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Competition experiments in a soil microcosm reveal the impact of genetic and biotic factors on natural yeast populations.

ABSTRACT: The ability to measure microbial fitness directly in natural conditions and in interaction with other microbes is a challenge that needs to be overcome if we want to gain a better understanding of microbial fitness determinants in nature. Here we investigate the influence of the natural microbial community on the relative fitness of the North American populations SpB, SpC and SpC* of the wild yeast Saccharomyces paradoxus using DNA barcodes and a soil microcosm derived from soil associated with oak trees. We find that variation in fitness among these genetically distinct groups is influenced by the microbial community. Altering the microbial community load and diversity with an irradiation treatment significantly diminishes the magnitude of fitness differences among populations. Our findings suggest that microbial interactions could affect the evolution of yeast lineages in nature by modulating variation in fitness.

SUBMITTER: Bleuven C

PROVIDER: S-EPMC7242384 | biostudies-literature | 2020 Jun

REPOSITORIES: biostudies-literature

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Competition experiments in a soil microcosm reveal the impact of genetic and biotic factors on natural yeast populations.

Bleuven Clara C Nguyen Guillaume Q GQ Després Philippe C PC Filteau Marie M Landry Christian R CR

The ISME journal 20200220 6

The ability to measure microbial fitness directly in natural conditions and in interaction with other microbes is a challenge that needs to be overcome if we want to gain a better understanding of microbial fitness determinants in nature. Here we investigate the influence of the natural microbial community on the relative fitness of the North American populations SpB, SpC and SpC* of the wild yeast Saccharomyces paradoxus using DNA barcodes and a soil microcosm derived from soil associated with ...[more]

PMID: 32080356

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Project description:Exploring the assembly mechanism of microbiota is critical for understanding soil ecosystem functions. However, the relative importance of different biotic and abiotic factors in determining the bacterial community has not been properly clarified. In this study, the effects of inocula and recipients on the assembly of the soil community were investigated to evaluate their importance by inoculation experiments with sterile soil. Two distinct soils, conventional nitrogen-fertilized soil and aromatic-compound-contaminated soil, were sterilized, cross inoculated, and incubated for 2 months under different inoculation doses and oxygen conditions. The results showed that the greatest variation in community structure emerged in the samples inoculated with distinct inocula rather than in the samples of different soil recipients. The phylogenies in the two inocula were diverse and dissimilar, although there were many ecologically equivalent bacteria. When the inocula with dissimilar ecologically equivalent species were used, the assembled communities were primarily determined by the inocula as indicated by the beta diversity and variation partitioning analyses. In contrast, environmental selection dominated the process when ecologically equivalent species in the inocula were similar, as when only one type of inoculum was used, where the soil habitat selected the most adaptive bacteria from the defined inoculum pool. These results indicate that inoculated bacteria are dominant over environmental selection if they are sufficiently dissimilar, although the effect of environmental selection is more obvious when similar bacteria are inoculated in the soil for community assembly. Our findings suggest that the immigration of exotic bacteria could be a primary factor impacting community assembly.IMPORTANCE The soil microbiota conducts important biological ecosystem functions, but the mechanism underlying community-environment interactions for soil microbiota remains unclear. By using two distinct soils for cross inoculation, we successfully simulated the assembly of the bacterial community in sterile soil. Thus, the reasons why inoculum and recipient have dominated community assembly in previous investigations are investigated in this study. We found that inoculated bacteria presided over environmental selection for community assembly due to the varied difference of ecological equivalent bacteria, either divergent or convergent. The significance of neutrality for the ecologically equivalent bacterial species that immigrated into the recipients should be emphasized in exploring the mechanisms of community assembly. Our finding is helpful for understanding the community-environment interaction, a basic question in ecology, and it would shed light on this issue that has perplexed scientists for many years.

Project description:Background and aimsGrowing evidence suggests that the net effect of soil microbes on plants depends on both abiotic and biotic conditions, but the context-dependency of soil feedback effects remains poorly understood. Here we test for interactions between the presence of conspecific soil microbes, plant competition and light availability on tree seedling performance.MethodsSeedlings of two congeneric tropical tree species, Bauhinia brachycarpa and Bauhinia variegata, were grown in either sterilized soil or soil conditioned by conspecific soil microorganisms in a two-phase greenhouse feedback experiment. We examined the interactive effects of soil treatment (live, sterilized), light availability (low, high) and plant competition (no competition, intraspecific and interspecific competition) on tree seedling biomass. We also investigated the linkages between the outcomes of soil feedback effects and soil microbial community structure.Key resultsThe outcomes of soil feedback effects on seedling biomass varied depending on both competition treatment and light availability. Under low light conditions, soil feedback effects were neutral irrespective of competition treatment and plant species. Soil feedback effects were negative in high light for seedlings with interspecific competition, but positive for seedlings growing alone or with intraspecific competition. Soil feedback effects for seedlings were driven by variation in the Gram-positive:Gram-negative bacteria ratio. Light and conspecific soil microbes had interactive effects on the competitive environment experienced by tree species; in low light the presence of conspecific soil microbes decreased plant competition intensity, whereas in high light both the intensity and the importance of competition increased for seedlings in the presence of soil microbes, irrespective of plant species.ConclusionsOur findings underline the importance of light and plant competition for the outcomes of soil feedback effects on young tree seedlings, and suggest that reduced light availability may reduce the influence of conspecific soil microbes on plant-plant interactions.

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Competition experiments in a soil microcosm reveal the impact of genetic and biotic factors on natural yeast populations.

Publications

Competition experiments in a soil microcosm reveal the impact of genetic and biotic factors on natural yeast populations.

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