PXD034779

PXD034779 is an original dataset announced via ProteomeXchange.

Title	The metabolic influence of the core ciliate Entodinium caudatum within the rumen microbiome
Description	Protozoa comprise a major fraction of the microbial biomass in the rumen microbiome, of which the genera Entodinium has been consistently observed to be dominant across a diverse genetic and geographical range of ruminant hosts. Despite the apparent core role that species such as Entodinium caudatum exert, their greater biological and metabolic contributions to rumen function remain largely undescribed. Here, we have leveraged (meta)genome-centric metaproteome datasets from rumen fluid samples originating from both cows and goats fed contrasting diets, to detail the specific metabolic niches that E. caudatum occupies in the context of its bacterial and archaeal co-habitants. Initial proteome estimations via total protein counts and label free quantification highlight that E. caudatum populations comprise an extensive fraction of the total rumen metaproteome. Our analysis also suggested increased microbial predation and volatile fatty acid metabolism by E. caudatum to occur in high methane emitting animals, although with no apparent direct metabolic link to methanogenesis. Despite E. caudatum having a well-established reputation of digesting starch, it was unexpectedly less active in low methane emitting animals fed high starch diets, which were instead dominated by propionate/succinate-producing bacterial populations suspected of being resistant to predation. Collectively, our results illuminate the substantial metabolic influence under-explored eukaryotic populations have in the rumen, with greater implications towards both digestion and methane metabolism.
HostingRepository	PRIDE
AnnounceDate	2025-11-13
AnnouncementXML	Submission_2025-11-13_03:13:19.651.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Thea Andersen
SpeciesList	scientific name: Capra hircus; NCBI TaxID: NCBITaxon:9925;
ModificationList	2-pyrrolidone-5-carboxylic acid (Gln); acetylated residue; monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-21 04:19:03	ID requested
⏵ 1	2025-11-13 03:13:20	announced

10.1038/S41396-023-01407-Y;

submitter keyword: metaproteomics, multi-omics, protozoa

Phillip Byron Pope
contact affiliation	Faculty of Chemistry, Biotechnology and Food Science Norwegian University of Life Sciences Post Office Box 5003 1432, Ås Norway
contact email	phil.pope@nmbu.no
lab head
Thea Andersen
contact affiliation	Norwegian University of Life Sciences
contact email	thea.os.andersen@nmbu.no
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/2025/11/PXD034779

PRIDE project URI

• PRIDE
  1. PXD034779
     1. Label: PRIDE project
     2. Name: The metabolic influence of the core ciliate Entodinium caudatum within the rumen microbiome