PXD012897-1

PXD012897 is an original dataset announced via ProteomeXchange.

Title	Large-scale Proteomic and Phosphoproteomic Analysis of Maize Seedling Leaves During De-etiolation
Description	De-etiolation consists of a series of developmental and physiological changes that a plant undergoes in response to light. During this process light, an important environmental signal, triggers the inhibition of mesocotyl elongation and the production of photosynthetically active chloroplasts, and etiolated leaves transition from the “sink” stage to the “source” stage. De-etiolation has been extensively studied in maize (Zea mays L). However, little is known about how this transition is regulated. In this study, we describe a quantitative proteomic and phosphoproteomic atlas of the de-etiolation process in maize. We identified 16,420 proteins and quantified 14,168. In addition, 8,746 phosphorylation sites within 3,110 proteins were identified. From the proteomic and phosphoproteomic data combined, we identified a total of 17,436 proteins, 27.6% of which are annotated protein coding genes in the Zea_mays AGPv3.28 database. Only 6% of proteins significantly changed in abundance during de-etiolation. In contrast, the phosphorylation levels of more than 25% of phosphoproteins significantly changed; these included proteins involved in gene expression and homeostatic pathways and rate-limiting enzymes involved in photosynthesis light and carbon reactions. Based on phosphoproteomic analysis, 34% (1,057) of all phosphoproteins identified in this study contained more than three phosphorylation sites, and 37 proteins contained more than 16 phosphorylation sites, which shows that multi-phosphorylation is ubiquitous during the de-etiolation process. Our results suggest that plants might preferentially regulate the level of PTMs rather than protein abundance for adapting to changing environments. The study of PTMs could thus better reveal the regulation of de-etiolation.
HostingRepository	PRIDE
AnnounceDate	2020-04-09
AnnouncementXML	Submission_2020-04-09_01:40:53.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tiancong Lu
SpeciesList	scientific name: Zea mays (Maize); NCBI TaxID: 4577;
ModificationList	iTRAQ4plex-116 reporter+balance reagent acylated residue; phosphorylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-02-27 07:41:05	ID requested
⏵ 1	2020-04-09 01:51:30	announced
2	2024-10-22 05:01:59	announced	2024-10-22: Updated project metadata.

Wang YF, Chao Q, Li Z, Lu TC, Zheng HY, Zhao CF, Shen Z, Li XH, Wang BC, Large-scale Identification and Time-course Quantification of Ubiquitylation Events During Maize Seedling De-etiolation. Genomics Proteomics Bioinformatics, 17(6):603-622(2019) [pubmed]

submitter keyword: Maize seedling leaves

De-etiolation

Proteome

Phosphoproteome

Baichen Wang
contact affiliation	Institute of Botany, CAS Add: No.20 Nanxincun, Xiangshan, Beijing 100093, China
contact email	wangbc@ibcas.ac.cn
lab head
Tiancong Lu
contact affiliation	ProteinWorld
contact email	Proteomelandscape@163.com
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/2020/04/PXD012897

PRIDE project URI

• PRIDE
  1. PXD012897
     1. Label: PRIDE project
     2. Name: Large-scale Proteomic and Phosphoproteomic Analysis of Maize Seedling Leaves During De-etiolation