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2,052 results for “Species tree”
Higher spring phenological sensitivity to forcing temperatures of Asian compared to European tree species under low and high pre-chilling conditions Datasets
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Effects of tree species diversity and conspecific seedling density on insect herbivory and pathogen infection on big-leaf mahogany seedlings
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Decreasing stem growth in common European tree species despite earlier growth onset
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ASTRAL-Pro: Quartet-based species-tree inference despite paralogy
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Data from: Minimum variance rooting of phylogenetic trees and implications for species tree reconstruction
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Data for: Weighting by gene tree uncertainty improves accuracy of quartet-based species trees
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H. J. Andrews Experimental Forest site, station Andrews Watershed 1, study of species richness of trees in units of number on a yearly timescale
The EcoTrends project was established in 2004 by Dr. Debra Peters (Jornada Basin LTER, USDA-ARS Jornada Experimental Range) and Dr. Ariel Lugo (Luquillo LTER, USDA-FS Luquillo Experimental Forest) to support the collection and analysis of long-term ecological datasets. The project is a large synthesis effort focused on improving the accessibility and use of long-term data. At present, there are ~50 state and federally funded research sites that are participating and contributing to the EcoTrends project, including all 26 Long-Term Ecological Research (LTER) sites and sites funded by the USDA Agriculture Research Service (ARS), USDA Forest Service, US Department of Energy, US Geological Survey (USGS) and numerous universities. Data from the EcoTrends project are available through an exploratory web portal (http://www.ecotrends.info). This web portal enables the continuation of data compilation and accessibility by users through an interactive web application. Ongoing data compilation is updated through both manual and automatic processing as part of the LTER Provenance Aware Synthesis Tracking Architecture (PASTA). The web portal is a collaboration between the Jornada LTER and the LTER Network Office. The following dataset from H. J. Andrews Experimental Forest (AND) contains species richness of trees measurements in number units and were aggregated to a yearly timescale.
H. J. Andrews Experimental Forest site, station Andrews Watershed 3, study of species richness of trees in units of number on a yearly timescale
The EcoTrends project was established in 2004 by Dr. Debra Peters (Jornada Basin LTER, USDA-ARS Jornada Experimental Range) and Dr. Ariel Lugo (Luquillo LTER, USDA-FS Luquillo Experimental Forest) to support the collection and analysis of long-term ecological datasets. The project is a large synthesis effort focused on improving the accessibility and use of long-term data. At present, there are ~50 state and federally funded research sites that are participating and contributing to the EcoTrends project, including all 26 Long-Term Ecological Research (LTER) sites and sites funded by the USDA Agriculture Research Service (ARS), USDA Forest Service, US Department of Energy, US Geological Survey (USGS) and numerous universities. Data from the EcoTrends project are available through an exploratory web portal (http://www.ecotrends.info). This web portal enables the continuation of data compilation and accessibility by users through an interactive web application. Ongoing data compilation is updated through both manual and automatic processing as part of the LTER Provenance Aware Synthesis Tracking Architecture (PASTA). The web portal is a collaboration between the Jornada LTER and the LTER Network Office. The following dataset from H. J. Andrews Experimental Forest (AND) contains species richness of trees measurements in number units and were aggregated to a yearly timescale.
Bent Creek Experimental Forest site, station Mixed hardwood plots at Bent Creek Experimental Forest, study of species richness of trees in units of number on a yearly timescale
The EcoTrends project was established in 2004 by Dr. Debra Peters (Jornada Basin LTER, USDA-ARS Jornada Experimental Range) and Dr. Ariel Lugo (Luquillo LTER, USDA-FS Luquillo Experimental Forest) to support the collection and analysis of long-term ecological datasets. The project is a large synthesis effort focused on improving the accessibility and use of long-term data. At present, there are ~50 state and federally funded research sites that are participating and contributing to the EcoTrends project, including all 26 Long-Term Ecological Research (LTER) sites and sites funded by the USDA Agriculture Research Service (ARS), USDA Forest Service, US Department of Energy, US Geological Survey (USGS) and numerous universities. Data from the EcoTrends project are available through an exploratory web portal (http://www.ecotrends.info). This web portal enables the continuation of data compilation and accessibility by users through an interactive web application. Ongoing data compilation is updated through both manual and automatic processing as part of the LTER Provenance Aware Synthesis Tracking Architecture (PASTA). The web portal is a collaboration between the Jornada LTER and the LTER Network Office. The following dataset from Bent Creek Experimental Forest (BEN) contains species richness of trees measurements in number units and were aggregated to a yearly timescale.
