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Uribe-Rivera et al 2017 DataSet: High resolution bioclimatic layers for southwest of South America for three recent past periods (1970, 1990 and 2010)
<p>These files were generated as part of the article "Dispersal and extrapolation on the accuracy of temporal predictions from distribution models for the Darwin’s frog" (Uribe-Rivera et al. 2017; accepted in Ecological Applications)</p> <p>We used point data of meteorological stations between 34°-48°S and 70°-75°W, to generate new climatic surfaces for three recent past periods (1970; 1990; 2010). Meteorological data encompassed 293 weather stations, and were extracted from three databases: Dirección Meteorológica de Chile (DMC); Dirección General de Aguas de Chile (DGA); and the FAOClim-NET Agroclimatic database management system (FAO 2001), recording monthly records of mean daily minimum temperature, mean daily maximum temperature and total rainfall for 5-year periods (1965-1969 for 1970 climatic conditions; 1985-1989 for 1990 climatic conditions; and 2005-2009 for 2010 climatic conditions). For each period monthly mean values of each climatic variable were interpolated to generate surfaces using Anusplin v.4.4 (Hutchinson and Xu 2006), which applies the same algorithm used to derive the WorldClim bioclimatic surfaces (Hijmans et al. 2005). Interpolations were fitted following Pliscoff et al. (2014) at a ~1x1 Km resolution, with elevation as an independent variable using the GTOPO30 global digital elevation model (USGS, 1996). Because some weather stations do not have information for every month, we used the option of non-data of Anusplin. The quality of interpolations of climatic data was assessed calculating the Pearson correlation coefficient at the cell level between the monthly climatic values from the CRU-TS v3.10.01 Historic Climate Database for GIS (Climatic Research Unit - Time Series, 2012), and the monthly climatic values from the new climatic layers. Finally, surfaces of 19 bioclimatic variables were generated using the dismo package in R (Hijmans et al. 2014).</p> <p>All bioclimatic layers were uploaded in a single compressed ZIP file. Individual layers can be found inside it as georeferenced ASCII raster files, and nominated primarily by time period, and secundarily by the number of bioclimatic layer, following the worldclim nomenclature (http://www.worldclim.org/bioclim).</p>
Data sets used in "Is there a tropical response to recent observed Southern Ocean cooling?"
The dataset contains processed data for the GRL publication (to be submitted) "Is there a tropical response to recent observed Southern Ocean cooling?" The dataset includes global maps of linear trends of various fields presented in the figures, as well as pattern correlation coefficients for the three experiment ensembles using CESM1: Large Ensemble, Tropical Pacific Pacemaker Experiment, and Southern Ocean Pacemaker Experiment.
Characterizing contemporary evolutionary change in a recently isolated population of Threespine Stickleback (Gasterosteus aculeatus L.)
<p>Parallel evolution of lateral plates and body shape in threespine stickleback (Gasterosteus aculeatus) is an iconic example of adaptation. We test a case of contemporary evolutionary transition in a recently isolated population of marine G. aculeatus in British Columbia, Canada. We investigate Ectodysplasin (Eda) genotypes, plate counts, neutral genetic divergence and whole-body phenotypes to determine genetic and phenotypic distance between this population and nearby comparative populations. Our focal population is in the process of adapting both genetically and phenotypically to a freshwater environment and we provide an example of the genetic basis for parallel evolutionon a contemporary timescale. The frequency of Eda genotypes and lateral plate phenotypes in our focal population are not consistent with those of marine or fully freshwater populations. Although our focal population is genetically distinct from nearby marine populations, these fish still more closely resemble marine populations in overall body shape while demonstrating an intriguing intermediate phenotype. Eda frequency and lateral plate phenotype change faster than body shape in response to freshwater conditions, suggesting that the pace of adaptation differs across traits in response to the same environmental conditions. Our results further bolster the case for G. aculeatus as a key model of contemporary evolution.</p>
Recent increases in annual, seasonal, and extreme methane fluxes driven by changes in climate and vegetation in boreal and temperate wetland ecosystems
