PXD056548

PXD056548 is an original dataset announced via ProteomeXchange.

Title	Bifidobacterial genes upregulated by resistant starch investigated using multi-omics have orthologs in infant gut isolates
Description	Bifidobacterium species and strains are key members of the human gut microbiota, appearing soon after birth and persisting into adulthood. Resistant starch is an important dietary substrate for adult-associated bifidobacteria, where its fermentation supports host health. However, less is known about how different starch structures interact with bifidobacteria. Here we show that growth kinetics and gene expression differ depending on starch structure. Using detailed growth assays, genomics, and metabolomic analyses, bifidobacterial starch hydrolysis capabilities were closely associated with their CAZyme profiles. In one isolate of Bifidobacterium globosum, we identified a gene cluster encoding three multi-functional amylase enzymes complemented by several starch-binding modules, the genes and proteins of which were significantly upregulated in response to starch. Homologs of genes in the cluster were found in the genomes of bifidobacterial isolates from weaning infants providing insights into their role in the maturation process of the microbiota. Uncovering mechanisms of metabolic interaction between starch structures and bifidobacteria underscores the importance of this ecological function and potential health implications.
HostingRepository	PRIDE
AnnounceDate	2026-06-22
AnnouncementXML	Submission_2026-06-22_04:44:25.747.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Christina Ludwig
SpeciesList	scientific name: Bifidobacterium pseudolongum subsp. globosum DSM 20092; NCBI TaxID: NEWT:1410605; scientific name: Bacteria; NCBI TaxID: NCBITaxon:2;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2024-10-07 07:55:14	ID requested
⏵ 1	2026-06-22 04:44:26	announced

Millar ME, Abele M, Harris HC, Koev TT, Telatin A, Kiu R, Van Sinderen D, Khimyak YZ, Ludwig C, Hall LJ, Warren FJ, Bifidobacterial genes upregulated by resistant starch investigated using multi-omics have orthologs in infant gut isolates. ISME Commun, 6(1):ycag136(2026) [pubmed]

10.1093/ismeco/ycag136;

submitter keyword: resistant starch, alpha amylase,Bifidobacteria, microbiome, weaning, microbiota, CAZyme

Dr. Christina Ludwig
contact affiliation	Bavarian Center for Biomolecular Mass Spectrometry, TUM School of Life Sciences, Technical University Munich (TUM), Gregor-Mendel-Straße 4, 85354 Freising, GERMANY
contact email	tina.ludwig@tum.de
lab head
Christina Ludwig
contact affiliation	TU Munich
contact email	tina.ludwig@tum.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD056548
     1. Label: PRIDE project
     2. Name: Bifidobacterial genes upregulated by resistant starch investigated using multi-omics have orthologs in infant gut isolates