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FIGURE 3 Bibliographic works containing vascular plant nomenclatural events published between 2019 and 2021 in Global access to nomenclatural botanical resources: Evaluating open access availability
FIGURE 3 Bibliographic works containing vascular plant nomenclatural events published between 2019 and 2021 and their use of open access (OA), coverage of top 80% of the International Plant Names Index (IPNI) dataset (journal abbreviations follow IPNI, asterisk indicates that the title is included in the Directory of Open Access Journals).
FIGURE 2 in Global access to nomenclatural botanical resources: Evaluating open access availability
FIGURE 2 Open access (a) takeup and (b) status for nomenclatural acts recorded in the International Plant Names Index per year of study (2012–2021).
FIGURE 1 in Global access to nomenclatural botanical resources: Evaluating open access availability
FIGURE 1 Flowchart depicting category assignment for (a) takeup of open access and (b) open access status.
Fig. 2 in Fish assemblage of the Mamanguape Environmental Protection Area, NE Brazil: abundance, composition and microhabitat availability along the mangrove-reef gradient
Fig. 2. Ontogenetic patterns of habitat use in Abudefduf saxatilis, Anisotremus surinamensis, Lutjanus alexandrei, and L. jocu along the sub-areas of Mamanguape Mangrove-Reef system, NE Brazil, showing an increase in individual size classes from the Estuarine to the Reef zone. Mann Whitney U Test showed significant size differences between all sub-areas (for A. saxatilis, Transition vs. Reefs: U = 491, Z = -6.02, p = 0.00; for A. surinamensis, Transition vs. Reefs: U = 1338, Z = -6.83, p = 0.00; for L. alexandrei, Peixe-Boi vs. Transition: U = 0.00, Z = -3.39, p = 0.00; and Tanques vs. Transition: U = 0.00, Z = -2.92, p = 0.00; for L. jocu, Peixe-Boi vs. Transition: U = 7.5, Z = -3.38, p = 0.00), except between Tanques and Peixe-Boi for L. alexandrei (U = 65, Z = 0.76, p = 0.46).
Fig. 3 in Fish assemblage of the Mamanguape Environmental Protection Area, NE Brazil: abundance, composition and microhabitat availability along the mangrove-reef gradient
Fig. 3. Canonical Correspondence Analysis of fishes and environmental parameters from Mamanguape Mangrove-Reef system, NE Brazil: (a) fish species (symbols) in relation to microhabitat categories (vectors) - Eigenvalues: axis 1, 0.56; axis 2, 0,20; r species-environment: axis 1, 0.87; axis 2, 0.56; First two axes accounted for 64.9 % of the variance; (b) fish trophic groups and subareas (symbols) in relation to environmental categories (vectors) - Eigenvalues: axis 1, 0.49; axis 2, 0.39; r species-environment: axis 1, 0.79; axis 2, 0.76; First two axes accounted for 51.6 % of the variance. Monte-Carlo test of all canonical axes were significant (p <0.01), 999 permutations. Abbreviations as follows - fish species: Abusax: Abudefduf saxatilis; Acabah: Acanthurus bahianus; Acacoe: A. coeruleus; Achlin: Achirus lineatus; Anisur: Anisotremus surinamensis; Anivir: A. virginicus; Batsop: Bathygobius soporator; Centrop: Centropomus sp.; Cithspil - Citharichthys spilopterus; Corglau - Coryphopterus glaucofraenum; Dactvol - Dactylopterus volitans; Echnau: Echeneis naucrates; Epiadc: Epinephelus adscensionis; Eucmel: Eucinostomus melanopterus; Haepar: Haemulon parra; Hipprei: Hippocampus reidi; Lutana: Lutjanus analis; Lutale: L. alexandrei; Lutjoc: L. jocu; Micrbra: Microphis brachyurus; Myroce: Myrichthys ocellatus; Rypran: Rypticus randalli; Scarus: Scarus sp.; Sparis: Sparisoma sp.; Sphtes: Sphoeroides testudineus; Stefus: Stegastes fuscus; Stevar: S. variabilis; trophic groups: RH - Roving herbivore; TH - Territorial herbivore; OM - Omnivore; CA - Carnivore; IM - Invertivore of mobile prey.
Fig. 1 in Fish assemblage of the Mamanguape Environmental Protection Area, NE Brazil: abundance, composition and microhabitat availability along the mangrove-reef gradient
Fig. 1. Mamanguape estuary, State of Paraíba, NE Brazil, showing surveyed sub-areas: 1) Tanques; 2) Peixe-Boi; 3) Cação; 4) Transition; and 5) Reefs. Dashed areas represent sandbanks.
