2018
Dynamics and Function of Nuclear Bodies during Embryogenesis
Escayola D, Neugebauer K. Dynamics and Function of Nuclear Bodies during Embryogenesis. Biochemistry 2018, 57: 2462-2469. PMID: 29473743, DOI: 10.1021/acs.biochem.7b01262.Peer-Reviewed Original ResearchConceptsNuclear bodiesCajal bodiesRNA processingZygotic gene productsRNA-protein complexesEfficient RNA processingFunction of nucleoliNuclear body formationGene elementsVariety of organismsZygotic genomeZygotic transitionGenomic lociNascent RNAModel organismsNuclear stepsTranscriptional activationEarly embryosNuclear proteinsGene productsGene locusMembraneless organellesBody formationExcellent modelCell nuclei
2016
Activation of transcription enforces the formation of distinct nuclear bodies in zebrafish embryos
Heyn P, Salmonowicz H, Rodenfels J, Neugebauer KM. Activation of transcription enforces the formation of distinct nuclear bodies in zebrafish embryos. RNA Biology 2016, 14: 752-760. PMID: 27858508, PMCID: PMC5519242, DOI: 10.1080/15476286.2016.1255397.Peer-Reviewed Original ResearchConceptsHistone locus bodyCajal bodiesNuclear bodiesSm ringHistone mRNA 3' end processingEnd processingMRNA 3' end processingDifferent nuclear bodiesDistinct nuclear bodiesNuclear body componentsDistinct regulatory functionsHLB formationHistone genesHistone transcriptsZygotic transcriptionTranscriptional silenceSplicing machineryRRNA processingEarly embryogenesisU7 snRNPNascent histoneZebrafish embryosDanio rerioCellular compartmentsTranscription inhibition
2012
Cajal bodies: where form meets function
Machyna M, Heyn P, Neugebauer KM. Cajal bodies: where form meets function. Wiley Interdisciplinary Reviews - RNA 2012, 4: 17-34. PMID: 23042601, DOI: 10.1002/wrna.1139.Peer-Reviewed Original ResearchConceptsCajal bodiesCB assemblyHistone locus bodyHistone gene clusterRibosome biogenesisGene clusterHistone mRNATelomere maintenanceCellular functionsRNA speciesWidespread mechanismCell nucleiSurprising complexityBiochemical processesAltered affinityBody assemblyAssembly propertiesRibonucleoproteinDistinct structuresAssemblyPre-existing substructuresBiogenesisSplicingAdditional layerTranscriptionFirst Exon Length Controls Active Chromatin Signatures and Transcription
Bieberstein NI, Oesterreich F, Straube K, Neugebauer KM. First Exon Length Controls Active Chromatin Signatures and Transcription. Cell Reports 2012, 2: 62-68. PMID: 22840397, DOI: 10.1016/j.celrep.2012.05.019.Peer-Reviewed Original ResearchConceptsGeneral transcription factorsTranscription start siteFirst exonShort first exonExon-intron organizationGenome-wide analysisHistone modifications H3K4me3Active chromatin signatureRNA polymerase IIRole of splicingTransgenic cell linesChIP-seq dataLong first exonChromatin signaturesGene architectureExon-intron boundariesHigh expression levelsAntisense transcriptionTranscriptional outputPolymerase IIH3K4me3 levelsGene activityTSS usageTranscription factorsExon lengthThe RNA-binding landscapes of two SR proteins reveal unique functions and binding to diverse RNA classes
Änkö ML, Müller-McNicoll M, Brandl H, Curk T, Gorup C, Henry I, Ule J, Neugebauer KM. The RNA-binding landscapes of two SR proteins reveal unique functions and binding to diverse RNA classes. Genome Biology 2012, 13: r17. PMID: 22436691, PMCID: PMC3439968, DOI: 10.1186/gb-2012-13-3-r17.Peer-Reviewed Original ResearchConceptsSR proteinsSR protein family membersHistone mRNA metabolismConsensus binding motifsProtein family membersIntron-containing mRNAsCellular regulatory mechanismsNonsense-mediated decayNon-coding RNAsNumerous RNAsHistone transcriptsMRNA metabolismUnique RNASplicing eventsAlternative splicingRNA classesRNA recognitionRelated RNATarget genesSRSF4Binding motifRegulatory mechanismsRNA targetsSRSF3Murine cells
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 ResearchMeSH KeywordsAnimalsChromatinHistonesHumansNucleosomesRNA Polymerase IIRNA SplicingTranscription, GeneticConceptsRNA polymerase II elongation rateContext of chromatinProtein-coding transcriptsRNA polymerase IIPre-mRNA splicingTranscript bodyTranscriptional pausingHistone modificationsPolymerase IIIntron removalSplicingTranscriptionElongation rateGenesTranscriptsRecent evidenceChromatinIntronsPausingElongationRegulatorLocal regulationRegulationRecruitment
2010
Dynamic control of Cajal body number during zebrafish embryogenesis
Strzelecka M, Oates AC, Neugebauer KM. Dynamic control of Cajal body number during zebrafish embryogenesis. Nucleus 2010, 1: 96-108. PMID: 21327108, PMCID: PMC3035118, DOI: 10.4161/nucl.1.1.10680.Peer-Reviewed Original ResearchConceptsCajal bodiesEnd processing factorsGene expressionZygotic genome activationZygotic gene expressionRNA processing machineryDistinct nuclear bodiesMRNA splicing machineryCajal body numberLive-cell imagingCB numberHours of developmentGenome activationZebrafish embryogenesisNuclear subcompartmentsSnRNP biogenesisSplicing machineryZebrafish embryosCell divisionNuclear bodiesCB assemblyEmbryonic cellsMaternal contributionProcessing machineryEmbryos