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7,849 results for “Conservancy”
FIGURE 1. Mimosa serra Burkart. A in Mimosa serra (Caesalpinioideae, Fabaceae): conservation insights and its presence in Argentina
FIGURE 1. Mimosa serra Burkart. A) Plant. B) Stems with cat's claw aculei. C) Stipule. D) Capitula. E) Craspedia. F) Seeds.
Conservation genomics in an endangered citrus relative
<p>Related paper: Conservation genomics insights into the spontaneous integration of multiple reproductive strategies in an endangered citrus relative</p> <p>Related source: https://github.com/wangnan9394/conservation_genomics</p> <p>#admixture.zip</p> <p>This file including population ancestry of <em>Fortunella</em>. The estimated admixture proportions ranged from K=2 to K=5.</p> <p>#apomixis_locus_200kb_vcf.zip</p> <p>This file including VCF file of the WILDAPO group. The proportion of introgressions from cultivars and the number of heterozygous introgressed variations in samples from WILDAPO was calculated based on this file.</p> <p>#deleterious_mutations.zip</p> <p>This file including the summary of deleterious mutations in <em>Fortunella.</em> The BED file annotated the types of each variation based on the ancestry state.</p> <p>#fd_and_D_statistics.zip</p> <p>There are population level D statistic (ABBA-BABA statistic) and genome-wide fd statistic, using the Dsuite, ANGSD and genomic_general programs.</p> <p>#genome-wide_haplotype_results.zip</p> <p>We calculated the genome-wide haplontic divergence in each sample from the WILDAPO group, and the summary was zipped in this file.</p> <p>#PCA_TajimaD_value.zip</p> <p>The PCA and Tajima’D value were calculated based on the variation map using PLINK. We have included the results of genome-wide Tajima’s D from five groups.</p> <p>#ROH_500kb.zip</p> <p>This file including ROH analysis of <em>Fortunella</em>.</p> <p>#S-locus_analysis.zip</p> <p>This file including VCF file of the S-locus (Chr. 1). The phylogeny of S-locus were constructed based on this VCF file.</p> <p>#SMC_files.zip</p> <p>This file including smc.gz files of five groups (CULAPO, CULSEX, WILDAPO, WILDSEX1, WILDSEX2). The approximate lookup table of each group in this zipped file.</p> <p>#SSMs.zip</p> <p>We calculated the introgression based on the genome-wide species-specific variations (this VCF format file).</p> <p>#Subtrees_TWISST.zip</p> <p>The combination of subtrees, which were calculated based on 25 kb non-overlapped windows. The input subtrees and the output files by TWISST in this file.</p> <p>#treemix.zip</p> <p>we estimated that the potential migration events ranged from 1 to 3 with five repeats for each test.</p> <p>#variation_map_kumquats.vcf.gz</p> <p>we filtered nuclear genomic variations based on depth of coverage and missing rates using VCFtools with the following criteria: variant quality (QD) > 2.0, quality score (QUAL) > 40.0, mapping quality (MQ) > 30.0, genotype calls with a depth > 2 or <100 and with < 20% of genotypes missing across all samples.</p>
Invasive predator diet plasticity has implications for native fish conservation & invasive species suppression
<p>Diet plasticity is a common behavior exhibited by piscivores to sustain predator biomass when preferred prey biomass is reduced. Invasive piscivore diet plasticity could complicate suppression success; thus, understanding invasive predator consumption is insightful to meeting conservation targets. Here, we determine if diet plasticity exists in an invasive apex piscivore and how plasticity could influence native species recovery benchmarks and invasive species suppression goals. We compared diet and stable isotope signatures of invasive lake trout and native Yellowstone cutthroat trout (cutthroat trout) from Yellowstone Lake, Wyoming, U.S.A. as a function of no, low-, moderate-, and high-lake trout density states. Lake trout exhibited plasticity in relation to their density; consumption of cutthroat trout decreased 5-fold (diet proportion from 0.89 to 0.18) from low- to high-density state. During the high-density state, lake trout switched to amphipods, which were also consumed by cutthroat trout, resulting in high diet overlap (Schoener's index value, D = 0.68) between the species. As suppression reduced lake trout densities, more cutthroat trout (moderate-density state proportion of cutthroat trout = 0.42) were consumed, and diet overlap was released between the species (D = 0.30). A shift in lake trout δ<sup>13</sup>C signatures from the high- to the moderate-density state also corroborated increased consumption of cutthroat trout and lake trout diet plasticity. Observed declines in lake trout are not commensurate with expected cutthroat trout recovery due to lake trout diet plasticity. The abundance of the native species in need of conservation may take longer to recover due to the diet plasticity of the invasive species. The changes observed in diet, diet overlap, and isotopes associated with predator suppression provide more insight into conservation and suppression dynamics than using predator and prey biomass alone. By understanding these dynamics, we can better prepare conservation programs for potential feedbacks caused by invasive species suppression. </p>
Supplementary material 1 from: Kaviarasu M, Ramli FF, Mohd Ilham Norhakim L, Othman N, Mahyuddin NAA, Haris H, Sariyati NH, Najmuddin MF, Aman S, Zaharin SF, Abdul-Latiff MAB (2022) First insight into freshwater fish assemblages in the western part of the Endau-Rompin landscape, Malaysia. Nature Conservation 50: 265-281. https://doi.org/10.3897/natureconservation.50.86090
Eleven environmental variables measured in each substation of rivers Juaseh, Segamat, and Labis of ERL.
