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81 results for “diversity regulation”
Data from: Mycorrhizal symbiosis increases plant phylogenetic diversity and regulate community assembly
<p>The intricate mechanisms shaping plant diversity and community composition are the cornerstone of ecological understanding. Yet, the role of mycorrhizal symbiosis, the fundamental partnership between fungi and plant roots, in influencing community composition has often been underestimated. Here, we use extensive species survey data from 1,315 terrestrial ecosystem sites to elucidate the influence of mycorrhizal symbiosis on plant phylogenetic diversity and its implications for community assembly processes. Our findings demonstrate that increasing mycorrhizal symbiotic potential leads to greater phylogenetic dispersion within plant communities. Furthermore, we unveil a distinct dichotomy in the assembly processes governed by mycorrhizal status. Mycorrhizal species predominantly influence deterministic processes, suggesting a role in niche-based community assembly. Conversely, non-mycorrhizal species exert a stronger influence on stochastic processes, highlighting the importance of random events in shaping community structure. These results underscore the crucial but often hidden role of mycorrhizal symbiosis in driving plant community diversity and assembly. This study provides valuable insights into the complex mechanisms shaping ecological communities and the way for more informed conservation and management practices that acknowledge the complex interplay between symbiosis and ecological community dynamics.</p>
Phosphorylation regulated conformational diversity and topological dynamics of an intrinsically disordered nuclear receptor
<p>Molecular dynamics simulations of AF1c region of human glucocorticoid receptor and its phosphovariants as described in the below paper: </p> <p>Phosphorylation regulated conformational diversity and topological dynamics of an intrinsically disordered nuclear receptor</p> <p>Vasily Akulov, Alba Jiménez Panizo, Eva Estébanez-Perpiñá, John van Noort, Alireza Mashaghi</p> <p> </p> <p>The data related to this project has been deposited in two repositories. This repository contains the second part of the data; the first part can be found at DOI: 10.5281/zenodo.13820169</p>
Data from: Mycorrhizal symbiosis increases plant phylogenetic diversity and regulate community assembly
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Data from: Functional identity regulates aboveground biomass better than trait diversity along abiotic conditions in global forest metacommunities
<p>Although several studies have identified the effects of functional trait diversity (FTD) and/ or identity, i.e., the community-weighted mean (CWM) of a trait, on aboveground biomass (AGB) along abiotic conditions, these effects on AGB in global forest metacommunities are still largely unexplored. Here, we modelled the effects of abiotic (i.e., climate, soil and plot physical conditions) and biotic [i.e., FTD, CWM of conservative traits (CWMCT), CWM of acquisitive traits (CWMAT), and functional dominance (FunDom; based on CWM of plant maximum height or diameter)] factors on AGB in 76 forest metacommunities (from 24 studies). Using multiple linear regression models and piecewise structural equation modeling (pSEM), we tested the hypothesis that both abiotic and biotic factors regulate AGB, but that the mass ratio mechanism underpins AGB of metacommunities in global forests better than the niche complementarity mechanism. We found that abiotic and biotic factors contributed 45.39% and 54.07%, respectively, to the explained variance in AGB (<i>R<sup>2</sup></i> = 0.59), and as such, abiotic factors shaped FTD (<i>R<sup>2</sup></i> = 0.42 to 0.48), CWMCT (<i>R<sup>2</sup></i> = 0.33 to 0.36), CWMAT (<i>R<sup>2</sup></i> = 0.27 to 0.33), and FunDom (<i>R<sup>2</sup></i> = 0.59 to 0.61) through divergent effect sizes and directions. The final best-fitted pSEM showed that FunDom increased (<i>β</i> = 0.49) but CWMCT (<i>β</i> = -0.35) and CWMAT (<i>β</i> = -0.11) decreased AGB (<i>R<sup>2</sup></i> = 0.52) as compared to the negligible effect of FTD (<i>β</i> = 0.04). This study supports the mass ratio effect, specifically the overruling role of tall-stature or dominant trees on AGB, at a macroecological scale, and hence, suggests that a suitable species' functional strategy is important to promote carbon sequestration in forest metacommunities that underpins human well-being. We expect that our study will advance the field of biodiversity – ecosystem functioning at a macroecological scale by using the metacommunity concept and approach.</p>
Climate regulates the effect of land-use change on the diversity of soil microbial functional groups and soil multifunctionality
