Biology subjects

Bergmann, J.

Publications and source records attributed to Bergmann, J..

At least 19 recordsLinked to original sources

bioRxiv2026

Scale matters: the arbuscular mycorrhiza - root hair trade-off from individual plants to communities

1. Plant roots employ multiple strategies to acquire soil resources, including the outgrowth of root hairs and the association with arbuscular mycorrhizal fungi (AMF). These structures represent alternative pathways to access soil resources. Evidence is derived mostly from studies within single species or multi-species experiments under controlled conditions. It remains unclear whether this trade-off holds under natural conditions and whether it manifests consistently across different scales of biological organization. 2. We analysed 81 grassland species representing grasses, forbs and legumes, sampled under heterogeneous field conditions in three regions across Germany, allowing for analyses (i) across different species (interspecific), (ii) across communities (intercommunity), (iii) within plant species (intraspecific) and (iv) within root systems of individual plants (intra-individual). Fine root traits related to AMF colonization (including scoring of fungal hyphae and arbuscules) and root hair growth (including length and incidence) were quantified. 3. Comparing plant species, we observed a strong negative correlation between mycorrhizal colonization and root hair traits, confirming previous studies working under controlled conditions. The negative relationship between root hair length and mycorrhization was also evident when comparing mean trait values at the plant community scale. Among different individuals of the same species (i.e. intraspecific scale), there was no consistent pattern of trait-trait relationship. When comparing within roots of the same plant (i.e. intra-individual scale), co-occurrence of root hairs and mycorrhiza was less likely than what would be expected by chance, with forbs showing the most consistent negative pattern. 4. Our study demonstrates that the hypothesized trade-off between AMF and root hairs is a robust pattern under field conditions at the community and interspecific scale. At the intraspecific scale, no uniform trade-off pattern can be discerned, and within single root systems the negative trade-off pattern is widespread but weak. This indicates that ecological and evolutionary constraints shape trait-trait relationships at higher scale, whereas physiological limits do not restrict trait co-occurrence at lower scales.

ecology↗

bioRxiv2026

Belowground functional traits predict population temporal stability in grasslands

Temporal stability of plant populations is a key determinant of species coexistence and ecosystem functioning, yet its trait-based explanation has remained largely aboveground. Whether root functional traits contribute to long-term population stability remains poorly understood, despite roots mediating water and nutrient acquisition. We combined 17 years of vegetation monitoring from 150 temperate grassland plots across three regions in Germany with root functional trait data for 72 common grassland species. Temporal stability was computed as coefficient of variation (CV), with lower CV indicating higher stability. We tested whether root traits predict stability, and specifically which belowground dimensions from resource acquisition/conservation or soil exploration dominate, and whether differences in land use intensity modifies these relationships. Root traits were stronger and more consistent predictors of temporal stability than the classical aboveground traits specific leaf area (SLA) and leaf dry matter content (LDMC). Higher average root diameter (AD), root hair incidence (RHI), specific root length (SRL), and root tissue density (RTD) were generally associated with higher temporal stability, although the strength of these relationships varied among regions. Land use modified selected trait and stability relationships, with the strongest shifts occurring along the mowing gradient. Increasing mowing strengthened the associations of higher RHI and RTD with temporal stability, whereas the associations of AD and root N shifted towards lower stability. Our results identify belowground functional traits as an important missing component of trait-based temporal stability research and advance our understanding of the functional strategies underlying population temporal stability in managed semi-natural grasslands.

ecology↗

bioRxiv2026

The first spectrum of spore form and function reveals constrained evolution in mycorrhizal symbiosis

