PXD046788

PXD046788 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Unraveling epigenetic changes in A. thaliana calli: Impact of HDAC inhibitors
Description	The aim was to characterize epigenetic changes in histone proteins during callus formation from roots and shoots of Arabidopsis thaliana seedlings using mass spectrometry-based approach. Increased level of histone H3.3 variant was found to be the most prominent feature of 20-day-old calli, associated with chromatin relaxation. Methylation status in root- and shoot-derived calli reached the same level during long-term propagation, whereas differences in acetylation levels provided a long-lasting imprint of root and shoot origin. On the other hand, epigenetic signs of origin completely disappeared during 20 days of calli propagation in the presence of histone deacetylase inhibitors (HDACi), sodium butyrate and trichostatin A, although each HDACi affected the state of post-translational histone modifications in a specific manner.
HostingRepository	PRIDE
AnnounceDate	2024-10-07
AnnouncementXML	Submission_2024-10-07_13:51:18.823.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Gabriela Lochmanova
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	phosphorylated residue; N6-methyl-L-lysine; acetylated residue; N6,N6,N6-trimethyl-L-lysine; N6,N6-dimethyl-L-lysine
Instrument	Orbitrap Fusion Lumos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2023-11-08 09:11:36	ID requested
⏵ 1	2024-10-07 13:51:23	announced

Publication List

10.3390/plants12244177;
P, í, rek P, Kry, š, tofov, á K, Kov, á, č, ov, á I, Kromerov, á A, Zachov, á D, Helia O, Panzarov, á K, Fajkus J, Zdr, á, hal Z, Lochmanov, á G, Fojtov, á M, Calli: Impact of HDAC Inhibitors. Plants (Basel), 12(24):(2023) [pubmed]

10.3390/plants12244177;

P, í, rek P, Kry, š, tofov, á K, Kov, á, č, ov, á I, Kromerov, á A, Zachov, á D, Helia O, Panzarov, á K, Fajkus J, Zdr, á, hal Z, Lochmanov, á G, Fojtov, á M, Calli: Impact of HDAC Inhibitors. Plants (Basel), 12(24):(2023) [pubmed]

Keyword List

submitter keyword: Arabidopsis thaliana
callus formation
epigenetics
histone posttranslational modifications
mass spectrometry
trichostatin A
sodium butyrate

submitter keyword: Arabidopsis thaliana

callus formation

epigenetics

histone posttranslational modifications

mass spectrometry

trichostatin A

sodium butyrate

Contact List

Zbynek Zdrahal
contact affiliation	CEITEC Masaryk University
contact email	Zdrahal@sci.muni.cz
lab head
Gabriela Lochmanova
contact affiliation	CEITEC-MU, Masaryk University, Brno
contact email	g.lochmanova@seznam.cz
dataset submitter

Full Dataset Link List

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/PXD046788
PRIDE project URI

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/PXD046788

PRIDE project URI

Repository Record List

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