PXD006848

PXD006848 is an original dataset announced via ProteomeXchange.

Title	Photoperiodic control of the Arabidopsis proteome
Description	Plants respond to seasonal cues such as the photoperiod, to adapt to current conditions and to prepare for environmental changes in the season to come. To assess photoperiodic responses at the protein level, we quantified the proteome of the model plant Arabidopsis thaliana by mass spectrometry across four photoperiods. This revealed coordinated changes of abundance in the proteins of photosynthesis, primary metabolism and secondary metabolic processes such as pigment biosynthesis, consistent with higher metabolic activity in long photoperiods. Higher translation rates during the day than during the night likely contribute to these changes, but rhythmic RNA profiles will alter their effects. Photoperiodic control of protein levels might be greatest if high translation rates only coincide with high transcript levels in some photoperiods. We term this mechanism ‘translational coincidence’, mathematically model its components, and demonstrate its effect on the Arabidopsis proteome. Datasets from a green alga and a cyanobacterium suggest that this mechanism is general, contributing to the seasonal control of the proteome in many phototrophic organisms, and favouring RNA rhythms even for stable proteins.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:38:59.628.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD006848
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Alexander Graf
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	Oxidation; Carbamidomethyl
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2017-06-30 05:14:37	ID requested
1	2018-02-27 06:39:34	announced
2	2019-02-12 08:31:46	announced	Updated publication reference for PubMed record(s): 29496885.
⏵ 3	2024-10-22 04:39:07	announced	2024-10-22: Updated project metadata.

Seaton DD, Graf A, Baerenfaller K, Stitt M, Millar AJ, Gruissem W, proteome reveals a translational coincidence mechanism. Mol Syst Biol, 14(3):e7962(2018) [pubmed]

10.15252/msb.20177962;

10.6019/PXD006848;

curator keyword: Biological

submitter keyword: Arabidopsis thaliana, shotgun proteomics, end of day, size fractionation, photoperiod, SDS PAGE

Alexander Graf
contact affiliation	Plant Proteomics Group, Max Planck Institute of Molecular Plant Physiology, Am Muehlenberg 1, 14476 Potsdam-Golm, Germany
contact email	graf@mpimp-golm.mpg.de
lab head
Alexander Graf
contact affiliation	Max Planck Institute of Molekular Plant Physiology
contact email	graf@mpimp-golm.mpg.de
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/2018/02/PXD006848

PRIDE project URI

• PRIDE
  1. PXD006848
     1. Label: PRIDE project
     2. Name: Photoperiodic control of the Arabidopsis proteome