PXD000801

PXD000801 is an original dataset announced via ProteomeXchange.

Title	Effects of Campylobacter jejuni CJIE1 prophage on protein expression experiment 4
Description	Temperate bacteriophages (prophages) have recently been demonstrated in Campylobacter jejuni. However, what they do there is largely unknown. In the series of studies that are the subject of these submissions we have investigated the relative expression levels of proteins in C. jejuni isolates that differ in the presence or absence of the CJIE1 prophage. At the time of the initial investigations whole genome sequence data were not available for the isolates used, though DNA microarray data indicated that the isolates were very closely related. The overall project was carried out through four separate experiments. Previous work in the scientific literature indicated that growth on medium lacking blood but containing sodium deoxycholate induced the expression of at least some proteins associated with virulence and provided data thought to be of relevance to the virulence of the bacterium. The second set of experiments (experiment 2) compared protein expression in 4-plex iTRAQ experiments using two isolates grown on medium with and without 0.1% sodium deoxycholate to further explore the effects of the CJIE1 prophage, if any, on protein expression. Results from that experiment indicated that there was an unexpectedly large bile response, and that there were differences in expression from the first experiment that may be attributable to the presence of blood in the culture medium in the first experiment, compared with the use of medium without blood in the second experiment. Experiment 3 was therefore designed to compare protein expression of the CJIE1-carrying isolate 00-2425 after growth on medium containing blood, without blood, and without blood but with bile salts. In experiment 4 we grew isolate 00-2426, which lacks prophage CJIE1, on the same four media. The goals were to determine if the differences in protein expression (detection) were similar to those in isolate 00-2425 and if there were any differences that could be attributed to the presence or absence of the CJIE1 prophage.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:20:10.451.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Clifford Clark
SpeciesList	scientific name: Campylobacter jejuni subsp. jejuni; NCBI TaxID: 32022;
ModificationList	iTRAQ4plex-116 reporter+balance reagent acylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2014-03-06 01:16:23	ID requested
1	2014-07-31 03:59:11	announced
2	2014-12-02 00:31:30	announced	Updated project metadata.
⏵ 3	2024-10-22 04:20:15	announced	2024-10-22: Updated project metadata.

Clark CG, Chong PM, McCorrister SJ, Simon P, Walker M, Lee DM, Nguy K, Cheng K, Gilmour MW, Westmacott GR, The CJIE1 prophage of Campylobacter jejuni affects protein expression in growth media with and without bile salts. BMC Microbiol, 14():70(2014) [pubmed]

10.1186/1471-2180-14-70;

curator keyword: Biological

submitter keyword: Campylobacter jejun, iTRAQ,LC-MSMS,

CJIE1 prophage

Garrett R. Westmacott
contact affiliation	National Microbiology Laboratory, Public Health Agency of Canada Proteomics and Mass Spectrometry Core Facility
contact email	Garrett.Westmacott@phac-aspc.gc.ca
lab head
Clifford Clark
contact affiliation	National Microbiology Laboratory, Public Health Agency of Canada
contact email	clifford.clark@phac-aspc.gc.ca
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/2014/07/PXD000801

PRIDE project URI

• PRIDE
  1. PXD000801
     1. Label: PRIDE project
     2. Name: Effects of Campylobacter jejuni CJIE1 prophage on protein expression experiment 4