PXD003037

PXD003037 is an original dataset announced via ProteomeXchange.

Title	Systemic remodeling of translation efficiencies on oxygen stimulus.
Description	Protein concentrations evolve under greater evolutionary constraint than mRNA levels. In addition, translation efficiency of mRNA populations represents the chief determinant of basal protein concentrations. This raises a fundamental question as to how mRNA and protein levels are actively coordinated in dynamic systems responding to acute physiological stimuli. This report examines the contributions of mRNA abundance and translation efficiency to protein output in cells responding to oxygen stimulus. We show that alternative translation efficiencies, not mRNA levels, represent the major adaptive mechanism that governs the cellular response to perturbations in [O2]. This phenomenon is coordinated by eIF4F under atmospheric [O2] and the previously uncharacterized hypoxic eIF4F (eIF4FH) under low [O2]. The oxygen-regulated remodeling of translation efficiency enables oxygenated and hypoxic cells to produce surprisingly divergent translatomes of similar complexity, with minimal dependence on mRNA levels. Changes in mRNA concentrations observed between normoxic and hypoxic cells are likely neutral, as they are during evolution. We propose that mRNAs contain hard-wired translation efficiency determinants for their triage by the translation apparatus on [O2] stimulus.
HostingRepository	PRIDE
AnnounceDate	2016-02-05
AnnouncementXML	Submission_2016-02-11_03:18:05.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD003037
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Jonathan Krieger
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	Oxidation; Label:13C(6)15N(4); Dehydrated; Ammonia-loss; Acetyl; Label:13C(6)15N(2); Deamidated
Instrument	LTQ Orbitrap; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2015-10-12 02:22:42	ID requested
1	2016-02-05 08:34:56	announced
⏵ 2	2016-02-11 03:18:06	announced	Updated publication reference for PubMed record(s): 26854219.

Ho JJD, Wang M, Audas TE, Kwon D, Carlsson SK, Timpano S, Evagelou SL, Brothers S, Gonzalgo ML, Krieger JR, Chen S, Uniacke J, Lee S, Systemic Reprogramming of Translation Efficiencies on Oxygen Stimulus. Cell Rep, 14(6):1293-1300(2016) [pubmed]

curator keyword: Biological

submitter keyword: Hypoxia, cancer, translation, RNA sequencing, SILAC, eIF4E, eIF4E2

Stephen Lee
contact affiliation	Professor Director, Executive Ph.D. Program Department of Biochemistry & Molecular Biology Sylvester Comprehensive Cancer Center Miller School of Medicine University of Miami R. Bunn Gauthier Building, Rm 216 Miami, FL, 33101-6129
contact email	stephenlee@med.miami.edu
lab head
Jonathan Krieger
contact affiliation	SickKids/University of Toronto
contact email	Jonathan.krieger@sickkids.ca
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/2016/02/PXD003037

PRIDE project URI

• PRIDE
  1. PXD003037
     1. Label: PRIDE project
     2. Name: Systemic remodeling of translation efficiencies on oxygen stimulus.