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601 results for “habitat diversity”
Fig. 4 in High Genetic Diversity of Amoebae Belonging to the Genus Mayorella (Amoebozoa, Discosea, Dermamoebida) in Natural Habitats
Fig. 4. Phylogenetic tree based on SSU rRNA gene sequences for Mayorella species only, with few outgroups. Supports are indicated as PP/ BS; black dots indicate 1.0/100 PP/BS support. GTR + γ + I model of evolution; 1414 sites.
Fig. 3 in High Genetic Diversity of Amoebae Belonging to the Genus Mayorella (Amoebozoa, Discosea, Dermamoebida) in Natural Habitats
Fig. 3. Phylogenetic tree based on SSU rRNA gene sequences for all available Mayorella sequences and a wide sample of Discosea and Tubulinea taxa. Supports are indicated as PP/BS; black dots indicate 1.0/100 PP/BS support. GTR + γ + I model of evolution; 1554 sites.
Fig. 2 in High Genetic Diversity of Amoebae Belonging to the Genus Mayorella (Amoebozoa, Discosea, Dermamoebida) in Natural Habitats
Fig. 2. Diversity of locomotive and floating forms of studied strains: A–E – Mayorella sp. strain Amur_2; F–J – Mayorella sp. strain FE_2; K–O – Mayorella sp. strain Germany; P–T – Mayorella sp. strain FE_mz241; U–Y – Mayorella sp. strain Oklahoma. Scale bar is 20 μm.
Functional traits and metacommunity theory reveal that habitat filtering and competition maintain bird diversity in a human shared landscape
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Microbiome diversity and zoonotic bacterial pathogen prevalence in Peromyscus mice from agricultural landscapes and synanthropic habitat
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Major changes in fish thermal habitat diversity in Canada’s Arctic lakes due to climate change
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Data from: Landscape diversity and local temperature, but not climate, affect arthropod predation among habitat types
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Restored off-channel pond habitats create thermal regime diversity and refuges within a Mediterranean-climate watershed
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Energy input, habitat heterogeneity, and host specificity drive avian haemosporidian diversity at continental scales
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Data from: Habitat restorations in an urban landscape rapidly assemble diverse pollinator communities that persist
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Breaking ecological barriers: anthropogenic disturbance leads to habitat transitions, hybridization, and high genetic diversity
<p>Genetic diversity is expected to erode in disturbed habitats through strong selection, local extinctions, and recolonization associated with genetic bottlenecks and restricted gene flow. Despite this general prediction and over three decades of population genetics studies, our understanding of the long-term effect of environmental disturbance on local and regional genetic diversity remains limited. We conducted a population genetic survey of the microcrustacean <i>Daphnia</i> across a landscape subject to anthropogenic stressors from a century of industrial mining. At the local scale we found moderate genetic diversity (i.e., low clonal diversity), characteristic of habitat-specific selective sweeps and local extinctions, but high diversity and strong genetic structure at the regional scale despite the shared watershed of many lakes and exceptional dispersal ability of daphniids. Many habitats experienced changes in species assemblages, with the obligate asexual <i>Daphnia pulex</i> lineages—known only to inhabit ponds—dominating disrupted urban lakes. This habitat transition (pond to lake) was likely facilitated by the disruption of ecological barriers maintaining the genomic separation of these young species. Thus, disrupted habitats can exhibit complex and unexpected genetic patterns of local extinctions and recolonizations, followed by habitat transitions, hybridization and potential speciation events that are difficult to predict and should not be underestimated.</p>
Data from: Genome-wide diversity and habitat underlie fine-scale phenotypic differentiation in the rainbow darter (Etheostoma caeruleum)
<p>Adaptation to environmental change requires that populations harbor the necessary genetic variation to respond to selection. However, dispersal-limited species with fragmented populations and reduced genetic diversity may lack this variation and are at an increased risk of local extinction. In freshwater fish species, environmental change in the form of increased stream temperatures places many cold-water species at-risk. We present a study of rainbow darters (<i>Etheostoma caeruleum</i>) in which we evaluated the importance of genetic variation on adaptive potential and determined responses to extreme thermal stress. We compared fine-scale patterns of morphological and thermal tolerance differentiation across eight sites, including a unique lake habitat. We also inferred contemporary population structure using genomic data and characterized the relationship between individual genetic diversity and stress tolerance. We found site-specific variation in thermal tolerance that generally matched local conditions and morphological differences associated with lake-stream divergence. We detected patterns of population structure on a highly local spatial scale that could not be explained by isolation by distance or stream connectivity. Finally, we showed that individual thermal tolerance was positively correlated with genetic variation, suggesting that sites with increased genetic diversity may be better at tolerating novel stress. Our results highlight the importance of considering intraspecific variation in understanding population vulnerability and stress response.</p>
The interacting effect of habitat amount, habitat diversity and fragmentation on insect diversity along elevational gradients.
