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6,175 results for “Composition”
Data from: Mammalian evolution: timing and implications from using the LogDeterminant transform for proteins of differing amino acid composition
We explore the tree of mammalian mtDNA sequences, using particularly the LogDet transform on amino acid sequences, the distance Hadamard transform, and the Closest Tree selection criterion. The amino acid composition of different species show significant differences, even within mammals. After compensating for these differences, nearest-neighbor bootstrap results suggest that the tree is locally stable, though a few groups show slightly greater rearrangements when a large proportion of the constant sites are removed. Many parts of the trees we obtain agree with those on published protein ML trees. Interesting results include a preference for rodent monophyly. The detection of a few alternative signals to those on the optimal tree were obtained using the distance Hadamard transform (with results expressed as a Lento plot). One rearrangement suggested was the interchange of the position of primates and rodents on the optimal tree. The basic stability of the tree, combined with two calibration points (whale/cow and horse/rhinoceros), together with a distant secondary calibration from the mammal/bird divergence, allows inferences of the times of divergence of putative clades. Allowing for sampling variances due to finite sequence length, most major divergences amongst lineages leading to modern orders, appear to occur well before the Cretaceous/Tertiary (K/T) boundary. Implications arising from these early divergences are discussed, particularly the possibility of competition between the small dinosaurs and the new mammal clades.
Data from: Attacked ravens flexibly adjust signalling behaviour according to audience composition
A fundamental attribute of social intelligence is the ability to monitor third party relationships, which has been repeatedly demonstrated in primates, and recently also in captive ravens. It is yet unknown how ravens make use of this ability when dealing with different types of social relationships simultaneously during complex real-life situations. Free-ranging non-breeder ravens live in societies characterized by high fission-fusion dynamics and structured by age, pair-bond status, and kinship. Here, we show that free-ranging ravens modify communication during conflicts according to audience composition. When being attacked by dominant conspecifics, victims of aggression signal their distress via defensive calls. Victims increased call rates when their kin were in the bystander audience, but reduced call rates when the bystanders were bonding partners of their aggressors. Hence, ravens utilize social knowledge flexibly and likely based on their own need, i.e. alert nearby allies, and avoid alerting nearby rivals.
Data from: Synthesis and photoluminescence properties of silica-modified SiO2@ANA-Si-Tb@SiO2, SiO2@ANA-Si-Tb-L@SiO2 core-shell-shell nanostructured composites
Three novel core-shell nanostructured composites SiO2@ANA-Si-Tb, SiO2@ANA-Si-Tb-L (L = second ligand) with SiO2 as the core and terbium organic complex as the shell were successfully synthesized. The core and shell were connected together by covalent bonds. The terbium ion was coordinated with organic ligand forming terbium organic complex in the shell layer. The organosilane (HOOCC5H4NN(CONH(CH2)3Si(OCH2CH3)3)2 (abbreviated as ANA-Si) was used as the first ligand and 1, 10-phenanthroline (phen) or 2-thenoyltrifluoroacetone (TTA) was used as the second ligand. Furthermore, silica-modified SiO2@ANA-Si-Tb@SiO2, SiO2@ANA-Si-Tb-L@SiO2 core-shell-shell nanostructured composites were also synthesized by sol-gel chemical route, which involved the hydrolysis and polycondensation processes of tetraethoxysilane (TEOS) using cetyltrimethyl ammonium bromide (CTAB) as a surface-active agent. An amorphous silica shell was coated around the SiO2@ANA-Si-Tb, SiO2@ANA-Si-Tb-L core-shell nanostructured composites. The core-shell and core-shell-shell nanostructured composites exhibited excellent luminescence in solid state. Meanwhile, an improved luminescent stability property of the core-shell-shell nanostructured composites was observed for the aqueous solution. This type of core-shell-shell nanostructured composites exhibited bright luminescence, high stability and good solubility, which may present potential applications in the fields of optoelectronic devices, bio-imaging, medical diagnosis, and study on the structure of function composite materials.
