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PXD024648 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleNonlinear effects of environmental salinity on the gill transcriptome versus proteome of Oreochromis niloticus
DescriptionHere 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.
ReviewLevelNon peer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterDietmar Kültz
SpeciesList scientific name: Oreochromis niloticus; NCBI TaxID: 8128;
ModificationListCarbamidomethylDTT; Acetyl; Phospho; Carbamyl; Dioxidation; Oxidation; Carbamidomethyl
Instrumentimpact II
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-03-10 06:59:41ID requested
12021-05-01 07:53:39announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: quantitative proteomics, DIA assay library, gill, mRNA:protein ratio, mass spectrometry, osmoregulation
Contact List
Dietmar Kültz
contact affiliationUniversity of California, Davis
contact emaildkueltz@ucdavis.edu
lab head
Dietmar Kültz
contact affiliationUniversity of California, Davis
contact emaildkueltz@ucdavis.edu
dataset submitter
Full Dataset Link List
Panorama Public dataset URI