PXD017277

PXD017277 is an original dataset announced via ProteomeXchange.

Title	Succession of Bifidobacterium longum strains in response to a changing early life nutritional environment reveals dietary substrate adaptations
Description	Diet-microbe interactions play a crucial role in infant development and modulation of the early-life microbiota. The genus Bifidobacterium dominates the breast-fed infant gut, with strains of B. longum subsp. longum (B. longum) and B. longum subsp. infantis (B. infantis) particularly prevalent within the early-life microbiota. Although, transition from milk to a more diversified diet later in infancy initiates a shift to a more complex microbiome, with concurrent reductions in Bifidobacterium abundance, specific strains of B. longum may persist in individual hosts for prolonged periods of time. Here, we sought to investigate the adaptation of B. longum to the changing infant diet during the early-life developmental window. Genomic characterisation of 75 strains isolated from nine either exclusively breast- or formula-fed infants in the first 18 months of their lives revealed subspecies- and strain-specific intra-individual genomic diversity with respect to glycosyl hydrolase families and enzymes, which corresponded to different dietary stages. Complementary phenotypic growth studies indicated strain-specific differences in human milk oligosaccharide and plant carbohydrate utilisation profiles between and within individual infants, while proteomic profiling identified proteins involved in metabolism of selected carbohydrates. Our results indicate a strong link between infant diet and B. longum subspecies/strain genomic and carbohydrate utilisation diversity, which aligns with a changing nutritional environment i.e. moving from breast milk to a solid food diet. These data provide additional insights into possible mechanisms responsible for the competitive advantage of this bifidobacterial species and their long-term persistence in a single host and may contribute to rational development of new dietary therapies for this important development window.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:09:02.524.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sabina Leanti La Rosa
SpeciesList	scientific name: Bifidobacterium longum subsp. longum; NCBI TaxID: 1679;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue; deamidated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2020-01-24 06:27:24	ID requested
1	2020-07-15 01:04:13	announced
⏵ 2	2024-10-22 05:09:02	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: cellobiose,Bifidobacterium, 2'fucosyllactose, lactoneotetraose

Phil B. Pope
contact affiliation	Norwegian University of Life Sciences, Aas, Norway
contact email	phil.pope@nmbu.no
lab head
Sabina Leanti La Rosa
contact affiliation	Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences
contact email	sabina.leantilarosa@nmbu.no
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/2020/07/PXD017277

PRIDE project URI

• PRIDE
  1. PXD017277
     1. Label: PRIDE project
     2. Name: Succession of Bifidobacterium longum strains in response to a changing early life nutritional environment reveals dietary substrate adaptations