PXD020293

PXD020293 is an original dataset announced via ProteomeXchange.

Title	Translation and codon usage regulate Argonaute slicer activity to trigger small RNA biogenesis
Description	In the Caenorhabditis elegans germline, thousands of mRNAs are concomitantly expressed with antisense 22G-RNAs, which are loaded into the Argonaute CSR-1. Despite their essential functions for animal fertility and embryonic development, how CSR-1 22G-RNAs are produced remains unknown. Here, we show that CSR-1 slicer activity is primarily involved in triggering the synthesis of small RNAs on the coding sequences of germline mRNAs and post-transcriptionally regulates a fraction of targets. CSR-1-cleaved mRNAs prime the RNA-dependent RNA polymerase, EGO-1, to synthesize 22G-RNAs in phase with ribosome translation in the cytoplasm, in contrast to other 22G-RNAs mostly synthesized in germ granules. Moreover, codon optimality and efficient translation antagonize CSR-1 slicing and 22G-RNAs biogenesis. We propose that codon usage differences encoded into mRNA sequences might be a conserved strategy in eukaryotes to regulate small RNA biogenesis and Argonaute targeting
HostingRepository	PRIDE
AnnounceDate	2021-04-23
AnnouncementXML	Submission_2021-07-19_22:48:31.963.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Valentin SABATET
SpeciesList	scientific name: Caenorhabditis elegans; NCBI TaxID: 6239;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2020-07-09 18:19:31	ID requested
1	2021-04-23 01:20:36	announced
⏵ 2	2021-07-19 22:48:32	announced	2021-07-20: Updated publication reference for PubMed record(s): 34108460.

Singh M, Cornes E, Li B, Quarato P, Bourdon L, Dingli F, Loew D, Proccacia S, Cecere G, Translation and codon usage regulate Argonaute slicer activity to trigger small RNA biogenesis. Nat Commun, 12(1):3492(2021) [pubmed]

submitter keyword: CSR-1, C. elegans, small RNA, Argonaute

Damarys Loew
contact affiliation	Head of the Mass Spectrometry facility of the Institut Curie (LSMP)
contact email	damarys.loew@curie.fr
lab head
Valentin SABATET
contact affiliation	Curie Institute
contact email	valentin.sabatet@curie.fr
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/2021/04/PXD020293

PRIDE project URI

• PRIDE
  1. PXD020293
     1. Label: PRIDE project
     2. Name: Translation and codon usage regulate Argonaute slicer activity to trigger small RNA biogenesis