PXD025955

PXD025955 is an original dataset announced via ProteomeXchange.

Title	Nutrient-specific Proteomic Analysis of the Mucin Degrading Bacterium Akkermansia muciniphila
Description	Akkermansia muciniphila is a prominent mucin-degrading bacterium that acts as a keystone species in regulating the human gut microbiota. Despite recently increasing research into this bacterium and its relevance to human health, a high-resolution database of its functional proteins remains scarce. Here, we provide a proteomic database of A. muciniphila grown in different nutrient conditions ranging from defined to complex. Of 2,318 protein-coding genes in the genome, we identified 841 (40%) that were expressed at the protein level. Overall, proteins involved in energy production and carbohydrate metabolism indicate that A. muciniphila relies mainly on the Embden-Meyerhof-Parnas pathway, and produces short-chain fatty acids through anaerobic fermentation. Moreover, this bacterium possesses a broad repertoire of glycosyl hydrolases, together with putative peptidases and sulfatases, to cleave O-glycosylated mucin. Furthermore, it uses mucin-derived monosaccharides as sources of energy and cell wall biogenesis. Our database provides nutrient-dependent global proteomes of A. mucinphila ATCC BAA-835 to offer insights into its metabolic functions that shape the composition of the human gut microbiota via mucin degradation.
HostingRepository	PRIDE
AnnounceDate	2025-12-29
AnnouncementXML	Submission_2025-12-29_01:49:21.657.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Dong-Woo Lee
SpeciesList	scientific name: Akkermansia muciniphila ATCC BAA-835; NCBI TaxID: NEWT:349741;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ XL; LTQ Orbitrap XL ETD

Revision	Datetime	Status	ChangeLog Entry
0	2021-05-11 23:35:13	ID requested
⏵ 1	2025-12-29 01:49:22	announced

10.1002/PMIC.202100125;

submitter keyword: Akkermansia muciniphila, Microbiome, Proteome,Mucin-degrading bacteria

Dong-Woo Lee
contact affiliation	Department of Biotechnology, Yonsei University, Seoul 03722, South Korea
contact email	leehicam@yonsei.ac.kr
lab head
Dong-Woo Lee
contact affiliation	Department of Biotechnology, Yonsei University, Seoul 03722, South Korea
contact email	leehicam@yonsei.ac.kr
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/2025/12/PXD025955

PRIDE project URI

• PRIDE
  1. PXD025955
     1. Label: PRIDE project
     2. Name: Nutrient-specific Proteomic Analysis of the Mucin Degrading Bacterium Akkermansia muciniphila