Database on available 2D materials
<p>This deliverable is a database of exfoliable three-dimensional (3D) layered materials available for 2D-PRINTABLE, and the corresponding two-dimensional (2D) materials produced by project partners by means of various exfoliation methods in liquid media, including liquid-phase exfoliation method (LPE), electrochemical exfoliation (EE) and chemical exfoliation (CE). Exfoliable 3D layered materials are those synthesized and currently available at VSCHT facilities, while LPE-produced 2D materials are those produced by BeD, UKa, TCD TUD and VSCHT. The database includes the main specifications for exfoliable 3D layered materials, including their (physical) form (e.g., powder/crystal and corresponding dimension), stoichiometry and doping, as well as the material amount that can be supplied within the consortium. For 2D materials, the database reports the references to public documents (e.g., paper in international peer-reviewed journal or public repositories) showing material characterizations. </p> <p>This project has received funding from the European Union’s Horizon Europe research and innovation programme under grant agreement No 101135196. Views and opinions expressed are however those of the author(s) only and do not necessarily reflect those of the European Union. Neither the European Union nor the granting authority can be held responsible for them.</p>
Extending Grime's CSR model to predict plant demographic responses across resource availability gradients: evidence from the Patagonian steppes
<p>Sexual reproduction, growth, and survival are crucial demographic strategies for plant population viability. Here, we propose a conceptual model predicting demographic responses of species based on their ecological strategy and the heterogeneity of environmental conditions within a biogeographical unit and then applied it to a case study from a 5-degree latitudinal gradient in the Patagonian steppes. We also aim to disentangle genetic from environmental effects on demographic responses. We performed <em>in-situ </em>and common garden experiments with two species from six local populations of the Occidental Phytogeographical District of the Patagonian steppes. Species differ in key ecological traits, and thus fit into Grime´s model for evolutionary strategies in plants: one as competitive species and the other as stress-tolerant species. We calculated population growth rate (λ) and performed elasticity analyses to compare the contribution of each demographic strategy to population fitness between species and among local populations distributed along 600 km latitudinal gradient with differences in mean annual precipitation (MAP). We highlight four results. First, the competitive species change from sexual reproduction to growth as MAP increases. Second, the stress-tolerant species relied on growth and survival along the MAP gradient. Third, interannual variation in resource availability modulated demographic responses for both strategies. Fourth, based on the comparison of the <em>in-situ</em> and common garden experiments, we submit that demographic responses were genetically driven. Our study shows that demographic responses can be roughly predicted by the ecological strategy across environmental gradients. We show that differences arise not only between species, but also were genetically driven differences within species among local populations. Scaling up plant-level responses to population-level dynamics allows for a process-based understanding of current and future biogeographical species organization. Furthermore, conservation and restoration efforts should be guided by demographic strategies underlying population viability.</p>
Code for manuscript "Organic ligands in whale excrement support iron availability and reduce copper toxicity to the surface ocean" by Monreal et al.
<p>.zip file containing GitHub repository titled "ligands-in-whale-excrement" (<a href="https://github.com/patrickmon38/ligands-in-whale-excrement/tree/main">https://github.com/patrickmon38/ligands-in-whale-excrement/tree/main</a>)<br><br><strong>README from GitHub: </strong></p> <div> <h3>Code used to generate figures for the manuscript "Organic ligands in whale excrement support iron availability and reduce copper toxicity to the surface ocean" by Monreal et al. are found in this repository.</h3> </div> <div> <p>In press at Communications Earth & Environment</p> <p> </p> </div> <p>Most data (all except .mzXML data) called in code is from Github_Data_For_Whale_Ligand_Manuscript.xlsx in this repository.</p> <p> </p> <p>Mass spec data from .mzXML files are has been depositied and is available for download in the Mass Spectrometry Interactive Virtual Environment (MassIVE). LC-ESI-MS (Orbitrap) and LC-FT-ICR-MS raw data can be accessed there under MSV000094994 (doi:10.25345/C50000B5D) and MSV000094995 (doi:10.25345/C5V98034P), respectively.