PXD071138-1

PXD071138 is an original dataset announced via ProteomeXchange.

Title	Insights into the proteome of Next-Generation Probiotic Faecalibacterium duncaniae A2-165 through label-free proteomics approach
Description	Faecalibacterium duncaniae A2-165 is a rod-shaped, non-motile, and Extremely Sensitive to Oxygen microorganism, belonging to one of the most abundant genera in the human gut microbiome. A decreased abundance of Faecalibacterium species is correlated to Inflammatory Bowel Diseases (IBDs), highlighting this genus as a marker of gut health and a promising Next-Generation Probiotic. Many studies have demonstrated the anti-inflammatory effect of the most studied species, F. duncaniae A2-165, on mouse models of IBDs, associating the disease amelioration and suppression of inflammatory markers with large amounts of butyrate produced by the bacteria, and the presence of the MAM protein. However, many factors in F. duncaniae metabolism could contribute to its importance in the gut. To address this issue, this study characterized the proteome of F. duncaniae A2-165 in the stationary phase through a LC-MS/MS label-free proteomics approach.We quantified 1.280 proteins in total, corresponding to 44,7% of the in silico predicted proteome, with clear distinction between insoluble and soluble protein abunndaces. The subcellular localization prediction of the quantified proteins revealed 802 cytoplasmic proteins, 265 membrane proteins, six extracellular proteins, eight cell wall proteins, and 199 unknown localization proteins. Differential abundance analysis between insoluble and soluble fraction showed 290 proteins more abundant and 330 less abundant in the insoluble fraction. Functional analysis of these proteins showed a predominance of transporter proteins in the insoluble fraction, while metabolism of amino acids, carbohydrates and nucleotides were predominant in the soluble fraction. Further analysis of enriched pathways for each fraction showed energy metabolism, carbon cycle, and amino acid metabolism enriched in the soluble, and ABC transporters, quorum sensing, and oxidative phosphorylation in the insoluble. Moreover, we could confirm the presence of proteins associated to the bacteria’s mechanism of action, notably the key butyrate production pathway ButCoAT, the MAM protein and the ABC transporter exporter, and shikimate pathway enzymes.
HostingRepository	PRIDE
AnnounceDate	2026-01-27
AnnouncementXML	Submission_2026-01-27_15:56:02.612.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Monique Ferray Americo
SpeciesList	scientific name: Faecalibacterium prausnitzii A2-165; NCBI TaxID: NEWT:411483;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-11-24 11:13:34	ID requested
⏵ 1	2026-01-27 15:56:03	announced

Dataset with its publication pending

submitter keyword: None

Jean-Marc Chatel
contact affiliation	Université Paris-Saclay, INRAE, AgroParisTech, MICALIS, Jouy-en-Josas, France
contact email	jean-marc.chatel@inrae.fr
lab head
Monique Ferray Americo
contact affiliation	Universidade Federal de Minas Gerais
contact email	moniqueamerico@ufmg.br
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/2026/01/PXD071138

PRIDE project URI

• PRIDE
  1. PXD071138
     1. Label: PRIDE project
     2. Name: Insights into the proteome of Next-Generation Probiotic Faecalibacterium duncaniae A2-165 through label-free proteomics approach