al.   NUCLEIC ACIDS RESEARCH

Higher-Order Cellular Information Processing with Synthetic RNA Devices

(2008) M. N. Win et al.   SCIENCE

Random Walks to Synthetic Riboswitches—A High-Throughput Selection Based on Cell Motility

(2007) Shana Topp et al.   CHEMBIOCHEM