Arbuscular mycorrhizal (AM) fungi form one of the oldest and most widespread obligate mutualisms on Earth, yet they must survive independently while dispersing between hosts. Spores bridge this vulnerable host-free phase, and their morphology should therefore reflect the demands of persistence, dispersal, and establishment. However, the macroevolutionary trajectories of AM spore morphology remain poorly resolved, limiting our ability to determine whether spores diversified into multiple designs or remained constrained around a common architecture. Here, we construct the first quantitative morphospace of AM fungal spores and infer macroevolutionary patterns of trait evolution. We find that AM fungal spores have diversified mainly through scaling rather than redesign. The morphospace is dominated by size, with spore dimensions and wall volume coordinated through near-isometric scaling. Shape remains predominantly near-spherical across sizes, although the largest spores allocate proportionally less material to the wall, while ornamentation and coloration form a largely independent axis of surface variation. Most species occupy a narrow region of trait space, with distantly related lineages converging on similar trait combinations. We propose that adaptive filtering and construction economy jointly maintain this architecture. Near-spherical geometry may provide an efficient solution for packaging and protecting the reserves needed to persist between hosts while minimizing investment in wall material, whereas surface traits may mediate dispersal vectors. Functionally, this architecture suggests that AM fungal spores are shaped more by persistence through time than by dispersal through wind. The AM fungal spore morphospace thus links conserved spore design to the challenge of dispersal in an obligate mutualist.

ecology↗

bioRxiv2026

Root hairs and mycorrhiza represent alternative phylogenetically conserved strategies for belowground absorptive surface maximization

O_LIPlants take up nutrients from the soil while investing in absorptive root surface or mycorrhizal partners. Root hairs - a major structure for nutrient uptake and cheap to build - increase the absorptive root surface. As such they are an important component of plant resource economics but largely neglected in root economic concepts so far. C_LIO_LIThis is mainly due to data scarcity, which we set out to overcome by measuring root-hair traits on 82 European grassland species in a greenhouse experiment. Using fluorescence and light microscopy, root-hair length and incidence was measured along with mycorrhizal colonization. C_LIO_LIWe found a phylogenetically conserved trade-off between plant investment into root hairs and mycorrhiza. A similar trade-off between root-hair incidence and mycorrhiza occurred at the intraspecific level, while patterns were heterogeneous among species. Plant species with high colonization rates showed the highest variability in root-hair incidence. C_LIO_LIWe conclude that plants vary along a gradient ranging from investment into root hairs as part of a "do-it-yourself" strategy to collaboration with mycorrhizal fungi while showing intraspecific variation in root-hair incidence. These findings demonstrate that root hairs play a fundamental role in fine-root trait variation and need to be considered when studying belowground plant economic strategies. C_LI

ecology↗

bioRxiv2026

Still standing: persistence traits capture belowground plant functions beyond resource exploration and acquisition

Belowground plant trait research has predominantly focused on trade-offs in fine root traits via the root economics space. Yet, this fine root framework captures only a fraction of the functional strategies plants employ beneath the soil surface. Here, we broaden the perspective on belowground plant functioning by integrating traits related to root system extent, clonality and bud banks, using data from the new UNDERPLOT database. This integration links measurable traits to key belowground functions: resource acquisition, spatial exploration, and persistence. Our analysis shows that the fine root economics space explains less than 5% of the variation in traits related to root system extent, clonality, and bud banks. Instead, an expanded trait analysis reveals three significant dimensions, explaining 62% of total trait variation. The third dimension, represents an independent, persistence-related gradient, not captured by existing root economics frameworks. We propose that understanding belowground plant strategies requires embracing additional functional gradients. The strategy of persistence, in particular, varies significantly across growth forms and is a critical dimension of plant response to resource limitation and stress, becoming increasingly important as global change shifts disturbance regimes.

plant biology↗

bioRxiv2026

Simulating Neutron Protein Crystallography Experiments: Applications to the Development of the NMX Instrument at ESS

