PXD009789-2

PXD009789 is an original dataset announced via ProteomeXchange.

Title	System-wide profiling of protein-RNA interactions in sindbis infected cells reveals host regulators of infection
Description	RNA viruses rely on cellular RNA-binding proteins (RBPs) to infect the host cell. However, the repertoire of the cellular RBPs exploited by viruses is largely unknown. Using the ‘RNA interactome capture’ method, we profiled in a proteome-wide scale the RBP-RNA interactions occurring during sindbis virus (SINV) infection. We discover that SINV affects the activity of hundreds of RBPs, essentially rewiring the host RNA-bound proteome. Such alterations do not relate to changes in protein abundance but are rather due to subcellular redistribution of RBPs and pervasive transcriptome remodelling. Strikingly, RBPs stimulated by SINV accumulate in the cytoplasmic compartments where the virus replicates and interact with viral RNA. Perturbation of these RBPs can restrict or promote infection; for example, GEMIN5 binds to key regulatory regions of SINV RNAs and inhibits viral protein expression. Importantly, we show that drug based RBP intervention may have potential as therapeutic strategy against viruses.
HostingRepository	PRIDE
AnnounceDate	2019-03-01
AnnouncementXML	Submission_2019-03-01_00:30:32.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Caroline Lenz
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Sindbis virus; NCBI TaxID: 11034;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2018-05-15 08:56:55	ID requested
1	2019-02-28 09:15:27	announced
⏵ 2	2019-03-01 00:30:33	announced	Updated project metadata.
3	2024-10-22 04:45:25	announced	2024-10-22: Updated project metadata.

Garcia-Moreno M, Noerenberg M, Ni S, J, ä, rvelin AI, Gonz, á, lez-Almela E, Lenz CE, Bach-Pages M, Cox V, Avolio R, Davis T, Hester S, Sohier TJM, Li B, Heikel G, Michlewski G, Sanz MA, Carrasco L, Ricci EP, Pelechano V, Davis I, Fischer B, Mohammed S, Castello A, System-wide Profiling of RNA-Binding Proteins Uncovers Key Regulators of Virus Infection. Mol Cell, 74(1):196-211.e11(2019) [pubmed]

curator keyword: Biological, Biomedical

submitter keyword: Human, Sindbis virus, LC-MSMS

Alfredo Castello Palomares
contact affiliation	Department of Biochemistry, University of Oxford, UK
contact email	alfredo.castellopalomares@bioch.ox.ac.uk
lab head
Caroline Lenz
contact affiliation	Department of Biochemistry, University of Oxford
contact email	caroline.lenz@bioch.ox.ac.uk
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2019/02/PXD009789

PRIDE project URI

• PRIDE
  1. PXD009789
     1. Label: PRIDE project
     2. Name: System-wide profiling of protein-RNA interactions in sindbis infected cells reveals host regulators of infection