Bent Creek Experimental Forest site, station Yellow Poplar plots at Bent Creek Experimental Forest, study of species richness of trees in units of number on a yearly timescale
The EcoTrends project was established in 2004 by Dr. Debra Peters (Jornada Basin LTER, USDA-ARS Jornada Experimental Range) and Dr. Ariel Lugo (Luquillo LTER, USDA-FS Luquillo Experimental Forest) to support the collection and analysis of long-term ecological datasets. The project is a large synthesis effort focused on improving the accessibility and use of long-term data. At present, there are ~50 state and federally funded research sites that are participating and contributing to the EcoTrends project, including all 26 Long-Term Ecological Research (LTER) sites and sites funded by the USDA Agriculture Research Service (ARS), USDA Forest Service, US Department of Energy, US Geological Survey (USGS) and numerous universities. Data from the EcoTrends project are available through an exploratory web portal (http://www.ecotrends.info). This web portal enables the continuation of data compilation and accessibility by users through an interactive web application. Ongoing data compilation is updated through both manual and automatic processing as part of the LTER Provenance Aware Synthesis Tracking Architecture (PASTA). The web portal is a collaboration between the Jornada LTER and the LTER Network Office. The following dataset from Bent Creek Experimental Forest (BEN) contains species richness of trees measurements in number units and were aggregated to a yearly timescale.
Raczka et al. Plant-microbial responses to reduced precipitation depend on tree species in a temperate forest
Given that global change is predicted to increase the frequency and severity of drought in temperate forests, it is critical to understand the degree to which plant belowground responses cascade through the soil system to drive ecosystem responses to water stress. While most research has focused on plant and microbial responses independently of each other, a gap in our understanding lies in the integrated response of plant-microbial interactions to water stress. We investigated the extent to which divergent belowground responses to reduced precipitation between sugar maple trees (Acer saccharum) vs. oak trees (Oak spp.) may influence microbial activity via throughfall exclusion in the field. Evidence that oak trees send carbon belowground to prime microbial activity more than maples under ambient conditions and in response to water stress suggests there is the potential for corresponding impacts of reduced precipitation on microbial activity. As such, we tested the hypothesis that differences in belowground C allocation between oaks and maples would stimulate microbial activity in the oak treatment soils and reduce microbial activity in in the sugar maple treatment soils compared to their respective controls. We found that the treatment led to declines in N mineralization, soil respiration, and oxidative enzyme activity in the sugar maple treatment plot. These declines may be due to sugar maple trees reducing root C transfers to the soil. By contrast, the reduced precipitation treatment enhanced soil respiration, as well as rates of N mineralization and peroxidase activity in the oak rhizosphere. This enhanced activity suggests that oak roots provided optimal rhizosphere conditions during water stress to prime microbial activity to support net primary production. With future changes in precipitation predicted for forests in the Eastern US, we show that the strength of plant-microbial interactions drives the degree to which reduced precipitation impacts soil C and nu
Fig. 2 Maximum likelihood tree inferred from the combined cmdA, tef1 in New endemic Fusarium species hitch-hiking with pathogenic Fusarium strains causing Panama disease in small-holder banana plots in Indonesia
Fig. 2 Maximum likelihood tree inferred from the combined cmdA, tef1, tub, rpb1, and rpb2 sequence datasets of the Fusarium fujikuroi species complex (FFSC) including eight Indonesian isolates (indicated in blue). Bootstrap support values and Bayesian posterior probabilities are given at each node. The tree is rooted to Fusarium nirenbergiae (CBS 744.97) and F. oxysporum (CBS 716.74).
FIGURE 10. Bayesian inference tree for 2,778 in A new species of the genus Pseudocrangonyx (Crustacea: Amphipoda Pseudocrangonyctidae) from Simbok Cave, Korea
FIGURE 10. Bayesian inference tree for 2,778 bp of nuclear 28S rRNA and histone H3, and mitochondrial COI and 16S rRNA markers. Numbers on nodes represent bootstrap values for maximum likelihood and Bayesian posterior probabilities. Taxonomically confused clades are highlighted in a gray box. The genus-group name Pseudocrangonyx is abbreviated to P.
