Biology subjects

Lachnit, T.

Publications and source records attributed to Lachnit, T..

7 recordsLinked to original sources

bioRxiv2026

Microbial genome functions explain metabolite-driven dysbiosis and Pseudomonas-associated ammonium toxicity in Hydra

Host-associated microbiomes are typically maintained in stable configurations that support host fitness, yet the mechanisms by which metabolic perturbations destabilize these communities remain poorly understood. Using the freshwater cnidarian Hydra vulgaris AEP, we systematically assessed microbiome responses to 326 single-metabolite perturbations. Only 17 metabolites, mostly amino acid-related compounds, induced significant compositional shifts in the microbial community. Most shifts are accompanied by transitions from Curvibacter- to Pseudomonas-dominated or Legionella-dominated states, indicating the existence of three alternative community states which can be induced by metabolic triggers. Integrating 16S sequences with functional genomic information, we found that {beta}-diversity strongly predicted functional shifts, whereas reduced -diversity was associated with loss of metabolic functions. The metabolite perturbations also altered host-microbe interactions, affecting pathogenicity-, glycocalyx-, and nitrogen-related functions. In particular, nitrogen metabolism shifted from ammonia oxidation in Curvibacter-dominated communities to ammonia reduction in Pseudomonas-dominated states. Experimental validation confirmed that Pseudomonas metabolizes L-arginine and drives environmental ammonia accumulation to levels that could impair Hydras fitness and induce disease phenotypes. Conversely, Limnobacter was found to scavenge the environmental ammonia, potentially mitigating the adverse effects. These results demonstrate that metabolite-driven niche reconfiguration can destabilize host-associated microbiomes by coupling compositional shifts to functional change and host pathology, identifying metabolite-driven niche restructuring as a mechanism linking microbial community instability to host dysfunction.

microbiology↗

bioRxiv2024

Nutrition induced changes in the microbiota can cause dysbiosis and disease development

The increasing global prevalence of inflammatory and autoimmune diseases highlights the need to understand their origins. The overfeeding hypothesis suggests that disturbances in the microbiota due to diet may initiate these diseases. Using the model organism Hydra, we established a causal link between environmental alterations in the microbiota and disease development. Relocating Hydra to natural lakes caused significant microbial shifts due to new colonizers and nutrients. Nutrient manipulation removed the competitive advantage of the well-adapted resident microbiota, disrupted its nutrient-blocking capacity and triggered specific microbiota changes leading to disease. L-arginine supplementation alone transformed Pseudomonas from a commensal microbe into a pathogen, showing pathogenicity as context-dependent. Our findings support the overfeeding hypothesis, highlighting the role of microbial and nutrient dynamics in disease development.

microbiology↗

bioRxiv2023

Microbes as part of ancestral neuronal circuits: Bacterial produced signals affect neurons controlling eating behavior in Hydra

Although recent studies indicate the impact of microbes on the central nervous systems and behavior, it remains unclear how the relationship between the functionality of the nervous system, behavior and the microbiota arise. We studied the eating behavior of Hydra, a host that has a simple nervous system and a low-complexity microbiota. To identify the neuronal subpopulations involved, we used a subpopulation specific cell ablation system and calcium imaging. The role of the microbiota was uncovered by reducing the diversity of the natural microbiota. Here, we demonstrate that different neuronal subpopulations are functioning together to control the eating behavior. The microbiota participates in control of the eating behavior since germ-free or mono-colonized animals have drastic difficulties in mouth opening. This was restored by adding a full complement of the microbiota. In summary, we provide a mechanistic explanation of how the eating behavior is controlled in Hydra and how microbes can affect the neuronal circuit. Highlights- Multiple neuronal modules and their networks control complex behavior in an animal lacking a central nervous system. - Its associated microbes participate in these neuronal circuits and influence the eating behavior. - Disorganization of the microbiota negatively impacts this eating behavior. - Glutamate participates in an evolutionary ancient interkingdom language.

