Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
2,052
datasets available to search
ShareScore release 0.7.1
Dataset results
2,052 results for “Species tree”
Recent tree diversity increase in NE Iberian forests following intense management release: a task for animal-dispersed and drought tolerant species
<ol> <li>Under increasing human-related threats to forests, many studies suggest that increasing tree species diversity may boost forest resilience by enhancing the range of species' responses to disturbances. However, it remains unclear whether passive or active forest management strategies should be applied to increase tree diversity. This issue would benefit from investigating which management and environmental factors, together with species' functional traits influence temporal changes in tree species diversity.</li> <li>We explored the influence of the bioclimatic region, land-use history, forest cover, protection, management, forest structure and changes in temperature and precipitation, to explain tree species diversity changes in NE Iberian forests, by comparing 3141 plots from the Spanish National Forest Inventory sampled between 1989 and 2016. Moreover, we assessed which species' functional traits (dispersal habit, drought and shade tolerance) were most relevant for diversity changes.</li> <li>After 27 years, tree species richness and diversity moderately increased in the tree and regeneration layers. This trend occurred mostly in long-established, non-recently managed forests and in those with a lower initial basal area. Increasing temperature had negative effects for diversity increase in the tree layer but positive for the regeneration compartment, while decreasing precipitation showed the opposite effects.</li> <li>Tree species with higher drought tolerance, and especially those animal-dispersed ones arriving from the regional pool, mostly contributed to the local diversity increase. This pattern occurred in all forest types, although the taxonomic array of species varied.</li> <li> <em>Synthesis and applications.</em> The main drivers influencing the passive increase in tree species diversity suggest a primary role of diminishing forest exploitation in this recovery process, fine-tuned by climatic changes. This ecological scenario has particularly favored animal-dispersed tree species with higher drought tolerance, which mostly led the diversity increase. A higher presence of such highly mobile and drought-tolerant species can be crucial to increase functional diversity and, ultimately, increase forest resilience under future scenarios of greater aridity. In light of these results, management strategies should continue fostering the restoration of diversity in once intensively exploited forests while ensuring the maintenance of the already gained tree species diversity.</li> </ol>
The effect of neighbor species' phylogenetic and trait difference on tree growth in subtropical forests
<p>To comprehensively understand ecological dynamics within a forest ecosystem, it is vital to explore how surrounding trees influence the growth of individual trees in a community. Biotic interactions have a significant potential impacts on individual tree growth and their effects can be evaluated through trait and phylogenetic-based approaches. This study investigates the relative importance of biotic interactions on tree growth by examining several metrics and considering three classes of intrinsic growth rates among the focal individuals: slower, intermediate and faster-growing trees. The metrics include hierarchical and absolute trait differences of focal trees to neighbors, neighborhood crowding index, phylogenetic distance, and trait community metrics. Our results indicated that the phylogenetic distance between the focal tree and its neighbors positively impacted the growth of all classes, whereas different traits have distinct effects on slower and faster-growing trees. Specific leaf area (SLA) and leaf area (LA) showed hierarchical importance to tree growth. Trees surrounded by neighbors with higher SLA and LA than themselves grow better, particularly for slower-growing trees. Higher levels of wood density difference between the focal trees and their neighbors positively impacts slower and faster-growing trees, while height difference negatively impacts faster-growing trees. We conclude that the interactions between trees are mediated by their ecological differences, but the performance and responses to surrounding competitors vary along with their growth class within a community. This study has revealed that the tree's intrinsic growth rate mediates the effect of traits and phylogeny of surrounding trees on individual tree growth.</p>
Grow or die: A 49-year growth history of a Japanese warm-temperate tree species
