PXD062635-1

PXD062635 is an original dataset announced via ProteomeXchange.

Title	A genome-to-proteome map reveals how natural variants drive proteome diversity and shape fitness
Description	Understanding how genetic variation translates into complex phenotypes remains a fundamental challenge. Here, we address this by mapping genome-to-proteome relationships in 800 progeny of a cross between two yeast strains adapted to distinct environments. Despite the modest genetic distance between the parents, we observed remarkable proteomic diversity and mapped over 6,400 genotype-protein associations, with more than 1,600 linked to individual genetic variants. Proteomic adaptation emerged from a conserved network of cis- and trans-regulatory variants, often originating from proteins not traditionally linked to gene regulation. This atlas allowed us to forecast organismal fitness effects across diverse conditions. By connecting genomic and proteomic landscapes at unprecedented resolution, our study provides a framework for predicting the phenotypic outcomes of natural genetic variation.
HostingRepository	PRIDE
AnnounceDate	2025-07-11
AnnouncementXML	Submission_2025-07-11_15:36:24.105.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Johannes Hartl
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	carbamoylated residue; iodoacetamide derivatized residue
Instrument	ZenoTOF 7600; timsTOF HT; TripleTOF 6600

Revision	Datetime	Status	ChangeLog Entry
0	2025-04-04 23:53:20	ID requested
⏵ 1	2025-07-11 15:36:24	announced

Dataset with its publication pending

submitter keyword: systems genetics, proteomics, adaptation, variant interpretation, genotype-phenotype mapping, transgression, protein quantitative trait loci

Markus Ralser
contact affiliation	Charité – Universitätsmedizin Berlin, Department of Biochemistry, 10117 Berlin, Germany
contact email	markus.ralser@charite.de
lab head
Johannes Hartl
contact affiliation	Berlin Institute of Health at Charité - Universitätsmedizin Berlin
contact email	johannes.hartl@charite.de
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/2025/07/PXD062635

PRIDE project URI

• PRIDE
  1. PXD062635
     1. Label: PRIDE project
     2. Name: A genome-to-proteome map reveals how natural variants drive proteome diversity and shape fitness