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Supplementary material 4 from: Tóth Z, Hornung E, Báldi A (2018) Effects of set-aside management on certain elements of soil biota and early stage organic matter decomposition in a High Nature Value Area, Hungary. Nature Conservation 29: 1-26. https://doi.org/10.3897/natureconservation.29.24856
Table S4 :
Supplementary material 1 from: Tóth Z, Hornung E, Báldi A (2018) Effects of set-aside management on certain elements of soil biota and early stage organic matter decomposition in a High Nature Value Area, Hungary. Nature Conservation 29: 1-26. https://doi.org/10.3897/natureconservation.29.24856
Table S1 :
the contents of metabolites and elements in oak seeds and leaves
<p>The dataset contain the data of metabolites and elemnts of oak leaves and seeds.</p>
Characteristics and sources of hourly trace elements in airborne fine particles in urban Beijing, China
<p>The data uploaded was used in our article.</p>
Figure 1. H in The first record of Greek endemic weevil Hypera (Boreohypera) moczarskii (Coleoptera: Curculionoidea, Curculionidae) in Central Serbia, with elements for species redescription
Figure 1. H. moczarskii's occurrences on the Balkan Peninsula. Black square: Kragujevac's position; black dots: recent findings in Greece according to Bahr et al. (2013).
Figure 1 in Factors affecting trace element accumulation in livers of avian species from East Poland
Figure 1. Predicted versus observed values (a) and residuals (b) obtained as results of GRM analysis for Cr, Hg, and Pb.
HSE-Se-Te-Os isotopes-major element sulfide data (MONTANINI ET AL. SUBMITTED TO GCA)
Open the record for dataset details and reuse information.
The inner membrane ring component SctD: An unexpected dynamic element governing assembly and secretion in the Type III Secretion System
<p>780- 6PEM_sctCDJ_big_ph7.4 (slice of the IM portion used as template for the Yersinia project)</p> <p>786- Yersinia_sctCDJ_v1_ph7.4 em<br>787a- Yersinia_sctCDJ_v1_ph4.0 em</p> <p>797- 6PEM_sctCDJ_big_ph4.0 (slice of the IM portion used as template for the Yersinia project)</p>
Relationship between gamification elements and social and human factors
Open the record for dataset details and reuse information.
3 PREHEALING: Design of concrete precast elements incorporating sustainable strategies for self-healing to increase their service life: Full-Scale Prototypes
<p>This project deals with the analysis of the performance of concrete with internal curing aggregates (IC), low clinker cementitious materials and steel fibres, to be used in real applications in the field of precast industry.</p> <div>This section includes the design and results of the four wall prototypes: two constructed with the 100C mix and two with the 60C25BA15MK-30CBA mix. The model shows the instrumentation used. The foundation of all walls was constructed with conventional concrete. Two curing conditions were established: a conventional curing by water spraying and an extreme curing, in which a continuous air flow was generated, with temperature and humidity controlled in both cases. The curing was maintained for 7 days. Inspections were conducted after formwork removal to assess crack formation.</div> <div> </div> <div>After 28 days, the walls were subjected to a controlled loading process to induce residual cracks of 150 ± 20 μm. During this process, the behaviour of the walls was monitored with the instrumentation installed during construction. Additionally, movements and cracking were monitored with LVDTs and LDS. Two LVDTs were used to monitor head movement of the wall during loading, and two LDS were used to monitor potential foundation sliding. For crack formation monitoring, four LVDTs and one LDS were placed on the tension face in the crack formation area: two on each section, S1 and S2, one on the central section of the wall, S0, and two at a lower height in intermediate sections.</div> <div> </div> <div>Finally, the entire loading and cracking process was monitored through a Digital Image Correlation (DIC) system. Data from the instrumentation fed into the BIM model.</div> <div> </div> <div>Attached:</div> <div> <ul> <li><strong>PH_IFC4_rev01.ifc:</strong> the resulting IFC model (as-built) after testing.</li> <li><strong>PH_BIMx_rev01.bimx</strong>: the model and shrinkage results of the four walls tested at 1, 3, 9, 14, and 28 days.</li> <li><strong>Cracking and sealing wall images.zip</strong>: Images, taken with a digital microscope, along the main crack in each wall. These images show the different stages of cracking and sealing after self-healing periods with tap water for 75 days, followed by carbonated water (rich in CO₂) for an additional 75 days.</li> </ul> </div>
Enhanced Ice Nucleation Activity by Metal Elements and Secondary Aerosols in Polluted Urban Atmosphere
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Data from: Sequence capture of ultraconserved elements from bird museum specimens