<p>The growth trajectories of trees are not fully understood due to their long lifespan. We characterized the population dynamics of the canopy tree <em>Castanopsis cuspidata</em> (Thunb.) Schottky in a Japanese warm-temperate forest over 49 years (1966–2015). Our study was initiated approximately 50 years after our study site was clear-cut. The forest had a closed canopy for the first 23 years of the study. Strong typhoons in 1991 and 1993 seriously damaged the forest, and since then the forest has been recovering from these disturbances. The diameter distribution of this species was bell-shaped in 1966, suggesting that the trees emerged simultaneously after the clear-cut in the 1910s, and the recruitment of trees has remained unchanged since then. The lack of recruitment of <em>C. cuspidata</em> before the typhoon disturbance supports this conclusion. Assuming that the <em>C. cuspidata</em> trees in 1966 were cohorts that were established soon after the clear-cut, the size differences reflect differences in growth rate, with small trees corresponding to slow growers and large trees corresponding to fast growers. Before the typhoon, slow growers had low survival, and the mortality rate of fast growers was low. Many fast growers were uprooted or snapped by strong winds by the typhoons. However, their mortality rate did not differ from that of slow growers because many slow growers were killed by large fallen trees. The growth of some slow-growing survivors increased after the typhoon, which allowed them to rapidly reach the canopy. Therefore, the typhoon altered the distribution of canopy trees among slow and fast growers. Survivors experienced faster growth than trees that died during the census period, suggesting that growth rate provides a robust indicator of future survival. Before the typhoon, the survival of fast growers was higher than that of slow growers. This suggests that fast growers disproportionally contribute to reproduction compared with slow growers. However, no recruited tree was observed in this subperiod, suggesting that fast growers made no contribution to reproduction. Fast growers might not play a more significant demographic role than slow growers in this species.</p>
Gallery and spiny forest tree species inventory in Berenty Reserve, Madagascar
<p>Madagascar's unique dry forests, particularly gallery and spiny forests, face severe threats and are significantly understudied, leaving only a fraction of the original extent intact. Thus, there is a critical need for characterizing, conserving, and restoring this diverse forest ecosystem. Conducting extensive floristic surveys and environmental analyses, we investigated structural and compositional differences between the gallery and spiny forests, as well as within distinct gallery forest sites in Berenty Reserve in the south of the island. We also evaluated differences in habitat quality between the spiny and gallery forests for three species of diurnal lemurs in the reserve, and analyzed the current population trend of the tamarind trees, a species of ecological and cultural importance in Madagascar. Our findings revealed that the spiny and gallery forests differed in composition and structure, confirming the unique ecological characteristics of gallery forests and the underexplored richness of spiny forests. Spiny forests exhibited higher species richness despite a comparatively lower sampling effort, emphasizing the need for focused conservation efforts in these overlooked ecosystems. Tamarind populations, vital for lemur nutrition, showed signs of inadequate regeneration suggesting a recruitment bottleneck, possibly due to factors like a lowering water table, brown lemur foraging habits, or shifts in environmental conditions. Urgent interventions, including enrichment plantations, were recommended to ensure the survival of this keystone species. Contrasting botanical and lemur-centric perspectives revealed that while spiny and gallery forests differed botanically, they offered comparable habitat quality for ring-tailed and sifaka lemurs. However, brown lemurs exhibit a preference for the gallery forest, highlighting the intricate relationship between plant composition and lemur habitat choices. Our study underscores the urgency of expanding our knowledge of Madagascar´s dry forests, and Berenty Reserve, as one of the few remaining protected areas with gallery and dry forests, serves as a reference for future research in Madagascar's understudied ecosystems. </p>
Data from: Positive effects of tree species diversity on productivity switch to negative after severe drought mortality in a temperate forest experiment
<p>Synthesis of a large body of evidence from field experiments suggests more diverse plant communities are both more productive as well as more resistant to the effects of climatic extremes like drought. However, this view is strongly based on data from grasslands due to limited empirical evidence from tree diversity experiments. Here we report on the relationship between tree diversity and productivity over ten years in a field experiment established in 2005 that was then affected by the 2018 megadrought in central Europe. Across a number of years, tree species diversity and productivity were significantly positively related, however, the slope switched to negative in the year of the drought. Net diversity effects increased through time, with complementarity making greater continuations to the net diversity effect than selection effects. Complementarity was clearly positive (95 % credible interval) in three and five species mixtures before the drought (2012-2016) but was found to decrease in the year of the drought. Selection effects were clearly positive in 2016, and remained positive in 2018, the drought year in two, three, and five species mixtures. Survival of the Norway spruce (<em>Picea abies</em>) plummeted during drought and a negative relationship between species diversity and spruce survival was found. Our findings suggest that tree diversity per se may not buffer communities against the impacts of extreme drought and that tree species composition and the drought tolerance of tree species (i.e., species identity) will be important determinants of community productivity as the prevalence of drought increases.</p>
