PXD045266

PXD045266 is an original dataset announced via ProteomeXchange.

Title	Paramecium Gtsf1 is an essential nuclear PIWI-interacting protein controlling the selective degradation of small RNAs during programmed DNA elimination
Description	Ciliates undergo developmentally programmed genome elimination, in which small RNAs direct the removal of target DNA segments, including transposable elements. At each sexual generation, the development of the macronucleus (MAC) requires massive and reproducible elimination of a large proportion of the germline micronuclear (MIC) genome, leading to a highly streamlined somatic MAC genome. 25-nt long scnRNAs are produced from the entire germline MIC genome during meiosis, and this initial complex small RNA population is then transported to the maternal MAC, where selection of scnRNAs corresponding to germline (MIC)-specific sequences is thought to take place. Selected scnRNAs, loaded onto the PIWI protein Ptiwi09, guide the deposition of histone H3 post-translational modifications (H3K9me3 and H3K27me3) onto transposable elements in the developing macronucleus, ultimately triggering their specific elimination. How germline-specific MIC scnRNAs are selected remains to be determined. Here, we provide important mechanistic insights into the scnRNA selection pathway by identifying a Paramecium homolog of Gametocyte specific factor 1 (Gtsf1) as essential for the selective degradation of scnRNAs corresponding to retained somatic MAC sequences. Consistently, we also show that Gstf1 is exclusively localized in the maternal macronucleus, where scnRNA selection is presumed to occur, and associates with the scnRNA-binding protein Ptiwi09. Furthermore, Gtsf1 is necessary for DNA elimination and correct H3K9me3 and H3K27me3 localization in the new developing macronucleus, demonstrating that the scnRNA selection process is important for genome elimination. We propose that Gtsf1 is required for the coordinated degradation of Ptiwi09-scnRNA complexes that pair with nascent RNA transcribed from the maternal MAC genome, similarly to the mechanism suggested for microRNA target-directed degradation in metazoans.
HostingRepository	PRIDE
AnnounceDate	2024-10-17
AnnouncementXML	Submission_2024-10-17_05:48:34.512.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD045266
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Agata Malinowska
SpeciesList	scientific name: Paramecium triaurelia; NCBI TaxID: 44031;
ModificationList	methylthiolated residue; monohydroxylated residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2023-09-11 07:00:27	ID requested
⏵ 1	2024-10-17 05:48:34	announced

10.6019/PXD045266;

submitter keyword: Piwi, sRNA,GTSF1, Paramecium

Jacek Nowak
contact affiliation	Laboratory of Non-coding RNA and Genome Rearrangements, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland
contact email	jknowak@ibb.waw.pl
lab head
Agata Malinowska
contact affiliation	IBB PAS
contact email	esme@ibb.waw.pl
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD045266
     1. Label: PRIDE project
     2. Name: Paramecium Gtsf1 is an essential nuclear PIWI-interacting protein controlling the selective degradation of small RNAs during programmed DNA elimination