Biology subjects

Lehmann, A.

Publications and source records attributed to Lehmann, A..

24 records · Page 2Linked to original sources

bioRxiv2020

Microplastics have shape- and polymer-dependent effects on soil processes

Microplastics are a diverse and ubiquitous contaminant, a global change driver with potential to alter ecosystem properties and processes. Microplastic-induced effects in soils are manifold as microplastics differ in a variety of properties among which the shape is of special interest. Microplastic shapes can resemble natural forms or be dissimilar from natural objects. Our knowledge is limited regarding the impact of various microplastic shapes on soil processes. Therefore, we conducted this two-part research comprising a meta-analysis on published literature and a lab experiment focusing on microplastic shapes- and polymer-induced effects on soil aggregation and organic matter decomposition. We here focus on fibers, films, foams and fragments as microplastic shapes. In the meta-analysis, we revealed a strong research focus on fibrous and particulate microplastic materials, with films and foams neglected. Our experiment showed that microplastic shapes are important modulators of responses in soil aggregation and organic matter decomposition. Fibers, irrespective of their chemistry, negatively affected the formation of aggregates. This supported the shape dissimilarity hypothesis. However, for other shapes like foams and fragments, the polymer identity is clearly an important factor co-modulating the soil responses. Further research is needed to generate a data-driven foundation to build on our developing mechanistic understanding of the importance and consequences of microplastic shapes added to our soils.

ecology↗

bioRxiv2020

Protein domain-based structural interfaces help interpret biologically-relevant interactions in the human interaction network.

A high-quality map of the human protein-protein interaction (PPI) network can help us better understand complex genotype-phenotype relationships. Each edge between two interacting proteins supported through an interface in a three-dimensional (3D) structure of a protein complex adds credibility to the biological relevance of the interaction. Such structure-supported interactions would augment an interaction map primarily built using high-throughput cell-based biophysical methods. Here, we integrate structural information with the human PPI network to build the structure-supported human interactome, a subnetwork of PPI between proteins that contain domains or regions known to form interfaces in the 3D structures of protein complexes. We expand the coverage of our structure-supported human interactome by using Pfam-based domain definitions, whereby we include homologous interactions if a human complex structure is unavailable. The structure-supported interactome predicts one-eighth of the total network PPI to interact through domain-domain interfaces. It identifies with higher resolution the interacting subunits in multi-protein complexes and enables us to characterize functional and disease-relevant neighborhoods in the network map with higher accuracy, allowing for structural insights into disease-associated genes and pathways. We expand the structural coverage beyond domain-domain interfaces by identifying the most common non-enzymatic peptide-binding domains with structural support. Adding these interactions between protein domains on one side and peptide regions on the other approximately doubles the number of structure-supported PPI. The human structure-supported interactome is a resource to prioritize investigations of smaller-scale context-specific experimental PPI neighborhoods of biological or clinical significance. Short abstractA high-quality map of the human protein-protein interaction (PPI) network can help us better understand genotype-phenotype relationships. Each edge between two interacting proteins supported through an interface in a three-dimensional structure of a protein complex adds credibility to the biological relevance of the interaction aiding experimental prioritization. Here, we integrate structural information with the human interactome to build the structure-supported human interactome, a subnetwork of PPI between proteins that contain domains or regions known to form interfaces in the structures of protein complexes. The structure-supported interactome predicts one-eighth of the total PPI to interact through domain-domain interfaces. It identifies with higher resolution the interacting subunits in multi-protein complexes and enables us to structurally characterize functional, disease-relevant network neighborhoods. We also expand the structural coverage by identifying PPI between non-enzymatic peptide-binding domains on one side and peptide regions on the other, thereby doubling the number of structure-supported PPI.

systems biology↗

bioRxiv2019

Fungal traits important for soil aggregation

Soil health and sustainability is essential for ecosystem functioning and human well-being. Soil structure, the complex arrangement of soil into aggregates and pore spaces, is a key feature of soils under the influence of soil life. Soil biota, and among them filamentous saprobic fungi, have well-documented effects on soil aggregation. However, it is unclear what fungal properties, or traits, contribute to the overall positive effect on soil aggregation. So far, we lack a systematic investigation of a broad suite of fungal species for their trait expression and the relation of these traits to their soil aggregation capability.\n\nHere, we apply a trait-based approach to a set of 15 traits measured under standardized conditions on 31 fungal strains including Ascomycota, Basidiomycota and Mucoromycota, all isolated from the same soil.\n\nWe found a spectrum of soil aggregate formation capability ranging from neutral to positive and large differences in trait expression among strains. We identified biomass density (positive effects), leucine aminopeptidase activity (negative effects) and phylogeny as important modulators of fungal aggregate formation capability. Our results point to a typical suite of traits characterizing fungi that are good soil aggregators; this could inform screening for fungi to be used in biotechnological applications, and illustrates the power of employing a trait-based approach to unravel biological mechanisms of soil aggregation, which could now be extended to other organism groups.