Data from: A re-evaluation of the chemical composition of avian urinary excreta
Osmoregulation in birds is complicated, with different organs acting concurrently to regulate this physiological process. Of particular interest is how the urinary excretions of birds can remove excess nitrogen while minimizing the need for dietary water and balancing the physiological demands of oviparity. It has long been concluded from chemical analyses, and more recently from genetic studies, that uric acid is the principal constituent of urine in Aves. However, research has also demonstrated that waste material may be modified in the ceca immediately prior to it being expelled. Here, we quantify the chemical composition of the urine component of excreta of six avian species using X-ray diffraction techniques to test the hypothesis that it is principally composed of uric acid, as commonly reported. None of the analyzed samples were found to contain uric acid. Instead, a variety of compounds including ammonium urate, struvite (magnesium ammonium phosphate), and two unknown compounds, were found. Our results show that the uric acid pathway is indeed the system by which nitrogen is removed in these birds, but that additional modification occurs in the urine prior to excretion. These results raise questions for future research on the urinary excretions of birds, including identification of the unknown compounds found in the present study.
Data from: Effects of between-site variation in soil microbial communities and plant-soil feedbacks on the productivity and composition of plant communities
A critical challenge in the science and practice of restoration ecology is to understand the drivers of variation in restoration outcomes. Soil microbial communities may have a role in explaining this variation due to both site-to-site variation in the composition of soil microbial communities and due to variation that can arise due to plant-soil feedbacks. We tested the relative importance of between-site variation in soil microbial community composition and plant-soil feedbacks in shaping plant community composition and ecosystem function. We used a standard two-phase plant-soil feedback design. Soil inoculum was collected from four tallgrass prairie sites. Then, soils were conditioned separately with nine plant species, and conditioned soils were used to inoculate prairie community mesocosms. In a separate experiment using soil from an additional site we tested conditioned soil samples for the abundance of arbuscular mycorrhizal fungi (AMF) and rhizobia. Site of soil origin and plant-soil feedbacks both had effects on the composition and productivity of our plant communities, and the magnitudes of these effects were similar. We also found changes in the abundance of AMF and rhizobia due to plant-soil feedbacks and that AMF abundance were associated with differences in plant community composition. These results indicate that the composition of soil communities due to site-to-site variation and plant-soil feedbacks are both important determinants of plant community composition and productivity. Our results also suggest that AMF and rhizobia are key microbial functional groups underlying plant-soil feedback effects. Synthesis and applications. Site-to-site variation in soil communities can explain some variation in restoration of plant communities. Since plant-soil feedback effects of restored plant species do not overcome this variation, knowledge of soil microbial communities present at a site prior to initiation of restoration efforts may improve predictability of restoration outcomes, and reintroduction of some components of the soil community may be necessary to achieve restoration goals. Additionally, by understanding variation due to plant-soil feedbacks, restoration practitioners can choose plant species for reintroduction that will create favourable soil conditions, including promoting microbial mutualists. Plant-soil feedbacks should also make it possible to increase heterogeneity in soil microbial communities, leading to increases in beta diversity in plant communities.
Data from: Effects of two grass species on the composition of soil fungal communities
Many studies have shown effects of plants species on fungal communities, but these are often confounded with soil effects. Thus, the specific role of plant species in structuring rhizospheric and soil fungal communities is poorly described. Our study used microcosms in which plants were grown under artificial conditions to bridge this gap. Two perennial grasses dominating subalpine grasslands, Festuca paniculata and Dactylis glomerata, were grown at two levels of fertilization on standard soil. Fungal communities were determined by 454 pyrosequencing of the internal transcribed spacer 1 region. Among the fungal communities characterized by the primers used, original communities were associated to each plant species and also diverged between rhizosphere and bulk soils within each plant species, though there were no significant fertilization effects. Differences regarded global composition of the fungal communities and abundant molecular operational taxonomic units (MOTUs). Both plant species and location effects were reflected more in the abundance than in the composition of MOTUs. The observed differences in fungal communities coincide with differing strategies of plant root growth, with D. glomerata having greater root mass, length, and area than F. paniculata. Our study, by dissociating soil effects from plant effects, demonstrated that plant species exert a key control on soil fungi. We suggest that such effects may be linked to inter-specific differences in root traits and their consequences on nitrogen uptake.