Figure 5. Bayesian tree for the 38 in Two new species of lithobiid centipedes and the first record of Lamyctes africanus Porath (Chilopoda: Lithobiomorpha) in China
Figure 5. Bayesian tree for the 38 sequences based on COI sequences. The Bayesian posterior probabilities from Bayesian analyses are presented above the main branches. The scale bar represents substitutions per site. Country of origin given in square brackets: AU = Australia; CH = China; GE = Germany; DK = Denmark; SA = South Africa.
Provisioning forest and conservation science with European tree species distribution models under climate change
<p>Estimating shifts in the current range of forest tree species is crucial for formulating adaptive management strategies such as assisted migration. Ecological niche models have been the most widely used tools to estimate the potential climatic suitability of species worldwide. The reliability of such estimations depends on the model algorithm and the input data such as climate and species occurrence. We developed a dataset of the potential distribution of seven ecologically and economically important tree species of Europe in terms of their climatic suitability with an ensemble approach while accounting for uncertainty due to model algorithms. The distribution models shall be the basis for follow-up studies in forest and conservation science.</p>
FIGURE5. Maximum likelihood tree based on the Kimura 2-parameter model of the COI sequences from the Siphamia species with P. kauderni as the outgroup. Tree shown here has the highest log likelihood following 10 000 replications. The percentage of trees in which the associated taxa clustered together is shown next to the branches, branch lengths are measured in the number of substitutions per site and all positions containing gaps and missing data have been eliminated. in Redescription and distributional range extension of the Speckled Siphonfish, Siphamia guttulata (Pisces: Apogonidae)
FIGURE5. Maximum likelihood tree based on the Kimura 2-parameter model of the COI sequences from the Siphamia species with P. kauderni as the outgroup. Tree shown here has the highest log likelihood following 10 000 replications. The percentage of trees in which the associated taxa clustered together is shown next to the branches, branch lengths are measured in the number of substitutions per site and all positions containing gaps and missing data have been eliminated.
Supplementary material 1 from: Collins N, Schneider KR (2020) Oecanthus salvii sp. nov. (Orthoptera: Gryllidae: Oecanthinae): A new tree cricket species from Modoc County in northeast California. Journal of Orthoptera Research 29(1): 91-99. https://doi.org/10.3897/jor.29.50400
Supplementary material 1 from: Collins N, Schneider KR (2020) Oecanthus salvii sp. nov. (Orthoptera: Gryllidae: Oecanthinae): A new tree cricket species from Modoc County in northeast California. Journal of Orthoptera Research 29(1): 91-99. https://doi.org/10.3897/jor.29.50400
Supplementary material 2 from: Collins N, Schneider KR (2020) Oecanthus salvii sp. nov. (Orthoptera: Gryllidae: Oecanthinae): A new tree cricket species from Modoc County in northeast California. Journal of Orthoptera Research 29(1): 91-99. https://doi.org/10.3897/jor.29.50400
Supplementary material 2 from: Collins N, Schneider KR (2020) Oecanthus salvii sp. nov. (Orthoptera: Gryllidae: Oecanthinae): A new tree cricket species from Modoc County in northeast California. Journal of Orthoptera Research 29(1): 91-99. https://doi.org/10.3897/jor.29.50400
FIGURE 1. The strict consensus tree resulting from the parsimony analysis I in Taxonomy and evolution of asymmetric male genitalia in the subgenus Ashima Chen (Diptera: Drosophilidae: Phortica Schiner), with descriptions of seven new species
FIGURE 1. The strict consensus tree resulting from the parsimony analysis I (PAUP* v4.0a166) of the data matrix of 40 spp. × 66 morphological characters (Appendix 1) for the genus Phortica (especially focusing on the subgenus Ashima). Synapomorphies (solid circle: nonhomoplastic; open circle: homoplastic) inferred from both ACCTRAN and DELTRAN character optimization are indicated on each internal branch along with support values (bootstrap frequency %).
FIGURE 1. Bayesian inference tree derived from the cyt b in Vanmanenia intermedia Fang, 1935, a valid hill-stream species of loach (Teleostei Gastromyzontidae) from the middle Yangtze River basin, Southwest China
FIGURE 1. Bayesian inference tree derived from the cyt b gene for nine species of Vanmanenia. Nodal numbers are posterior probability values larger than 50%.
ScienceDex guides
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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.