Multiplying the impact of biodiversity conservation funding using spatial exchange rates
<p>Funding available to support conservation must be invested effectively given declines in biodiversity and ecosystem services. Unfortunately, conservation dollars often come with restrictions on where they can be spent. We introduce a method to demonstrate to supporters of conservation how much more could be achieved if they allow greater flexibility over conservation funding. Specifically, we calculate conservation exchange rates that summarize gains in conservation outcomes available if funding originating in one location can be invested elsewhere. We illustrate our approach by considering NGO funding and major federal programs within the United States and a range of conservation objectives focused on biodiversity and ecosystem services. We show that large improvements in biodiversity and ecosystem service provision are available if geographic restrictions on conservation funding can be loosened. We demonstrate how conservation exchange rates can be used to spotlight promising opportunities for relaxing geographic funding restrictions.</p>
Modules for Experiments in Stellar Astrophysics (MESA): Time-Dependent Convection, Energy Conservation, Automatic Differentiation, and Infrastructure
<p>We update the capabilities of the open-knowledge software instrument Modules for Experiments in Stellar Astrophysics (MESA). The new auto_diff module implements automatic differentiation in MESA, an enabling capability that alleviates the need for hard-coded analytic expressions or finite difference approximations. We significantly enhance the treatment of the growth and decay of convection in MESA with a new model for time-dependent convection, which is particularly important during late-stage nuclear burning in massive stars and electron degenerate ignition events. We strengthen MESA's implementation of the equation of state, and we quantify continued improvements to energy accounting and solver accuracy through a discussion of different energy equation features and enhancements. To improve the modeling of stars in MESA we describe key updates to the treatment of stellar atmospheres, molecular opacities, Compton opacities, conductive opacities, element diffusion coefficients, and nuclear reaction rates. We introduce treatments of starspots, an important consideration for low-mass stars, and modifications for superadiabatic convection in radiation-dominated regions. We describe new approaches for increasing the efficiency of calculating monochromatic opacities and radiative levitation, and for increasing the efficiency of evolving the late stages of massive stars with a new operator split nuclear burning mode. We close by discussing major updates to MESA's software infrastructure that enhance source code development and community engagement.</p>
Socio-ecological gap analysis to forecast species range contractions for conservation
Conservation requires both a needs assessment and prioritization scheme for planning and implementation. Range maps are critical for understanding and conserving biodiversity, but current range maps often omit content, negating important metrics of variation in populations and places. Here, we integrate a myriad of conditions that are spatially explicit across distributions of carnivores to identify gaps in capacity necessary for their conservation. Expanding on traditional gap analyses that focus almost exclusively on quantifying discordance in protected area coverage across a species' range, our work aggregates threat layers (e.g., drought, human pressures) with resources layers (e.g., protected areas, cultural diversity) to identify gaps in available conservation capacity (ACC) across ranges for 91 African carnivores. Our model indicated that all species have some portion of their range at risk of contraction, with an average of 15 percentage range loss. We found that the ACC differed based on body size and taxonomy. Results deviated from current perceptions of extinction risks for species with an International Union for Conservation of Nature (IUCN) threat status of Least Concern and yielded insights for species categorized as Data Deficient. Our socio-ecological gap analysis presents a geospatial approach to inform decision-making and resource allocation in conservation. Ultimately, our work advances forecasting dynamics of species' ranges that are increasingly vital in an era of great socio-ecological change to mitigate human–wildlife conflict and promote inclusive carnivore conservation across geographies.
