PXD040247

PXD040247 is an original dataset announced via ProteomeXchange.

Title	Secretome analysis revealed amylases and peroxidases as markers of the early stages of somatic embryogenesis in Pinus nigra
Description	Micropropagation of valuable conifer trees via somatic embryogenesis is efficient for rapid multiplication and preservation of germplasm. Suspension cell cultures are valuable tools to study extracellular proteins secreted into liquid cultivation medium, avoiding contamination from destructured cells. Extracellular proteins are essential regulators of somatic embryogenesis. Using a proteomic approach, we performed a pioneering study of the secretome of Pinus nigra cell lines with contrasting embryogenic capacity, accounting for variability between genotypes. Besides proteins affecting cell wall strength, such as four peroxidases and extensin, amylase and two basic secretory proteins accumulated in the medium from cell lines with high embryogenic capacity. In the medium of cell lines with low embryogenic capacity nuclease S1 and proteases were more abundant. These proteins are potentially involved in programmed cell death and nutrient recycling. Furthermore, two polygalacturonases and expansin correlated with microscopic observations. Validating proteomic findings, we tested the peroxidase and amylase activity in the medium of several cell lines. We concluded that both tested enzyme activities may be considered potential markers of high embryogenic capacity.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_06:46:27.096.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Maksym Danchenko
SpeciesList	scientific name: Pinus nigra; NCBI TaxID: 58042;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2023-02-18 01:55:16	ID requested
1	2023-07-28 01:59:29	announced
⏵ 2	2023-11-14 06:46:27	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: peroxidases, polygalacturonases, cell wall, black pine,extracellular proteome, amylases

Peter Baráth
contact affiliation	Department of Glycobiology, Institute of Chemistry, Slovak Academy of Sciences
contact email	peter.barath@savba.sk
lab head
Maksym Danchenko
contact affiliation	Plant Science and Biodiversity Center SAS
contact email	maxymdan@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD040247
     1. Label: PRIDE project
     2. Name: Secretome analysis revealed amylases and peroxidases as markers of the early stages of somatic embryogenesis in Pinus nigra