PXD051674

PXD051674 is an original dataset announced via ProteomeXchange.

Title	Exoproteome and surfaceome of toxigenic Corynebacterium diphtheriae 1737 and their response to iron-restriction and growth on human hemoglobin
Description	Diphtheria is a severe upper respiratory disease that can cause fatal infections. It is known to produce diphtheria toxin and a range of other virulence factors, particularly when it encounters low levels of iron at sites of infection. Genomic sequencing of the NCTC13129 reference strain and its relatives responsible for the Eastern European outbreak in the 1990s revealed the presence of pathogenicity islands that contain a number of genes that encode for surface and secreted virulence factors, including pili, heme-acquisition machinery, and antimicrobial-resistance genes. Despite its clinical relevance and use as a model bacterium for research purposes, no proteomic study reported to date has rigorously defined the exoproteome and surfaceome in any tox-producing C. diphtheriae strain or defined how these proteomes change in response to iron limitation. Thus, defining the full complement of secreted (exoproteome) and surface (surfaceome) protein factors produced by C. diphtheriae that enables it to colonize its host promises to provide insight into how it both causes and prevents disease. To gain insight into how it colonizes its host we have identified iron-dependent changes in the exoproteome and surfaceome of C. diphtheriae strain 1737 using a combination of whole-cell fractionation, intact cell surface proteolysis, and quantitative proteomics. We first performed whole-cell fractionation and surface proteomics to quantitatively evaluate the exoproteome and surfaceome under low-iron growth conditions. For each protein we quantified its degree of secretion and surface-exposure by normalizing supernatant and surface digest abundances to fractions derived from the whole-cell lysate. Then, we performed differential abundance on secreted (supernatant) and surface (surface proteolysis) proteins under three different iron conditions that tested both the effect of iron concentration and iron source (e.g. free iron or heme from hemoglobin) on the exoproteome and surfaceome, respectively. All experiments were performed in biological triplicate, for a total of 33 LC-MS/MS runs.
HostingRepository	PRIDE
AnnounceDate	2025-05-06
AnnouncementXML	Submission_2025-05-06_14:37:29.953.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD051674
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Andrew Goring
SpeciesList	scientific name: Corynebacterium diphtheriae NCTC 13129; NCBI TaxID: 257309; scientific name: Bacteria; NCBI TaxID: NCBITaxon:2;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2024-04-23 12:41:57	ID requested
⏵ 1	2025-05-06 14:37:30	announced

10.6019/PXD051674;

Goring AK, Hale S, Dasika P, Chen Y, Clubb RT, Loo JA, 1737 and Its Response to Iron Restriction and Growth on Human Hemoglobin. J Proteome Res, 24(1):77-93(2025) [pubmed]

10.1021/acs.jproteome.4c00443;

submitter keyword: proteomics, cell surface, diphtheria, label-free quantification, exoproteome, differential expression,Corynebacterium diphtheriae, cell envelope, surface proteome, proteomic profiling, virulence factors

Joseph Loo
contact affiliation	Department of Chemistry and Biochemistry, Loo, University of California-Los Angeles, United States of America
contact email	jloo@chem.ucla.edu
lab head
Andrew Goring
contact affiliation	University of California-Los Angeles. Chemistry and Biochemistry.
contact email	agoring@ucla.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD051674
     1. Label: PRIDE project
     2. Name: Exoproteome and surfaceome of toxigenic Corynebacterium diphtheriae 1737 and their response to iron-restriction and growth on human hemoglobin