PXD001453

PXD001453 is an original dataset announced via ProteomeXchange.

Title	Spatial variation in transcript and protein abundance of Atlantic salmon during feeding migration in the Baltic Sea
Description	The fitness and reproductive output of fishes can be affected by environmental disturbances. In this study, transcriptomics and label-free proteomics were combined to investigate Atlantic salmon (Salmo salar) sampled from three different field locations within the Baltic Sea (Baltic Main Basin (BMB), Gulf of Finland (GoF) and Bothnian Sea (BS)) during marine migration. The expression of several stress related mRNAs and proteins of xenobiotic metabolism, oxidative stress, DNA damage and cell death were increased in salmon from GoF compared to salmon from BMB or BS. Respiratory electron chain and ATP synthesis related gene ontology-categories were upregulated in GoF salmon whereas those associated with RNA processing and synthesis, translation and protein folding decreased. Differences were seen also in metabolism and immune function related gene expression. Comparisons of the transcriptomic and proteomic profiles between salmon from GoF and salmon from BMB or BS suggest environmental stressors, especially exposure to environmental contaminants, as a main explanation for differences. Salmon feeding in GoF are thus “disturbed by hazardous substances”. The results may also be applied in evaluating the conditions of pelagic ecosystems in the different parts of Baltic Sea.
HostingRepository	PRIDE
AnnounceDate	2017-10-24
AnnouncementXML	Submission_2017-10-24_00:14:39.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Mirella Kanerva
SpeciesList	scientific name: Salmo salar (Atlantic salmon); NCBI TaxID: 8030;
ModificationList	iodoacetamide derivatized residue
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2014-10-31 04:56:49	ID requested
1	2015-01-26 02:53:42	announced
2	2017-06-20 05:43:02	announced	Updated project metadata.
⏵ 3	2017-10-24 00:14:40	announced	Updated project metadata.

Kanerva M, Vehmas A, Nikinmaa M, Vuori KA, Spatial variation in transcript and protein abundance of Atlantic salmon during feeding migration in the Baltic Sea. Environ Sci Technol, 48(23):13969-77(2014) [pubmed]

curator keyword: Biological

submitter keyword: Atlantic salmon, Baltic Sea, environmental stress, proteomics, label-free quantitative proteomics

Kristiina A. Vuori
contact affiliation	Laboratory of Animal Physiology, Department of Biology, FI-20014 University of Turku, Finland
contact email	kranvu@utu.fi
lab head
Mirella Kanerva
contact affiliation	University of Turku
contact email	mmkane@utu.fi
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/2015/01/PXD001453

PRIDE project URI

• PRIDE
  1. PXD001453
     1. Label: PRIDE project
     2. Name: Spatial variation in transcript and protein abundance of Atlantic salmon during feeding migration in the Baltic Sea