animal behavior and cognition↗

bioRxiv2021

Impact of antibiotic perturbation on intestinal viral communities in mice

Viruses and bacteriophages have a strong impact on intestinal barrier function and the composition and functional properties of commensal bacterial communities. To improve our understanding of the role of the enteric intestinal virome, we longitudinally characterized the virome in fecal samples from wild-type (WT) C57BL/6J and knock-out (KO) NOD2 mice in response to an antibiotic perturbation. Sequencing of viral-like-particles (VLPs) demonstrated both a high diversity and high inter-individual variation of the murine gut virome composed of eukaryotic viruses and bacteriophages. Antibiotics also had a significant impact on the gut murine virome causing a delayed resilience independent of genotype. However, compositional shifts in the virome and bacteriome were highly correlated, suggesting that the loss of specific phages may contribute to a dysregulation of the bacterial community composition. Bacteriophage species may be playing an important role in either upregulating or downregulating the bacterial community, and restoring a healthy virome may therefore be a central goal of microbiota-targeted therapies.

microbiology↗

bioRxiv2019

A symbiont phage protein aids in eukaryote immune evasion

Phages are increasingly recognized as important members of host associated microbial communities. While recent studies have revealed vast genomic diversity in the virosphere, the new frontier is to understand how newly discovered phages may affect higher order processes, such as in the context of host-microbe interactions. Here, we aim to understand the tripartite interplay between phages, bacterial symbionts and marine sponges. In a viromics approach, we discover 491 novel viral clusters and show that sponges, as filter-feeding organisms, are distinct viral niches. By using a nested sampling design, we show that each sponge individual of the four species investigated harbours its own unique virome, regardless of the tissue investigated. We further discover a novel, symbiont phage-encoded ankyrin domain-containing protein which appears to be widely spread in phages of many host-associated contexts including human. The ankyrin protein (ANKp) modulates the eukaryotic immune response against bacteria as confirmed in macrophage infection assays. We predict that the role of ANKp in nature is to facilitate co-existence in the tripartite interplay between phages, symbionts and sponges and possibly in many other host-microbe associations.

microbiology↗

bioRxiv2019

The neglected part of the microbiome: Prophage TJ1 regulates the bacterial community of the metaorganism Hydra

Many multicellular organisms are closely associated with a specific bacterial community and therefore considered \"metaorganisms\". Controlling the bacterial community composition is essential for the stability and function of metaorganisms, but the factors contributing to the maintenance of host specific bacterial colonization are poorly understood. Here we demonstrate that in Hydra the most dominant bacterial colonizer Curvibacter sp. is associated with an intact prophage which can be induced by different environmental stressors both in vitro and in vivo. Differences in the induction capacity of Curvibacter phage TJ1 in culture (in vitro) and on Hydra (in vivo) imply that the habitat of the prokaryotic host and/or bacterial frequency dependent factors influence phage inducibility. Moreover, we show that phage TJ1 features a broad host range against other bacterial colonizer and is directly capable to affect bacterial colonization on Hydra. From these results we conclude that prophages are hidden part of the microbiome interfering with bacteria-bacteria interactions and have the potential to influence the composition of host associated bacterial communities.

microbiology↗

bioRxiv2017

Temperate phages as frequency-dependent weapons in bacterial competition

Microbial communities are accompanied by a diverse array of viruses. Through infections of abundant microbes, these viruses have the potential to mediate competition within the community, effectively weakening competitive interactions and promoting coexistence. This is of particular relevance for host-associated microbial communities, since the diversity of the microbiota has been linked to host health and functioning. Here, we study the interaction between two key members of the microbiota of the freshwater metazoan Hydra vulgaris. The two commensal bacteria Curvibacter sp. and Duganella sp. protect their host from fungal infections, but only if both of them are present. Coexistence of the two bacteria is thus beneficial for Hydra. Intriguingly, Duganella sp. appears to be the superior competitor in vitro due to its higher growth rate when both bacteria are grown seperately, but in coculture the outcome of competition depends on the relative initial abundances of the two species. The presence of an inducible prophage in the Curvibacter sp. genome which is able to lytically infect Duganella sp., led us to hypothesise that the phage modulates the interaction between these two key members of the Hydra microbiota. Using a mathematical model we show that the interplay of the lysogenic life-cycle of the Curvibacter phage and the lytic life-cycle on Duganella sp. can explain the observed complex competitive interaction between the two bacteria. Our results highlight the importance of taking lysogeny into account for understanding microbe-virus interactions and show the complex role phages can play in promoting coexistence of their bacterial hosts.

microbiology↗