</p> <p> </p> <p>html output from Rmarkdown file can be viewed directly at <a href="https://html-preview.github.io/?url=https://github.com/patrickmon38/ligands-in-whale-excrement/blob/main/Figures_for_GitHub_Whale_Excrement_Manuscript.html" rel="nofollow">https://html-preview.github.io/?url=https://github.com/patrickmon38/ligands-in-whale-excrement/blob/main/Figures_for_GitHub_Whale_Excrement_Manuscript.html</a>.</p> <p>If trying to run Rmarkdown on your own system, you will need to download the .xlsx and .mzXML files and change paths accordingly.</p> <p>Co-authors of this manuscript:</p> <h5>Patrick J. Monreal (University of Washington)</h5> <h5>Matthew S. Savoca (Stanford University)</h5> <h5>Lydia Babcock-Adams (National High Magnetic Field Laboratory)</h5> <h5>Laura E. Moore (University of Washington)</h5> <h5>Angel Ruacho (Univesrity of Washington)</h5> <h5>Dylan Hull (University of Washington)</h5> <h5>Logan J. Pallin (Unversity of California, Santa Cruz)</h5> <h5>Ross C. Nichols (Unversity of California, Santa Cruz)</h5> <h5>John Calambokidis (Cascadia Research Collective)</h5> <h5>Joseph A. Resing (Unviersity of Washington/CICOES/NOAA)</h5> <h5>Ari S. Friedlaender (Unversity of California, Santa Cruz)</h5> <h5>Jeremy Goldbogen (Stanford University)</h5> <h5>Randelle M. Bundy (University of Washington)</h5> <p> </p> <div> </div> <div><strong>If there are issues or questions with the code, author for contact is Patrick Monreal (<a href="mailto:pmonreal@uw.edu">pmonreal@uw.edu</a>).</strong></div>
Biomass availability at NUTS3 level for modelling European energy system with 3 future scenario
<p>The database is built over three main sources</p> <ul> <li>S2Biom database from where most of the numbers come from <a title="S2Biom" href="https://s2biom.wenr.wur.nl/home" target="_blank" rel="noopener">(S2Biom original repo)</a></li> <li>ENSPRESO database that we use for few energy sources that are not part of s2biom (<a title="JRC" href="https://data.jrc.ec.europa.eu/collection/id-00138" target="_blank" rel="noopener">ENSPRESO</a>)</li> <li>National data for Switzerland (<a href="https://www.envidat.ch/dataset/swiss-biomass-potentials" target="_blank" rel="noopener">FoReMA Forest Resources Management Insititute</a></li> </ul> <p>Data processing is done with Julia code that has short documentation and additional databasePipeline.pdf to understand how the dataset was built. To rebuild the dataset, refer to the github repository linked to this dataset.</p> <p>Data are available as a csv file and as a sqlite database. Data query methods are available from the Github repository linked to this dataset.</p> <p>The dataset includes biomass energy availability, expressed in PJ, at nuts 0-3 (NUTS 2013), and ENTSOE bidding zones aggregation. For each biomass source, the roadsidecost of each source is associated. While the biomass data is varied, large, and detailed following standards (ISO 17225-1:2021, ISO 17225-2:2021, ISO 17225-3:2021, ISO 17225-4:2021, ISO 17225-5:2021, ISO 17225-6:2021, ISO 17225-7:2021, ISO 18125:2017, EN 13556), biomass sources have been aggregated into three categories: Forestry, Agriculture, Organic waste. There are 3 bioenergy potential, low, medium, and high. These were based on the available data listed above. </p> <p>Note: Technical availability of biomass is often much higher than the current use. Check comparison_biofuel_amounts.xlsx to compare the potentials to actual use in Eurostat and IEA data. Full potential should often not be used, because of possible issues with biodiversity and land use emissions.</p> <p> </p>
Supplementary material for "Food availability affects parental anti-predator behaviour in red kites"
<p><strong>Abstract</strong></p> <p>Parental investment theory proposes two non-mutually exclusive hypotheses to explain variation in anti-predator behaviour in relation to the age of offspring: the “reproductive value of offspring” hypothesis and the “harm to offspring” hypothesis. The relative importance of the two factors underlying the hypotheses, reproductive value and harm, may change depending on environmental conditions such as food availability. To test the relative importance of the two hypotheses under different food conditions, we conducted a supplementary feeding experiment in red kite (<em>Milvus milvus</em>) breeding pairs and used a live eagle owl (<em>Bubo bubo</em>) as decoy nest predator to trigger anti-predator behaviour. We used time-to-capture in mist nets mounted next to the decoy predator as proxy for mobbing intensity. Under natural food conditions we found a nearly constant mobbing intensity throughout the entire nestling period. However, under food-enhanced conditions mobbing intensity was reduced in parents with young nestlings and increased in parents with old nestlings. These results suggest greater importance of the “reproductive value of offspring” hypothesis in situations of favourable food availability. Moreover, mobbing intensity depended on brood size and weather conditions. The results suggest that parental anti-predator investment increases with the reproductive value of the brood under favourable breeding conditions, but that this pattern is adjusted to the current context, including the vulnerability of the brood and environmental conditions.</p>