<p>Files (input and output) for the publication <em>Recent increases in annual, seasonal, and extreme methane fluxes driven by changes in climate and vegetation in boreal and temperate wetland ecosystems</em></p> <p> </p>
Recent tree diversity increase in NE Iberian forests following intense management release: a task for animal-dispersed and drought tolerant species
<ol> <li>Under increasing human-related threats to forests, many studies suggest that increasing tree species diversity may boost forest resilience by enhancing the range of species' responses to disturbances. However, it remains unclear whether passive or active forest management strategies should be applied to increase tree diversity. This issue would benefit from investigating which management and environmental factors, together with species' functional traits influence temporal changes in tree species diversity.</li> <li>We explored the influence of the bioclimatic region, land-use history, forest cover, protection, management, forest structure and changes in temperature and precipitation, to explain tree species diversity changes in NE Iberian forests, by comparing 3141 plots from the Spanish National Forest Inventory sampled between 1989 and 2016. Moreover, we assessed which species' functional traits (dispersal habit, drought and shade tolerance) were most relevant for diversity changes.</li> <li>After 27 years, tree species richness and diversity moderately increased in the tree and regeneration layers. This trend occurred mostly in long-established, non-recently managed forests and in those with a lower initial basal area. Increasing temperature had negative effects for diversity increase in the tree layer but positive for the regeneration compartment, while decreasing precipitation showed the opposite effects.</li> <li>Tree species with higher drought tolerance, and especially those animal-dispersed ones arriving from the regional pool, mostly contributed to the local diversity increase. This pattern occurred in all forest types, although the taxonomic array of species varied.</li> <li> <em>Synthesis and applications.</em> The main drivers influencing the passive increase in tree species diversity suggest a primary role of diminishing forest exploitation in this recovery process, fine-tuned by climatic changes. This ecological scenario has particularly favored animal-dispersed tree species with higher drought tolerance, which mostly led the diversity increase. A higher presence of such highly mobile and drought-tolerant species can be crucial to increase functional diversity and, ultimately, increase forest resilience under future scenarios of greater aridity. In light of these results, management strategies should continue fostering the restoration of diversity in once intensively exploited forests while ensuring the maintenance of the already gained tree species diversity.</li> </ol>
Conservation opportunities through improved management of recently established protected areas in Southeast Asia
<p> </p> <ul> <li>The 'Table_PA_info' contains information on all 80 Protected Areas analyzed in this study.</li> <li>The 'Synth_plots' includes synthetic control model fits for all 80 Protected Areas analyzed in this study. The number displayed on the top-left of each plot corresponds to the WDPA-ID of the respective protected area. For further details on each protected area, please refer to the 'Table_PA_info' document.</li> <li>The 'placebos' document consists of placebo test plots. The number on the top-left of each plot indicates the WDPA-ID of the protected area. Refer to the 'Table_PA_info' document for more information on each protected area.</li> </ul>
Figure 4 in Recent Benthic foraminiferal biofacies in the Bakkhali region, West Bengal, India
Figure 4. Seasonal variation of Total Foraminifera of the study area.
Figure 7 in Recent Benthic foraminiferal biofacies in the Bakkhali region, West Bengal, India
Figure 7. Ternary plot showing surface sampling locations.
Figure 8 in Recent Benthic foraminiferal biofacies in the Bakkhali region, West Bengal, India
Figure 8. Species richness plot showing surface sampling locations.
Figure 5 in Recent Benthic foraminiferal biofacies in the Bakkhali region, West Bengal, India
Figure 5. Seasonal variation of living foraminifera in the study area.
Figure 3 in Recent Benthic foraminiferal biofacies in the Bakkhali region, West Bengal, India
Figure 3. Species distribution in the sampling locations during pre-monsoon sampling.
