PXD004634

PXD004634 is an original dataset announced via ProteomeXchange.

Title	Deep Biosphere - Beatrix 326 BH2 (270712)
Description	This project aims to investigate the metabolic pathways expressed by the active microbial community occurring at the deep continental subsurface. Subsurface chemoLithoautotrophic Microbial Ecosystems (SLiMEs) under oligotrophic conditions are supported by H2; however, the overall ecological trophic structures of these communities are poorly understood. Some deep, fluid-filled fractures in the Witwatersrand Basin, South Africa appear to support inverted trophic pyramids wherein methanogens contributing <5% of the total DNA apparently produce CH4 that supports the rest of the community. Here we show the active metabolic relationships of one such trophic structure by combining metatranscriptomic assemblies, metaproteomic and stable isotopic data, and thermodynamic modeling. Four autotrophic β-proteobacteria genera that are capable of oxidizing sulfur by denitrification dominate. They co-occur with sulfate reducers, anaerobic methane oxidizers and methanogens, which each comprises <5% of the total community. Defining trophic levels of microbial chemolithoautotrophs by the number of transfers from the initial abiotic H2-driven CO2 fixation, we propose a top-down cascade influence of the metabolic consumers that enhances the fitness of the metabolic producers to explain the inverted biomass pyramid of a multitrophic SLiME. Symbiotic partnerships are pivotal in the deep biosphere on and potentially beyond the Earth.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:31:17.501.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Maggie Lau
SpeciesList	scientific name: Sulfuritalea; NCBI TaxID: 1054211;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2016-07-21 05:53:00	ID requested
1	2018-10-29 07:13:35	announced
⏵ 2	2024-10-22 04:31:24	announced	2024-10-22: Updated project metadata.

10.3389/fmicb.2018.01235;

Lau MCY, Harris RL, Oh Y, Yi MJ, Behmard A, Onstott TC, Taxonomic and Functional Compositions Impacted by the Quality of Metatranscriptomic Assemblies. Front Microbiol, 9():1235(2018) [pubmed]

curator keyword: Biological

submitter keyword: native microbial community,deep subsurface ecosystem, crustal fluid, sample-derived metatranscripome database, ecological trophic structure

Maggie Lau
contact affiliation	Onstott Lab, Department of Geosciences, Princeton University
contact email	maglau@princeton.edu
lab head
Maggie Lau
contact affiliation	Princeton University
contact email	maglau@princeton.edu
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/2018/10/PXD004634

PRIDE project URI

• PRIDE
  1. PXD004634
     1. Label: PRIDE project
     2. Name: Deep Biosphere - Beatrix 326 BH2 (270712)