<<< Full experiment listing

PXD031443-2

PXD031443 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleMultiple cis acting polypyrimidine tract elements regulate a cooperative mechanism for Triticum mosaic virus internal ribosomal entry site activity=]
DescriptionDiverse elements within the 5’ untranslated region of an mRNA can influence the translation efficiency at the main AUG codon. We previously identified a core picornaviral like Y16X11-AUG motif with 16-nt polypyrimidine CU-tract separated by an 11-nt spacer sequence from the 13th AUG codon recognized as the preferred initiation site within the Triticum mosaic virus (TriMV) internal ribosome entry site (IRES) element. The motif is proposed to function as an internal ribosomal landing site at the designated start codon. Here we exposed the cooperative role of multiple CU-rich segments flanking the TriMV YX-AUG motif to drive internal initiation of translation at the preferred start site. We propose that these auxiliary domains may enhance the ribosome capacity at proximity of the correct initiation site. These polypyrimidine tracts can be modulated with a cryptic AUG and in a position-dependent manner to replace the native YX-AUG motif and to reprogram translation to the upstream sites, and thus uncovering a new layer of control of the selection of the initiation site. In line with these observations, mass spec analysis of proteins directly interacting with translationally impaired TriMV IRES mutants that bear these motifs indicated an enrichment in 40S and 60S ribosomal related proteins, revealing a new function of polypyrimidine tracts to regulate IRES-driven translation. Accessibility of these RNA regions for in trans interaction was validated by SHAPE analysis of the entire TriMV leader sequence and supported by the ability of anti-sense oligonucleotides designed to block the CU-tracts accessibility to impair IRES activity. This is the first evidence that defines the core modular domains required for start codon selection in a complex, multi-AUG viral 5’UTR for translation in plants.
HostingRepositoryPRIDE
AnnounceDate2023-11-14
AnnouncementXMLSubmission_2023-11-14_08:55:52.996.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterHelena Jaramillo Mesa
SpeciesList scientific name: Triticum aestivum (Wheat); NCBI TaxID: 4565;
ModificationListNo PTMs are included in the dataset
InstrumentAgilent instrument model
Dataset History
RevisionDatetimeStatusChangeLog Entry
02022-02-04 15:28:52ID requested
12022-03-14 04:53:37announced
22023-11-14 08:55:53announced2023-11-14: Updated project metadata.
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: YX-AUG, AUG selection, ribosomal subunit,IRES, Triticum mosaic virus, translation initiation, polypyrimidine-tract
Contact List
Aurelie Rakotondrafara
contact affiliationUniversity of Wisconsin - Madison, Plant Pathology Department.
contact emailrakotondrafa@wisc.edu
lab head
Helena Jaramillo Mesa
contact affiliationUW - Madison
contact emailjaramillomes@wisc.edu
dataset submitter
Full Dataset Link List
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/2022/05/PXD031443
PRIDE project URI
Repository Record List
[ + ]