Two mosquito salivary antigens demonstrate promise as biomarkers of recent exposure to P. falciparum-infected mosquito bites
<p>Measuring malaria transmission intensity using the traditional entomological inoculation rate is difficult. Antibody responses to mosquito salivary proteins such as SG6 have previously been used as biomarkers of exposure to <em>Anopheles</em> mosquito bites. Here, we investigate four mosquito salivary proteins as potential biomarkers of human exposure to mosquitoes infected with <em>P. falciparum</em>: mosGILT, SAMPSP1, AgSAP, and AgTRIO. We tested population-level human immune responses in longitudinal and cross-sectional plasma samples from subjects with known <em>P. falciparum</em> infection from low and moderate transmission areas in Senegal using a multiplexed magnetic bead-based assay. AgSAP and AgTRIO were the best indicators of recent exposure to infected mosquitoes, with antibody responses to AgSAP in a moderate endemic area, and to AgTRIO in both low and moderate endemic areas, significantly higher than healthy non-endemic control cohort (p-values = 0.0245, 0.0064, and <0.0001 respectively). No antibody responses significantly differed between the low and moderate transmission area, or between equivalent groups during and outside the malaria transmission seasons. For AgSAP and AgTRIO, reactivity peaked 2-4 weeks after clinical <em>P. falciparum</em> infection and declined 3 months after infection. Reactivity to both AgSAP and AgTRIO peaked after infection and did not differ seasonally nor between areas of low and moderate transmission, suggesting reactivity is due to exposure to infectious mosquitos or recent biting rather than general mosquito exposure. Kinetics suggest reactivity is relatively short-lived. AgSAP and AgTRIO are promising candidates to incorporate into multiplexed assays for serosurveillance of population-level changes in <em>P. falciparum</em>-infected mosquito exposure.</p>
Recent changes in hemispheric asymmetry of stratospheric water vapor
Open the record for dataset details and reuse information.
Genome of the inferred most recent common ancestor of the Mycobacterium tuberculosis complex
<p>Genome of the inferred most recent common ancestor of the <em>Mycobacterium tuberculosis</em> complex (MTBC) as described in <em>Human T cell epitopes of </em>Mycobacterium tuberculosis<em> are evolutionarily hyperconserved</em>. Comas et al 2010; Nature Genetics (doi:10.1038/ng.590).</p> <p>Mapping to the inferred MTBC ancestor instead of an extant, Lineage 4/LAM strain, allows to better distinguish between ancestral and derived mutations. This is exemplified by the number of single-nucleotide polymorphisms called for strains from different MTBC lineages (Figure 1).</p> <p>Figure 1 shows the number of fixed SNPs (fSNPs; allele frequency >= 90%), called for <em>Mycobacterium tuberculosis</em> isolates from different MTBC lineages when aligning to the reference strain H37Rv or to the MTBC ancestor. Each dot is an isolate. When aligning to the MTBC ancestor, some isolates appear as "outliers", with less fSNPs than the average. These are mixed infections.</p>
Recent natural variability in global warming weakened phenological mismatch and selection on seasonal timing in great tits (Parus major)
<p></p><p> Climate change has led to phenological shifts in many species, but with large variation in magnitude among species and trophic levels. The poster child example of the resulting phenological mismatches between the phenology of predators and their prey is the great tit (Parus major), where this mismatch led to directional selection for earlier seasonal breeding. Natural climate variability can obscure the impacts of climate change over certain periods, weakening phenological mismatching and selection. Here, we show that selection on seasonal timing indeed weakened significantly over the past two decades as increases in late spring temperatures have slowed down. Consequently, there has been no further advancement in the date of peak caterpillar food abundance, while great tit phenology has continued to advance, thereby weakening the phenological mismatch. We thus show that the relationships between temperature, phenologies of prey and predator, and selection on predator phenology are robust, also in times of a slowdown of warming. Using projected temperatures from a large ensemble of climate simulations that take natural climate variability into account, we show that prey phenology is again projected to advance faster than great tit phenology in the coming decades, and therefore that long-term global warming will intensify phenological mismatches. </p><p></p>
Weather dataset (Typical Downscaled Year, Extreme Cold Year, Extreme Warm Year) for building energy simulations (.epw format) in recent past climate, Kortrijk Kennedy Park, Belgium
