PXD024648-1

PXD024648 is an original dataset announced via ProteomeXchange.

Title	Nonlinear effects of environmental salinity on the gill transcriptome versus proteome of Oreochromis niloticus
Description	Here we report the generation of a data-independent acquisition (DIA) assay library that enables simultaneous targeted proteomics of 1900 O. niloticus gill proteins using a label- and gel-free workflow that is well suited for ecologically relevant field samples. By determining alignment and mismatch between protein and mRNA regulation, the DIA assay library approach generates data that are complimentary rather than redundant to transcriptomics data. Transcript and protein abundance differences in gills of tilapia acclimated to freshwater and brackish water (25 g/kg) revealed non-linearity in salinity-dependent transcriptome versus proteome regulation. Non-linearity was more evident for specific functional groups of genes while other molecular functions/ cellular processes where more highly correlated regarding mRNA and protein regulation. Our study identifies specific salinity-dependent O. niloticus gill functions and processes that rely heavily on mRNA abundance regulation and others that rely more heavily on regulatory mechanisms beyond the transcriptome level. The DIA assay library approach presented here is shown to be a powerful means of complementing transcriptome data with corresponding quantitative proteome data to better discern mechanisms of regulation along the genome to phenome continuum.
HostingRepository	PanoramaPublic
AnnounceDate	2021-05-01
AnnouncementXML	Submission_2021-05-01_07:53:38.754.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Dietmar Kültz
SpeciesList	scientific name: Oreochromis niloticus; NCBI TaxID: 8128;
ModificationList	CarbamidomethylDTT; Acetyl; Phospho; Carbamyl; Dioxidation; Oxidation; Carbamidomethyl
Instrument	impact II

Revision	Datetime	Status	ChangeLog Entry
0	2021-03-10 06:59:41	ID requested
⏵ 1	2021-05-01 07:53:39	announced
2	2021-10-23 21:20:03	announced	: Added PubMed ID

Dataset with its publication pending

submitter keyword: quantitative proteomics, DIA assay library, gill, mRNA:protein ratio, mass spectrometry, osmoregulation

Dietmar Kültz
contact affiliation	University of California, Davis
contact email	dkueltz@ucdavis.edu
lab head
Dietmar Kültz
contact affiliation	University of California, Davis
contact email	dkueltz@ucdavis.edu
dataset submitter

Panorama Public dataset URI