PXD001547-3

PXD001547 is an original dataset announced via ProteomeXchange.

Title	Metaproteome of the waste water treatment plant Gerwisch/Germany
Description	In 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.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:25:03.974.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Fabian Kohrs
SpeciesList	scientific name: Bacteria; NCBI TaxID: 2;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	autoflex

Revision	Datetime	Status	ChangeLog Entry
0	2014-11-27 05:51:30	ID requested
1	2015-07-27 19:52:41	announced
2	2015-07-29 00:31:49	announced	Updated project metadata.
⏵ 3	2024-10-22 04:25:06	announced	2024-10-22: Updated project metadata.

10.1002/pmic.201400559;

P, ü, 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]

curator keyword: Metaproteomics, Biological

submitter keyword: Metaproteomics, Activated sludge, MetaProteomeAnalyzer, Wastewater treatment plant, Offgel isoelectric focusing

Dr. Dirk Benndorf
contact affiliation	Dr. rer. nat. Dirk Benndorf, Bioprocess Engineering, Otto von Guericke University Magdeburg, Universitätsplatz 2, D-39106 Magdeburg, Germany
contact email	benndorf@mpi-magdeburg.mpg.de
lab head
Fabian Kohrs
contact affiliation	Otto von Guericke University Magdeburg, Germany
contact email	kohrs@mpi-magdeburg.mpg.de
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/2015/07/PXD001547

PRIDE project URI

• PRIDE
  1. PXD001547
     1. Label: PRIDE project
     2. Name: Metaproteome of the waste water treatment plant Gerwisch/Germany