Stem decomposition of temperate tree species is determined by stem traits and fungal community composition during early stem decay
<p>Dead trees are vital structural elements in forests playing key roles in the carbon and nutrient cycle. Stem traits and fungal community composition are both important drivers of stem decay, and thereby affect ecosystem functioning, but their relative importance for stem decomposition over time remains unclear.</p> <p>To address this issue, we used a common garden decomposition experiment in a Dutch larch forest hosting fresh logs from 13 common temperate tree species. In total 25 fresh wood and bark traits were measured as indicators of wood accessibility for decomposers, nutritional quality, and chemical or physical defense mechanisms. After one and four years of decay, we assessed the richness and composition of wood-inhabiting fungi using amplicon sequencing and determined the proportional wood density loss.</p> <p>Average proportional wood density loss for the first year was 18.5%, with further decomposition occurring at a rate of 4.3% yr<sup>-1</sup> for the subsequent three years across tree species. Proportional wood density loss varied widely across tree species in the first year (8.7-24.8% yr<sup>-1</sup>) and subsequent years (0-11.3% yr<sup>-</sup><sup>1</sup>). The variation was directly driven by initial wood traits during the first decay year, then later directly driven by bark traits and fungal community composition. Moreover, bark traits affected the composition of wood-inhabiting fungi and thereby indirectly affected decomposition rates. Specifically, traits promoting resource acquisition of the living tree, such as wide conduits that increase accessibility and high nutrient concentration, increased initial wood decomposition rates. Fungal community composition, but not fungal richness explained differences in wood decomposition after four years of exposure in the field, where fungal communities dominated by brown-rot and white-rot Basidiomycetes were linked to higher wood decomposition rate.</p> <p><em>Synthesis.</em> Understanding what drives deadwood decomposition through time is important to understand the dynamics of carbon stocks. Here, using a tailor-made experimental design in a temperate forest setting, we have shown that stem trait variation is key to understanding the roles of these drivers; Initially, wood traits explained decomposition rates while subsequently, bark traits and fungal decomposer composition drove decomposition rates. These findings inform forest management with a view to selecting tree species to promote carbon storage.</p>
Gene trees and corresponding nucleotide/protein alignments across 17 species (including 13 fishes)
<p>This archive contains gene trees and corresponding nucleotide/protein alignments across 17 species (including 13 fishes).</p>
Data from: forest stand dynamics of a short-stature tree species: ecological knowledge for sustainable forest management
<p>This data set is a forest inventory of <em>Nothofagus antarctica</em> in southern Chile. More than 20 sites were selected. In each site, parallel transects were set and every 30 m a sampling point was set where the distance to the nearest four trees (in accordance with the cardinal points) were measured.</p>
NEON Tree Species Predictions
<p># Individual Tree Predictions for 100 million trees in the National Ecological Observatory Network</p> <p>Preprint: https://www.biorxiv.org/content/10.1101/2023.10.25.563626v1</p> <p>## Manuscript Abstract</p> <p>The ecology of forest ecosystems depends on the composition of trees. Capturing fine-grained information on individual trees at broad scales allows an unprecedented view of forest ecosystems, forest restoration and responses to disturbance. To create detailed maps of tree species, airborne remote sensing can cover areas containing millions of trees at high spatial resolution. Individual tree data at wide extents promises to increase the scale of forest analysis, biogeographic research, and ecosystem monitoring without losing details on individual species composition and abundance. Computer vision using deep neural networks can convert raw sensor data into predictions of individual tree species using ground truthed data collected by field researchers. Using over 40,000 individual tree stems as training data, we create landscape-level species predictions for over 100 million individual trees for 24 sites in the National Ecological Observatory Network. Using hierarchical multi-temporal models fine-tuned for each geographic area, we produce open-source data available as 1km^2 shapefiles with individual tree species prediction, as well as crown location, crown area and height of 81 canopy tree species. Site-specific models had an average performance of 79% accuracy covering an average of six species per site, ranging from 3 to 15 species. All predictions were uploaded to Google Earth Engine to benefit the ecology community and overlay with other remote sensing assets. These data can be used to study forest macro-ecology, functional ecology, and responses to anthropogenic change.</p> <p>## Data Summary</p> <p>Each NEON site is a single zip archive with tree predictions for all available data. For site abbreviations see: https://www.neonscience.org/field-sites/explore-field-sites. For each site, there is a .zip and .csv. The .zip is a set 1km .shp tiles. The .csv is all trees in a single file.