https://doi.org/10.25678/0008TQ

Data for: Minorities drive growth resumption in cross-feeding microbial communities

Microbial communities are fundamental to life on Earth. Different strains within these communities are often connected by a highly connected metabolic network, where the growth of one strain depends on the metabolic activities of other community members. While distributed metabolic functions allow microbes to reduce costs and optimize metabolic pathways, they make them metabolically dependent. Here, we hypothesize that such dependencies can be detrimental in situations where the external conditions change rapidly, as they often do in natural environments. After a shift in external conditions, microbes need to remodel their metabolism, but they can only resume growth once partners on which they depend have also adapted to the new conditions. It is currently not well understood how microbial communities resolve this dilemma and how metabolic interactions are re-established after an environmental shift. To address this question, we investigated the dynamical responses to environmental perturbation by microbial consortia with distributed anabolic functions. By measuring the regrowth times at the single-cell level in spatially structured communities, we found that metabolic dependencies lead to a growth delay after an environmental shift. However, a minority of cells – those in the immediate neighborhood of their metabolic partners – can regrow quickly and comes to numerically dominate the community after the shift. The spatial arrangement of a microbial community is thus a key factor in determining the communities’ ability to maintain metabolic interactions and growth in fluctuating conditions. Our results suggest that environmental fluctuations can limit the emergence of metabolic dependencies between microorganisms.

Data and Resources

Citation

Micali, G., Hockenberry, A., Dal Co, A., & Ackermann, M. (2023). Data for: Minorities drive growth resumption in cross-feeding microbial communities (Version 1.0). Eawag: Swiss Federal Institute of Aquatic Science and Technology. https://doi.org/10.25678/0008TQ

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Metadata

Publication Data Package for:

https://doi.org/10.1073/pnas.2301398120

Open Data

Author(s)	Micali, Gabriele Hockenberry, Alyson Dal Co, Alma Ackermann, Martin
Keywords	distributed anabolic functions,fluctuating environments,spatio-temporal scales in ecology,single-cell dynamics,minorities-driven growth,cross-feeding microbial communities
Substances (scientific names)	glucose (InChI=1S/C6H12O6/c7-1-3(9)5(11)6(12)4(10)2-8/h1,3-6,8-12H,2H2/t3-,4+,5+,6+/m0/s1), methionine (InChI=1S/C5H11NO2S/c1-9-3-2-4(6)5(7)8/h4H,2-3,6H2,1H3,(H,7,8)), isoleucine (InChI=1S/C6H13NO2/c1-3-4(2)5(7)6(8)9/h4-5H,3,7H2,1-2H3,(H,8,9)/t4-,5+/m0/s1)
Substances (generic terms)	nutrients, sugars, amino acids
Taxa (scientific names)	Escherichia coli K-12 MG1655
Organisms (generic terms)	bacteria
Systems	lab, microfluidic chamber
Timerange	*
Review Level	general
Curator	Schubert, Olga
Contact	Ackermann, Martin <Martin.Ackermann@eawag.ch>
DOI	10.25678/0008TQ