2017
Analysis of RNA-protein interactions in vertebrate embryos using UV crosslinking approaches
Despic V, Dejung M, Butter F, Neugebauer KM. Analysis of RNA-protein interactions in vertebrate embryos using UV crosslinking approaches. Methods 2017, 126: 44-53. PMID: 28734934, DOI: 10.1016/j.ymeth.2017.07.013.Peer-Reviewed Original ResearchConceptsNumber of RBPsRNA-protein interactionsUnique biological contextZebrafish Danio rerioRegulated gene expressionInteractome captureVertebrate embryosDanio rerioRNA-seqCellular RNAGene expressionBiological contextRBPsRNAProteinGenomeRerioCrosslinking approachOrganismsEmbryosMRNAAnnotationExpressionVast frontierVivo
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
2014
The 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