PXD014605

PXD014605 is an original dataset announced via ProteomeXchange.

Title	Anaerobic biogas plants via LC-MS/MS
Description	Anaerobic degradation (AD) of heterogeneous agricultural substrates is a complex process involving a diverse microbial community. While microbial community composition of a variety of biogas plants (BPs) is well described, little is known about metabolic processes and microbial interaction patterns. Here, we analyzed 16 large-scale BPs using metaproteomics. All metabolic steps of AD were observed in the metaproteome, and multivariate analyses indicated that they were shaped by temperature, pH, volatile fatty acid content and substrate types. Biogas plants can be subdivided into hydrogenotrophic, acetoclastic or a mixture of both methanogenic pathways based on their process parameters, taxonomic and functional metaproteome. Network analyses showed large differences in metabolic and microbial interaction patterns. Both, number of interactions and interaction partners were highly dependent on the prevalent methanogenic pathway for most species. Nevertheless, we observed a highly conserved metabolism of different abundant Pseudomonas spp. for all BPs indicating a key role during AD in carbohydrate hydrolysis irrespectively of variabilities in substrate input and process parameters. Thus, Pseudomonas spp. are of high importance for robust and versatile AD food webs, which highlight a large variety of downstream metabolic processes for their respective methanogenic pathways.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:04:59.669.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	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-07-14 23:35:32	ID requested
1	2019-11-11 14:28:30	announced
⏵ 2	2024-10-22 04:05:00	announced	2024-10-22: Updated project metadata.

10.1038/s41598-019-49313-8;

Buettner C, von Bergen M, Jehmlich N, Noll M, Pseudomonas spp. are key players in agricultural biogas substrate degradation. Sci Rep, 9(1):12871(2019) [pubmed]

curator keyword: Technical

submitter keyword: Metaproteomics, biogas plants, methanogenic pathway, network analysis

Nico Jehmlich
contact affiliation	Department Molekulare Systembiologie Helmholtz-Zentrum für Umweltforschung GmbH - UFZ Permoserstraße 15 | 04318 Leipzig
contact email	nico.jehmlich@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/2019/11/PXD014605

PRIDE project URI

• PRIDE
  1. PXD014605
     1. Label: PRIDE project
     2. Name: Anaerobic biogas plants via LC-MS/MS