ecology↗

bioRxiv2019

Binaural Beats through the auditory pathway: from brainstem to connectivity patterns

Binaural beating is a perceptual auditory illusion occurring when presenting two neighboring frequencies to each ear separately. Binaural beats have been attributed to several controversial claims regarding their ability to modulate brain activity and mood, in both the scientific literature and the marketing realm. Here, we sought to address those questions in a robust fashion using a single-blind, sham-controlled protocol. To do so, we characterized responses to theta and gamma binaural beats and \"sham\" stimulation (monaural beats) across four distinct levels: subcortical and cortical entrainment, scalp-level Functional Connectivity and self-reports. Both stimuli elicited standard subcortical responses at the pure tone frequencies of the stimulus (i.e., Frequency Following Response), and entrained the cortex at the beat frequency (i.e., Auditory Steady State Response). Furthermore, Functional Connectivity patterns were modulated differentially by both kinds of stimuli, with binaural beats being the only one eliciting cross-frequency activity. Despite this, we did not find any mood modulation related to our experimental manipulation. Our results provide evidence that binaural beats elicit cross frequency connectivity patterns, but weakly entrain the cortex when compared to a sham stimulus. Whether these patterns have an impact in cognitive performance or other mood measurements remains to be seen.\n\nSignificance StatementBinaural beats have been a source of speculation and debate in the scientific community. Our study addresses pseudo-scientific marketing claims and approaches them using proper experimental control and state-of-the-art signal processing techniques. Here we show that binaural beats can both entrain the cortex and elicit specific connectivity patterns. Regardless of this, our sham condition was able to entrain the cortex more strongly, and both binaural beats and the sham condition failed to regulate mood. All in all, though binaural beats weakly entrain cortical activity and elicit complex patterns of connectivity, the functional significance (if any) of these patterns remains an open question.

neuroscience↗

bioRxiv2018

How to build a mycelium: tradeoffs in fungal architectural traits

The fungal mycelium represents the essence of the fungal lifestyle, and understanding how a mycelium is constructed is of fundamental importance in fungal biology and ecology. Previous studies have examined initial developmental patterns or focused on a few strains, often mutants of model species, and frequently grown under non-harmonized growth conditions; these factors currently collectively hamper systematic insights into rules of mycelium architecture. To address this, we here use a broader suite of fungi (31 species including members of the Ascomycota, Basidiomycota and Mucoromycotina), all isolated from the same soil, and test for ten architectural traits under standardized laboratory conditions.\n\nWe find great variability in traits among the saprobic fungal species, and detect several clear tradeoffs in mycelial architecture, for example between internodal length and hyphal diameter. Within the constraints so identified, we document otherwise great versatility in mycelium architecture in this set of fungi, and there was no evidence of trait syndromes as might be expected.\n\nOur results point to an important dimension of fungal properties with likely consequences for coexistence within local communities, as well as for functional complementarity (e.g. decomposition, soil aggregation).

ecology↗

bioRxiv2018

Growth rate trades off with enzymatic investment in soil filamentous fungi

Saprobic soil fungi drive many important ecosystem processes, including decomposition, and many of their effects are related to growth rate and enzymatic ability. In mycology, there has long been the implicit assumption of trade-off between growth and enzymatic investment, which we here test. Using a set of 31 filamentous fungi isolated from the same ecosystem, we measured growth rate (as colony radial extension) and enzymatic repertoire (activities of four enzymes: laccase, cellobiohydrolase, leucine aminopeptidase and acid phosphatase). Our results support the existence of a trade-off, however only for the enzymes representing a larger metabolic cost (laccase and cellobiohydrolase). Our study offers new insights into functional complementarity within the soil fungal community in a number of ecosystem processes, and experimentally supports an enzymatic investment/ growth rate tradeoff in explaining phenomena including substrate succession.

ecology↗