2019
Genome‐wide Discovery of Rare Riboswitches in Bacteria
Arachchilage G, Atilho R, Stav S, Higgs G, Breaker R. Genome‐wide Discovery of Rare Riboswitches in Bacteria. The FASEB Journal 2019, 33: 778.8-778.8. DOI: 10.1096/fasebj.2019.33.1_supplement.778.8.Peer-Reviewed Original ResearchRiboswitch candidatesBacterial genomesGC-rich intergenic regionsDifferent bacterial genomesGenome-wide discoverySequenced bacterial genomesNascent RNA transcriptsRiboswitch classesThiamin biosynthesisRiboswitch aptamerStructured ncRNAsNcRNA classesIntergenic regionHydroxymethylpyrimidine pyrophosphateRiboswitchBioinformatics pipelineRNA transcriptsTranscription processComputational pipelinePhysiological pathwaysConformational changesNcRNAsGenomeFASEB JournalHoward Hughes Medical Institute
1999
Allosteric selection of ribozymes that respond to the second messengers cGMP and cAMP
Koizumi M, Soukup G, Kerr J, Breaker R. Allosteric selection of ribozymes that respond to the second messengers cGMP and cAMP. Nature Structural & Molecular Biology 1999, 6: 1062-1071. PMID: 10542100, DOI: 10.1038/14947.Peer-Reviewed Original ResearchConceptsRNA molecular switchGenetic control elementsMolecular recognition characteristicsEmergence of ribozymesSecond messenger cGMPRNAs exhibitAllosteric ribozymesRNA transcriptsCellular RNASelective sensorCAMP additionMolecular switchFold activationCatalytic rateRecognition characteristicsRibozymeControl elementsEffector compoundsHammerhead ribozymeChemical agentsCompoundsStructural characteristicsSpecific nucleosideNew combinatorial strategyCombinatorial strategies
1994
Emergence of a replicating species from an in vitro RNA evolution reaction.
Breaker R, Joyce G. Emergence of a replicating species from an in vitro RNA evolution reaction. Proceedings Of The National Academy Of Sciences Of The United States Of America 1994, 91: 6093-6097. PMID: 7517040, PMCID: PMC44144, DOI: 10.1073/pnas.91.13.6093.Peer-Reviewed Original ResearchConceptsRNA polymeraseDNA-dependent RNA polymeraseRNA polymerase promoter sequencePromoter sequencesEvolution experimentsRNA moleculesAcid sequenceRNA transcriptsSpecific nucleic acid sequencesTarget chemical reactionNucleic acid sequencesRNA replicationPolymeraseRNADNAReverse transcriptaseSelective amplificationDNA hairpinsSequence replicationChemical reactionsUnique classReplicationSequenceTranscriptaseParticular chemical reaction