PXD004351

PXD004351 is an original dataset announced via ProteomeXchange.

Title	Aquifer metaproteomics - Candidate Brocadiales dominates C, N and S cycling in anoxic groundwater of a pristine limestone-fracture aquifer
Description	Groundwater-derived microorganisms are known to play an important role in biogeochemical C, S and N cycling. Thereby, the presence and majorly the activity of microorganisms in aquifers affect enormously the nutrient cycling. However, the diversity and their functional capability in natural aquifers are still rare and therefore a better knowledge of the core microbial communities is urgently needed. Metaproteome analysis was applied to characterize the repertoire of microbes in the depth and to identify the key drivers of major biogeochemical processes. Therefore, 1000 L water from the aquifer was sampled by filtration on 0.3 µm glass filters. After protein extraction, proteolytic cleavage and mass spectrometric analysis (Ultimate 3000 nanoRSLC coupled to Q Exactive HF instrument), 3808 protein groups (2371 proteins with ≥2 peptides) were identified from 13,204 peptides. The findings of our study have broad implications for the understanding of aquifer cycling’s which finally leads to a greatly improved understanding of the ecosystem services provided by the microbial communities present in aquifers. In the future, functional results would allow to monitor and to assess pollution effects which would beneficially assist groundwater resource management.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:30:33.351.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nico Jehmlich
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-06-16 07:54:53	ID requested
1	2016-12-23 10:25:19	announced
2	2017-10-24 03:45:45	announced	Updated project metadata.
⏵ 3	2024-10-22 04:30:36	announced	2024-10-22: Updated project metadata.

Starke R, M, ü, ller M, Gaspar M, Marz M, K, ü, sel K, Totsche KU, von Bergen M, Jehmlich N, Candidate Brocadiales dominates C, N and S cycling in anoxic groundwater of a pristine limestone-fracture aquifer. J Proteomics, 152():153-160(2017) [pubmed]

10.1016/j.jprot.2016.11.003;

curator keyword: Biological

submitter keyword: microbial community,groundwater, metaproteomics

Martin von Bergen
contact affiliation	Helmholtz Centre for Environmental Research - UFZ Head of Department for Molecular Systems Biology http://www.ufz.de/index.php?de=17634 Permoserstr. 15 Building 6, R 521 04318 Leipzig GERMANY Tel.: +49-341-235-1211 Fax: +49-341-235-451211
contact email	martin.vonbergen@ufz.de
lab head
Nico Jehmlich
contact affiliation	Helmholtz-Centre for Environmental Research - UFZ
contact email	nico.jehmlich@ufz.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/2016/12/PXD004351

PRIDE project URI

• PRIDE
  1. PXD004351
     1. Label: PRIDE project
     2. Name: Aquifer metaproteomics - Candidate Brocadiales dominates C, N and S cycling in anoxic groundwater of a pristine limestone-fracture aquifer