PXD004328

PXD004328 is an original dataset announced via ProteomeXchange.

Title	Degradation of C30 - Reduced TCA cycle rates at high hydrostatic pressure hinder hydrocarbon degradation and obligate oil degraders in natural, deep-sea microbial communities
Description	A significant part of the heavier petroleum fraction resulting from offshore oil-spills sinks to the deep-sea. Its fate and biodegradation by microbial communities is unclear. In particular, the physiological and metabolic features of hydrostatic pressure (HP) adapted oil-degraders have been neglected. In this study, hydrocarbon-free sediment from 1km below surface water (bsl) was incubated at 0.1, 10 and 20MPa (equivalent to surface waters, 1 and 2km bsl) using triacontane (C30) as sole carbon source for a 3-month enrichment period. HP strongly impacted biodegration, as it selected for microbial communities with small cells, high O2 respiration and nutrients requirements, but low biomass and C30-degradation yields. The alkane-degrading metaproteome linked to β-oxidation was detected but its expression was reduced under HP contrary to several housekeeping genes. This was reflected in the enriched communities, as atmospheric pressure was dominated by hydrocarbonoclastic bacteria while non-specialized or previously unrecognized oil-degrading genera were enriched under HP.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:30:21.343.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Robert Heyer
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2016-06-15 00:11:49	ID requested
1	2018-12-19 04:42:02	announced
2	2018-12-21 01:35:20	announced	Updated publication reference for PubMed record(s): 30542078.
⏵ 3	2024-10-22 04:30:24	announced	2024-10-22: Updated project metadata.

Scoma A, Heyer R, Rifai R, Dandyk C, Marshall I, Kerckhof FM, Marietou A, Boshker HTS, Meysman FJR, Malmos KG, Vosegaard T, Vermeir P, Banat IM, Benndorf D, Boon N, Reduced TCA cycle rates at high hydrostatic pressure hinder hydrocarbon degradation and obligate oil degraders in natural, deep-sea microbial communities. ISME J, 13(4):1004-1018(2019) [pubmed]

10.1038/s41396-018-0324-5;

curator keyword: Biological

submitter keyword: bioremediation, petroleum, oil, metaproteome, alkane,hydrostatic pressure, deep-sea

DIrk Benndorf
contact affiliation	Otto von Guericke University of Magdeburg, University, Bioprocess Engineering, Universitätsplatz 2 G25, 39106 Magdeburg, Germany
contact email	benndorf@mpi-magdeburg.mpg.de
lab head
Robert Heyer
contact affiliation	OvGU
contact email	heyer@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/2018/12/PXD004328

PRIDE project URI

• PRIDE
  1. PXD004328
     1. Label: PRIDE project
     2. Name: Degradation of C30 - Reduced TCA cycle rates at high hydrostatic pressure hinder hydrocarbon degradation and obligate oil degraders in natural, deep-sea microbial communities