Monte Carlo neutron ray-tracing simulations of time-of-flight (TOF)-Laue neutron macromolecular crystal diffraction (n-MX) using the McStas software package were done for the upcoming NMX Macromolecular Diffractometer at the European Spallation Source. Splitting neutron rays that arrive at the crystal lead to dramatic improvements in event formation with minimal computational overhead. The simulated event probability data was sampled using a new single-pass weighted reservoir sampling method, and processed like real n-MX data using DIALS. The effects of air and beamstop scatter on simulated data was investigated. SynopsisMonte Carlo simulations of neutron protein diffraction experiments provide useful data that models instrumental components that interact with neutrons, as well as the crystal diffraction itself. These data can be applied to instrument development, such as the commissioning of the NMX Macromolecular Diffractometer at ESS.

biophysics↗

bioRxiv2024

The scope and limits of fine-grained category information in the ventral visual pathway

Humans can easily abstract incoming visual information into discrete semantic categories. Previous research employing functional MRI (fMRI) in humans has identified cortical organizing principles that allow not only for coarse-scale distinctions such as animate versus inanimate objects but also more fine-grained distinctions at the level of individual objects. This suggests that fMRI carries rather fine-grained information about individual objects. However, most previous work investigating fine-grained category representations either additionally included coarse-scale category comparisons of objects, which confounds fine-grained and coarse-scale distinctions, or only used a single exemplar of each object, which confounds visual and semantic information. To address these challenges, here we used multisession human fMRI (female and male) paired with a broad yet homogenous stimulus class of 48 terrestrial mammals, with 2 exemplars per mammal. Multivariate decoding and representational similarity analysis (RSA) revealed high image-specific reliability in low- and high-level visual regions, indicating stable representational patterns at the image level. In contrast, analyses across exemplars of the same animal yielded only small effects in the lateral occipital complex (LOC), indicating rather subtle category effects in this region. Variance partitioning with a deep neural network and shape model showed that across exemplar effects in EVC were largely explained by low-level visual appearance, while representations in LOC appeared to also contain higher category-specific information. These results suggest that representations typically measured with fMRI are dominated by image-specific visual or coarse-grained category information but indicate that commonly employed fMRI protocols may reveal subtle yet reliable distinctions between individual objects. Significance StatementWhile it has been suggested that functional MRI (fMRI) responses in ventral visual cortex carry fine-grained information about individual objects, much previous research has confounded fine-grained with coarse-scale category information or only used individual visual exemplars, which potentially confounds semantic and visual object information. Here we address these challenges in a multisession fMRI study where participants viewed a highly homogenous stimulus set of 48 land mammals with 2 exemplars per animal. Our results reveal a strong dominance of image-specific effects and additionally indicate subtle yet reliable category-specific effects in lateral occipital complex, underscoring the capacity of commonly employed fMRI protocols to uncover fine-grained visual information.

neuroscience↗

bioRxiv2024

Plant species richness and the root economics space drive soil fungal communities

Trait-based approaches have been increasingly used to relate plants to soil microbial communities. However, the plant organs mediating this plant-microbe interaction - the roots - have been largely overlooked. The recent discovery of the root economics space offers a predictive framework for the structure of soil microbial communities, and specifically soil-borne fungal communities. Applying this novel approach, our study in a grassland plant diversity experiment reveals distinct root trait strategies at the level of the plant community. In addition to significant effects of plant species richness, we show that both axes of the root economics space - the collaboration and conservation gradient - are strong drivers of the composition of the different guilds of soil fungi, including saprotrophic, plant pathogenic, and mycorrhizal fungi. Our results illustrate that the root economics space and plant species richness jointly determine the effects of plants on fungal communities and their potential role in plant health and ecosystem functioning.

ecology↗

bioRxiv2023

A fast-slow trait continuum at the level of entire communities

Across the tree of life, organismal functional strategies form a continuum from slow-to fast-growing organisms, in response to common drivers such as resource availability and disturbance. However, the synchronization of these strategies at the entire community level is untested. We combine trait data for >2800 above-and belowground taxa from 14 trophic guilds spanning a disturbance and resource availability gradient in German grasslands. Most guilds consistently respond to these drivers through both direct and trophically-mediated effects, resulting in a slow-fast axis at the level of the entire community. Fast trait communities were also associated with faster rates of whole ecosystem functioning. These findings demonstrate that slow and fast strategies can be manifested at the level of whole ecosystems, opening new avenues of ecosystem-level functional classification.

