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bioRxiv · 10.1101/2025.01.23.634601

Microbial cross-feeding is stabilized when a dependent mutant is segregated from its independent ancestor

Schakel, O. F.·Fritts, R. K.·Zmuda, A. J.·Setayeshgar, S.·McKinlay, J. B.
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Abstract

Microbial gene loss is hypothesized to be beneficial when gene function is costly, and the gene product can be replaced via cross-feeding from a neighbor. However, cross-fed metabolites are often only available at low concentrations, limiting the growth rates of gene-loss mutants that are dependent on those metabolites. Here we define conditions that support a loss of function mutant in a three-member bacterial community of: (i) N2-utilizing Rhodopseudomonas palustris as an NH4+ -excreting producer, (ii) N2-utilizing Vibrio natriegens as the ancestor, and (iii) a V. natriegens N2-utilizaton mutant that is dependent on the producer for NH4+. Using experimental and simulated cocultures, we found that the ancestor outcompeted the mutant due to low NH4+ availability under uniform conditions where both V. natriegens strains have equal access to nutrients. However, spatial structuring that separated the mutant from the ancestor, while maintaining access to NH4+ from the producer, allowed the mutant to avoid extinction. Counter to predictions, mutant enrichment under spatially structured conditions did not require a growth rate advantage from gene loss and the mutant coexisted with its ancestor. Thus, cross-feeding can originate from loss-of-function mutations that are otherwise detrimental, provided that the mutant can segregate from a competitive ancestor. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=118 SRC="FIGDIR/small/634601v1_ufig1.gif" ALT="Figure 1"> View larger version (25K): org.highwire.dtl.DTLVardef@1140808org.highwire.dtl.DTLVardef@1b72e8org.highwire.dtl.DTLVardef@14f70borg.highwire.dtl.DTLVardef@6707bb_HPS_FORMAT_FIGEXP M_FIG C_FIG

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Schakel, O. F., Fritts, R. K., Zmuda, A. J., Setayeshgar, S., McKinlay, J. B.. 2025-01-24. Microbial cross-feeding is stabilized when a dependent mutant is segregated from its independent ancestor. https://doi.org/10.1101/2025.01.23.634601

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