PXD000894

PXD000894 is an original dataset announced via ProteomeXchange.

Title	A global non-coding RNA system modulates fission yeast protein levels in response to stress
Description	Mitogen Activated Protein Kinase (MAPK) signaling cascades transduce information arising from events external to the cell, such as environmental stresses, to a variety of downstream effectors and transcription factors. The fission yeast stress activated MAP kinase (SAPK) pathway is conserved with the p38 and JNK pathways in humans, and comprises the MAPKKKs Win1, Wis4, the MAPKK Wis1, and the MAPK, Sty1. Sty1 and its main downstream effector Atf1 regulate a large set of core environmental stress response genes. The fission yeast genome encodes three other ATF proteins: Atf21, Atf31 and Pcr1. Among these, atf21 is specifically induced under conditions of high osmolarity. We have therefore instigated a programme to investigate the role played by non coding RNAs (ncRNAs) in response to osmotic stress challenge in wild type and atf21Δ cells. By integrating global proteomics and RNA sequencing data, we identified a systematic program in which elevated antisense RNAs arising both from ncRNAs and from 3'-overlapping convergent gene-pairs is directly associated with substantial reductions in protein levels throughout the fission yeast genome. We also found an extensive array of ncRNAs with trans associations that have the potential to influence different biological processes and stress responses in fission yeast, suggesting ncRNAs comprise additional components of the SAPK regulatory system.
HostingRepository	PRIDE
AnnounceDate	2014-07-24
AnnouncementXML	Submission_2014-07-24_05:16:05.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD000894
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Hui Sun Leong
SpeciesList	scientific name: Schizosaccharomyces pombe 927; NCBI TaxID: 1264690;
ModificationList	Oxidation; Deamidated
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2014-04-11 01:00:25	ID requested
1	2014-05-19 06:18:04	announced
2	2014-06-03 07:32:28	announced	Updated publication reference for PubMed record(s): 24853205.
⏵ 3	2014-07-24 05:16:06	announced	Updated project metadata.

Leong HS, Dawson K, Wirth C, Li Y, Connolly Y, Smith DL, Wilkinson CR, Miller CJ, A global non-coding RNA system modulates fission yeast protein levels in response to stress. Nat Commun, 5():3947(2014) [pubmed]

curator keyword: Biological

submitter keyword: non-coding RNAs, fission yeast, osmotic stress, label-free quantitative proteomics

Crispin J Miller
contact affiliation	RNA Biology Group, Cancer Research UK Manchester Institute, The University of Manchester, Wilmslow Road, Manchester M20 4BX, United Kingdom.
contact email	crispin.miller@cruk.manchester.ac.uk
lab head
Hui Sun Leong
contact affiliation	Cancer Research UK Manchester Institute, The University of Manchester
contact email	HuiSun.Leong@cruk.manchester.ac.uk
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/2014/05/PXD000894

PRIDE project URI

• PRIDE
  1. PXD000894
     1. Label: PRIDE project
     2. Name: A global non-coding RNA system modulates fission yeast protein levels in response to stress