Data from: Resource composition mediates the effects of intraspecific variability in nutrient recycling on ecosystem processes
Despite the growing evidence for individual variation in trophic niche within populations, its potential indirect effects on ecosystem processes remains poorly understood. In particular, few studies have investigated how intraspecific trophic variability can modulate the effects of consumers on ecosystems through potential changes in nutrient excretion rates. Here, we first quantified the level of intraspecific trophic variability in 11 wild populations of the omnivorous fish Lepomis gibbosus. Outputs from stomach content and stable isotope analyses revealed that the degree of trophic specialization and trophic positions were highly variable between and within these wild populations. There was intrapopulation variation in trophic position of more than one trophic level, suggesting that individuals consumed a range of plant and animal resources. We then experimentally manipulated intraspecific trophic variability to assess how it can modulate consumer-mediated nutrient effects on relevant processes of ecosystem functioning. Specifically, three food sources varying in nutrient quality (e.g. plant material, macro-invertebrate and fish meat) were used individually or in combination to simulate seven diet treatment. Results indicated that intraspecific variability in growth and nitrogen excretion rates were more related to the composition of the diet rather than the degree of specialization, and increased with the trophic position of the diet consumed. We subsequently used microcosms and showed that critical ecosystem functions, such as primary production and community respiration, were affected by the variability in excretory products, and this effect was biomass-dependent. These results highlight the importance of considering variation within species to better assess the effects of individuals on ecosystems and, more specifically, the effects of consumer-mediated nutrient recycling because the body size and the trophic ecology of individuals are affected by a large spectrum of natural and human-induced environmental changes.
Data from: Cyanobacteria drive community composition and functionality in rock-soil interface communities
Most ecological research on hypoliths, significant primary producers in hyperarid deserts, has focused on the diversity of individual groups of microbes (i.e. bacteria). However, microbial communities are inherently complex, and the interactions between cyanobacteria, heterotrophic bacteria, protista and metazoa, are likely to be very important for ecosystem functioning. Cyanobacterial and heterotrophic bacterial communities were analysed by pyrosequencing, while metazoan and protistan communities were assessed by T-RFLP analysis. Microbial functionality was estimated using carbon substrate utilization. Cyanobacterial community composition was significant in shaping community structure and function in hypoliths. Ecological network analysis showed that most significant co-occurrences were positive, representing potential synergistic interactions. There were several highly interconnected associations (modules) and specific cyanobacteria were important in driving the modular structure of hypolithic networks. Together, our results suggest that hypolithic cyanobacteria have strong effects on higher trophic levels and ecosystem functioning.
Data from: Cascading effects of host plant inbreeding on the larval growth, muscle molecular composition, and flight capacity of an adult herbivorous insect.
A primary function of adult winged insects is dispersal. Limiting larval dietary intake (partial starvation) has been shown to affect the flight muscle metabolism of adult moths reared on artificial diet, but a more ecologically relevant question is whether natural variation in host plant quality can lead to differences in the flight capacity of adult insects. Recent studies have shown that inbreeding compromises plant anti-herbivore defenses. We created inbred and outbred progeny from locally collected horsenettle (Solanum carolinense L.) and examined how host plant inbreeding affects the growth, development, and flight muscle physiology of tobacco hornworm (Manduca sexta L.), a specialist herbivore on Solanaceae. We tested the hypothesis that within population genetic variation in host plant quality, resulting from inbreeding, can create significant changes to the larval development and flight physiology of an adult insect. We found that Manduca larvae reared on inbred horsenettle plants grew faster and developed into larger pupae compared to larvae reared on outbred plants. Adult flight metabolic rate was greater in adults reared on inbred plants compared to outbred plants, and this elevation was independent of body mass when we excluded one plant family that produced small, low metabolic rate moths regardless of breeding regime. Differences in mass-specific flight metabolism were associated with changes in alternative splicing of Troponin t, a flight muscle protein that regulates muscle contraction. These results show that host plant inbreeding can create effects that cascade through larval and pupal development to affect dispersal-related traits of the adult stage. Hence, plant inbreeding may also impact herbivore population dynamics, particularly their ability to spread away from, and possibly into, isolated patches of inbred plants creating increased herbivore pressure on these plant populations. More generally, our findings reveal that changes in population biology at one trophic level can affect the metabolic physiology and flight capacity of an animal at a higher trophic level.