</p> <p>## Prediction metadata</p> <p>*Geometry*</p> <p>A four pointed bounding box location in utm coordinates.</p> <p>*indiv_id*</p> <p>A unique crown identifier that combines the year, site and geoindex of the NEON airborne tile (e.g. 732000_4707000) is the utm coordinate of the top left of the tile. </p> <p>*sci_name*</p> <p>The full latin name of predicted species aligned with NEON's taxonomic nomenclature. </p> <p>*ens_score*</p> <p>The confidence score of the species prediction. This score is the output of the multi-temporal model for the ensemble hierarchical model. </p> <p>*bleaf_taxa*</p> <p>Highest predicted category for the broadleaf submodel</p> <p>*bleaf_score*</p> <p>The confidence score for the broadleaf taxa submodel </p> <p>*oak_taxa*</p> <p>Highest predicted category for the oak model </p> <p>*dead_label*</p> <p>A two class alive/dead classification based on the RGB data. 0=Alive/1=Dead.</p> <p>*dead_score*</p> <p>The confidence score of the Alive/Dead prediction. </p> <p>*site_id*</p> <p>The four letter code for the NEON site. See https://www.neonscience.org/field-sites/explore-field-sites for site locations.</p> <p>*conif_taxa*</p> <p>Highest predicted category for the conifer model</p> <p>*conif_score*</p> <p>The confidence score for the conifer taxa submodel</p> <p>*dom_taxa*</p> <p>Highest predicted category for the dominant taxa mode submodel</p> <p>*dom_score*</p> <p>The confidence score for the dominant taxa submodel</p> <p>## Training data</p> <p>The crops.zip contains pre-cropped files. 369 band hyperspectral files are numpy arrays. RGB crops are .tif files. Naming format is <br><individualID>_<year>_<sensor>, for example. "NEON.PLA.D07.GRSM.00583_2022_RGB.tif" is RGB crop of the predicted crown of NEON data from Great Smoky Mountain National Park (GRSM), flown in 2022.<br>Along with the crops are .csv files for various train-test split experiments for the manuscript.</p> <p>### Crop metadata</p> <p>There are 30,042 individuals in the annotations.csv file. We keep all data, but we recommend a filtering step of atleast 20 records per species to reduce chance of taxonomic or data cleaning errors. This leaves 132 species.</p> <p>*score*</p> <p>This was the DeepForest crown score for the crop.</p> <p>*taxonID*<br>For letter species code, see NEON plant taxonomy for scientific name: https://data.neonscience.org/taxonomic-lists</p> <p>*individual*<br>unique individual identifier for a given field record and crown crop</p> <p>*siteID*<br>The four letter code for the NEON site. See https://www.neonscience.org/field-sites/explore-field-sites for site locations.</p> <p>*plotID*</p> <p>NEON plot ID within the site. For more information on NEON sampling see: https://www.neonscience.org/data-samples/data-collection/observational-sampling/site-level-sampling-design</p> <p>*CHM_height*</p> <p>The LiDAR derived height for the field sampling point.</p> <p>*image_path*</p> <p>Relative pathname for the hyperspectral array, can be read by numpy.load -> format of 369 bands * Height * Weight</p> <p>*tile_year* </p> <p>Flight year of the sensor data</p> <p>*RGB_image_path*</p> <p>Relative pathname for the RGB array, can be read by rasterio.open()</p> <p># Code repository</p> <p>The predictions were made using the DeepTreeAttention repo: https://github.com/weecology/DeepTreeAttention<br>Key files include model definition for a [single year model](https://github.com/weecology/DeepTreeAttention/blob/main/src/models/Hang2020.py) and [Data preprocessing](https://github.com/weecology/DeepTreeAttention/blob/cae13f1e4271b5386e2379068f8239de3033ec40/src/utils.py#L59).</p>
Data from: Localized neighborhood species mingling is correlated with individual tree size inequality in natural forests in South China
<p>Context: Numerous hypotheses such as Janzen–Connell and herd immunity effects have been proposed to explain the coexistence of diverse species in plant communities. However, these mechanisms for maintaining diversity have been studied primarily through the lens of species diversity, whereas tree size diversity or relationships between size and species diversity resulting from local interactions have rarely been investigated.</p> <p>Aims: We aimed to identify relationships between spatial species mingling and tree size inequality using extensive plot data from species-rich forest ecosystems.</p> <p>Methods: We applied neighborhood-based methods and explored relationships between spatial species mingling and size inequality indices in 22 large forest plots (30 ha in total) in subtropical and tropical China.</p> <p>Results: Forest communities with low species mingling, or segregation of heterospecific trees, exhibited increased segregation of trees with dissimilar sizes. In most plots, large trees (e.g. dbh > 30 cm) were extensively associated with high species mingling, and individual-tree neighborhood species and size diversity were closely correlated.</p> <p>Conclusion: Our findings suggest that both the spatial patterns of conspecific dispersal and neighborhood interactions play an important role in determining the spatial patterns of tree size and species diversity and eventually in shaping the structure of forest communities.</p>
Fig. 1 in Croton aleuritoides P.E. Berry (Euphorbiaceae), a distinctive new tree species from Montagne des Français in northern Madagascar
Fig. 1. – Holotype of Croton aleuritoides P.E. Berry.
