PXD023418

PXD023418 is an original dataset announced via ProteomeXchange.

Title	Global analysis of protein-RNA interactions in SARS-CoV-2 infected cells reveals key regulators of infection
Description	Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) causes COVID-19. SARS-CoV-2 relies on cellular RNA-binding proteins (RBPs) to replicate and spread, although which RBPs control SARS-CoV-2 infection remains largely unknown. Here, we employ a multi-omic approach to identify systematically and comprehensively the cellular and viral RBPs that are involved in SARS-CoV-2 infection. We reveal that SARS-CoV-2 infection profoundly remodels the cellular RNA-bound proteome, which includes wide-ranging effects on RNA metabolic pathways, non-canonical RBPs and antiviral factors. Moreover, we apply a new method to identify the proteins that directly interact with viral RNA, uncovering dozens of cellular RBPs and six viral proteins. Amongst them, several components of the tRNA ligase complex, which we show regulate SARS-CoV-2 infection. Furthermore, we discover that available drugs targeting host RBPs that interact with SARS-CoV-2 RNA inhibit infection. Collectively, our results uncover a new universe of host-virus interactions with potential for new antiviral therapies against COVID-19.
HostingRepository	PRIDE
AnnounceDate	2022-02-14
AnnouncementXML	Submission_2022-02-14_03:22:00.352.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Wael Kamel
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Eclipse; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2021-01-05 04:03:54	ID requested
1	2021-09-09 16:06:41	announced
⏵ 2	2022-02-14 03:22:01	announced	2022-02-14: Updated project metadata.

Kamel W, Noerenberg M, Cerikan B, Chen H, J, ä, rvelin AI, Kammoun M, Lee JY, Shuai N, Garcia-Moreno M, Andrejeva A, Deery MJ, Johnson N, Neufeldt CJ, Cortese M, Knight ML, Lilley KS, Martinez J, Davis I, Bartenschlager R, Mohammed S, Castello A, Global analysis of protein-RNA interactions in SARS-CoV-2-infected cells reveals key regulators of infection. Mol Cell, 81(13):2851-2867.e7(2021) [pubmed]

ProteomeXchange project tag: Covid-19, EPIC-XS

submitter keyword: WCP, cRIC, SARS-CoV-2, Calu-3, vRIC

Alfredo Castello Palomares
contact affiliation	MRC-University of Glasgow Centre for Virus Research Institute of Infection, Immunity and Inflammation College of Medical, Veterinary and Life Sciences University of Glasgow 464 Bearsden Road, Glasgow G61 1QH, Scotland (UK)
contact email	Alfredo.Castello@glasgow.ac.uk
lab head
Wael Kamel
contact affiliation	Oxford University
contact email	wael.kamel@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/2021/09/PXD023418

PRIDE project URI

• PRIDE
  1. PXD023418
     1. Label: PRIDE project
     2. Name: Global analysis of protein-RNA interactions in SARS-CoV-2 infected cells reveals key regulators of infection