<p>Although studies have explored how soil microbial diversity and soil multifunctionality respond to land-use change at local scales, they have rarely been explored at larger scales and across different climatic and soil environmental conditions.</p> <p>By sampling 40 paired sites of land-use change from natural forests to agricultural lands (including croplands and orchards) along the middle and lower Yangtze River, combined with a global meta-analysis, we investigated the effects of land-use change and climate on the alpha and beta diversity of soil bacterial and fungal functional groups (FGs) and their associated soil multifunctionality at a regional scale.</p> <p>Our results showed that land-use change strongly changed the diversity of soil bacterial and fungal FGs and decreased multifunctionality, which was supported by our meta-analysis at a global scale. Direct effects of land-use change and climate and their interaction, together with changes in soil environmental variables, were the main determinants of the land-use change-induced changes in the diversity of soil bacterial or fungal FGs. The land-use change-induced decrease in multifunctionality was mainly associated with the direct effect of forest conversion, soil fertility, and diversity of fungal FGs. Furthermore, climate also regulated the effects of land-use change on multifunctionality by affecting soil fertility and fungal FGs diversity along the Yangtze River.</p> <p><em>Synthesis and applications</em>. Taken together, our findings highlight the important effects of land-use change, climate, and their interactions on microbial diversity and multifunctionality, and suggest that effective land-use management and climate change mitigation strategies should be adopted to protect biodiversity and ecosystem function in the Yangtze River Basin.</p>
Phosphorylation regulated conformational diversity and topological dynamics of an intrinsically disordered nuclear receptor
<p>Molecular dynamics simulations of AF1c region of human glucocorticoid receptor and its phosphovariants as described in the below paper: </p> <p><strong>Phosphorylation regulated conformational diversity and topological dynamics of an intrinsically disordered nuclear receptor</strong></p> <p>Vasily Akulov, Alba Jiménez Panizo, Eva Estébanez-Perpiñá, John van Noort, Alireza Mashaghi</p> <p> </p> <p>The data related to this project has been deposited in two repositories. This repository contains the first part of the data; the second part can be found at the DOI: 10.5281/zenodo.13822438</p>
Climate regulates the effect of land-use change on the diversity of soil microbial functional groups and soil multifunctionality
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Nutrient availability and invader density regulate the diversity–invasibility relationship mediated by soil microbes
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Macroinvertebrate diversity, community structure, and dispersal in a regulated river are affected by tributary identity and confluence conditions
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Data from: Functional identity regulates aboveground biomass better than trait diversity along abiotic conditions in global forest metacommunities
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Plant functional diversity regulates the composition and diversity of soil microbial communities in temperate grasslands of northern China
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Herbivore regulation of savanna vegetation: Structural complexity, diversity, and the complexity–diversity relationship
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Data from: Plant quantity and quality regulate the diversity of arthropod communities in a semi-arid grassland
<p> </p> <p>The quantity (e.g. biomass production) and quality (e.g. leaf nutrient content) of plants can strongly influence arthropod diversity, but few studies have tried to disentangle such effects.</p> <p>In this study, we examined the independent effects of plant productivity and leaf traits on the taxon richness and abundance of entire arthropod communities and multiple arthropod orders in replicated monocultures of 15 herbaceous species in the Inner Mongolian grassland.</p> <p>Total taxon richness of arthropod communities increased with plant productivity and an increase in a high nutrient content indicator (PC1) of plant leaf traits (e.g. high leaf nitrogen, phosphorus and water contents), but decreased with an increase in a poor nutrient content indicator (PC2) of plant leaf traits (e.g. high leaf lignin content but low specific leaf area). Total abundance of arthropod communities increased with increasing plant productivity but decreased with increasing PC2.</p> <p>Many common, rather than rare arthropod orders, exhibited strong responses to the changes in plant quantity or quality. Taxon richness of Diptera, Neuroptera and Coleoptera responded positively to the increase in plant productivity and PC1, while taxon richness of Hemiptera and Coleoptera responded negatively to the increase in PC2. Abundances of Diptera and Coleoptera responded positively to the increased plant productivity, whereas abundances of Hymenoptera and Hemiptera responded negatively to the increased PC2. The order-specific responses of arthropod richness and abundance to plant quantity or quality reflected the different food requirements and feeding behaviors of arthropods.</p> <p>Our findings demonstrate that plant quantity and quality can independently control richness and abundance of arthropod communities. The changes in plant productivity and nutrient content of different plant species may alter arthropod diversity and community structure, and these changes in turn may have strong cascading effects on multiple functions (e.g. prey, decomposers, pollinators and predators) in terrestrial ecosystems.</p> <p> </p>
