PXD009537

PXD009537 is an original dataset announced via ProteomeXchange.

Title	Salmon fast growing muscle LC-MSMS
Description	Fast growth is vital to the commercial production of fish and has been achieved gradually, through generations of selective breeding, and instantaneously, through growth hormone (GH) transgenesis (GHT). The proteomic basis for these differing routes towards a largely common higher phenotype is poorly characterized, as are associated implications for fish health parameters. We addressed this knowledge gap in coho salmon (Oncorhynchus kisutch) testing two hypotheses: i) that selective breeding and GHT are underpinned by both parallel and non-parallel changes in growth pathways compared to wild-type, and ii) that rapidly growing fish have less scope to allocate energetic resources into immune function. Skeletal muscle was studied, owing to its central role in growth and energetic storage. We compared the proteomes of GHT and growth-selected domesticated strains with wild-type animals following injections with PBS (control) and Poly I:C (to mimic viral infection). Hybrid quadrupole-Orbitrap mass-spectrometry using a label-free analysis revealed large changes in the proteome of GHT and growth-selected strains that were strikingly non-overlapping, with surprisingly few parallel changes. GHT was characterized by a focal upregulation of translation systems, while growth-selected fish presented a larger and more diverse set of changes, consistent with genetic alterations influencing an array of metabolic and cellular pathways. Contrasting past studies examining mRNA levels, many proteomic changes distinguished the growth-selected strain from both GHT and wild fish. Contrasting our second hypothesis, Poly I:C had little detectable effect on the muscle proteome. This investigation reveals that highly distinct proteome profiles can explain outwardly similar growth phenotypes, improving our understanding of how fast growth is achieved in animal strains created by humans.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:44:26.778.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Dwight Causey
SpeciesList	scientific name: Oncorhynchus kisutch; NCBI TaxID: 8019;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-04-19 01:25:30	ID requested
1	2018-09-24 04:32:12	announced
⏵ 2	2024-10-22 04:44:27	announced	2024-10-22: Updated project metadata.

10.1016/j.jprot.2018.08.013;

Causey DR, Kim JH, Stead DA, Martin SAM, Devlin RH, Macqueen DJ, Proteomic comparison of selective breeding and growth hormone transgenesis in fish: Unique pathways to enhanced growth. J Proteomics, 192():114-124(2019) [pubmed]

curator keyword: Biological

submitter keyword: LC-MSMS,Salmon, teleost, fast growth, muscle

Daniel J. Macqueen
contact affiliation	School of Biological Sciences University of Aberdeen United Kingdom
contact email	daniel.macqueen@abdn.ac.uk
lab head
Dwight Causey
contact affiliation	University of Aberdeen
contact email	d.causey@abdn.ac.uk
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/2018/09/PXD009537

PRIDE project URI

• PRIDE
  1. PXD009537
     1. Label: PRIDE project
     2. Name: Salmon fast growing muscle LC-MSMS