PXD004115

PXD004115 is an original dataset announced via ProteomeXchange.

Title	In-depth proteomic mapping of skin mucus of gilthead sea bream (Sparus aurata). Surrogate markers of chronic stress in fish farming
Description	The skin mucus of gilthead sea bream was mapped by 1-DE followed by liquid chromatography coupled to high resolution mass spectrometry using a quadrupole time-of-flight mass analyzer. More than 2000 proteins were identified with a protein score filter of 30. The identified proteins were represented in 418 canonical pathways of the Ingenuity Pathway software. After filtering by canonical pathway overlapping, the retained proteins were clustered in three groups. The mitochondrial cluster contained 59 proteins related to oxidative phosphorylation and mitochondrial dysfunction. The second cluster contained 79 proteins related to antigen presentation and protein ubiquitination pathways. The third cluster contained 257 proteins where proteins related to protein synthesis, cellular assembly, and epithelial integrity were over-represented. The latter group also included acute phase response signaling. In parallel, 2-DE methodology identified six proteins spots of different protein abundance when comparing unstressed fish with chronically stressed fish in an experimental model that mimicked daily farming activities. The major changes were associated with a higher abundance of cytokeratin 8 in the skin mucus proteome of stressed fish, which was confirmed by immunoblotting. Overall, these results indicate that skin mucus is a reliable tissue for alternative or complementary stress phenotyping in fish farming.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:29:19.057.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Luz Valero
SpeciesList	scientific name: Danio rerio (Zebrafish) (Brachydanio rerio); NCBI TaxID: 7955;
ModificationList	No PTMs are included in the dataset
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2016-05-09 01:57:36	ID requested
1	2018-10-26 06:27:19	announced
⏵ 2	2024-10-22 04:29:19	announced	2024-10-22: Updated project metadata.

P, é, rez-S, á, nchez J, Terova G, Sim, ó, -Mirabet P, Rimoldi S, Folkedal O, Calduch-Giner JA, Olsen RE, Sitj, à, -Bobadilla A, L.). Protein Mapping and Regulation in Chronically Stressed Fish. Front Physiol, 8():34(2017) [pubmed]

10.3389/fphys.2017.00034;

curator keyword: Biological

submitter keyword: chronic stress, cytokeratins, proteome, gilthead sea bream, skin mucus

Jaume Pérez-Sánchez
contact affiliation	Nutrigenomics and Fish Growth Endocrinology Group, Institute of Aquaculture Torre de la Sal, IATS-CSIC, Spain
contact email	j.calduch@csic.es
lab head
Luz Valero
contact affiliation	Universitat de Valencia
contact email	mluz.valero@uv.es
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/2018/10/PXD004115

PRIDE project URI

• PRIDE
  1. PXD004115
     1. Label: PRIDE project
     2. Name: In-depth proteomic mapping of skin mucus of gilthead sea bream (Sparus aurata). Surrogate markers of chronic stress in fish farming