PXD023782

PXD023782 is an original dataset announced via ProteomeXchange.

Title	Proteomics data analysis for the identification of proteins and derived proteotypic peptides to be used as drought tolerance markers in Quercus ilex
Description	Drought is considered one of the main causes of mortality of holm oak (Quercus ilex) upon seedling plantations in reforestation programs. Although Q. ilex shows high adaptability to extreme climate conditions prevailing in Southern Spain, the genetic variability inherent to this species could be associated with a differential response depending on populations or individuals. The objective of this work was to identify proteins and derived proteotypic peptides to be used as markers of tolerance to drought in holm oak using a targeted post-acquisition proteomics approach. The study was based on a set of proteins identified by shotgun (LC-MSMS) from a drought experiment carried out in Q. ilex seedlings from four Andalusian provenances (Granada, Huelva, Cadiz and Seville). A double strategy, shotgun protein quantification and target peptides quantification post-acquisition data analysis based on proteotypic peptides, was used. For this purpose, an initial list of target peptides consisting in proteotypic peptides derived of proteins highly represented in drought conditions was compiled. Then, the proteotypic peptides list and the raw files from the shotgun experiment were imported into the Skyline software to quantify the relative abundance of the fragments ion peaks. Those peptides significantly more abundant in drought conditions at least in two populations were selected as putative markers of tolerance to drought. These corresponded to proteins belonged to redox, stress related proteins, synthesis, folding and degradation, and primary and secondary metabolism functional groups. Two proteins were found to be increased in three populations, making them especially interesting for validation in subsequent experiments as markers of drought tolerance.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:36:00.658.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Maria Angeles Castillejo
SpeciesList	scientific name: Quercus ilex (Holly oak); NCBI TaxID: 58334;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2021-01-25 01:31:05	ID requested
1	2023-03-10 19:38:41	announced
⏵ 2	2023-11-14 08:36:01	announced	2023-11-14: Updated project metadata.

San-Eufrasio B, Bigatton ED, Guerrero-S, á, nchez VM, Chaturvedi P, Jorr, í, n-Novo JV, Rey MD, Castillejo M Á, . Int J Mol Sci, 22(6):(2021) [pubmed]

submitter keyword: targeted post-acquisition proteomics,peptides markers, Quercus ilex, drought tolerance

Jesús V. Jorrín Novo
contact affiliation	Department of Biochemistry and Molecular Biology, University of Córdoba, Spain
contact email	bf1jonoj@uco.es
lab head
Maria Angeles Castillejo
contact affiliation	University of Cordoba
contact email	bb2casam@uco.es
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD023782
     1. Label: PRIDE project
     2. Name: Proteomics data analysis for the identification of proteins and derived proteotypic peptides to be used as drought tolerance markers in Quercus ilex