PXD008339-1

PXD008339 is an original dataset announced via ProteomeXchange.

Title	Characterisation of proteome of a novel Escherichia coli strain exhibiting mucoviscous phenotype.
Description	Protein expression by E. coli 26561 during the late-exponential phase of cultures under anaerobic conditions was examined. E. coli 26561 is a multidrug resistant (MDR) and shows an unusual hyper-mucoviscous phenotype. Resistance includes ESBL (CTX-M-14) and proteome was determined with and without exposure to sub-MIC concentrations of the 3rd generation cephalosporin ceftazidime. Ceftazidime exposure was at two sub-MIC levels, specifically 0.25x MIC (samples 5-7), 0.5x MIC (samples 8 - 10); samples 1-4 provided the unexposed Control. Both whole and phospho-enriched fractions for each sample were analysed. Quantification of peptides was assessed using 10-plex TMT labelling in conjunction with an Orbitrap Fusion Tribrid. Raw data produced by the Orbitrap were processed using Max Quant 1.5.4.7 using the included Andromeda search engine. Peptides were searched against our own database of E. coli 26561 proteins which was produced from a hybrid assembly of our reads obtained from MiSeq and PacBio sequencing platforms.
HostingRepository	PRIDE
AnnounceDate	2018-08-22
AnnouncementXML	Submission_2018-08-22_08:41:42.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Susan Harris
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	phosphorylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2017-11-30 01:19:53	ID requested
⏵ 1	2018-08-22 08:41:43	announced
2	2024-10-22 04:42:23	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

curator keyword: Biological

submitter keyword: Escherichia coli, mucoviscous, anaerobic, antibiotic, MIC, ceftazidime, TMT, shotgun, quantification

Professor David G. E. Smith
contact affiliation	IB3, Heriot Watt University, Edinburgh EH14 4AS, UK
contact email	david.smith@hw.ac.uk
lab head
Susan Harris
contact affiliation	Heriot Watt University
contact email	sh60@hw.ac.uk
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/2018/08/PXD008339

PRIDE project URI

• PRIDE
  1. PXD008339
     1. Label: PRIDE project
     2. Name: Characterisation of proteome of a novel Escherichia coli strain exhibiting mucoviscous phenotype.