PXD006098 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Dynamic RNA-protein interactions underlie the zebrafish maternal-to-zygotic transition |
Description | During the maternal-to-zygotic transition (MZT), transcriptionally silent embryos rely on post-transcriptional regulation of maternal mRNAs until zygotic genome activation (ZGA). RNA-binding proteins (RBPs) are important regulators of post-transcriptional RNA processing events, yet their identities and functions during developmental transitions in vertebrates remain largely unexplored. Using mRNA interactome capture, we identified 227 RBPs in zebrafish embryos before and during ZGA, hereby named the zebrafish MZT mRNAbound proteome. This protein constellation consists of many conserved RBPs, with additional embryo- and stage-specific mRNA interactors that likely reflect the dynamics of RNA-protein interactions during MZT. The enrichment of numerous splicing factors like hnRNP proteins before ZGA was surprising, because maternal mRNAs were found to be fully spliced. To address potentially unique roles of RBPs in embryogenesis, we focused on hnRNP A1. iCLIP and subsequent mRNA reporter assays revealed a function for hnRNP A1 in the regulation of poly(A) tail length and translation of maternal mRNAs through sequence-specific association with 3’UTRs before ZGA. Comparison of iCLIP data from two developmental stages revealed that hnRNP A1 dissociates from maternal mRNAs at ZGA and instead regulates the nuclear processing of pri-miR-430 transcripts, which we validated experimentally. The shift from cytoplasmic to nuclear RNA targets was accompanied by a dramatic translocation of hnRNP A1 and other pre-mRNA splicing factors to the nucleus in a transcription-dependent manner. Thus, our study identifies global changes in RNA-protein interactions during vertebrate MZT and shows that hnRNP A1 RNA-binding activities are spatially and temporally coordinated to regulate RNA metabolism during early development. |
HostingRepository | PRIDE |
AnnounceDate | 2017-03-27 |
AnnouncementXML | Submission_2017-04-10_01:33:02.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | F Butter |
SpeciesList | scientific name: Danio rerio (Zebrafish) (Brachydanio rerio); NCBI TaxID: 7955; |
ModificationList | No PTMs are included in the dataset |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2017-03-15 02:08:10 | ID requested | |
1 | 2017-03-27 00:53:20 | announced | |
⏵ 2 | 2017-04-10 01:33:03 | announced | Updated publication reference for PubMed record(s): 28381614. |
Publication List
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 Res, 27(7):1184-1194(2017) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: zebrafish, embryo |
Contact List
Falk Butter |
contact affiliation | Institute of Molecular Biology Ackermannweg 4 55128 Mainz |
contact email | f.butter@imb-mainz.de |
lab head | |
F Butter |
contact affiliation | Dept. of Proteomics and Signal Transduction |
contact email | f.butter@imb-mainz.de |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD006098
- Label: PRIDE project
- Name: Dynamic RNA-protein interactions underlie the zebrafish maternal-to-zygotic transition