PXD002912-1

PXD002912 is an original dataset announced via ProteomeXchange.

Title	Expressed Proteome of Extraintestinal Escherichia coli Associated with Urinary Tract Infections
Description	Extraintestinal pathogenic Escherichia coli (ExPEC) have a capacity to cause serious infections of blood, the central nervous system and particularly the urinary tract. Relatively little is known about how ExPEC adapt their cell-wide protein expression to environments with different carbon sources and other required nutrients. We used label-free quantitative (LFQ) proteomic analysis to determine proteomes of five ExPEC strains purified from clinical blood cultures, and compared them with proteomes of reference uropathogenic E. coli strain 536 derived from blood culture and two chemically different solid media. We identified 2,883 proteins in total, and for 90% of the detected proteins described their relative quantitative levels based on LFQ intensity scores. Comparison of anaerobic and aerobic blood cultures revealed significant differences in the levels of 32 proteins out of 1854 shared proteins. A majority of these proteins was associated with acquisition and utilization of metal ions, which are critical either for anaerobic (nickel) or aerobic (iron) respiration. ANOVA analysis of the relative quantitative levels of 1758 proteins shared between the strains identified 47 differentially expressed proteins, including proteins involved in vitamin B6 metabolism, cell motility and virulence. Comparison of strain 536 proteomes derived from blood cultures and solid media showed substantial variation in the relative quantitative levels of 200 proteins, which represented 11% of the common proteins between the conditions. Blood culture condition was characteristic by upregulation of anaerobic fermentative metabolism, cell motility and iron utilization. In a response to the growth on solid media increased levels of proteins functional in aerobic respiration, catabolism of various biochemicals obtained from the media and protection against environmental stresses. The study presents the largest coverage of ExPEC/UPEC proteome to date,with a detail account of ExPEC metabolism under three chemically different environments.
HostingRepository	PRIDE
AnnounceDate	2016-07-04
AnnouncementXML	Submission_2016-07-04_06:03:52.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Veronika Kucharova
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2015-09-15 01:50:14	ID requested
⏵ 1	2016-07-04 06:03:53	announced
2	2024-10-22 04:25:20	announced	2024-10-22: Updated project metadata.

Pettersen VK, Mosevoll KA, Lindemann PC, Wiker HG, Coordination of Metabolism and Virulence Factors Expression of Extraintestinal Pathogenic Escherichia coli Purified from Blood Cultures of Patients with Sepsis. Mol Cell Proteomics, 15(9):2890-907(2016) [pubmed]

submitter keyword: Extraintestinal/ Uropathogenic Escherichia coli, LFQ, LC-MS/MS

Harald G. Wiker
contact affiliation	Gade Research Group for Infection and Immunity Dept. of Clinical Science, University of Bergen The Laboratory Building, 5th floor N-5021 Bergen, Norway
contact email	Harald.Wiker@uib.no
lab head
Veronika Kucharova
contact affiliation	University of Bergen
contact email	veronika.kucharova@k2.uib.no
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD002912
     1. Label: PRIDE project
     2. Name: Expressed Proteome of Extraintestinal Escherichia coli Associated with Urinary Tract Infections