Data for: Theoretical and practical considerations when using retroelement insertions to estimate species trees in the anomaly zone
<p>A potential shortcoming of concatenation methods for species tree estimation is their failure to account for incomplete lineage sorting. Coalescent methods address this problem but make various assumptions that, if violated, can result in worse performance than concatenation. Given the challenges of analyzing DNA sequences with both concatenation and coalescent methods, retroelement insertions (RIs) have emerged as powerful phylogenomic markers for species tree estimation. Here, we show that two recently proposed quartet-based methods, SDPquartets and ASTRAL_BP, are statistically consistent estimators of the unrooted species tree topology under the coalescent when RIs follow a neutral infinite-sites model of mutation and the expected number of new RIs per generation is constant across the species tree. The accuracy of these (and other) methods for inferring species trees from RIs has yet to be assessed on simulated data sets, where the true species tree topology is known. Therefore, we evaluated eight methods given RIs simulated from four model species trees, all of which have short branches and at least three of which are in the anomaly zone. In our simulation study, ASTRAL_BP and SDPquartets always recovered the correct species tree topology when given a sufficiently large number of RIs, as predicted. A distance-based method (ASTRID_BP) and Dollo parsimony also performed well in recovering the species tree topology. In contrast, unordered, polymorphism, and Camin-Sokal parsimony (as well as an approach based on MDC) typically fail to recover the correct species tree topology in anomaly zone situations with more than four ingroup taxa. Of the methods studied, only ASTRAL_BP automatically estimates internal branch lengths (in coalescent units) and support values (i.e., local posterior probabilities). We examined the accuracy of branch length estimation, finding that estimated lengths were accurate for short branches but upwardly biased otherwise. This led us to derive the maximum likelihood (branch length) estimate for when RIs are given as input instead of binary gene trees; this corrected formula produced accurate estimates of branch lengths in our simulation study, provided that a sufficiently large number of RIs were given as input. Lastly, we evaluated the impact of data quantity on species tree estimation by repeating the above experiments with input sizes varying from 100 to 100,000 parsimony-informative RIs. We found that, when given just 1,000 parsimony-informative RIs as input, ASTRAL_BP successfully reconstructed major clades (i.e clades separated by branches >0.3 CUs) with high support and identified rapid radiations (i.e., shorter connected branches), although not their precise branching order. The local posterior probability was effective for controlling false positive branches in these scenarios.</p>
Recruitment limitation for three tree species in BCI, Panama
<p><span>Recruitment limitation – the failure of a species to establish recruits at an available site – is a potential determinant of plant communities' structure, causing local communities to be a limited subset of the regional species pool. Recruitment limitation results from three mechanisms: i) lack of seed sources (i.e., source limitation), ii) failure of available seeds to reach recruitment sites (i.e., dispersal limitation), and iii) failure of arrived seeds to establish at a location (i.e., establishment limitation). Here, we evaluated the relative importance of these mechanisms in three co-occurring tree species (<i>Dipteryx oleifera, Attalea butyracea</i>,<i> </i>and <i>Astrocaryum standleyanum</i>) that share seed dispersers/predators. The study was set up on Barro Colorado Island (Panama) at 62 1-ha sites with varying tree densities. Source limitation was estimated as the proportion of sites that would be reached by seeds if seeds were distributed uniformly. Dispersal limitation was estimated from the number of sites with seeds in the soil bank. Establishment limitation was evaluated by measuring germination and 1-year survival in seed addition experiments. The effect of conspecific and heterospecific densities on the mechanisms was evaluated at three spatial scales (1, 5 and 9 ha). For all species, seed predation was the most important recruitment component (~80% decrease in seed survival). Establishment varied among species and was affected by conspecific and heterospecific species densities across spatial scales. Given that species identity, distribution and seed dispersal/predation affect recruitment at multiple scales, multiscale studies are required to understand how recruitment limitation determines community structure in tropical forests. </span></p>
Not all trees can make a forest: tree species composition and competition control forest encroachment in a tropical savanna
