Proteomics

Dataset Information

0

RNA interactome capture identifies key proteins for herpesviral gene expression

ABSTRACT: The primary mRNA sequence determines its secondary structure and the repertoire of interacting RNA binding proteins (RBPs). The resulting mRNA ribonucleoprotein complex (mRNP) then influences all stages of the life of an mRNA. Here, we determined the mRNP composition of individual Kaposi Sarcoma Herpesviral (KSHV) mRNAs. In KSHV, the viral RNA regulator ORF57 ensures the translation of viral mRNAs by increasing mRNA stability and nuclear export. By optimizing an LNA/DNA mixmer RNA capture protocol to both transfection and virus replication settings, we identified the RBPome of specific ORF57-dependent viral transcripts. Both capture and eCLIP experiments robustly detected ORF57 as a direct RNA binder to an AU-rich motif, which may enable ORF57 to discriminate viral from cellular RNAs. Furthermore, we identified the RNA processing factor SRSF3 as a key regulator of viral replication. This work facilitates RNA-interactome studies of specific mRNAs and sheds light on how the mRNP composition orchestrates gene expression.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human) Human Gammaherpesvirus 8

SUBMITTER: Lothar Jaensch  

LAB HEAD: Lothar Jaensch

PROVIDER: PXD056253 | Pride | 2026-01-23

REPOSITORIES: Pride

Json Xml

Dataset's files

Source:
Action DRS
20201030_LNCaptureAll.7z Other
20210119_LNCapture_synORF47.7z Other
20210121_LNCapture_ORF6.7z Other
E8204_iSLK_rKSHV-non_1.raw Raw
E8205_iSLK_rKSHV-24h_1.raw Raw
Items per page:
1 - 5 of 40
altmetric image

Publications

The primary mRNA sequence determines its secondary structure and the repertoire of interacting RNA-binding proteins (RBPs). The resulting mRNA ribonucleoprotein complex (mRNP) then influences all stages of the life of an mRNA. Here, we determined the mRNP composition of individual Kaposi sarcoma herpesviral (KSHV) mRNAs. Like all herpesviruses, KSHV switches between a latent and lytic stage of the viral life cycle. During reactivation from latency, the viral RNA regulator ORF57 ensures the trans  ...[more]

Similar Datasets

Proteomics β-actin RNA-BioID
2020-03-12 | PXD010694 | Pride
Proteomics Protein-RNA interaction dynamics downstream of KRAS activation reveals key regulators of oncogenic KRAS driven cancers.
2025-05-07 | PXD053310 | Pride
Proteomics Npl3 functions in mRNP assembly by recruitment of mRNP components to the transcription site and their transfer onto the mRNA
2023-03-11 | PXD035153 | Pride
Other RNA interactome capture identifies key proteins for herpesviral gene expression
2025-08-20 | GSE253314 | GEO
Proteomics Unresolved stalled ribosome complexes restrict cycle progression after genotoxic stress
2022-02-07 | PXD023878 | Pride
Proteomics Unresolved stalled ribosome complexes restrict cycle progression after genotoxic stress
2022-02-07 | PXD023978 | Pride
Proteomics Unresolved stalled ribosome complexes restrict cycle progression after genotoxic stress
2022-02-07 | PXD023976 | Pride
Proteomics Unresolved stalled ribosome complexes restrict cycle progression after genotoxic stress
2022-02-07 | PXD023861 | Pride
Genomics Perturbation of mRNP biogenesis reveals a dynamic landscape of the Rrp6-dependent surveillance machinery trafficking along the yeast genome (ChIP-seq dataset)
2019-12-04 | E-MTAB-7539 | biostudies-arrayexpress
Proteomics The RBPome of influenza A virus mRNA reveals a role for TDP-43 in viral replication
2024-04-16 | PXD049316 | Pride