PXD045653

PXD045653 is an original dataset announced via ProteomeXchange.

Title	Revealing the transitory and local effect of the demethylation agent zebularine on plant development and proteome dynamics of Salix purpurea
Description	DNA methylation plays major roles in the epigenetic regulation of gene expression, transposon and transcriptional silencing, and DNA repair, with implications in developmental processes and phenotypic plasticity. Relevantly for arboreal species, DNA methylation constitute a regulative layer in cell wall dynamics associated with xylogenesis. The use of methyltransferase and/or demethylase inhibitors has been proven informative to shed light on the methylome dynamics behind the regulation of these processes. The present work employs the cytidine analog zebularine to inhibit DNA methyltransferases and induce DNA hypomethylation in Salix purpurea plantlets grown in vitro and in soil. An integrative approach has been adopted to highlight the effects of hypomethylation on proteomic dynamics, exposing the age-specific (three weeks of in vitro culture and one month of growth in soil) and tissue-specific (shoot and root) effects following exposure to zebularine. Significant proteomic shifts were revealed in the development from in vitro to in-soil culture and, whereas zebularine treatment decreased methylation in three-weeks roots, a functionally heterogeneous subset of protein entries was differentially accumulated in shoot samples, including entries associated with cell wall dynamics, tissue morphogenesis, and hormonal regulation. The identification of tissue-specific proteomic hallmarks in combination with hypomethylating agents provides new insights into the role of DNA methylation in early plant development in willow species.
HostingRepository	PRIDE
AnnounceDate	2024-01-08
AnnouncementXML	Submission_2024-01-08_04:56:13.046.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Evy Timmerman
SpeciesList	scientific name: Sarracenia purpurea subsp. purpurea; NCBI TaxID: 334147;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-09-25 06:34:43	ID requested
⏵ 1	2024-01-08 04:56:13	announced

Dataset with its publication pending

submitter keyword: proteomics, cell wall, cytidine analogue, DNA methylation,Purple willow

Jorge Almiro Pinto Paiva1
contact affiliation	1. Department of Integrative Plant Biology, Institute of Plant Genetics, Polish Academy of Sciences, Poznań, Poland. 2. Associação CECOLAB, Rua Nossa Sra. da Conceição2, 3405-155 Oliveira do Hospital, Portugal
contact email	research@cecolab.pt
lab head
Evy Timmerman
contact affiliation	Ghent University - VIB
contact email	evy.timmerman@vib-ugent.be
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/2024/01/PXD045653

PRIDE project URI

• PRIDE
  1. PXD045653
     1. Label: PRIDE project
     2. Name: Revealing the transitory and local effect of the demethylation agent zebularine on plant development and proteome dynamics of Salix purpurea