PXD010371

PXD010371 is an original dataset announced via ProteomeXchange.

Title	Metaproteomics of fecal samples supports the diagnosis of Crohn’s Disease and Ulcerative Colitis
Description	Objective Crohn’s Disease (CD) and Ulcerative Colitis (UC) are chronic inflammatory diseases of the gastrointestinal tract. Reliable diagnosis of these diseases requires a comprehensive examination of the patient, which include invasive endoscopy. This study assesses whether non-invasive LC-MS/MS based analysis of microbial and human proteins from feces may support the diagnosis of the diseases. Design In order to mimic a representative clinical background for this study, we investigated 17 healthy controls, 11 CD patients, 14 UC patients, also 13 Irritable Bowel Disease (IBS) patients, 8 Colon Adenoma (CA) patients, and 8 Gastric Carcinoma (GCA) patients. The proteins were extracted from the fecal samples with liquid phenol in a ball mill. Subsequently, the proteins were digested tryptically to peptides and analyzed by liquid chromatography coupled to an Orbitrap MS/MS. For protein identification and interpretation of taxonomic and functional results, the MetaProteomeAnalyzer software and the UniProtKB/SwissProt database and several metagenomes from human fecal samples were used. Results Cluster analysis and ANOSIM show a separation of healthy controls from patients with CD and UC as well as from patients with GCA. Among others, UC and CD correlated with an increase of neutrophil extracellular traps and immunoglobulins G (IgG) as well as a decrease of IgA. A specific marker metaprotein for CD was an increase of the human enzyme sucrose-isomaltase. IBS and CA patient’s fecal metaproteome showed only minor alterations. Conclusion Metaproteome analysis distinguished between patients with UC, CD and healthy controls and is therefore useful as a non-invasive tool for routine diagnostics in hospitals.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:46:58.124.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Robert Heyer
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-07-11 02:49:32	ID requested
1	2019-03-11 16:41:45	announced
2	2019-05-23 03:26:43	announced	Updated publication reference for PubMed record(s): 31009805.
⏵ 3	2024-10-22 04:47:02	announced	2024-10-22: Updated project metadata.

Lehmann T, Schallert K, Vilchez-Vargas R, Benndorf D, P, ü, ttker S, Sydor S, Schulz C, Bechmann L, Canbay A, Heidrich B, Reichl U, Link A, Heyer R, Metaproteomics of fecal samples of Crohn's disease and Ulcerative Colitis. J Proteomics, 201():93-103(2019) [pubmed]

10.1016/j.jprot.2019.04.009;

curator keyword: Biomedical

submitter keyword: • Fecal samples • Metaproteomics • Non-invasive diagnosis • Inflammatory Bowel Disease • Crohn’s Disease • Ulcerative Colitis • Gastrointestinal tract

Dirk Benndorf
contact affiliation	Otto von Guericke University, Bioprocess Engineering, Universitätsplatz 2, 39106 Magdeburg, Germany
contact email	benndorf@mpi-magdeburg.mpg.de
lab head
Robert Heyer
contact affiliation	OvGU
contact email	heyer@mpi-magdeburg.mpg.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD010371
     1. Label: PRIDE project
     2. Name: Metaproteomics of fecal samples supports the diagnosis of Crohn’s Disease and Ulcerative Colitis