Variants of the guanine riboswitch class exhibit altered ligand specificities for xanthine, guanine, or 2′-deoxyguanosine

Comprehensive discovery of novel structured noncoding RNAs in 26 bacterial genomes

(2021) Kenneth I. Brewer et al.   RNA Biology

Insights into xanthine riboswitch structure and metal ion-mediated ligand recognition

(2021) Xiaochen Xu et al.   NUCLEIC ACIDS RESEARCH

A natural riboswitch scaffold with self-methylation activity

(2021) Laurin Flemmich et al.   Nature Communications

A Modular RNA Domain That Confers Differential Ligand Specificity

(2020) Andrew J. Knappenberger et al.   BIOCHEMISTRY

Former orphan riboswitches reveal unexplored areas of bacterial metabolism, signaling, and gene control processes

(2020) Madeline E. Sherlock et al.   RNA

A bacterial riboswitch class senses xanthine and uric acid to regulate genes associated with purine oxidation

(2020) Diane Yu et al.   RNA

A rare bacterial RNA motif is implicated in the regulation of the purF gene whose encoded enzyme synthesizes phosphoribosylamine

(2020) Sarah Malkowski et al.   RNA

A Second Riboswitch Class for the Enzyme Cofactor NAD+

(2020) Shanker S.S. Panchapakesan et al.   RNA

Alarmones as Vestiges of a Bygone RNA World

(2019) Ricardo Hernández-Morales et al.   JOURNAL OF MOLECULAR EVOLUTION

A bacterial riboswitch class for the thiamin precursor HMP-PP employs a terminator-embedded aptamer

(2019) Ruben M Atilho et al.   eLife

Biochemical validation of a second class of tetrahydrofolate riboswitches in bacteria

(2019) Xi Chen et al.   RNA

Evidence that the nadA Motif is a Bacterial Riboswitch for the Ubiquitous Enzyme Cofactor NAD+

(2019) Sarah N Malkowski et al.   RNA

Structural basis for 2′-deoxyguanosine recognition by the 2′-dG-II class of riboswitches

(2019) Michal M Matyjasik et al.   NUCLEIC ACIDS RESEARCH

Riboswitches for the alarmone ppGpp expand the collection of RNA-based signaling systems

(2018) Madeline E. Sherlock et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SAM-VI RNAs selectively bind S-adenosylmethionine and exhibit similarities to SAM-III riboswitches

(2018) Gayan Mirihana Arachchilage et al.   RNA Biology

Challenges of ligand identification for the second wave of orphan riboswitch candidates

(2018) Etienne B. Greenlee et al.   RNA Biology

Riboswitches and Translation Control

(2018) Ronald R. Breaker   Cold Spring Harbor Perspectives in Biology

Tandem riboswitches form a natural Boolean logic gate to control purine metabolism in bacteria

(2018) Madeline E Sherlock et al.   eLife

Variant Bacterial Riboswitches Associated with Nucleotide Hydrolase Genes Sense Nucleoside Diphosphates

(2018) Madeline E. Sherlock et al.   BIOCHEMISTRY

Rare variants of the FMN riboswitch class in Clostridium difficile and other bacteria exhibit altered ligand specificity

(2018) Ruben M. Atilho et al.   RNA

Recurrent RNA motifs as scaffolds for genetically encodable small-molecule biosensors

(2017) Ely B Porter et al.   Nature Chemical Biology

Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions

(2017) Zasha Weinberg et al.   NUCLEIC ACIDS RESEARCH

Bioinformatic analysis of riboswitch structures uncovers variant classes with altered ligand specificity

(2017) Zasha Weinberg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Riboswitch diversity and distribution

(2017) Phillip J. McCown et al.   RNA

The lost language of the RNA World

(2017) James W. Nelson et al.   Science Signaling

The lost language of the RNA World

(2017) James W. Nelson et al.   Science Signaling

Riboswitch-Mediated Gene Regulation: Novel RNA Architectures Dictate Gene Expression Responses

(2016) Anna V. Sherwood et al.   Annual Review of Microbiology

An Ancient Riboswitch Class in Bacteria Regulates Purine Biosynthesis and One-Carbon Metabolism

(2015) Peter B. Kim et al.   MOLECULAR CELL

Control of bacterial exoelectrogenesis by c-AMP-GMP

(2015) James W. Nelson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

GEMM-I riboswitches fromGeobactersense the bacterial second messenger cyclic AMP-GMP

(2015) Colleen A. Kellenberger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structural, Functional, and Taxonomic Diversity of Three PreQ1 Riboswitch Classes

(2014) Phillip J. McCown et al.   CHEMISTRY & BIOLOGY

Infernal 1.1: 100-fold faster RNA homology searches

(2013) E. P. Nawrocki et al.   BIOINFORMATICS

A Decade of Riboswitches

(2013) Alexander Serganov et al.   CELL

Riboswitches in eubacteria sense the second messenger c-di-AMP

(2013) James W Nelson et al.   Nature Chemical Biology

B12 cofactors directly stabilize an mRNA regulatory switch

(2012) James E. Johnson Jr et al.   NATURE

A highly specialized flavin mononucleotide riboswitch responds differently to similar ligands and confers roseoflavin resistance to Streptomyces davawensis

(2012) Danielle Biscaro Pedrolli et al.   NUCLEIC ACIDS RESEARCH

R2R - software to speed the depiction of aesthetic consensus RNA secondary structures

(2011) Zasha Weinberg et al.   BMC BIOINFORMATICS

Prospects for Riboswitch Discovery and Analysis

(2011) Ronald R. Breaker   MOLECULAR CELL

Structural principles of nucleoside selectivity in a 2′-deoxyguanosine riboswitch

(2011) Olga Pikovskaya et al.   Nature Chemical Biology

Reengineering orthogonally selective riboswitches

(2010) N. Dixon 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: Structures and Mechanisms

(2010) A. D. Garst et al.   Cold Spring Harbor Perspectives in Biology

Riboswitches and the RNA World

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

Comparative genomics reveals 104 candidate structured RNAs from bacteria, archaea, and their metagenomes

(2010) Zasha Weinberg et al.   GENOME BIOLOGY

The Structural and Functional Diversity of Metabolite-Binding Riboswitches

(2009) Adam Roth et al.   Annual Review of Biochemistry

A variant riboswitch aptamer class for S-adenosylmethionine common in marine bacteria

(2009) E. Poiata et al.   RNA

A Structural Basis for the Recognition of 2′-Deoxyguanosine by the Purine Riboswitch

(2008) Andrea L. Edwards et al.   JOURNAL OF MOLECULAR BIOLOGY

Riboswitches that Sense S-adenosylhomocysteine and Activate Genes Involved in Coenzyme Recycling

(2008) Joy Xin Wang et al.   MOLECULAR CELL

Confirmation of a second natural preQ1 aptamer class in Streptococcaceae bacteria

(2008) M. M. Meyer et al.   RNA

Riboswitches in Eubacteria Sense the Second Messenger Cyclic Di-GMP

(2008) N. Sudarsan et al.   SCIENCE