Blasche2021 - Metabolic cooperation and spatiotemporal niche partitioning in a kefir microbial community

  public model
Model Identifier
MODEL2204300001
Short description
Model of a microbial species involved in the kefir community. The model has been generated with the tool CarveMe.
Format
SBML (L3V1)
Related Publication
  • Metabolic cooperation and spatiotemporal niche partitioning in a kefir microbial community.
  • Blasche S, Kim Y, Yongkyu Kim, Mars RAT, Machado D, Maansson M, Eleni Kafkia, Milanese A, Zeller G, Teusink B, Nielsen J, Benes V, Neves R, Sauer U, Patil KR
  • Nature microbiology , 2/ 2021 , Volume 6 , Issue 2 , pages: 196-208 , PubMed ID: 33398099
  • European Molecular Biology Laboratory, Heidelberg, Germany.
  • Microbial communities often undergo intricate compositional changes yet also maintain stable coexistence of diverse species. The mechanisms underlying long-term coexistence remain unclear as system-wide studies have been largely limited to engineered communities, ex situ adapted cultures or synthetic assemblies. Here, we show how kefir, a natural milk-fermenting community of prokaryotes (predominantly lactic and acetic acid bacteria) and yeasts (family Saccharomycetaceae), realizes stable coexistence through spatiotemporal orchestration of species and metabolite dynamics. During milk fermentation, kefir grains (a polysaccharide matrix synthesized by kefir microorganisms) grow in mass but remain unchanged in composition. In contrast, the milk is colonized in a sequential manner in which early members open the niche for the followers by making available metabolites such as amino acids and lactate. Through metabolomics, transcriptomics and large-scale mapping of inter-species interactions, we show how microorganisms poorly suited for milk survive in-and even dominate-the community, through metabolic cooperation and uneven partitioning between grain and milk. Overall, our findings reveal how inter-species interactions partitioned in space and time lead to stable coexistence.
Contributors
Submitter of the first revision: Arianna Basile
Submitter of this revision: Tung Nguyen
Curators: Arianna Basile
Modellers:
Others: Tung Nguyen

Metadata information


Curation status
Non-curated

Modelling approach(es)

Tags

Connected external resources

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Name Description Size Actions

Model files

keir_bacterium_1.xml Microbial reconstruction of a species from kefir community 2.97 MB Preview | Download

Additional files

kefir_bacterium_1.omex FROG report 246.10 KB Preview | Download

  • Model originally submitted by : Arianna Basile
  • Submitted: May 9, 2022 2:06:17 PM
  • Last Modified: May 9, 2022 2:06:17 PM
Revisions
  • Version: 3 public model Download this version
    • Submitted on: May 9, 2022 2:06:17 PM
    • Submitted by: Tung Nguyen
    • With comment: Updated the model name and modeling approach