Blasche2021 - Kefir interactions, Rothia kefirresidentii KRP

  public model
Model Identifier
MODEL2204300002
Short description
Genome-scale metabolic model of recently isolated kefir-associated bacterial species Rothia kefirresidentii KRP. See also https://github.com/cdanielmachado/kefir_paper, https://journals.asm.org/doi/full/10.1128/genomeA.00869-17
Format
COMBINE archive (0.1)
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 , DOI: 10.1038/s41564-020-00816-5
  • 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: Francisco Zorrilla
Submitter of this revision: Francisco Zorrilla
Curators: Arianna Basile, Francisco Zorrilla
Modellers:
Others:

Metadata information


Curation status
Non-curated

Modelling approach(es)
Other

Tags

Connected external resources

Name Description Size Actions

Model files

13116abc-43ef-4e28-a528-9fac1f2167fa.omex omex file containing GEM + FROG report, generated by runfrog webtool 188.85 KB Preview | Download

  • Model originally submitted by : Francisco Zorrilla
  • Submitted: May 6, 2022 3:23:07 PM
  • Last Modified: May 6, 2022 3:23:07 PM
Revisions
  • Version: 2 public model Download this version
    • Submitted on: May 6, 2022 3:23:07 PM
    • Submitted by: Francisco Zorrilla
    • With comment: Model revised without commit message