PXD007233

PXD007233 is an original dataset announced via ProteomeXchange.

Title	Pseudomonas aeruginosa proteome under hypoxic stress conditions mimicking the cystic fibrosis lung
Description	Pseudomonas aeruginosa is a Gram-negative, opportunistic bacterium and a major etiological agent in monogenic disease cystic fibrosis (CF). High density colonies of P. aeruginosa are often isolated from hypoxic mucus plugs in respiratory tract of CF patients, indicating high adaptive capacities of the bacterium. Despite the high prevalence and related patient mortality, the protein machinery enabling the bacterium to adapt to this hypoxic environment remains to be fully elucidated. We investigated this by performing both SWATH mass spectrometry and data-dependent SPS-MS3 of TMT labelled peptides to profile the proteomes of two P. aeruginosa CF isolates, PASS2 and PASS3, and a laboratory reference strain, PAO1, grown under hypoxic stress (O2<1%) and aerobic conditions in media that mimics the nutrient components of the CF lung. 3,967 P. aeruginosa proteins were quantitated (FDR <1%) across all three strains, reflecting approximately 71% of predicted ORFs in PAO1 and representing the most comprehensive proteome of clinically relevant P. aeruginosa to date. Comparative analysis revealed 735, 640 and 364 proteins were altered by two-fold or more when comparing low oxygen to aerobic growth in PAO1, PASS2 and PASS3 respectively. Strikingly, under hypoxic stress, all strains showed concurrent increased abundance of proteins required for both aerobic (cbb3-1 and cbb3-2 terminal oxidases) and anaerobic denitrification and arginine fermentation, with the two clinical isolates showing higher relative expression of proteins in these pathways. Additionally, functional annotation revealed that clinical strains portray a unique expression profile of replication, membrane biogenesis and virulence proteins during hypoxia which may endow these bacteria with a survival advantage. These protein profiles illuminate the diversity of P. aeruginosa mechanisms to adapt to low oxygen and shows that CF isolates initiate a robust molecular response to persist under these conditions.
HostingRepository	PRIDE
AnnounceDate	2017-08-29
AnnouncementXML	Submission_2017-08-29_03:54:07.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Karthik Shantharam kamath
SpeciesList	scientific name: Pseudomonas aeruginosa PAO1; NCBI TaxID: 208964;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	TripleTOF 5600; Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2017-08-09 06:03:33	ID requested
⏵ 1	2017-08-29 03:54:08	announced

Kamath KS, Krisp C, Chick J, Pascovici D, Gygi SP, Molloy MP, Pseudomonas aeruginosa Proteome under Hypoxic Stress Conditions Mimicking the Cystic Fibrosis Lung. J Proteome Res, 16(10):3917-3928(2017) [pubmed]

curator keyword: Biological

submitter keyword: Pseudomonas aeruginosa, cystic fibrosis, hypoxia, SWATH-MS, TMT-MS

Mark P Molloy
contact affiliation	Department of Chemistry and biomolecular sciences, Australian Proteome Analysis facility, Sydney, Australia.
contact email	mmolloy@proteome.org.au
lab head
Karthik Shantharam kamath
contact affiliation	Macquarie university
contact email	karthikskamath@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD007233
     1. Label: PRIDE project
     2. Name: Pseudomonas aeruginosa proteome under hypoxic stress conditions mimicking the cystic fibrosis lung