PXD059647

PXD059647 is an original dataset announced via ProteomeXchange.

Title	A combination of phenotypic responses and genetic adaptations enables Staphylococcus aureus to withstand inhibitory molecules secreted by Pseudomonas aeruginosa
Description	Staphylococcus aureus and Pseudomonas aeruginosa frequently co-occur in infections, and there is evidence that their interactions can negatively affect disease outcomes. P. aeruginosa is known to be dominant, often compromising S. aureus through the secretion of inhibitory compounds. We previously demonstrated that S. aureus can become resistant to growth-inhibitory compounds during experimental evolution. While resistance arose rapidly, the underlying mechanisms were not obvious as there were only few genetic mutations associated with resistance, while ample phenotypic changes occurred. We thus hypothesize that resistance may result from phenotypic responses in addition to genetic adaptation. Here, we tested this hypothesis using proteomics. We first focused on an evolved strain that acquired a single mutation in tcyA (encoding a transmembrane transporter unit) upon exposure to P. aeruginosa supernatant. We show that this mutation leads to a complete abolishment of transporter synthesis, which confers moderate protection against PQS and selenocystine, two toxic compounds produced by P. aeruginosa. However, this genetic effect was minor compared to the fundamental phenotypic changes observed at the proteome level when both ancestral and evolved S. aureus strains were exposed to P. aeruginosa supernatant. Major changes involved the downregulation of virulence factors, metabolic pathways and membrane transporters, and the upregulation of ROS scavengers and an efflux pump. Our results suggest that the observed multi-variate phenotypic response is a powerful adaptive strategy by itself, offering instant protection against competitors in fluctuating environments and reducing the need for hard-wired genetic adaptations.
HostingRepository	PRIDE
AnnounceDate	2025-02-26
AnnouncementXML	Submission_2025-02-26_04:42:28.397.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jonas Grossmann
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: Staphylococcus aureus; NCBI TaxID: 1280;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-01-10 09:13:06	ID requested
⏵ 1	2025-02-26 04:42:28	announced

10.1101/2025.02.24.639796;

submitter keyword: LFQ, Experimental Evolution,Staphylococcus aureus

Jonas Grossmann
contact affiliation	Functional Genomics Center Zurich (University of Zurich / ETHZ Zurich)
contact email	jonas.grossmann@fgcz.uzh.ch
lab head
Jonas Grossmann
contact affiliation	Functional Genomics Center Zurich (UZH/ETHZ)
contact email	jg@fgcz.ethz.ch
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD059647
     1. Label: PRIDE project
     2. Name: A combination of phenotypic responses and genetic adaptations enables Staphylococcus aureus to withstand inhibitory molecules secreted by Pseudomonas aeruginosa