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Niche partitioning facilitates coexistence of closely related honey bee gut bacteria.

ABSTRACT: Ecological processes underlying bacterial coexistence in the gut are not well understood. Here, we disentangled the effect of the host and the diet on the coexistence of four closely related Lactobacillus species colonizing the honey bee gut. We serially passaged the four species through gnotobiotic bees and in liquid cultures in the presence of either pollen (bee diet) or simple sugars. Although the four species engaged in negative interactions, they were able to stably coexist, both in vivo and in vitro. However, coexistence was only possible in the presence of pollen, and not in simple sugars, independent of the environment. Using metatranscriptomics and metabolomics, we found that the four species utilize different pollen-derived carbohydrate substrates indicating resource partitioning as the basis of coexistence. Our results show that despite longstanding host association, gut bacterial interactions can be recapitulated in vitro providing insights about bacterial coexistence when combined with in vivo experiments.

SUBMITTER: Brochet S

PROVIDER: S-EPMC8456714 | biostudies-literature | 2021 Jul

REPOSITORIES: biostudies-literature

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Niche partitioning facilitates coexistence of closely related honey bee gut bacteria.

Brochet Silvia S Quinn Andrew A Mars Ruben A T RAT Neuschwander Nicolas N Sauer Uwe U Engel Philipp P

eLife 20210719

Ecological processes underlying bacterial coexistence in the gut are not well understood. Here, we disentangled the effect of the host and the diet on the coexistence of four closely related <i>Lactobacillus</i> species colonizing the honey bee gut. We serially passaged the four species through gnotobiotic bees and in liquid cultures in the presence of either pollen (bee diet) or simple sugars. Although the four species engaged in negative interactions, they were able to stably coexist, both in ...[more]

PMID: 34279218

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Project description:IntroductionThe functional relevance of intra-species diversity in natural microbial communities remains largely unexplored. The guts of two closely related honey bee species, Apis cerana and A. mellifera, are colonised by a similar set of core bacterial species composed of host-specific strains, thereby providing a good model for an intra-species diversity study.ObjectivesWe aim to assess the functional relevance of intra-species diversity of A. cerana and A. mellifera gut microbiota.MethodsHoney bee workers were collected from four regions of China. Their gut microbiomes were investigated by shotgun metagenomic sequencing, and the bacterial compositions were compared at the species level. A cross-species colonisation assay was conducted, with the gut metabolomes being characterised by LC-MS/MS.ResultsComparative analysis showed that the strain composition of the core bacterial species was host-specific. These core bacterial species presented distinctive functional profiles between the hosts. However, the overall functional profiles of the A. cerana and A. mellifera gut microbiomes were similar; this was further supported by the consistency of the honey bees' gut metabolome, as the gut microbiota of different honey bee species showed rather similar metabolic profiles in the cross-species colonisation assay. Moreover, this experiment also demonstrated that the gut microbiota of A. cerana and A. mellifera could cross colonise between the two honey bee species.ConclusionOur findings revealed functional differences in most core gut bacteria between the guts of A. cerana and A. mellifera, which may be associated with their inter-species diversity. However, the functional profiles of the overall gut microbiomes between the two honey bee species converge, probably as a result of the overlapping ecological niches of the two species. Our findings provide critical insights into the evolution and functional roles of the mutualistic microbiota of honey bees and reveal that functional redundancy could stabilise the gene content diversity at the strain-level within the gut community.

Project description:Virtually all natural community assemblages are dominated by a handful of common species. Dominant species can exert negative impacts on biodiversity through competitive exclusion, and thus there is a strong incentive to understand imbalances in community composition, changes in dominance hierarchies through time, and mechanisms of coexistence. Pond-breeding amphibians that utilize ephemeral wetlands provide an excellent opportunity to evaluate theoretical predictions of community composition in stochastic environments. One of the most striking features of pond-breeding amphibians is the marked stochastic fluctuations in abundance across years. Given strong theoretical and empirical links between evenness and biomass, one would expect community evenness to change from year to year. Moreover, if different species exhibit different boom-and-bust reproductive cycles, then a storage effect may help to explain why one species does not outcompete all others. Here, we explore the interplay between biotic and abiotic conditions in shaping amphibian communities at two ephemeral wetlands on Eglin Air Force Base, Florida. We document consistent community composition over 6 years of monitoring, resulting from a lack of species turnover and similar responses of all community members to environmental conditions. The similar dynamics of species argues against a storage effect as the sole mechanism for coexistence and instead points to niche partitioning as a more important factor. In support of this conclusion, we show that the degree of synchrony in breeding migrations only correlates with environmental conditions within species, not between species. The lack of pattern seen between species implies that individuals are somewhat constrained in the timing of breeding migrations, perhaps owing in part to competition with other community members. We hope that our work reinvigorates interest in amphibian communities and highlights ephemeral wetlands as model systems to study community dynamics in stochastic environments.

Dataset Information

Niche partitioning facilitates coexistence of closely related honey bee gut bacteria.

Publications

Niche partitioning facilitates coexistence of closely related honey bee gut bacteria.

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