2021
STL-seq reveals pause-release and termination kinetics for promoter-proximal paused RNA polymerase II transcripts
Zimmer JT, Rosa-Mercado NA, Canzio D, Steitz JA, Simon MD. STL-seq reveals pause-release and termination kinetics for promoter-proximal paused RNA polymerase II transcripts. Molecular Cell 2021, 81: 4398-4412.e7. PMID: 34520723, PMCID: PMC9020433, DOI: 10.1016/j.molcel.2021.08.019.Peer-Reviewed Original ResearchConceptsPause releaseRNA polymerase II transcriptsRNA polymerase II moleculesCis-acting DNA elementsTATA box-containing promotersPolymerase II transcriptsPromoter-proximal pausingCritical regulatory functionsTranscriptional regulationRNA turnoverTranscriptional controlDNA elementsTranscriptional shutdownPause sitesHyperosmotic stressRegulatory mechanismsRegulatory functionsPrinciples of regulationHormonal stimuliPausingPremature terminationTranscriptsRegulation
2018
Ligand Modulates Cross-Coupling between Riboswitch Folding and Transcriptional Pausing
Widom J, Nedialkov Y, Rai V, Hayes R, Brooks C, Artsimovitch I, Walter N. Ligand Modulates Cross-Coupling between Riboswitch Folding and Transcriptional Pausing. Molecular Cell 2018, 72: 541-552.e6. PMID: 30388413, PMCID: PMC6565381, DOI: 10.1016/j.molcel.2018.08.046.Peer-Reviewed Original ResearchMeSH KeywordsAptamers, NucleotideDNA-Directed RNA PolymerasesEscherichia coliEscherichia coli ProteinsFluorescence Resonance Energy TransferGene Expression Regulation, BacterialLigandsNucleic Acid ConformationNucleoside QProtein FoldingRiboswitchRNA FoldingRNA, BacterialSingle Molecule ImagingTranscription, GeneticConceptsCellular RNA transcriptsBacterial gene expressionRNA polymerase pausingCo-transcriptional foldingTranscriptional pausingTranscription machineryNascent RNAPolymerase pausingRiboswitch foldingRiboswitchRNA transcriptsGene expressionNative foldPhysiological cuesRNAPFunctional contextPausingFoldingNumerous classesAntibacterial drugsPreQTranscriptsRNAMachineryPseudoknots
2011
Pause locally, splice globally
Oesterreich F, Bieberstein N, Neugebauer KM. Pause locally, splice globally. Trends In Cell Biology 2011, 21: 328-335. PMID: 21530266, DOI: 10.1016/j.tcb.2011.03.002.Peer-Reviewed Original ResearchConceptsRNA polymerase II elongation rateContext of chromatinProtein-coding transcriptsRNA polymerase IIPre-mRNA splicingTranscript bodyTranscriptional pausingHistone modificationsPolymerase IIIntron removalSplicingTranscriptionElongation rateGenesTranscriptsRecent evidenceChromatinIntronsPausingElongationRegulatorLocal regulationRegulationRecruitment
2010
Global Analysis of Nascent RNA Reveals Transcriptional Pausing in Terminal Exons
Oesterreich F, Preibisch S, Neugebauer KM. Global Analysis of Nascent RNA Reveals Transcriptional Pausing in Terminal Exons. Molecular Cell 2010, 40: 571-581. PMID: 21095587, DOI: 10.1016/j.molcel.2010.11.004.Peer-Reviewed Original ResearchConceptsTerminal exonNascent RNATranscription profilesIntron-containing genesHigh-density tiling microarraysPre-mRNA splicingSplicing kineticsTranscriptional pausingTiling microarraysPol IISplicing catalysisSplicing efficiencyGenes lackSplicingExonsTranscriptionGenesRNAGlobal analysisFunctional couplingSilico simulationsIntronlessSpliceosomePausingYeast
1988
Ribosome pausing and stacking during translation of a eukaryotic mRNA.
Wolin S, Walter P. Ribosome pausing and stacking during translation of a eukaryotic mRNA. The EMBO Journal 1988, 7: 3559-3569. PMID: 2850168, PMCID: PMC454858, DOI: 10.1002/j.1460-2075.1988.tb03233.x.Peer-Reviewed Original Research
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