PXD043620

PXD043620 is an original dataset announced via ProteomeXchange.

Title	Deciphering how viral epitranscriptome shapes host immune response 1
Description	As early as 24 hours after RNA virus infection, up to 25% of all RNA molecules present in host cells are pathogenic viral RNA (vRNA), i.e. viral messenger RNA (vmRNA), viral genomic RNA (vgRNA), and double stranded replication intermediates (dsRNA). To prevent such a takeover of the host metabolism, the innate immune system of the infected organism must detect threat as soon as possible. When considering RNA viruses recognition, activation of timely proper immune response capable of sensing and neutralizing viral genetic material is crucial for cell survival. Viral nucleic acids are one of the strongest pathogen-associated molecular patterns (PAMPs), molecules causing particular immune system reactions. Human cells are armed with a variety of pattern recognition receptors (PRRs) responsible for PAMPs recognition. The main factors responsible for detecting foreign nucleic acids in mammalian cells have already been identified. For activation of any RNA sensor, detecting an abnormal molecular RNA pattern, not present under normal conditions, is obligatory. These patterns may be some chemical modification of RNA, or the absence of such one, specific secondary or tertiary RNA structure, particular sequence, or dsRNA that can derive from viral genome as it is in the case of dsRNA viruses or from annealed complementary RNA strands, which are generated as RNA virus replication intermediates. However, yet there is still very limited understanding of how different epitranscriptomic marks modulate host immune response. Therefore, we will attempt to comprehensively understand how chemical modifications of viral RNA influence its immunogenic potential and stability in infected cells. Moreover, we will study how epitranscriptomic marks deposited on viral RNAs shield transcripts from being recognized by host antiviral factors.
HostingRepository	PRIDE
AnnounceDate	2025-03-17
AnnouncementXML	Submission_2025-03-17_04:07:58.587.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Dominik Cysewski
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion ETD

Revision	Datetime	Status	ChangeLog Entry
0	2023-07-08 12:40:04	ID requested
⏵ 1	2025-03-17 04:07:58	announced

10.1126/SCIADV.ADS6498;

submitter keyword: vmRNA, PRRs,AP-MS, vgRNA

Pawel Sikorski
contact affiliation	Head of Laboratory of Epitranscriptomics Faculty of Biology, Biological and Chemical Research Centre, University of Warsaw, Poland
contact email	pawelsikorski@uw.edu.pl
lab head
Dominik Cysewski
contact affiliation	Medical University of Bialystok
contact email	dominikcysewski@gmail.com
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/2025/03/PXD043620

PRIDE project URI

• PRIDE
  1. PXD043620
     1. Label: PRIDE project
     2. Name: Deciphering how viral epitranscriptome shapes host immune response 1