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PXD001547

PXD001547 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleMetaproteome of the waste water treatment plant Gerwisch/Germany
DescriptionIn this study the impact of protein fractionation techniques prior to LC/MS analysis was investigated on activated sludge samples derived at winter and summer condition from a full-scale wastewater treatment plant (WWTP). For reduction of the sample complexity, different fractionation techniques including RP-LC (1D-approach), SDS-PAGE and RP-LC (2D-approach) as well as RP-LC, SDS-PAGE and liquid IEF (3D-approach) were carried out before subsequent ITMS analysis. The derived spectra were identified by MASCOT search using a combination of the public UniProtKB/Swiss-Prot protein database and metagenome data from a WWTP (data are available via ProteomeXchange with identifier PXD001547). The results showed a significant increase of identified spectra, enabled by applying IEF and SDS-PAGE to the proteomic workflow. Based on meta-proteins, a core metaproteome and the corresponding taxonomic profile of the wastewater activated sludge was revealed and functional aspects using the KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway library were analyzed. Hereby, the KEGG Orthology identifiers (KO numbers) of protein hits were plotted into pathway maps of the central carbon (map01200) and nitrogen metabolism (map00910). Using the 3D-approach, most proteins involved in glycolysis and citrate cycle and nearly all proteins of the nitrogen removal were identified, qualifying this approach as the most promising for future studies.
HostingRepositoryPRIDE
AnnounceDate2015-07-29
AnnouncementXMLSubmission_2015-07-29_00:31:47.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterFabian Kohrs
SpeciesList scientific name: Bacteria; NCBI TaxID: 2;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
Instrumentautoflex
Dataset History
RevisionDatetimeStatusChangeLog Entry
02014-11-27 05:51:30ID requested
12015-07-27 19:52:41announced
22015-07-29 00:31:49announcedUpdated project metadata.
Publication List
P, ΓΌ, ttker S, Kohrs F, Benndorf D, Heyer R, Rapp E, Reichl U, Metaproteomics of activated sludge from a wastewater treatment plant - a pilot study. Proteomics, 15(20):3596-601(2015) [pubmed]
Keyword List
curator keyword: Metaproteomics, Biological
submitter keyword: Metaproteomics, Wastewater treatment plant, Activated sludge, MetaProteomeAnalyzer, Offgel isoelectric focusing
Contact List
Dr. Dirk Benndorf
contact affiliationDr. rer. nat. Dirk Benndorf, Bioprocess Engineering, Otto von Guericke University Magdeburg, Universit??tsplatz 2, D-39106 Magdeburg, Germany
contact emailbenndorf@mpi-magdeburg.mpg.de
lab head
Fabian Kohrs
contact affiliationOtto von Guericke University Magdeburg, Germany
contact emailkohrs@mpi-magdeburg.mpg.de
dataset submitter
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Dataset FTP location
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