PXD056625-1

PXD056625 is an original dataset announced via ProteomeXchange.

Title	Transcriptome-proteome profiling in Burkholderia thailandensis during the transition from exponential to stationary phase
Description	Burkholderia thailandensis is closely related to highly pathogenic Burkholderia species, and it is an excellent surrogate as it rarely causes disease in humans. Understanding the complex molecular mechanisms that characterize the transition of B. thailandensis from exponential to stationary phases is critical to understanding bacterial responses to stress or nutrient limitation. We present here an integrated transcriptomic and proteomic analysis to profile gene and protein expression changes during entry into stationary phase. We identified 928 differentially expressed genes (DEGs) and 832 differentially expressed proteins (DEPs), highlighting significant transcriptional and translational reprogramming. Genes encoding proteins involved in benzoate degradation and O-antigen nucleotide sugar biosynthesis were among the most highly upregulated in stationary phase, whereas processes such as nitrogen metabolism, translation, and flagellar biosynthesis were downregulated. At the proteome level, proteins related to fatty acid degradation and butanoate metabolism accumulated along with proteins involved in synthesis of secondary metabolites. Markedly downregulated proteins included ribosomal proteins and translation factors as well as the house-keeping iron-sulfur biogenesis proteins. A protein-protein interaction (PPI) network analysis identified clusters involved in processes such as fatty acid metabolism and amino acid degradation. Surprisingly, the RpoS sigma factor, which has been shown to accumulate in stationary phase in several bacterial species, was not significantly increased in B. thailandensis during stationary phase. These findings offer comprehensive insights into B. thailandensis adaptive strategies and provide a foundation for developing interventions against pathogenic Burkholderia species.
HostingRepository	PRIDE
AnnounceDate	2025-07-16
AnnouncementXML	Submission_2025-07-16_13:13:16.893.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD056625
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Fabrizio Donnarumma
SpeciesList	scientific name: Burkholderia thailandensis E264; NCBI TaxID: 271848; scientific name: Bacteria; NCBI TaxID: NCBITaxon:2;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2024-10-08 11:57:19	ID requested
⏵ 1	2025-07-16 13:13:17	announced

10.6019/PXD056625;

submitter keyword: Burkholderia thailandensis, Q-Exactive, TMT

Fabrizio Donnarumma
contact affiliation	Louisiana State University Mass Spectrometry Facility
contact email	fabrizio@lsu.edu
lab head
Fabrizio Donnarumma
contact affiliation	Louisiana State University
contact email	fabrizio@lsu.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD056625
     1. Label: PRIDE project
     2. Name: Transcriptome-proteome profiling in Burkholderia thailandensis during the transition from exponential to stationary phase