ecology↗

bioRxiv2023

A Spatiotemporal Compartmentalization of Glucose Metabolism Guides Mammalian Gastrulation Progression

Gastrulation is considered the sine qua non of embryogenesis, establishing a multidimensional structure and the spatial coordinates upon which all later developmental events transpire. At this time, the embryo adopts a heavy reliance on glucose metabolism to support rapidly accelerating changes in morphology, proliferation, and differentiation. However, it is currently unknown how this conserved metabolic shift maps onto the three-dimensional landscape of the growing embryo and whether it is spatially linked to the orchestrated cellular and molecular processes necessary for gastrulation. Here we identify that glucose is utilised during mouse gastrulation via distinct metabolic pathways to instruct local and global embryonic morphogenesis, in a cell type and stage-specific manner. Through detailed mechanistic studies and quantitative live imaging of mouse embryos, in parallel with tractable in vitro stem cell differentiation models and embryo-derived tissue explants, we discover that cell fate acquisition and the epithelial-to-mesenchymal transition (EMT) relies on the Hexosamine Biosynthetic Pathway (HBP) branch of glucose metabolism, while newly-formed mesoderm requires glycolysis for correct migration and lateral expansion. This regional and tissue-specific difference in glucose metabolism is coordinated with Fibroblast Growth Factor (FGF) activity, demonstrating that reciprocal crosstalk between metabolism and growth factor signalling is a prerequisite for gastrulation progression. We expect these studies to provide important insights into the function of metabolism in other developmental contexts and may help uncover mechanisms that underpin embryonic lethality, cancer, and congenital disease.

developmental biology↗

bioRxiv2023

Genome-wide coancestry reveals details of ancient and recent male-driven reticulation in baboons

Baboons (genus Papio) are a morphologically and behaviorally diverse clade of catarrhine monkeys that have experienced hybridization between phenotypically and genetically distinct phylogenetic species. We used high coverage whole genome sequences from 225 wild baboons representing 19 geographic localities to investigate population genomics and inter-species gene flow. Our analyses provide an expanded picture of evolutionary reticulation among species and reveal novel patterns of population structure within and among species, including differential admixture among conspecific populations. We describe the first example of a baboon population with a genetic composition that is derived from three distinct lineages. The results reveal processes, both ancient and recent, that produced the observed mismatch between phylogenetic relationships based on matrilineal, patrilineal, and biparental inheritance. We also identified several candidate genes that may contribute to species-specific phenotypes. One-Sentence SummaryGenomic data for 225 baboons reveal novel sites of inter-species gene flow and local effects due to differences in admixture.

evolutionary biology↗

bioRxiv2023

Mapping the landscape of magnetic field effects on neural regeneration and repair: a systematic review, mathematical model, and meta-analysis

Although magnetic field exposure is a well-established diagnostic tool, its use as a therapeutic in regenerative medicine is relatively new. Our goal here was to evaluate how magnetic fields affect neural repair in vitro by performing a systematic review of the literature, mathematical modeling, and meta-analyses. The 38 included articles presented with high heterogeneity, representing 13 cell types, magnitudes ranging from 0.0002-10,000 mT, frequencies from 0-150 Hz, and exposure times lasting from one hour to several weeks. Mathematical modeling revealed that increasing magnetic field magnitude increases neural progenitor cell (NPC) viability. For regenerative processes that were not influenced by magnitude, frequency, and time, we integrated data with meta-analyses. Results revealed that magnetic field exposure increases NPC proliferation while decreasing astrocytic differentiation. Collectively, our work identifies neural repair processes that may be most responsive to magnetic field exposure and provides a framework for novel hypothesis and technology development.

neuroscience↗

bioRxiv2023

A network medicine approach to elucidate mechanisms underlying menopause-induced knee osteoarthritis

