PXD053947-1

PXD053947 is an original dataset announced via ProteomeXchange.

Title	Sulfoglycolysis sustains Eubacterium rectale in low-fiber diets
Description	The production of short-chain fatty acids by Firmicutes within the human gastrointestinal tract is recognized as critical for gut health and the progression of a range of disease states. Firmicutes lack many glycan-degrading pathways and instead derive a major proportion of their metabolic precursors from carbohydrates released by glycan-degrading generalists belonging to the Bacteroidota phylum and Bifidobacteriaceae family. Recently, it was shown that Eubacterium rectale, a widespread member of the Firmicutes belonging to the Clostridiales cluster XIVa, can grow on the unusual but ubiquitous plant-derived sugar sulfoquinovose (SQ) using a sulfoglycolytic sulfofructose transaldolase pathway. Here, we show that in addition to SQ, E. rectale can also grow on the SQ glycoside sulfoquinovosyl glycerol (SQGro). The 3D structure of the E. rectale sulfoquinovosidase shares strong structural conservation with SQases from gram-negative bacteria. Using sequence-similarity networks, we provide new biological context to a conserved domain of unknown function protein SftX belonging to DUF4867, which is conserved in the sulfoglycolytic sulfofructose transaldolase pathway and determine its 3D structure. Finally, with the aid of a synthetic mini-human microbiome reconstituted in germ-free mice, we show that an SQ dietary supplement can rescue E. rectale from population crashes that occur upon switching from a high-fibre to a low-fibre, high-fat diet. This suggests that SQ or SQGro has potential as a prebiotic for promoting the maintenance of this important SCFA-producing bacterium within the colonic microbiota.
HostingRepository	PRIDE
AnnounceDate	2025-03-04
AnnouncementXML	Submission_2025-03-03_22:30:10.157.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nichollas Scott
SpeciesList	scientific name: Agathobacter rectalis; NCBI TaxID: 39491;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2024-07-15 04:22:26	ID requested
⏵ 1	2025-03-03 22:30:10	announced

Dataset with its publication pending

submitter keyword: Eubacterium rectale, sulfoquinovose, LC-MS

Spencer J. Williams
contact affiliation	School of Chemistry and Bio21 Molecular Science and Biotechnology Institute and University of Melbourne, Parkville, Victoria 3010, Australia
contact email	sjwill@unimelb.edu.au
lab head
Nichollas Scott
contact affiliation	University of Melbourne
contact email	nichollas.scott@unimelb.edu.au
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/2025/03/PXD053947

PRIDE project URI

• PRIDE
  1. PXD053947
     1. Label: PRIDE project
     2. Name: Sulfoglycolysis sustains Eubacterium rectale in low-fiber diets