New DNA sequencing technologies are allowing researchers to explore the genomes of the millions of natural history specimens collected prior to the molecular era. Yet, we know little about how well specific next-generation sequencing (NGS) techniques work with the degraded DNA typically extracted from museum specimens. Here, we use one type of NGS approach, sequence capture of ultraconserved elements (UCEs), to collect data from bird museum specimens as old as 120 years. We targeted 5060 UCE loci in 27 western scrub-jays (Aphelocoma californica) representing three evolutionary lineages that could be species, and we collected an average of 3749 UCE loci containing 4460 single nucleotide polymorphisms (SNPs). Despite older specimens producing fewer and shorter loci in general, we collected thousands of markers from even the oldest specimens. More sequencing reads per individual helped to boost the number of UCE loci we recovered from older specimens, but more sequencing was not as successful at increasing the length of loci. We detected contamination in some samples and determined that contamination was more prevalent in older samples that were subject to less sequencing. For the phylogeny generated from concatenated UCE loci, contamination led to incorrect placement of some individuals. In contrast, a species tree constructed from SNPs called within UCE loci correctly placed individuals into three monophyletic groups, perhaps because of the stricter analytical procedures used for SNP calling. This study and other recent studies on the genomics of museum specimens have profound implications for natural history collections, where millions of older specimens should now be considered genomic resources.
Data from: Jaw elements in Plumulites bengtsoni confirm that machaeridians are extinct armoured scaleworms
Machaeridians are Palaeozoic animals that are dorsally armoured with serialized, imbricating shell plates that cover or enclose the body. Prior to the discovery of an articulated plumulitid machaeridian from the Early Ordovician of Morocco that preserved unambiguous annelid characters (segmental parapodia with chaetae), machaeridians were a palaeontological mystery, having been previously linked to echinoderms, barnacles, tommotiids (putative stem-group brachiopods) or molluscs. Although the annelid affinities of machaeridians are now firmly established, their position within the phylum and relevance for understanding the early evolution of Annelida is less secure, with competing hypotheses placing Machaeridia in the stem or deeply nested within the crown group of annelids. We describe a scleritome of Plumulites bengtsoni from the Fezouata Formation of Morocco that preserves an anterior jaw apparatus consisting of four discrete elements with prominent growth lines. Although jaws have multiple independent origins within the annelid crown group, comparable jaws are present only within Phyllodocida, the clade that contains modern aphroditaceans (scaleworms and relatives). Phylogenetic analysis places a monophyletic Machaeridia within the crown group of Phyllodocida in total-group Aphroditacea, consistent with a common origin of machaeridian shell plates and scaleworm elytrae. The inclusion of machaeridians in Aphroditacea truncates the ghost lineage of Phyllodocida by almost a hundred million years.
Data from: Ultraconserved element (UCE) probe set design: base genome and initial design parameters critical for optimization
Targeted capture and enrichment approaches have proven effective for phylogenetic study. Ultraconserved elements (UCEs) in particular have exhibited great utility for phylogenomic analyses, with the software package phyluce being among the most utilized pipelines for UCE phylogenomics, including probe design. Despite the success of UCEs, it is becoming increasing apparent that diverse lineages require probe sets tailored to focal taxa in order to improve locus recovery. However, factors affecting probe design and methods for optimizing probe sets to focal taxa remain underexplored. Here, we use newly available beetle (Coleoptera) genomic resources to investigate factors affecting UCE probe set design using phyluce. In particular, we explore the effects of stringency during initial design steps, as well as base genome choice on resulting probe sets and locus recovery. We found that both base genome choice and initial bait design stringency parameters greatly alter the number of resultant probes included in final probe sets and strongly affect the number of loci detected and recovered during in silico testing of these probe sets. In addition, we identify attributes of base genomes that correlated with high performance in probe design. Ultimately, we provide a recommended workflow for using Phyluce to design an optimized UCE probe set that will work across a targeted lineage, and use our findings to develop a new, open‐source UCE probe set for beetles of the suborder Adephaga.
Figure 5 in Postcranial element shape and function: assessing locomotor mode in extant and extinct mustelid carnivorans
Figure 5. Femoral element deformations from the consensus configuration produced by the CVA analysis for locomotor mode; each deformation represents the shape corresponding to the mean CVA score for a particular locomotor group.
