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BioModels MODEL2405300001 Infant Gut HMO SynCom

Community ID CommunityMech:000012
Ecological State ENGINEERED
Environment laboratory environment
ENVO:01001405

BioModels record MODEL2405300001 contains genome-scale metabolic models used to study a synthetic human infant gut microbial community in the context of human milk oligosaccharides.

Taxonomy

Taxon Ontology ID Functional Roles Abundance
Bifidobacterium longum subsp. infantis NCBITaxon:157
PRIMARY_DEGRADER
N/A
Bifidobacterium bifidum NCBITaxon:1681
PRIMARY_DEGRADER
N/A
Bifidobacterium breve NCBITaxon:1685
PRIMARY_DEGRADER
N/A
Bacteroides fragilis NCBITaxon:817
PRIMARY_DEGRADER
N/A
Bacteroides vulgatus NCBITaxon:821
PRIMARY_DEGRADER
N/A
Bacteroides ovatus NCBITaxon:28116
PRIMARY_DEGRADER
N/A
Veillonella parvula NCBITaxon:29466
CROSS_FEEDER
N/A
Ruminococcus gnavus NCBITaxon:33038
CROSS_FEEDER
N/A
Escherichia coli K-12 NCBITaxon:83333
CROSS_FEEDER
N/A
Lacticaseibacillus rhamnosus NCBITaxon:47715
CROSS_FEEDER
N/A
Enterococcus faecalis NCBITaxon:1351
CROSS_FEEDER
N/A
Streptococcus thermophilus NCBITaxon:1308
CROSS_FEEDER
N/A
Blautia producta NCBITaxon:33035
SECONDARY_FERMENTER
N/A

Ecological Interactions

Ecological interaction network for BioModels MODEL2405300001 Infant Gut HMO SynCom Bipartite graph where circle nodes represent taxa and colored rectangles represent ecological interactions (cross-feeding, mutualism, syntrophy, competition, commensalism).
Taxon
Cross-feeding
Mutualism
Syntrophy
Competition
Commensalism

Bifidobacterium HMO Degradation and Cross-Feeding

CROSS_FEEDING

Source Taxon: Bifidobacterium longum subsp. infantis

Metabolites: oligosaccharide (CHEBI:50699), organic acid (CHEBI:64709)

Evidence

  • doi:10.1093/ismejo/wrae209 - SUPPORT (IN_VITRO)
    "BIG-Syc demonstrated teamwork as cross-feeders utilized simpler carbohydrates, organic acids, and gases released from human milk oligosaccharide degraders."
  • doi:10.1093/ismejo/wrae209 - SUPPORT (IN_VITRO)
    "Bifidobacterium infantis and Bifidobacterium bifidum suppressing one another"

Cross-Feeder Utilization of HMO Degradation Products

CROSS_FEEDING

Source Taxon: Veillonella parvula

Metabolites: monosaccharide (CHEBI:35381), organic acid (CHEBI:64709)

Evidence

  • doi:10.1093/ismejo/wrae209 - SUPPORT (IN_VITRO)
    "BIG-Syc demonstrated teamwork as cross-feeders utilized simpler carbohydrates, organic acids, and gases released from human milk oligosaccharide degraders."
  • doi:10.1093/ismejo/wrae209 - SUPPORT (IN_VITRO)
    "human milk oligosaccharides prompt resource-sharing for their complete degradation while leading to a different compositional and functional profile in the community"

Bacteroides HMO Degradation

CROSS_FEEDING

Source Taxon: Bacteroides fragilis

Metabolites: oligosaccharide (CHEBI:50699)

Evidence

  • doi:10.1093/ismejo/wrae209 - SUPPORT (IN_VITRO)
    "BIG-Syc replicated key compositional, metabolic, and proteomic characteristics of the gut microbiota of infants."

Associated Datasets

Dataset Type Repository Accession
BioModels model archive
Zipped genome-scale model files submitted with MODEL2405300001. 		OTHER OTHER Gap-filled_Curated_HMO_GEMs.zip
Primary publication
Publication associated with the submitted synthetic infant gut community GEMs. 		OTHER OTHER doi:10.1093/ismejo/wrae209