<p>Forest encroachment into savannas is a widespread phenomenon, the rate of which may depend on soil conditions, species composition, or changes in stand structure. As savanna specialist trees are replaced by generalist species, rates of stand development may increase. Because generalists can persist in forests, they are likely to grow more quickly and survive longer in dense stands, compared to savanna specialists. Furthermore, the faster growth rates of generalists may allow them to overtop and outcompete savanna specialists, causing rapid species turnover.</p> <p>We measured growth and survival of 6147 individuals of 112 species of savanna and generalist tree species over a period of 10 years in an ecological reserve in Assis, São Paulo State, Brazil. We modeled growth and mortality as a function of soil texture and nutrients, tree size, competitive neighborhood, and membership in savanna or generalist (species which can persist in forests and savannas) functional groups.</p> <p>Tree growth and survival was strongly influenced by competition, as estimated by the basal area of trees taller than a focal tree. At the stand level, savanna species are unable to contribute basal area growth in closed stands, while generalist species continue to increase in basal area even at high stand basal area. This phenomenon is driven by differences in growth and mortality. Generalists grew faster than savanna species, both in height and diameter. This difference in growth rates led to savanna species becoming suppressed more rapidly than generalists. When suppressed, savanna species were more than twice as likely to die than were generalists. Soils had inconsistent and mostly weak effects which were difficult to separate from gradients of stand structure.</p> <p>Synthesis: We demonstrate that the presence of generalist trees accelerates rates of basal area accumulation due to their greater growth rates and tolerance of shading. Generalists outcompete savanna trees by growing faster in the open and overtopping savanna specialists. Due to the slow growth and high mortality of savanna species in the shade, they are unable to form closed-canopy stands. Accounting for differences among functional types and development of vegetation structure is critical for modeling forest encroachment.</p>
High variation in hydraulic efficiency but not xylem safety between roots and branches in four temperate broad-leaved tree species
<p>Xylem hydraulic safety and efficiency are key traits determining tree fitness in a warmer and drier world. While numerous plant hydraulic studies have focused on branches, our understanding of root hydraulic functioning remains limited, although roots control water uptake, influence stomatal regulation and have commonly been considered as the most vulnerable organ along the hydraulic pathway. We investigated 11 traits related to xylem safety and efficiency along the hydraulic pathway in four temperate broad-leaved tree species. Continuous vessel tapering from coarse roots to stems and branches caused considerable reduction in hydraulic efficiency. Wood density was always lowest in roots, but did not decline linearly along the flow path. In contrast, xylem embolism resistance (P50) did not differ significantly between roots and branches, except for one species. The limited variation in xylem safety between organs did not adequately reflect the corresponding reductions in vessel diameter (by ~70%) and hydraulic efficiency (by ~85%). Although we did not observe any trade-off between xylem safety and specific conductivity, vessel diameter, vessel lumen fraction and wood density were related to embolism resistance, both across and partly within organs. We conclude that coarse roots are not highly vulnerable to xylem embolism as commonly believed, indicating that hydraulic failure during soil drying might be restricted to fine roots.</p>
Drought timing and species growth phenology determine intra-annual recovery of tree height and diameter growth
<p>These are the data reported in van Kampen et al. (2022) "Drought timing and species growth phenology determine intra-annual recovery of tree height and diameter growth" published in AoB Plants. They describe patterns of height and diameter growth for saplings of six tree species undergoing experimental drought conditions at different times of year. </p>
Data from: Trait hierarchies are stronger than trait dissimilarities in structuring spatial co-occurrence patterns of common tree species in a subtropical forest
