PXD003569

PXD003569 is an original dataset announced via ProteomeXchange.

Title	Stoichiometry and absolute abundance of proteins in the Bacillus cereus spore insoluble fraction determined using a QconCAT approach
Description	Spores of Bacillus cereus pose a threat to food safety due to their high resistance to the heat or acid treatments commonly used to make food microbially safe. As spores survive these treatments and later resume growth either on foodstuffs or, after ingestion, upon entering the gut they are capable of producing toxins which cause either vomiting or diarrhea respectively. The outer layers of the spore consist primarily of proteins which may serve as potential biomarkers for detection. In order to quantify proteins in the insoluble fraction of the spore coat, a proteomics approach using a QconCAT reference standard was employed which is the first time this is used in a heterogeneous system. This allowed us to determine the abundance of 21 proteins which spanned across three orders of magnitude and together covered 5.66% ±0.51 of the total spore weight. Classification by abundance resulted in functional characterisation of the protein BC_0987, renamed SasS. Furthermore, protein stoichiometry and determination of the abundance of, for instance, germination mediating enzymes provides useful information for model development. And finally, the four most abundant proteins, CotB1, CotB2, CotX and InhA, are presented to be biomarker candidates containing immunogenic epitopes as predicted by the SVMTriP algorithm and being conveniently located in the outermost layers of the spore.
HostingRepository	PRIDE
AnnounceDate	2018-10-26
AnnouncementXML	Submission_2018-10-26_01:50:31.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sacha Stelder
SpeciesList	scientific name: Bacillus cereus; NCBI TaxID: 1396;
ModificationList	No PTMs are included in the dataset
Instrument	apex ultra

Revision	Datetime	Status	ChangeLog Entry
0	2016-02-03 06:20:58	ID requested
⏵ 1	2018-10-26 01:50:32	announced

Stelder SK, Benito de Moya C, Hoefsloot HCJ, de Koning LJ, Brul S, de Koster CG, Stoichiometry, Absolute Abundance, and Localization of Proteins in the Bacillus cereus Spore Coat Insoluble Fraction Determined Using a QconCAT Approach. J Proteome Res, 17(2):903-917(2018) [pubmed]

curator keyword: Biomedical

submitter keyword: Bacillus cereus, spores, quantitative proteomics, QconCAT

Chris Gerdinus de Koster
contact affiliation	Mass Spectrometry of Biomacromolecules, Swammerdam Institute for Life Sciences, University of Amsterdam, the Netherlands
contact email	c.g.dekoster@uva.nl
lab head
Sacha Stelder
contact affiliation	University of Amsterdam
contact email	s.k.stelder@uva.nl
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/2018/10/PXD003569

PRIDE project URI

• PRIDE
  1. PXD003569
     1. Label: PRIDE project
     2. Name: Stoichiometry and absolute abundance of proteins in the Bacillus cereus spore insoluble fraction determined using a QconCAT approach