PXD061198-1

PXD061198 is an original dataset announced via ProteomeXchange.

Title	Rumen-centric multi-omics of two beef cattle breeds
Description	While rapid progress has been made to characterize the bacterial and archaeal populations of the rumen microbiome, insight into how they interact with keystone protozoal species remains elusive. Here, we reveal two distinct rumen community types (RCT-A and RCT-B) that are not strongly associated with host phenotype nor genotype but instead linked to protozoal community patterns. We leveraged a series of multi-omic datasets to show that the dominant Epidinium spp. in animals with RCT-B employ a plethora of fiber-degrading enzymes that present enriched Prevotella spp. a favorable carbon landscape to forage upon. Conversely, animals with RCT-A, dominated by genera Isotricha and Entodinium, harbor a more even distribution of fiber, protein, and amino acid metabolizers, reflected by higher detection of metabolites from both protozoal and bacterial activity. We reveal microbiome variation across key protozoal and bacterial populations is interlinked, which should act as an important consideration for future development of microbiome-based technologies.
HostingRepository	PRIDE
AnnounceDate	2025-06-10
AnnouncementXML	Submission_2025-06-10_08:51:36.107.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Arturo Vera Ponce de Leon
SpeciesList	scientific name: bovine gut metagenome; NCBI TaxID: 506599;
ModificationList	iodoacetamide derivatized residue
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2025-02-25 17:22:03	ID requested
⏵ 1	2025-06-10 08:51:36	announced

Dataset with its publication pending

submitter keyword: MAGs,cow, rumen, metaproteomics

Phil B. Pope
contact affiliation	Professor, Centre for Microbiome Research, Queensland University of Technology | Translational Research Institute
contact email	phil.pope@qut.edu.au
lab head
Arturo Vera Ponce de Leon
contact affiliation	Norwegian University of Life Sciences (NMBU)
contact email	arturo.vera.ponce.de.leon@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/2025/06/PXD061198

PRIDE project URI

• PRIDE
  1. PXD061198
     1. Label: PRIDE project
     2. Name: Rumen-centric multi-omics of two beef cattle breeds