https://doi.org/10.25678/0006RZ

Data for: Initial community composition determines the long-term dynamics of a microbial cross-feeding interaction by modulating niche availability

Multi-step substrate consumption pathways can promote microbial biodiversity via cross-feeding. If one cell-type preferentially consumes a primary substrate rather than the subsequently formed intermediates, then other cell-types can specialize at consuming the intermediates. While this mechanism for promoting biodiversity is established, predicting the long-term persistence of such cross-feeding interactions remains challenging. Under what conditions will the interaction (and thus biodiversity) persist or disappear? To address this question, we propagated co-cultures of two isogenic strains of the bacterium Pseudomonas stutzeri. One completely reduces nitrate to nitrogen gas but preferentially reduces nitrate rather than nitrite (referred to as the generalist) while the other only reduces nitrite to nitrogen gas (referred to as the specialist). We found that the two strains coexist via nitrite cross-feeding when grown together, but the initial ratio of specialist-to-generalist (rS/G) determines the long-term dynamics of the co-culture. Co-cultures with large initial rS/Gs converge to the same rS/G and persist thereafter. Co-cultures with small initial rS/Gs also converge to the same rS/G but then become increasingly dominated by the generalist. The likely cause of these different dynamics is that the initial rS/G determines the initial environment, which in turn determines the initial selection pressures and phenotypes acquired by the generalist. Our results demonstrate that initial community composition controls the long-term dynamics and persistence of a cross-feeding interaction, and is therefore an important factor for community development and for engineering communities to achieve desired outcomes.

Data and Resources

Citation

This Data Package

Dolinsek, J., Ramoneda, J., & Johnson, D. (2022). Data for: Initial community composition determines the long-term dynamics of a microbial cross-feeding interaction by modulating niche availability (Version 1.0) [Data set]. Eawag: Swiss Federal Institute of Aquatic Science and Technology. https://doi.org/10.25678/0006RZ

The associated article

Dolinšek, J., Ramoneda, J., & Johnson, D. R. (2022). Initial community composition determines the long-term dynamics of a microbial cross-feeding interaction by modulating niche availability. ISME Communications, 2(1). https://doi.org/10.1038/s43705-022-00160-1

Metadata

  Publication Data Package for:
Open Data Open Data
Long-term data Long-term data
Author(s)
  • Dolinsek, Jan
  • Ramoneda, Josep
  • Johnson, David
Keywords Cross-feeding,coexistence,microbial interactions,community dynamics,experimental evolution,synthetic ecology,denitrification
Variables
  • bacteria_abundance
  • concentration
  • count
Substances (scientific names)
  • Nitrate (InChI=1S/NO3/c2-1(3)4/q-1)
  • Nitrite (InChI=1S/HNO2/c2-1-3/h(H,2,3)/p-1)
Substances (generic terms)
  • Nitrogen oxides
Taxa (scientific names)
  • Pseudomonas stutzeri
Organisms (generic terms)
  • bacteria
Systems
  • lab
Timerange
  • 2014 TO 2018
Review Level none
Curator Johnson, David
Contact Johnson, David <David.Johnson@eawag.ch>
DOI 10.25678/0006RZ