Estimating historic N- and S-deposition with publicly available data – An example from Central Germany
<p>The deposition of reactive nitrogen and sulphur has profound effects on ecosystem functioning. In the last decades, monitoring networks providing high resolution spatio-temporal deposition estimates have been set up, but equivalent information on historic deposition is mostly missing. However, understanding vegetation change and mitigate future loss of biodiversity and ecosystem functioning is only possible evaluating the effects of its strongest drivers, which includes deposition in many ecosystems. Here, we combine different data sources to provide estimates of historic deposition in forested ecosystems on a high spatio-temporal scale for a federal state in Central Germany from 1880 to present.</p> <p>We make use of data from field measurement stations together with elevation and precipitation data from the last three decades to build a simple deposition model, validate this model with a model publicly available covering the time range from 2000 to present, and extrapolate deposition from this joint model to the past using European deposition trends from the last 150 years.</p> <p>Our approach can easily be adapted to other data and spatial areas shows how to use raw deposition data together with publicly available data on elevation and precipitation to construct simple deposition models covering recent and historic times in areas and for times for which no data are available.</p>
Fig. 17 in New Hesionidae (Annelida) from Japan: Unavailable Names Introduced by Uchida (2004) Revisited, with Reestablishment of their Availability
Fig. 17. Ichthyohesione gorgasiae gen. et sp. nov., holotype (NSMT-Pol H-763). A, dorsal view of the anterior body with proboscis everted. B, dorsal view of the anterior end with proboscis not everted (a rough sketch in living condition). C, enlarged dorsal view of the anterior end. D, enlarged ventral view of the anterior end (dark violet pigment inside the body shown as dotting). E, dorsal view of the posterior end. F, anterior view of chaetiger 21. Scale bar: 0.2 mm for A, B, E, F; 0.1 mm for C, D.
Fig. 15 in New Hesionidae (Annelida) from Japan: Unavailable Names Introduced by Uchida (2004) Revisited, with Reestablishment of their Availability
Fig. 15. Microphthalmus itoi sp. nov., holotype (NSMT Pol H-760). A, dorsal view of the anterior body. B, dorsal view of the posterior end. C, posterior view of right parapodium 9. D, anterior view of right parapodium 53. E, notopodial simple chaeta. F, notopodial pectinate chaeta. G, notopodial acicula from chaetiger 9. H, neuropodial superiormost serrated chaeta. I, neuropodial superior simple chaeta. J, long type of neuropodial compound chaeta. K, short type of neuropodial compound chaeta. L, neuropodial inferior simple chaeta. Scale bar: 0.2 mm for A; 0.1 mm for B–D; 0.02 mm for E–L.
Fig. 13 in New Hesionidae (Annelida) from Japan: Unavailable Names Introduced by Uchida (2004) Revisited, with Reestablishment of their Availability
Fig. 13. Uncopodarke intermedia gen. et sp. nov., holotype (NSMT-Pol H-758) (A, B, D, F–H) and paratype (NSMT-Pol P-759) (C, E). A, dorsal view of the anterior body. B, ventral view of the same. C, dorsal view of prostomium and antennae of a paratype. D, dorsal view of the posterior end. E, ventral view of the posterior end of a paratype. F, ventral view of right parapodium 1. G, posterior view of the same parapodium (neuropodial acicula omitted). H, compound claw chaeta from the same parapodium. Scale bar: 0.2 mm for A; 0.1 mm for B–D; 0.05 mm for E–G; 0.02 mm for H.
Fig. 12 in New Hesionidae (Annelida) from Japan: Unavailable Names Introduced by Uchida (2004) Revisited, with Reestablishment of their Availability
Fig. 12. Heteropodarke kiiensis sp. nov., holotype (NSMT-Pol H-757). A, dorsal view of the anterior body. B, Enlarged dorsal view of the anterior end. C, ventral view of the anterior end with everted proboscis. D, lateral view of a papilla of proboscis. E, anterior view of left parapodium 27. F, posterior view of the same parapodium. G, posterior view of right parapodium 38 with neuropodial acicula and inferiormost chaetae broken. H, neurochaeta of median position in left parapodium 27. I, inferiormost neurochaeta in the same parapodium. J, neurochaeta in right parapodium 38. K, spiniger in the same parapodium. Scale bar: 0.5 mm for A; 0.2 mm for B, C, F; 0.1 mm for D, E, G; 0.05 mm for H, I; 0.02 mm for J, K.