Aim: Elevational gradients are a useful approach to evaluate how environmental factors affect animal diversity. Decades of studies on the elevation-diversity gradient have revealed that this gradient varies greatly with taxa and geographic regions. One potential explanation for this may be the dependence of the relationship on landscape features. We explore the impact of fragmentation, habitat diversity and habitat amount on insect diversity (alpha and beta) and abundance along elevational gradients. We hypothesize that insect diversity and abundance will relate negatively with elevation, but positively with these landscape features. We also hypothesize that landscape features will interact in a way that the positive effect of a given variable on insect diversity may be offset by the others. Location: Reunion Island (Indian Ocean) Taxon: The insect order thrips (Thysanoptera) Methods: Insects were sampled along replicated elevational gradients, and at each sampling plot landscape features and abiotic variables were estimated within buffers surrounding the site. Insect alpha diversity was estimated using abundance-based rarefaction methods, whereas beta diversity was estimated calculating the "local contributions to beta diversity" metric. The effect of elevation, rainfall, landscape features and their interactions was assessed on insect alpha and beta diversity and abundance during two consecutive seasons using linear mixed effects models. Results: We found that thrips alpha and beta diversity was negatively related with elevation, but the relationship varied between seasons and rainfall regimes. Among the different landscape features considered, we found that habitat amount had the strongest effect on diversity. The effect of habitat amount on diversity, however, was offset in areas of low habitat (or land cover) diversity. Main conclusions: Generalizing the factors that underlie the elevation diversity gradient has become a cornerstone in ecological theory because it can help to understand the impact of human activities on diversity. Here we show that taking landscape information into account may help to fulfil this objective because landscape effects co-vary with elevation with often intricate consequences for diversity.
Habitat filtering differentially modulates phylogenetic and functional diversity relationships between predatory arthropods
<p class="MsoNoSpacing">Mechanisms underlying biological diversities at different scales have received significant attention over the last decades. The hypothesis whether local abiotic factors, driving functional and phylogenetic diversities, can differ among taxa of arthropods remains under-investigated. In this study, we compared correlations and drivers of functional (FD) and phylogenetic (PD) diversities between spiders and carabids, two dominant taxa of ground-dwelling arthropods in salt marshes. Both taxa exhibited high correlation between FD and PD; the correlation was even higher in carabids, probably due to their lower species richness. Analyses highlight that FD and PD were positively linked to taxonomic diversity in both taxa; however, abiotic factors driving the FD and PD differed between spiders and carabid. Salinity particularly drove the taxonomic diversity of carabids, but not that of spiders, suggesting that spiders are phenotypically more plastic and less selected by this factor. Conversely, phylogenetic diversity was influenced by salinity in spiders, but not in carabids. This result can be attributed to the different evolutionary history and colonisation process of salt marshes between the two model taxa. Finally, our study highlights that, in taxa occupying the same niche in a constrained habitat, functional and phylogenetic diversities can have different drivers, showing different filtering mechanisms.</p>
Increasing agricultural habitat reduces solitary bee offspring number and weight in apple orchards through reduced floral diet diversity and increased fungicide risk
<p>1. Threats to bee pollinators such as land use change, high pesticide risk, and reduced floral diet diversity are usually assessed independently, even though they often co-occur to impact bees in agroecosystems.</p> <p>2. We established populations of the non-native mason bee O. cornifrons at 17 NY apple orchards varying in proportion of surrounding agriculture and measured floral diet diversity and pesticide risk levels in the pollen provisions they produced. We used path analysis to test the direct and indirect effects of different habitats, diet diversity, and pesticide risk on emergent female offspring number and weight.</p> <p>3. Our results showed that high proportions of agricultural habitat surrounding bee nests indirectly reduced the number of female offspring produced, by reducing floral diet diversity in pollen.</p> <p>4. When proportion agriculture surrounding bee nests was high, bees collected increased proportions of Rosaceae in their pollen provisions, which marginally (0.05<p<0.1) increased fungicide risk levels in pollen, which, in turn, marginally reduced female offspring weight. In contrast, female offspring weight increased as proportion surrounding open habitat (wildflowers, grassland, pasture) increased, but this effect was not influenced by proportion Rosaceae or fungicide risk levels in pollen.</p> <p>5. Synthesis and Applications: To promote healthy O. cornifrons populations in apple, we must maintain floral resource diversity and open habitats, while reducing fungicide risk levels and agricultural habitats. More broadly, our results show that land use change, in the form of increasing agricultural habitat, can negatively impact bee populations in agroecosystems indirectly through multiple, simultaneous threats. We must strive to understand these complex interactions between simultaneous threats to maintain healthy bee populations in agroecosystems, where we rely on them for pollination.</p>