Supplementary data for "Novel mutation/s in the conserved region of EPSPS imparts herbicide resistance in pigeonpea"
<p><strong>Figure S1. </strong>The picture represents the binding positions of different ligands in the binding pocket of w-CcEPSPS. A. GPJ B. PEP, C. S3P, D. PEP, and S3P together, and E. GPJ and PEP together. The structural diagram and the ligand interaction clearly shows the ligand’s individual binding site in A, B, and C and the binding of the two substrates ie., PEP and S3P in the same catalytic pocket with different binding site whereas PEP and GPJ share the same binding site in the catalytic site of CcEPSPS enzyme in the E. GPJ; Glyphosate, PEP; Phosphoenol pyruvate, S3P; Shikimate-3-phosphate.</p> <p><strong>Figure S2. </strong>Ramachandran plot representing the CcEPSPS protein structure, with each residue, plotted with their respective coordinates ie., phi and psi angles. The density of the points suggests the most prevalent secondary structure and CcEPSPS show dense right-handed ɑ helices followed by 𝛽 sheet secondary structure. The points lying in between the favorable region are defined as secondary structure areas for random coils.</p> <p><strong>Figure S3. </strong>Domain search based on Simple Modular Architecture Research Tool (SMART) (http://smart.embl.de/) revealed that the EPSPS proteins from A. pigeonpea, B. <em>Vibrio cholerae </em>and C. <em>Colwellia psychrerythraea </em>contain basic EPSP synthase domain. The Interaction network developed utilizing the STRING protein-protein database (https://string-db.org/) for D. pigeonpea, E. <em>Vibrio cholerae </em>and F. <em>Colwellia psychrerythraea </em>EPSPS proteins revealed the metabolically important EPSPS enzyme.</p> <p> </p>
Supplementary material 2 from: D'Cruze N, Assou D, Coulthard E, Norrey J, Megson D, Macdonald DW, Harrington LA, Ronfot D, Segniagbeto GH, Auliya M (2020) Snake oil and pangolin scales: insights into wild animal use at "Marché des Fétiches" traditional medicine market, Togo. Nature Conservation 39: 45-71. https://doi.org/10.3897/natureconservation.39.47879
Table S1. List of inferred species and their respective scientific names (assigned to each common name provided by questionnaire respondents) based on the documented presence of wild populations in Togo
Supplementary material 1 from: Neagu AC, Manolache S, Rozylowicz L (2022) The drums of war are beating louder: Media coverage of brown bears in Romania. Nature Conservation 50: 65-84. https://doi.org/10.3897/natureconservation.50.86019
Appendix S1. Coding categories (adapted from Hughes et al. 2020) and descriptive statistics of analyzed media articles
Water charge and conservation of natural areas: An ex-ante assessment of a policy proposal for the Mantiqueira region, Brazil
<p>Economic model calibrated from a multiregional input-output table coupled to a water accounting system (hybrid-MRIO) focused on the Mantiqueira region, Brazil.</p>
FIGURE 8 in Revised Species Delimitation in the Giant Water Lily Genus Victoria (Nymphaeaceae) Confirms a New Species and Has Implications for Its Conservation
FIGURE 8 | Geographical context with population genomic and phylogenomic results. (A) Geographical coordinates of all Victoria samples used in analyses, where symbols are color-coded according to morphotype/species and symbol type denotes data source. (B) Phylogenomic representation of relationships between plastomes of 15 Victoria samples, with Nymphaea ampla as the outgroup and constructed using RAxML. (C) Principal component analysis of Victoria nuclear
FIGURE 2 in Revised Species Delimitation in the Giant Water Lily Genus Victoria (Nymphaeaceae) Confirms a New Species and Has Implications for Its Conservation
FIGURE 2 | Flower morphology and terms, using a Victoria amazonica second-night flower in longitudinal section for reference (above) and a fully dissected flower (below). (A) Ovary, (B) stigmatic surface and stigmatic chamber, (C) locule and ovules, (D) floral apex, (E) outer tepals, (F) inner tepals, (G) outer staminodia, (H) stamens, (I) inner staminodia, (J) carpellary appendages. Illustration and photo: Lucy T. Smith
Figure 1 in Natural regeneration in Atlantic Forest Fragments: using ants (Hymenoptera: Formicidae) for monitoring a conservation unit
Figure 1. Botujuru Private Natural Heritage Preserve location and the respective collecting sites.
