PXD040462

PXD040462 is an original dataset announced via ProteomeXchange.

Title	Metabolic pathways operating in deteriorating versus germination-competent cyanide-primed walnut kernels
Description	Incubation of physiologically dormant walnut kernels at warm and moist conditions leads to reduced germination and lower viability associated with triacylglycerol depletion, lipase activation and fatty acid accumulation. Cyanide however, releases kernel dormancy and improves germination accompanied with enhanced gluconeogenesis. The hypothesis that the viability loss in aging kernels is mainly due to lipid catabolism-induced oxidative stress and higher respiration was tested in a proteomic study. We used kernels with 15% moisture content aged by controlled deterioration, physiologically dormant non-aged and cyanide-treated germination primed; having low, medium and high germination potentials, respectively. We revealed 155 differentially abundant proteins out of 930 identified ones compared to dry (6% moisture content) kernels. Proteins accumulated in deteriorated kernels mainly belonged to protein folding, translation and degradation, defense, stress response and detoxification, glycolysis and fermentation but less abundant ones were related to gluconeogenesis and amino acid metabolism. Contrastingly, accumulated proteins belonged to gluconeogenesis and oxidative pentose phosphate pathway in germination-primed kernels. Deteriorated kernels also showed increased levels of H2O2, lipid peroxidation, free fatty acids, protein carbonylation, and amino acids, particularly proline but, a lower amount of sucrose and enhanced lipase, catalase, peroxidase and glutamate dehydrogenase activities. Of note, we revealed accumulation of various chaperons and proteins related to detoxification in deteriorated kernels, unlike reports on other aging seeds. Suppressed amino acid metabolism and gluconeogenesis enhanced respiration and oxidative stress in deteriorated kernels, while optimized carbon/energy metabolism promoted germination of primed kernels.
HostingRepository	PRIDE
AnnounceDate	2024-02-23
AnnouncementXML	Submission_2024-02-23_06:39:45.752.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD040462
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Maksym Danchenko
SpeciesList	scientific name: Juglans regia (English walnut); NCBI TaxID: 51240;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2023-02-27 06:17:38	ID requested
⏵ 1	2024-02-23 06:39:46	announced

10.6019/PXD040462;

10.1016/J.SCIENTA.2024.113020;

submitter keyword: gluconeogenesis, seed aging, Juglans regia, germination stimulation, oxidative stress, membrane lipids,proteome

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. PXD040462
     1. Label: PRIDE project
     2. Name: Metabolic pathways operating in deteriorating versus germination-competent cyanide-primed walnut kernels