Data from: Direct evidence that density-dependent regulation underpins the temporal stability of abundant species in a diverse animal community
To understand how ecosystems are structured and stabilized, and to identify when communities are at risk of damage or collapse, we need to know how the abundances of the taxa in the entire assemblage vary over ecologically meaningful timescales. Here, we present an analysis of species temporal variability within a single large vertebrate community. Using an exceptionally complete 33-year monthly time series following the dynamics of 81 species of fishes, we show that the most abundant species are least variable in terms of temporal biomass, because they are under density-dependent (negative feedback) regulation. At the other extreme, a relatively large number of low abundance transient species exhibit the greatest population variability. The high stability of the consistently common high abundance species—a result of density-dependence—is reflected in the observation that they consistently represent over 98% of total fish biomass. This leads to steady ecosystem nutrient and energy flux irrespective of the changes in species number and abundance among the large number of low abundance transient species. While the density-dependence of the core species ensures stability under the existing environmental regime, the pool of transient species may support long-term stability by replacing core species should environmental conditions change.
Disentangling the roles of plant functional diversity and plaint traits in regulating plant nitrogen accumulation and denitrification in freshwaters
<p>1. There is a growing recognition that functional measures of diversity, based on quantification of functionally important species traits, are useful for explaining variation in ecosystem processes. However, the mechanisms linking functional diversity to different processes remain poorly understood, hindering development of a predictive framework for ecosystem functioning based on species traits.</p> <p>2. The current understanding of how the functional traits of aquatic plants (macrophytes) affect nitrogen (N) cycling by regulating microbial communities and their activity in freshwater habitats is particularly limited. Denitrifying bacteria are typically associated with the roots of both aquatic and terrestrial plants and denitrification is the main cause of loss of N from ecosystems. Disentangling the interplay between plants and microbial denitrifiers is key to understanding variation in rates of denitrification from local to landscape scales.</p> <p>3. In a mesocosm experiment, we varied the species richness (monocultures or two- species mixtures) and composition of macrophytes. We quantified effects of both macrophyte functional diversity, quantified as functional trait dissimilarity, and functional trait composition, quantified as community weighted mean trait values, on N removal in wetlands. We used structural equation modelling to disentangle the direct and indirect influences of traits on N accumulation in plant biomass, denitrification activity and abundance of key bacterial denitrification genes (<i>nirS</i>and <i>nirK</i>).</p> <p>4. Both functional diversity and functional trait composition regulated N removal, explaining 70 – 94% variation in the underlying ecosystem processes. Increased macrophyte functional diversity increased plant N accumulation, and indirectly enhanced denitrification by increasing denitrification gene abundance. Among traits, greater plant relative growth rates, specific leaf area and aboveground biomass increased plant N accumulation. Denitrification activity increased with increasing belowground biomass but decreased with increasing root diameter.</p> <p><span><span><span><span><span><span><span><span><span><span><span>5. These findings improve our understanding of N removal in freshwater wetlands dominated by macrophytes, and have broad ecological implications for wetland management targeting enhanced ecosystem services. Our results highlight the potential for optimising denitrification and plant N accumulation in wetlands and thereby improving water purification by increasing macrophyte functional diversity and ensuring the presence of key traits in macrophyte assemblages.</span></span></span></span></span></span></span></span></span></span></span></p>
Data from: Direct evidence that density-dependent regulation underpins the temporal stability of abundant species in a diverse animal community
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Data from: The cryptic regulation of diversity by functionally complementary large tropical forest herbivores
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Diversity in lac Operon Regulation among Diverse Escherichia coli Isolates Depends on the Broader Genetic Background but Is Not Explained by Genetic Relatedness
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Data from: Plant quantity and quality regulate the diversity of arthropod communities in a semi-arid grassland
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Disentangling the roles of plant functional diversity and plaint traits in regulating plant nitrogen accumulation and denitrification in freshwaters
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.