Supplementary material 4 from: Auliya M, Altherr S, Nithart C, Hughes A, Bickford D (2023) Numerous uncertainties in the multifaceted global trade in frogs' legs with the EU as the major consumer. Nature Conservation 51: 71-135. https://doi.org/10.3897/natureconservation.51.93868
Amphibian species assessed in the IUCN Red List that are utilized either doemticalyy/nationally and or internationally
Supplementary material 2 from: Auliya M, Altherr S, Nithart C, Hughes A, Bickford D (2023) Numerous uncertainties in the multifaceted global trade in frogs' legs with the EU as the major consumer. Nature Conservation 51: 71-135. https://doi.org/10.3897/natureconservation.51.93868
Anuran species assessed in the IUCN Red List with uncertainties mainly prevailing in national/international trade routes, and level of exploitation
Data from: Some of supporting data for attitude of respondents towards wildlife conservation
<p>The study was conducted between September 2018 and March 2019 to investigate the nature and extent of human-wildlife conflict (HWC) in the surrounding area of Alage College, the Central Rift Valley of Ethiopia and to assess the perception of the local people to wildlife. For data collection, a total of 140 household heads were selected randomly for interviews from nine villages using structured and semi-structured questionnaires. Moreover, focus group discussion, key informant interviews, and personal observation were carried out to obtain additional information. Descriptive statistics, Chi-square test (2 tailed), one-way ANOVA, Pearson correlation coefficient, and Likert scale statements were used to analyze the data. Based on, 66 (47.1%) of the respondents, households heads, the local people of the area experienced livestock predation leading to HWC. Whereas, (40.7%, n=57) of the respondents perceived both crop damage and livestock predation as a cause of conflict. A total of 932.43 Total Livestock Unit (TLU) of livestock and 218 dogs' losses were reported by households due to predators over the last five years. Thus, the largest numbers of livestock (89.9%) and dogs (100%) attacks was happened due to spotted hyenas. Nearly half of the respondents (49.3%, n = 69) ranked warthogs as the primary crop raiders, while the majority of respondents (82.1%, n = 115) reported maize as a severely damaged cereal crop. More than half, (57.1%, n=80) of respondents used different methods simultaneously to minimize damage caused by wild animals. About half, (48.6%, n=68) of respondents had negative attitude towards wildlife conservation. The level of education and amount of money imposed as a penalty for illegal grazing were affecting the local community's attitudes to wildlife conservation. Using effective methods reduce damage and loss to crop including, improved livestock husbandry, and creating better awareness to the local community could make the locals actor of conservation.</p>
Data from: RECIFS: A centralized geo-environmental database for coral reef research and conservation
<p class="MsoNormal"><strong><span>Motivation</span></strong><span>: Host to intricate networks of marine species, coral reefs are among the most biologically diverse ecosystems on Earth. Over the past decades, major degradations of coral reefs have been observed worldwide, which is largely attributed to the effects of climate change and local stressors related to human activities. Now more than ever, characterizing how the environment shapes the dynamics of the reef ecosystem (<em>e.g.,</em> shifts in species abundance, community changes, emergence of locally adapted populations) is key to uncovering the environmental drivers of reef degradation, and developing efficient conservation strategies in response. To achieve these objectives, it is pivotal that environmental data describing the processes driving such ecosystem dynamics, which occur across specific spatial and temporal scales, are easily accessible to coral reef researchers and conservation stakeholders alike. </span></p> <p class="MsoNormal"><strong><span>Main types of variable contained: </span></strong><span>Multiple environmental variables characterizing various facets of the reef environment, including water chemistry and physics (<em>e.g.,</em> temperature, pH, chlorophyll concentration), local anthropogenic pressures (<em>e.g.,</em> boat detection, distance from agricultural or urban areas) and patterns of sea currents patterns. </span></p> <p class="MsoNormal"><strong><span>Spatial location and grain</span></strong><span>: Worldwide reef cells of 5-by-5 km. </span></p> <p class="MsoNormal"><strong><span>Time period and grain</span></strong><span>: Last 3-4 decades, monthly and yearly resolution.</span></p> <p class="MsoNormal"><span> <strong>Major taxa and level of measurement</strong>: Environmental data important for coral reefs and associated biodiversity. </span></p> <p class="MsoNormal"><strong><span> Software format</span></strong><span>: Interactive web-application available at <a href="https://recifs.epfl.ch">https://recifs.epfl.ch</a>.</span></p>
FIGURE 1 in Rediscovery of the presumably extinct fairy lantern Thismia kobensis (Thismiaceae) in Hyogo Prefecture, Japan, with discussions on its taxonomy, evolutionary history, and conservation
FIGURE 1. Thismia kobensis at the new locality. (A–C) Flower, lateral view. (D–F) Flower, upper view. (G) Flower without perianth lobes. (H) Flower with broken perianth tube and exposed stigma. Scale bars: 5 mm. Photographed by Kenji Suetsugu.
FIGURE 3 in Rediscovery of the presumably extinct fairy lantern Thismia kobensis (Thismiaceae) in Hyogo Prefecture, Japan, with discussions on its taxonomy, evolutionary history, and conservation
FIGURE 3. Thismia kobensis (Kenji Suetsugu & Kohei Yamana T1-3, HYO). (A) Habit. (B) Longitudinal section of perianth tube with stamens, style, and stigma. (C) Flower, upper view. (D) Flower with perianth lobes removed. (E) Stamens, inner view. (F) Stamens, upper view. (G) Inner perianth lobe. (H) Outer perianth lobe. (I) Style and stigma. Scale bars: 5 mm (A–B), 3 mm (C–H), and 1 mm (I). Photographed by Kenji Suetsugu.
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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.