Data from: Facile synthesis of porous Mo2C/C composites by using luffa sponge-derived carbon template in molten salt media
Herein, we report the synthesis of a new type of porous Mo2C/C composite by using luffa sponge-derived carbon template, and ammonium molybdate ((NH4)6Mo7O24•4H2O) in the molten NaCl-KCl salts media. The product exhibits a higher specific surface area and three-dimensional porous structure, including macrochannels, micropores, and mesopores. The desirable porous structure is resulted from the carbon template structure and formed Mo2C coating.
Data from: Plant community composition but not plant traits determine the outcome of soil legacy effects on plants and insects
1.Plants leave species-specific legacies in the soil they grow in that can represent changes in abiotic or biotic soil properties. It has been shown that such legacies can affect future plants that grow in the same soil (plant-soil feedback, PSF). Such processes have been studied in detail, but mostly on individual plants. Here we study PSF effects at the community level and use a trait-based approach both in the conditioning phase and in the feedback phase to study how twelve individual soil legacies influence six plant communities that differ in root size. 2.We tested if (I) grassland perennial species with large root systems would leave a stronger legacy than those with small root systems, (II) grass species would leave a more positive soil legacy than forbs and (III) communities with large root systems would be more responsive than small-rooted communities. We also tested (IV) whether a leaf chewing herbivore and a phloem feeder were affected by soil legacy effects in a community framework. 3.Our study shows that the six different plant communities that we used respond differently to soil legacies of twelve different plant species and their functional groups. Species with large root systems did not leave stronger legacies than species with small root systems, nor were communities with large root systems more responsive than communities with root systems. 4.Moreover, we show that when communities are affected by soil legacies, these effects carry over to the chewing herbivore Mamestra brassicae (Lepidoptera: Noctuidae) through induced behavioral changes resulting in better performance of a chewing herbivore on forb-conditioned soils than on grass-conditioned soils, whereas performance of the phloem feeder Rhopalosiphum padi (Hemiptera: Aphididae) remained unaffected. 5.Synthesis: The results of this study shed light on the variability of soil effects found in previous work on feedbacks in communities. Our study suggests that the composition of plant communities determines to a large part the response to soil legacies. Furthermore, the responses to soil legacies of herbivores feeding on the plant communities that we observed, suggests that in natural ecosystems, the vegetation history may also have an influence on contemporary herbivore assemblages. This opens up exciting new areas in plant-insect research and can have important implications for insect pest management.
Data from: Abrupt changes in the composition and function of fungal communities along an environmental gradient in the High Arctic
Fungi play a key role in soil-plant interactions, nutrient cycling, and carbon flow and are essential for the functioning of arctic terrestrial ecosystems. Some studies have shown that the composition of fungal communities is highly sensitive to variations in environmental conditions, but little is known about how the conditions control the role of fungal communities (i.e. their ecosystem function). We used DNA metabarcoding to compare taxonomic and functional composition of fungal communities along a gradient of environmental severity in Northeast Greenland. We analysed soil samples from fell fields, heaths, and snowbeds, three habitats with very contrasting abiotic conditions. We also assessed within-habitat differences by comparing three widespread microhabitats (patches with high cover of Dryas, Salix, or bare soil). The data suggest that, along the sampled mesotopographic gradient, the greatest differences in both fungal richness and community composition are observed among habitats, while the effect of microhabitat is weaker, although still significant. Furthermore, we found that richness and community composition of fungi are shaped primarily by abiotic factors and to a lesser, though still significant extent, by floristic composition. Along this mesotopographic gradient, environmental severity is strongly correlated with richness in all fungal functional groups: positively in saprotrophic, pathogenic, and lichenised fungi, and negatively in ectomycorrhizal and root-endophytic fungi. Our results suggest complex interactions amongst functional groups, possibly due to nutrient limitation or competitive exclusion, with potential implications on soil carbon stocks. These findings are important in light of the environmental changes predicted for the Arctic.