Figure 4 in Postcranial element shape and function: assessing locomotor mode in extant and extinct mustelid carnivorans
Figure 4. Ulnar element deformations from the consensus configuration produced by the CVA analysis for locomotor mode; each deformation represents the shape corresponding to the mean CVA score for a particular locomotor group.
Data from: Elements of metacommunity structure of diatoms and macroinvertebrates within stream networks differing in environmental heterogeneity
<p><strong>Aim:</strong> Idealized metacommunity structures (i.e. checkerboard, random, quasi-structures, nested, Clementsian, Gleasonian, and evenly spaced) have recently gained increasing attention, but their relationships with environmental heterogeneity and how they vary with organism groups remain poorly understood. Here we tested two main hypotheses: (1) gradient-driven patterns (Clementsian and Gleasonian) occur frequently in heterogeneous environments, and (2) small organisms (here, diatoms) are more likely to exhibit gradient-driven patterns than large organisms (here, macroinvertebrates).</p> <p><strong>Location:</strong> Streams in three regions in China.</p> <p><strong>Taxon:</strong> Diatoms and macroinvertebrates.</p> <p><strong>Methods:</strong> The stream diatom and macroinvertebrate data, as well as the environmental data collected from the same set of sites were used to examine the idealized metacommunity structures via the elements of the metacommunity structure (EMS; coherence, turnover, and boundary clumping) analysis in three regions. We extended the traditional EMS approach by ordering sites along known environmental gradients.</p> <p><strong>Results: </strong>We found that Clementsian structure with high degrees of coherence and turnover, and significantly positive clumping was typically observed in the high-heterogeneity regions, whereas randomness was prevalent in the low-heterogeneity region. Macroinvertebrates exhibited clearer Clementsian structures compared with diatoms, while diatoms showed more randomness compared with macroinvertebrates, indicating a stronger role of environmental filtering for macroinvertebrates than diatoms. In most cases, the results of the more novel EMS approach differed from the results of the traditional EMS technique.</p> <p><strong>Main Conclusions:</strong> Our results suggested that the occurrence of different metacommunity structures may be related with the degree of regional environmental heterogeneity. However, diatom metacommunities were more random than those of macroinvertebrate, and such an unexpected result may result from different dispersal abilities between the two organism groups. In addition, we found that the novel EMS approach increased power in discerning metacommunity structure in comparison to the traditional EMS technique.</p>
Elemental composition of intertidal shellfish sandbanks sediment samples within Ría de Arousa, Spain
<p>The GEOMA Research group from the University of Vigo implements a solution to improve the knowledge of the sediment dynamics, the stability of the ecosystem substratum, and its response to the predicted Climate Change outcome (INTERM). The INTERM solution is based on sedimentological monitoring of sandbanks at specific locations of clam exploitation in the Ría de Arousa (Pontevedra, Spain).</p> <p>Here we show the results of X-ray Fluorescence analysis carried out on the bulk fraction of sediment samples collected in six locations with current (Camaxe, Xastelas, O Sarrido, Lavanqueira, and O Bohido) or stopped (Lombos de Ulla) shellfish activity. The analyses were conducted at the CACTI facilities (Uvigo) using an X-ray Fluorescence Spectrometer by Wave Scattering (Siemens SRS3000).</p> <p>This study is part of the “Accelerating and upscaling transformational adaptation in Europe: demonstration of water-related innovation packages (TRANSFORMAR)” coordinated by the Universiteit Antwerpen and funded by the European Union’s Horizon program (H2020_101036683).</p> <p>In this version:</p> <ul> <li> New measurements added</li> <li>Order of Xastelas samples (May 2023) corrected</li> <li>Minor errors corrected</li> </ul>
Figure 8 from: Prebus M (2015) Palearctic elements in the old world tropics: a taxonomic revision of the ant genus Temnothorax Mayr (Hymenoptera, Formicidae) for the Afrotropical biogeographical region. ZooKeys 483: 23-57. https://doi.org/10.3897/zookeys.483.9111
Figure 8 - Temnothorax megalops (Hamman & Klemm, 1967) allotype dealate gyne (CASENT0712600) a body in lateral view b body in dorsal view c head in full face view.
Figure 7 from: Prebus M (2015) Palearctic elements in the old world tropics: a taxonomic revision of the ant genus Temnothorax Mayr (Hymenoptera, Formicidae) for the Afrotropical biogeographical region. ZooKeys 483: 23-57. https://doi.org/10.3897/zookeys.483.9111
Figure 7 - Temnothorax megalops (Hamman & Klemm, 1967) holotype worker (CASENT0712601) a body in lateral view b body in dorsal view c head in full face view.
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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.