Post-menopausal women present with the highest incidence and morbidity of knee osteoarthritis (KOA), but no disease-modifying therapies are available. This treatment gap may be driven by the absence of menopause in preclinical studies, as rodents do not naturally maintain a menopausal phenotype. Here, we employed a chemically-induced menopause model to map the trajectory of KOA at the tissue and proteome levels and test therapeutics in silico. Middle-aged female mice were randomized to sesame oil (non-menopause) or 4-vinycyclohexene diepoxide (menopause) injections. Following comprehensive validation of our model, knees were collected across perimenopause and menopause for histology, and cartilage samples were micro-dissected for mass spectrometry proteomics. Menopause mice displayed aggravated cartilage degeneration and synovitis relative to non-menopause mice. An unbiased pathway analysis revealed progesterone as a predominant driver of pathological signaling cascades within the cartilage proteome. Network medicine-based analyses suggested that menopause induction amplifies chondrocyte senescence, actin cytoskeleton-based stress, and extracellular matrix disassembly. We then used in silico drug testing to evaluate how restoration of sex hormones impacted the cartilage network. The greatest restoration was observed with combined estradiol/progesterone treatment (i.e., hormone therapy), although in silico treatment with a senolytic drug also partially recovered the cartilage proteome. Taken together, our findings using a translatable female aging model demonstrate that menopausal aging induces progressive cartilage degeneration and amplifies age-related synovitis. These changes may be driven by a previously unappreciated role of progesterone loss and menopause-induced cellular senescence. Lastly, in silico treatment suggests an estradiol/progesterone cocktail or senolytics may attenuate menopause-induced cartilage pathology. One Sentence SummaryMenopause induces cartilage degradation, senescence, and extracellular matrix disassembly, while hormone therapy restores the cartilage proteome.

pathology↗

bioRxiv2021

Soil conditions drive belowground trait space in temperate agricultural grasslands

O_LIPlant belowground organs perform essential functions, including water and nutrient uptake, anchorage, vegetative reproduction and recruitment of mutualistic soil microbiota. Determining how belowground traits jointly determine dimensions of the trait space and how these dimensions are linked to environmental conditions would further advance our understanding of plant functioning and community assembly. C_LIO_LIHere, we investigated belowground plant-trait dimensionality and its variation along 10 soil and land-use parameters in 150 temperate grasslands plots. We used eight belowground traits collected in greenhouse and common garden experiments, as well as bud-bank size and specific leaf area from databases, for a total of 313 species, to calculate community weighted means (CWMs). C_LIO_LIUsing PCA, we found that about 55% of variance in CWMs was explained by two main dimensions, corresponding to a mycorrhizal collaboration and a resource conservation gradient. Frequently overlooked traits such as rooting depth, bud-bank size and root branching intensity were largely integrated in this bidimensional trait space. The two plant-strategy gradients were partially dependent on each other, with outsourcing communities along the collaboration gradient being more often slow. These outsourcing communities were also more often deep-rooting, and associated with soil parameters, such as low moisture and sand content, high topsoil pH, high C:N and low {delta}15N. Slow communities had large bud-banks and were associated with low land-use intensity, high topsoil pH, and low nitrate but high ammonium concentrations in the soil. We did not find a substantial role of phosphorus-availability as an indicator along the collaboration gradient. C_LIO_LIIn conclusion, the collaboration and conservation gradients previously identified at the species level scale up to community level in grasslands, encompass more traits than previously described, and vary with the environment. C_LI

ecology↗

bioRxiv2021

Concurrent contextual and time-distant mnemonic information co-exist as feedback in human visual cortex.

