PXD021855

PXD021855 is an original dataset announced via ProteomeXchange.

Title	S. cerevisiae Nab2-PrA interactomes in exosome, transport and ribosome biogenesis mutant backgrounds
Description	RNA-binding proteins (RBPs) are key mediators of RNAbiogenesis and metabolism. An RBP can be dedicated to a specific transcript class (e.g. mRNAs) or function broadly across both coding and non-coding RNAs. Consequently, nuclear RNA homeostasis requires maintenance of bothRBP binding specificity and the proper distribution of RBP activity across multiple transcript classes. In S. cerevisiae, mutation of an RBP that functions in ribosome biogenesis, Enp1, was previously found to have terminal phenotypes similar to exosome or TRAMP mutants that extended beyond ribosomal RNA processing defects. Here, we show through proteomicand RNomic analyses that enp1-1 cells have stabilized polyadenylated pre-rRNAs that bind and sequester RBPs in the nucleolus, including the poly(A)-binding protein (PABP) Nab2. Changes in nucleolar polyadenylated RNA levels and PABP availability are further accompanied by transcriptome-wide changes in RNA biogenesis in enp1-1 cells, including increased levels of pervasive transcripts and snoRNA processing defects. The observed changes in RNA processing can be mitigated if enp1-1 cells are provided excess PABP activity through overexpression of Nab2 or Pab1. Together, these findings indicate that generation of excess nucleolar poly(A)-RNA is toxic to the cell, disrupting nuclear RNA processing homeostasis through sequestering RBPs, including the PABP Nab2.
HostingRepository	PRIDE
AnnounceDate	2020-10-12
AnnouncementXML	Submission_2020-11-09_04:41:17.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD021855
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Marlene Oeffinger
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	monohydroxylated residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2020-10-05 22:57:56	ID requested
1	2020-10-07 23:01:56	announced
2	2020-10-12 06:42:17	announced	2020-10-12: Updated project metadata.
⏵ 3	2020-11-09 04:41:18	announced	2020-10-12: Updated project metadata. 2020-11-09: Updated publication reference for PubMed record(s): 33137177.

Aguilar LC, Paul B, Reiter T, Gendron L, Arul Nambi Rajan A, Montpetit R, Trahan C, Pechmann S, Oeffinger M, Montpetit B, Altered rRNA processing disrupts nuclear RNA homeostasis via competition for the poly(A)-binding protein Nab2. Nucleic Acids Res, 48(20):11675-11694(2020) [pubmed]

submitter keyword: RNA processing, polyadenylation, exosome, ribosome biogenesis, RNA homeostasis

Marlene Heloise Oeffinger
contact affiliation	-Associate Research Professor, Institut de recherches cliniques de Montréal (IRCM), RNP Biochemistry laboratory -Professeure agrégée, Département de biochimie et médecine moléculaire, Université de Montréal -Associate Professor, Division of Experimental Medicine, McGill University
contact email	marlene.oeffinger@ircm.qc.ca
lab head
Marlene Oeffinger
contact affiliation	Institut de recherches cliniques Montreal (IRCM) Universite de Montreal
contact email	marlene.oeffinger@ircm.qc.ca
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD021855
     1. Label: PRIDE project
     2. Name: S. cerevisiae Nab2-PrA interactomes in exosome, transport and ribosome biogenesis mutant backgrounds