Roadside diversity in relation to age and surrounding source habitat: evidence for long time lags in valuable green infrastructure
<p>1. The severe and ongoing decline in semi-natural grassland habitat during the past two centuries means that it is important to consider how other, marginal grassland habitat elements can contribute to landscape-level biodiversity, and under what circumstances.</p> <p>2. To examine how habitat age and the amount of core grassland habitat in the surrounding landscape affect diversity in green infrastructure, we carried out inventories of 36 rural road verges that were either historical (pre-1901) or modern (established post-1901 and before 1975), and were surrounded by relatively high (>15%) or low (<5%) levels of grassland habitat. We recorded the number of plant species, grassland specialists, grassland conservation species and the fraction of the landscape's species and specialists found in the road verge.</p> <p>3. Road verge communities were characterised by high levels of grassland specialist species (35% of the 161 species recorded), with road verge sites supporting 15-20% of the specialist species found in the surrounding 25 km2 landscape.</p> <p>4. Richness of species and specialists were more closely related to road age than to the amount of surrounding habitat. Higher diversity in historical roads, despite the majority of modern roads being at least 60 years old, suggests a long time lag in the establishment of grassland communities in marginal grassland habitats. We identified no effect of historical surrounding land use on present day diversity in road verges.</p> <p>5. Road verge richness was not affected by the amount of surrounding grassland. This could be due to the relatively low amounts of grassland remaining in all landscapes, together with dispersal limitation commonly found in grassland plant communities contributing to a potential time lag.</p> <p>6. We identified road verges as potentially very important habitats for grassland communities. Because of the high levels of grassland specialists present, these and other marginal grasslands and grassland green infrastructure should be explicitly considered in landscape-scale conservation management. Practitioners looking to identify the most species-rich road verges should aim to find the oldest possible, while long time lags in community assembly suggests that seed sowing may be appropriate to enhance roadside diversity, even in decades-old road verges.</p>
Habitat simplification affects functional group structure along with taxonomic and phylogenetic diversity of temperate-zone ant assemblages over a ten-year period
<p>Biodiversity is declining at various scales due to habitat simplification. Nevertheless, there is scarce information on how the biotic and abiotic changes linked to simplification affect several diversity dimensions, such as taxonomic, functional, and phylogenetic diversities. This study investigated whether transforming natural oak forests into induced grasslands affected species diversity, functional group structure, and phylogenetic diversity of ant assemblages inhabiting a temperate forest in central Mexico. We placed over 1,000 pitfall traps in five sampling events covering a ten-year period. We used Hill numbers to evaluate species diversity differences between vegetation types and patterns over time. Ant species were classified into stress-related functional groups, which were analyzed for their association with vegetation types and changes to their proportional abundance over time. We calculated the standardized effect size of the mean nearest taxon distance to quantify the evolutionary history and test for non-random patterns within vegetation types and sampling years. Species richness did not differ between vegetation types, yet grasslands showed greater diversity for the q=1 and q=2 orders. Besides, we found three ant species as bioindicators for each vegetation. Regarding functional structure, cold climate specialists were associated with oak forests. In contrast, generalist species were predominant in induced grasslands. Higher phylogenetic diversity with an overdispersed structure was associated with oak forest, whereas lower phylogenetic diversity and a clustered pattern were found in induced grassland. These results indicate that habitat simplification may not affect the number of ant species but rather increases their relative abundance and reorganizes the functional and phylogenetic structure in the ecosystem, particularly shift towards the dominance of evolutionary close-related species and broad-stress tolerant groups. These results highlight the importance of integrating further dimensions of diversity to properly evaluate the reassembly dynamics after habitat simplification and understand the mechanisms driving this biodiversity loss.</p>
Fig. 1 in Carabid beetle (Coleoptera: Carabidae) diversity in agricultural and post-agricultural areas in relation to the surrounding habitats
Fig. 1. Scheme of the research object "Krzywda" (a) and location of the study sites (1-8) (b).
