Ankrah2021 - Genome scale metabolic model of Drosophila gut microbe Acetobacter tropicalis

  public model
Model Identifier
MODEL2002040004
Short description
An important goal for many nutrition-based microbiome studies is to identify the metabolic function of microbes in complex microbial communities and its impact on host physiology. This research can be confounded by poorly-understood effects of community composition and host diet on the metabolic traits of individual taxa. Here, we investigated these multi-way interactions by constructing and analyzing metabolic models comprising every combination of five bacterial members of the Drosophila gut microbiome (from single taxa to the five-member community of Acetobacter and Lactobacillus species) under three nutrient regimes. We show that the metabolic function of Drosophila gut bacteria is dynamic, influenced by community composition and responsive to dietary modulation. Furthermore, we show that ecological interactions such as competition and mutualism identified from the growth patterns of gut bacteria are underlain by a diversity of metabolic interactions, and show that the bacteria tend to compete for amino acids and B vitamins more frequently than for carbon sources. Our results reveal that in addition to fermentation products such as acetate, intermediates of the tricarboxylic acid (TCA) cycle including 2-oxoglutarate and succinate are produced at high flux and cross-fed between bacterial taxa suggesting important roles for TCA cycle intermediates in modulating Drosophila gut microbe interactions and the potential to influence host traits. These metabolic models provide specific predictions of the patterns of ecological and metabolic interactions among gut bacteria under different nutrient regimes, with potentially important consequences for overall community metabolic function and nutritional interactions with the host.
Format
SBML (L3V1)
Related Publication
  • The Predicted Metabolic Function of the Gut Microbiota of Drosophila melanogaster
  • Nana Y.D. Ankrah, Brandon E. Barker, Joan Song, Cindy Wu, John G. McMullen, Angela E. Douglas
  • mSystems , 4/ 2021 , DOI: 10.1101/2021.01.20.427455
  • Cornell University State University of New York at Plattsburgh
  • An important goal for many nutrition-based microbiome studies is to identify the metabolic function of microbes in complex microbial communities and its impact on host physiology. This research can be confounded by poorly-understood effects of community composition and host diet on the metabolic traits of individual taxa. Here, we investigated these multi-way interactions by constructing and analyzing metabolic models comprising every combination of five bacterial members of the Drosophila gut microbiome (from single taxa to the five-member community of Acetobacter and Lactobacillus species) under three nutrient regimes. We show that the metabolic function of Drosophila gut bacteria is dynamic, influenced by community composition and responsive to dietary modulation. Furthermore, we show that ecological interactions such as competition and mutualism identified from the growth patterns of gut bacteria are underlain by a diversity of metabolic interactions, and show that the bacteria tend to compete for amino acids and B vitamins more frequently than for carbon sources. Our results reveal that in addition to fermentation products such as acetate, intermediates of the tricarboxylic acid (TCA) cycle including 2-oxoglutarate and succinate are produced at high flux and cross-fed between bacterial taxa suggesting important roles for TCA cycle intermediates in modulating Drosophila gut microbe interactions and the potential to influence host traits. These metabolic models provide specific predictions of the patterns of ecological and metabolic interactions among gut bacteria under different nutrient regimes, with potentially important consequences for overall community metabolic function and nutritional interactions with the host.
Contributors
Nana Ankrah, Kausthubh Ramachandran

Metadata information

hasProperty
Mathematical Modelling Ontology Constraint-based model

Curation status
Non-curated

Modelling approach(es)

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Model files

AT.xml Acetobacter tropicalis (Drosophila) genome-scale metabolic model 2.83 MB Preview | Download

  • Model originally submitted by : Nana Ankrah
  • Submitted: 06-Apr-2021 15:29:31
  • Last Modified: 06-Apr-2021 15:29:31
Revisions
  • Version: 4 public model Download this version
    • Submitted on: 06-Apr-2021 15:29:31
    • Submitted by: Kausthubh Ramachandran
    • With comment: Updated submission name and short description as per the BioModels submission guidelines
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: Variable used inside SBML models


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