DETERMINATION OF THE INFLUENCE OF THE COMPOSITION OF CATALYSTS ON THE CATALYTIC CHARACTERISTICS
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DETERMINATION OF THE QUALITATIVE COMPOSITION OF COAL BRIQUETTES MADE FROM CHEAP RAW MATERIALS IMPORTANT FOR THE NATIONAL ECONOMY.
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Temporal and spatial variability of the stable isotopic composition of atmospheric molecular hydrogen: observations at six EUROHYDROS stations
<p>These are the H2 mixing ratio and deuterium content data used in: <br /> Batenburg, A. M., Walter, S., Pieterse, G., Levin, I., Schmidt, M., Jordan, A., Hammer, S., Yver, C., and Röckmann, T.: Temporal and spatial variability of the stable isotopic composition of atmospheric molecular hydrogen: observations at six EUROHYDROS stations, Atmos. Chem. Phys., 11, 6985-6999, doi:10.5194/acp-11-6985-2011, 2011,http://www.atmos-chem-phys.net/11/6985/2011/acp-11-6985-2011.html<br /> <br /> Please cite this ACP article when using these data in a publication, and kindly notify the first author (annekebatenburg'at'gmail.com).<br /> <br /> In the CSV files:<br /> - Mixing ratios are reduction gas analyzer results obtained at UHEI-IUP, MPI-BGC and LSCE.<br /> - dD(H2) data are obtained from analysis with the GC-IRMS system at the IMAU-APCG lab of Utrecht University. The estimated standard deviation/error in a single measurement is 4.5 permil, based on measurements of a laboratory working tank.<br /> - Outlier selection was based on visual inspection of the time series.<br /> - The "biased" or "downshifted" flag indicates dD measurements performed in a period where the dD results seemed to have a positive bias of approximately 9.5 permil. These samples were shown in the time series figure with the 9.5 permil subtracted, but excluded from the following quantitative analyses.<br /> - The last column indicates the number of succesfull repeat measurements of dD.<br /> <br /> More information can be found in the published, open-access article. Please do not hesitate to contact annekebatenburg'at'gmail.com if you have any questions.</p>
Replication Package for GECO: A Generator Composition Approach for Aspect-Oriented DSLs
<p>This replication package contains all information and sources used in<br> the evaluation of the GECO research project. For resources on github,<br> we provide the necessary github URL and, if available, Eclipse update<br> sites. For software based on git repositories, we also provide the<br> revision id of the used software, as other revisions might produce other<br> results.</p> <p> </p> <p><strong>Software Setup</strong></p> <p>Eclipse Mars</p> <ul> <li>Xtext 2.9 and tooling including Xtend</li> <li>Kieler Release 2016-02 http://www.rtsys.informatik.uni-kiel.de/en/research/kieler/</li> </ul> <p>Architecture Evaluation Tooling</p> <ul> <li>github repository https://github.com/rju/architecture-evaluation-tool</li> <li>Eclipse update site https://build.se.informatik.uni-kiel.de/eus/se/snapshot/</li> </ul> <p>Additional software relevant to setup the case studies are listed in<br> their respective README files.</p> <p> </p> <p><strong>Directory Structure</strong></p> <ul> <li>menges/ all sources and data for the embedded control system case study based on the MENGES project</li> <li>cocome/ all sources and data for the information system case study based on CoCoME</li> </ul>
FIGURE 6 in A preliminar overview of species composition and geographical distribution of Malvinian weevils (Insecta: Coleoptera: Curculionidae)
FIGURE 6. Map of Islas Malvinas showing the localities where Curculionidae have been collected.
FIGURE 7 in A preliminar overview of species composition and geographical distribution of Malvinian weevils (Insecta: Coleoptera: Curculionidae)
FIGURE 7. Caneorhinus biangulatus, dorsal and lateral views.
FIGURE 3 in A preliminar overview of species composition and geographical distribution of Malvinian weevils (Insecta: Coleoptera: Curculionidae)
FIGURE 3. Number of species (red) and genera (blue) collected per month.
FIGURE 2 in A preliminar overview of species composition and geographical distribution of Malvinian weevils (Insecta: Coleoptera: Curculionidae)
FIGURE 2. Number of specimens collected per month.
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.