<p>Typical Downscaled Year (TDY), Extreme Cold Year and Extreme Warm Year based on the methodology of Nik (2016), is extracted for the location of Kortrijk Kennedy Park (50°48'2"N 3°16'13" E) from the EC-Earth driven convection-permitting climate model COSMO-CLM for the Belgian domain extended with land-surface scheme TERRA_URB(v2.0) making use of the SURY (Semi-empirical URban canopY) parameterization ( Wouters et al. 2016). The integrations are identical to the ones which are described in Vanden Broucke et al. (2019). The climate model has a spatial resolution of 2.8 km and an hourly temporal resolution and is available for the recent past (1976-2004) and future (2070-2098) as 30-year datasets. For this dataset, the TDY, ECY, and EWY are extracted for the recent past period. A bias correction is applied for the following variables: temperature (as described in Ramon et al. 2020), solar radiation and relative humidity as described in Ramon et al. (202X).</p>
Weather dataset (Typical Downscaled Year, Extreme Cold Year, Extreme Warm Year) for building energy simulations (.epw format) in recent past climate, Antwerp Berchem, Belgium
<p>Typical Downscaled Year (TDY), Extreme Cold Year and Extreme Warm Year based on the methodology of Nik (2016), is extracted for the location of Antwerp Berchem (51°12'00"N 4°26'24" E) from the EC-Earth driven convection-permitting climate model COSMO-CLM for the Belgian domain extended with land-surface scheme TERRA_URB(v2.0) making use of the SURY (Semi-empirical URban canopY) parameterization ( Wouters et al. 2016). The integrations are identical to the ones which are described in Vanden Broucke et al. (2019). The climate model has a spatial resolution of 2.8 km and an hourly temporal resolution and is available for the recent past (1976-2004) and future (2070-2098) as 30-year datasets. For this dataset, the TDY, ECY, and EWY are extracted for the recent past period. A bias correction is applied for the following variables: temperature (as described in Ramon et al. 2020), solar radiation and relative humidity as described in Ramon et al. (202X).</p>
Recent and local hyperdiversification of Central American rainforests
<p>Phylogenetic trees in nexus format to be visualised in e.g. FigTree</p> <p>Scripts and input data to reproduce the diversification analyses (LTT plots and GeoSSE) presented in this study</p>
Weather dataset (Typical Downscaled Year, Extreme Cold Year, Extreme Warm Year) for building energy simulations (.epw format) in recent past climate, Leuven Casa Blanca, Belgium
<p>Typical Downscaled Year (TDY), Extreme Cold Year and Extreme Warm Year based on the methodology of Nik (2016), is extracted for the location of the Casa Blanca Neighbourhood Leuven (50°52'48"N 4°43'48"E) from the EC-Earth driven convection-permitting climate model COSMO-CLM for the Belgian domain extended with land-surface scheme TERRA_URB(v2.0) making use of the SURY (Semi-empirical URban canopY) parameterization ( Wouters et al. 2016). The integrations are identical to the ones which are described in Vanden Broucke et al. (2019). The climate model has a spatial resolution of 2.8 km and an hourly temporal resolution and is available for the recent past (1976-2004) and future (2070-2098) as 30-year datasets. For this dataset, the TDY, ECY, and EWY are extracted for the recent past period. A bias correction is applied for the following variables: temperature (as described in Ramon et al. 2020), solar radiation and relative humidity as described in Ramon et al. (202X).</p>
Weather dataset (Typical Downscaled Year, Extreme Cold Year, Extreme Warm Year) for building energy simulations (.epw format) in recent past climate, Uccle KMI, Belgium
<p>Typical Downscaled Year (TDY), Extreme Cold Year and Extreme Warm Year based on the methodology of Nik (2016), is extracted for the location of Uccle KMI (50°47'49"N 4°21'29" E) from the EC-Earth driven convection-permitting climate model COSMO-CLM for the Belgian domain extended with land-surface scheme TERRA_URB(v2.0) making use of the SURY (Semi-empirical URban canopY) parameterization ( Wouters et al. 2016). The integrations are identical to the ones which are described in Vanden Broucke et al. (2019). The climate model has a spatial resolution of 2.8 km and an hourly temporal resolution and is available for the recent past (1976-2004) and future (2070-2098) as 30-year datasets. For this dataset, the TDY, ECY, and EWY are extracted for the recent past period. A bias correction is applied for the following variables: temperature (as described in Ramon et al. 2020), solar radiation and relative humidity as described in Ramon et al. (202X).</p>
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.