<p>1. The dissimilarity and hierarchy of trait values that characterize niche and fitness differences, respectively, have been increasingly applied to infer mechanisms driving community assembly and to explain species co-occurrence patterns. Here, we predict that limiting similarity should result in the spatial segregation of functionally similar species, while functionally similar species will be more likely to co-occur either due to environmental filtering or competitive exclusion of inferior competitors (hereafter hierarchical competition).</p> <p>2. We used a fully mapped 50-ha subtropical forest plot in southern China to explore how pairwise spatial associations between saplings and between adult trees were influenced by trait dissimilarity and hierarchy in order to gain insight into assembly mechanisms. We assessed pairwise spatial associations using two summary statistics of spatial point patterns at different spatial scales and compared the effects of trait dissimilarity and trait hierarchy of different functional traits on the interspecific spatial associations. These comparisons allow us to disentangle the effects of limiting similarity, environmental filtering and hierarchical competition on species co-occurrence.</p> <p>3. We found that trait dissimilarity was generally negatively related with interspecific spatial associations for both saplings and adult trees across spatial scales, meaning that species with similar trait values were more likely to co-occur and thus supporting environmental filtering or hierarchical competition. We further found that trait hierarchy outweighed trait dissimilarity in structuring pairwise spatial associations, suggesting that hierarchical competition played a more important role in structuring our forest community than environmental filtering across life stages.</p> <p>4. This study employed a novel method, by offering the integration of pairwise spatial association and trait dissimilarity as well as trait hierarchy, to disentangle the relative importance of multiple assembly mechanisms in structuring co-occurrence patterns, especially the mechanisms of environmental filtering and hierarchical competition, which lead to indistinguishable co-occurrence patterns. This study also reinforced the importance of trait hierarchy rather than trait dissimilarity in driving neighborhood competition.</p>
The implementation of systemic insecticides and increased irrigation against invasive species attacking Ficus trees in Hawai'i.
<p>This contains the data collected for the publication submitted to the Journal of Applied Entomology. </p>
Dead Again: Predictions of repeat tree die-off under hotter droughts confirm mortality thresholds for a dryland conifer species
<p>Tree die-off, driven by extreme drought and exacerbated by a warming climate, is occurring rapidly across every wooded continent - threatening carbon sinks and other ecosystem services provided by forests and woodlands. Forecasting the spatial patterns of tree die-off in response to drought is a priority for the management and conservation of forested ecosystems under projected future hotter and drier climates. Several drought-related metrics have recently been proposed to predict the mortality threshold (i.e., tipping point) for <i>Pinus edulis, </i>a model tree species in many studies of drought-induced tree die-off. To improve future capacity to forecast tree mortality, we used a severe drought in 2018 across the southwestern United States as a natural experiment. We compared the ability of published mortality thresholds derived from four drought metrics (the Forest Drought Severity Index, the Standardized Precipitation Evapotranspiration Index, and raw values of precipitation and vapor pressure deficit) to predict areas of <i>P. edulis </i>die-off following extreme drought. Using aerial detection surveys of tree mortality in combination with gridded climate data, we calculated the agreement between these four proposed thresholds and the presence and absence of regional-scale tree die-off<i>.</i> Overall, such thresholds tended to over predict the spatial extent of tree die-off across the landscape, yet some retain moderate skill in discriminating between areas that experienced and did not experience tree die-off. Area under the curve (AUC) of these thresholds ranged from 0.51 to 0.71, sensitivity (true-positive rate) ranged from 0.54 to 0.86, and specificity (true-negative rates) ranged from 0.16 to 0.73. We highlight that empirically derived climate thresholds may be a useful forecasting tool to identify vulnerable areas to drought induced die-off, allowing for targeted responses to future droughts and improved management of at-risk areas.</p>
Decomposition, topology, properties, and graphs of 10 tree species of Caatinga vegetations
<p>Data were obtained from the observation of ten individuals from ten species growing in a semiarid area of Caatinga vegetation under natural conditions in the Northeast of Brazil in Paraiba State, located at the Fazenda Pocinho (7º29'46" S, 35º58'12" W) in the municipality of Barra de Santana, Brazil. The woody crowns were drawn (skeletonized) in the 2-D format as rooted trees resulting in networks with nodes and connectors following the methodology described by Prado et al. (2020, https://doi.org/10.1016/j.jtbi.2020.110318). Skeletonized crowns capture the data of decomposition, topology, and properties.</p>
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.