Data from: Historical field records reveal habitat as an ecological correlate of locomotor phenotypic diversity in the radiation of Neotropical Geophagini fishes
<p>Phenotypic macroevolutionary studies provide insight into how ecological processes shape biodiversity. However, the complexity of phenotype-ecology relationships underscores the importance of also validating phenotype-based ecological inference with direct evidence of resource use. Unfortunately, macroevolutionary scale ecological studies are often hindered by the challenges of acquiring taxonomically and spatially representative ecological data for large and widely distributed clades. The South American cichlid fish tribe Geophagini represents a continentally distributed radiation whose early locomotor morphological divergence suggests habitat as one ecological correlate of diversification, but an association between locomotor traits and habitat preference has not been corroborated. Field notes accumulated over decades of collecting across South America provide first-hand environmental records that can be mined for habitat data in support of macroevolutionary ecological research. In this study, we applied a newly developed method to transform descriptive field note information into quantitative habitat data, and used it to assess habitat preference and its relationship to locomotor morphology in Geophagini. Field note-derived data shed light on geophagine habitat use patterns and reinforced habitat as an ecological correlate of locomotor morphological diversity. Our work emphasizes the rich data potential of museum collections, including often overlooked material such as field notes, for evolutionary and ecological research.</p>
Data for: Habitat diversity, resource availability, and island age in the species-area relationship
<p><strong>Aim: </strong>The island species-area relationship (ISAR) and its theoretical justifications assume the area of islands to be homogeneous across an archipelago, which is generally not the case. We compare the performance of models that adjust or substitute for island area with measures of habitat diversity, island age, and resource availability to account for the violation of this assumption. We further compare the performance of models for two taxonomic groups.</p> <p><strong>Location: </strong>Five hotspot archipelagos (Azores, Galapagos, Hawaii, Cape Verde, Canary Islands).</p> <p><strong>Taxa:</strong> Vascular plants and birds.</p> <p><strong>Methods: </strong>We used the mathematical framework of the power law to compare relevant models, treating the one containing only area as a null model against which others were compared. Data was collated from the GIFT database and from the literature. Models were compared using linear regression within archipelagos and via mixed effect models with archipelago as a random effect.</p> <p><strong>Results:</strong> Weighting of island area by habitat diversity and resource availability systematically improved statistical significance and model fits versus the area only power law. Models including island age did not show the same systematic improvement in model fits. For vascular plants, weighting islands by resource availability (energy and water) performed better than weighting by habitat diversity, although for birds these weightings performed equally well.</p> <p><strong>Main Conclusions:</strong> Given that islands within archipelagos are fairly uniform in climate, topography, and geology, it is worth accounting for this in ISARs. Our results suggest that, for islands in volcanic hotspot archipelagos this is best done by using direct measures of habitat diversity and resource availability rather than using island age as a proxy. Because weighting area by habitat diversity and resource availability produced better predictors of species diversity, the proposed approach may be particularly valuable in conservation science.</p>
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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.