PXD039984

PXD039984 is an original dataset announced via ProteomeXchange.

Title	Mining the human gut microbiome identifies mycobacterial D-arabinan degrading enzymes
Description	Division and degradation of bacterial cell walls requires coordinated action of a myriad of enzymes. This particularly applies to the elaborate cell walls of acid-fast organisms such as Mycobacterium tuberculosis, which consist of a multi-layered cell wall that contains an unusual glycan called arabinogalactan. Enzymes that cleave the D-arabinan core of this structure have not previously been identified in any organism. We have interrogated the diverse carbohydrate degrading enzymes expressed by the human gut microbiota and uncovered four families of glycoside hydrolases with activity against the D-arabinan or D-galactan components of arabinogalactan. Using novel exo-D-galactofuranosidases from gut bacteria we generated enriched D-arabinan and used it to identify Dysgonomonas gadei as a D-arabinan degrader. This enabled the discovery of endo- and exo- acting enzymes that cleave D-arabinan. We have identified new members of the DUF2961 family (GH172), and a novel family of glycoside hydrolases (DUF4185) that display endo-ᴅ-arabinofuranase activity. The DUF4185 enzymes are conserved in mycobacteria and found in many microbes, suggesting that the ability to cleave these mycobacterial glycans plays an important role in the biology of diverse organisms. All mycobacteria encode two conserved endo-D-arabinanases that display different preferences for the D-arabinan-containing cell wall components arabinogalactan and lipoarabinomannan, suggesting they are important for cell wall modification and/or degradation. The discovery of these enzymes will support future studies into the structure and function of the mycobacterial cell wall.
HostingRepository	PRIDE
AnnounceDate	2023-03-24
AnnouncementXML	Submission_2023-03-24_04:05:02.775.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	MatthiasTrost
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: Dysgonomonas gadei; NCBI TaxID: 156974;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-02-09 01:26:21	ID requested
⏵ 1	2023-03-24 04:05:03	announced

Dataset with its publication pending

submitter keyword: carbohydrate-active enzymes (CAZymes)

glycoside hydrolase (GH)

tuberculosis(TB)

GH172

DUF4185

MatthiasTrost
contact affiliation	Biosciences Institute, Newcastle University, Newcastle, UK
contact email	matthias.trost@ncl.ac.uk
lab head
MatthiasTrost
contact affiliation	Newcastle University
contact email	matthias.trost@ncl.ac.uk
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/2023/03/PXD039984

PRIDE project URI

• PRIDE
  1. PXD039984
     1. Label: PRIDE project
     2. Name: Mining the human gut microbiome identifies mycobacterial D-arabinan degrading enzymes