2017
Dynamic RNA–protein interactions underlie the zebrafish maternal-to-zygotic transition
Despic V, Dejung M, Gu M, Krishnan J, Zhang J, Herzel L, Straube K, Gerstein MB, Butter F, Neugebauer KM. Dynamic RNA–protein interactions underlie the zebrafish maternal-to-zygotic transition. Genome Research 2017, 27: 1184-1194. PMID: 28381614, PMCID: PMC5495070, DOI: 10.1101/gr.215954.116.Peer-Reviewed Original ResearchConceptsZygotic genome activationRNA-protein interactionsMaternal mRNAsZygotic transitionSplicing factorsDynamic RNA-protein interactionsMRNA interactome capturePost-transcriptional regulationMRNA splicing factorsRNA processing eventsTranscription-dependent mannerNumerous splicing factorsInteractome captureGenome activationSequence-specific associationHnRNP proteinsRNA metabolismDramatic translocationZebrafish embryosProcessing eventsICLIP dataDevelopmental transitionsRNA targetsReporter assaysProtein constellations
2014
Nuclear bodies: RNA‐rich powerhouses of the cell (471.3)
Neugebauer K, Machyna M, Straube K, Heyn P. Nuclear bodies: RNA‐rich powerhouses of the cell (471.3). The FASEB Journal 2014, 28 DOI: 10.1096/fasebj.28.1_supplement.471.3.Peer-Reviewed Original ResearchHistone locus bodyCajal bodiesNuclear bodiesZygotic genome activationTrafficking of RNAsEarly zebrafish embryogenesisSites of transcriptionSite of assemblyGenome activationSpliceosomal snRNPsZebrafish embryogenesisRNA processingHistone mRNAMRNA splicingEnd formationMacromolecular complexesLow-affinity interactionsNuclear morphologyCell nucleiCommon organizational featuresLipid bilayersRNAEfficient assemblyDifferent functionsMolecular compositionThe Earliest Transcribed Zygotic Genes Are Short, Newly Evolved, and Different across Species
Heyn P, Kircher M, Dahl A, Kelso J, Tomancak P, Kalinka AT, Neugebauer KM. The Earliest Transcribed Zygotic Genes Are Short, Newly Evolved, and Different across Species. Cell Reports 2014, 6: 285-292. PMID: 24440719, DOI: 10.1016/j.celrep.2013.12.030.Peer-Reviewed Original ResearchConceptsZygotic genome activationZygotic genesEarly zygotic transcriptsOne-cell stageSignificant transcriptional activityRapid cell divisionComparison of fishGenome activationMitochondrial genomePurification of RNAZygotic controlEvolutionary plasticityMulticellular organismsNuclear genesZygotic transcriptsEarly embryogenesisShort genesDanio rerioAdaptive potentialCell divisionTranscriptional activityMetabolic labelingCell cycleEarly genesGenes
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