PXD000862-3

PXD000862 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Metaproteomics: Optimization and evaluation of protein extraction from activated sludge
Description	Metaproteomic studies of full-scale activated sludge systems require reproducible protein extraction methods. A systematic evaluation of three different extractions protocols, each in combination with three different methods of cell lysis, and a commercial kit were evaluated. Criteria used for comparison of each method included the extracted protein concentration and the number of identified proteins and peptides as well as their phylogenetic, cell localization and functional distribution and quantitative reproducibility. Furthermore, the advantage of using specific metagenomes and a 2-step database approach was illustrated. The results recommend a protocol for protein extraction from activated sludge based on the protein extraction reagent B-Per and bead beating.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:20:30.594.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Florian-Alexander Herbst
SpeciesList	scientific name: environmental samples; NCBI TaxID: 48479;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2014-03-28 02:03:34	ID requested
1	2014-08-15 01:20:28	announced
2	2014-10-23 03:08:35	announced	Updated project metadata.
⏵ 3	2024-10-22 04:20:31	announced	2024-10-22: Updated project metadata.

Publication List

Hansen SH, Stensballe A, Nielsen PH, Herbst FA, Metaproteomics: Evaluation of protein extraction from activated sludge. Proteomics, 14(21-22):2535-9(2014) [pubmed]
10.1002/pmic.201400167;

Hansen SH, Stensballe A, Nielsen PH, Herbst FA, Metaproteomics: Evaluation of protein extraction from activated sludge. Proteomics, 14(21-22):2535-9(2014) [pubmed]

10.1002/pmic.201400167;

Keyword List

curator keyword: Metaproteomics, Technical
submitter keyword: sewage, denitrification,activated sludge, nitrification, wastewater

curator keyword: Metaproteomics, Technical

submitter keyword: sewage, denitrification,activated sludge, nitrification, wastewater

Contact List

Per Halkjær Nielsen
contact affiliation	Head of Center for Microbial Communities Department of Biotechnology, Chemistry and Environmental Engineering Aalborg University \| Sohngaardsholmsvej 49 \| 9000 Aalborg \| Denmark
contact email	phn@bio.aau.dk
lab head
Florian-Alexander Herbst
contact affiliation	Aalborg University
contact email	fah@bio.aau.dk
dataset submitter

Full Dataset Link List

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/2014/08/PXD000862
PRIDE project URI

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/2014/08/PXD000862

PRIDE project URI

Repository Record List

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