Efficient processing of visual environment necessitates the integration of incoming sensory evidence with concurrent contextual inputs and mnemonic content from our past experiences. To delineate how this integration takes place in the brain, we studied modulations of feedback neural patterns in non-stimulated areas of the early visual cortex in humans (i.e., V1 and V2). Using functional magnetic resonance imaging and multivariate pattern analysis, we show that both, concurrent contextual and time-distant mnemonic information, coexist in V1/V2 as feedback signals. The extent to which mnemonic information is reinstated in V1/V2 depends on whether the information is retrieved episodically or semantically. These results demonstrate that our stream of visual experience contains not just information from the visual surrounding, but also memory-based predictions internally generated in the brain. One-Sentence SummaryFeedback activity in human early visual cortex contains concurrent contextual and time-distant mnemonic information.

neuroscience↗

bioRxiv2020

Global Root Traits (GRooT) Database

MotivationTrait data are fundamental to quantitatively describe plant form and function. Although root traits capture key dimensions related to plant responses to changing environmental conditions and effects on ecosystem processes, they have rarely been included in large-scale comparative studies and global models. For instance, root traits remain absent from nearly all studies that define the global spectrum of plant form and function. Thus, to overcome conceptual and methodological roadblocks preventing a widespread integration of root trait data into large-scale analyses we created the Global Root Trait (GRooT) Database. GRooT provides ready-to-use data by combining the expertise of root ecologists with data mobilization and curation. Specifically, we (i) determined a set of core root traits relevant to the description of plant form and function based on an assessment by experts, (ii) maximized species coverage through data standardization within and among traits, and (iii) implemented data quality checks. Main types of variables containedGRooT contains 114,222 trait records on 38 continuous root traits. Spatial location and grainGlobal coverage with data from arid, continental, polar, temperate, and tropical biomes. Data on root traits derived from experimental studies and field studies. Time period and grainData recorded between 1911 and 2019 Major taxa and level of measurementGRooT includes root trait data for which taxonomic information is available. Trait records vary in their taxonomic resolution, with sub-species or varieties being the highest and genera the lowest taxonomic resolution available. It contains information for 184 sub-species or varieties, 6,214 species, 1,967 genera and 254 families. Due to variation in data sources, trait records in the database include both individual observations and mean values. Software formatGRooT includes two csv file. A GitHub repository contains the csv files and a script in R to query the database.

ecology↗

bioRxiv2020

The fungal collaboration gradient dominates the root economics space in plants

Plant economics run on carbon and nutrients instead of money. Leaf strategies aboveground span an economic spectrum from live fast and die young to slow and steady, but the economy defined by root strategies belowground remains unclear. Here we take a holistic view of the belowground economy, and show that root-mycorrhizal collaboration can short circuit a one-dimensional economic spectrum, providing an entire space of economic possibilities. Root trait data from 1,781 species across the globe confirm a classical fast-slow conservation gradient but show that most variation is explained by an orthogonal collaboration gradient, ranging from do-it-yourself resource uptake to outsourcing of resource uptake to mycorrhizal fungi. This broadened root economics space provides a solid foundation for predictive understanding of belowground responses to changing environmental conditions. One Sentence SummaryCollaboration broadens the root economics space ranging from do-it-yourself resource acquisition to outsourcing to mycorrhizal partners.

ecology↗

bioRxiv2019

Two distinct feedback codes in V1 for \"real\" and \"imaginary\" internal experiences

Visual illusions and visual imagery are conscious sensory events that lack a corresponding physical input. But while everyday mental imagery feels distinct from incoming stimulus input, visual illusions, like hallucinations, are under limited volitional control and appear indistinguishable from physical reality. Illusions are thought to arise from lower-level processes within sensory cortices. In contrast, imagery involves a wide network of brain areas that recruit early visual cortices for the sensory representation of the imagined stimulus. Here, we combine laminar fMRI brain imaging with psychophysical methods and multivariate pattern analysis to investigate in human participants how seemingly real and imaginary non-physical experiences are processed in primary visual cortex (V1). We find that the content of mental imagery is only decodable in deep layers, whereas illusory content is only decodable at superficial depths. This suggests that feedback to the different layers may serve distinct functions: low-level feedback to superficial layers might be responsible for shaping perception-like experiences, while deep-layer feedback might serve the formation of a more malleable inner world, separate from ongoing perception.

neuroscience↗