Fig. 9 in New Hesionidae (Annelida) from Japan: Unavailable Names Introduced by Uchida (2004) Revisited, with Reestablishment of their Availability
Fig. 9. Oxydromus okudai sp. nov., holotype (NSMT-Pol H-608). A, dorsal view of the anterior body, with proboscis everted (white areas shown as black dotted ones). B, posterior view of right parapodium 17 with a short notocirrus (neurocirrus artificially twisted inward). C, anterior view of right parapodium 26 with a long notocirrus. D, posterior view of the same parapodium. E, posterior view of right parapodium 6, with a notocirrus lost. F, posterior view of notopodium of right parapodium 15. G, notochaeta. H, short type of sub-acicular compound falciger. I, long type of sub-acicular falciger. J, enlarged image of the apical end of the same falciger. K, short type of sub-acicular falciger in inferior portion. L, tip of shaft of long type of sub-acicular falciger. Scale bars: 1 mm for A; 0.5 mm for B, C; 0.2 mm for D, E; 0.1 mm for F, I; 0.02 mm for G; 0.05 mm for H, J–L.
Fig. 7 in New Hesionidae (Annelida) from Japan: Unavailable Names Introduced by Uchida (2004) Revisited, with Reestablishment of their Availability
Fig. 7. Oxydromus fauveli sp. nov., holotype (NSMT-Pol H-700) (B, C) and paratypes (the others). A, dorsal view of the anterior body, with proboscis everted (white areas shown as black dotted ones). B, dorsal view of the anterior end, with proboscis not everted. C, ventral view of the posterior end. D, anterior view of right parapodium 23. E, posterior view of the same parapodium. F, notochaeta. G, simple capillary notochaeta in right parapodium 33 (parapodial epidermis shown as proximal line). H, superior supra-acicular compound falciger. I, inferior supra-acicular falciger. J, superior sub-acicular falciger. K, inferior sub-acicular falciger. L, tip of shaft of compound chaeta. Scale bars: 1.25 mm for A; 1 mm for B, C; 0.5 mm for D; 0.2 mm for E; 0.02 mm for F; 0.05 mm for G–L.
Fig. 8 in New Hesionidae (Annelida) from Japan: Unavailable Names Introduced by Uchida (2004) Revisited, with Reestablishment of their Availability
Fig. 8. Oxydromus longifundus sp. nov., holotype (NSMT-Pol H-607). A, dorsal view of the anterior end. B, posterior view of right parapodium 23 with a short notocirrus, which was lost. C, anterior view of right parapodium 20 with a long notocirrus, which was lost together with all supra-acicular chaetae. D, posterior view of right parapodium 33, with noto- and neuro-cirri and all neurochaetae lost. E, neuropodial acicula. F, notochaeta. G, superior supra-acicular compound falciger. H, inferior supra-acicular falciger. I, superior sub-acicular falciger. J, middle sub-acicular falciger. K, inferiormost sub-acicular falciger. Scale bars: 0.5 mm for A; 0.5 mm for B; 0.2 mm for C; 0.1 mm for D, E; 0.02 mm for F; 0.05 mm for G–K.
Fig. 6 in New Hesionidae (Annelida) from Japan: Unavailable Names Introduced by Uchida (2004) Revisited, with Reestablishment of their Availability
Fig. 6. Oxydromus constrictus sp. nov., nontype materials (UAM Pol-1-12-6-1-A). A, dorsal view of the anterior end. B, enlarged image of the same. C, lateral view of the anterior end of the largest specimen. D, anterior view of left parapodium 14 (the same specimen as C). E, enlarged image of the dorsal cirrophore of the same parapodium. F, long bladed compound chaetae in the same parapodium. G, short bladed compound chaetae in the same parapodium. la, lateral antenna; ma, median antenna; p, palp; tc, tentacular cirri. Scale bars: 1.5 mm for A; 0.8 mm for B; 1.0 mm for C; 0.4 mm for D; 0.065 mm for E; 0.09 mm for F; 0.04 mm for G.
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.