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395 results for “population change”
Data and code for paper "Freihardt (2024): Perceptions of environmental changes among a climate-vulnerable population from Bangladesh. Climatic Change. DOI 10.1007/s10584-024-03678-6"
<p>This dataset contains the temperature, precipitation, erosion, and perception data, as well as the analysis code in R necessary to replicate the results of the paper:</p> <p>Freihardt, J. (2024): Perceptions of environmental changes among a climate-vulnerable population from Bangladesh. Climatic Change, 177, 25. DOI: 10.1007/s10584-024-03678-6.</p>
Life on the edge: A new toolbox for population-level climate change vulnerability assessments
<p>Global change is impacting biodiversity across all habitats on earth. New selection pressures from changing climatic conditions and other anthropogenic activities are creating heterogeneous ecological and evolutionary responses across many species' geographic ranges. Yet we currently lack standardised and reproducible tools to effectively predict the resulting patterns in species vulnerability to declines or range changes.</p> <p>We developed an informatic toolbox that integrates ecological, environmental and genomic data and analyses (environmental dissimilarity, species distribution models, landscape connectivity, neutral and adaptive genetic diversity and Genotype-Environment Associations) to estimate population vulnerability. In our toolbox, functions and data structures are coded in a standardised way so that it is applicable to any species or geographic region where appropriate data are available, for example individual or population sampling and genomic datasets (e.g. RAD-seq, ddRAD-seq, whole genome sequencing data) representing environmental variation across the species geographic range.</p> <p>We apply our toolbox to a georeferenced genomic dataset for the East African spiny reed frog (<em>Afrixalus fornasini</em>) to predict population vulnerability, as well as demonstrating that range loss projections based on adaptive variation can be accurately reproduced using data for two European bat species (<em>Myotis escalerai</em>, and <em>M. crypticus</em>).</p> <p>Our framework sets the stage for large scale, multi-species genomic datasets to be leveraged in a novel climate change vulnerability framework to quantify intraspecific differences in genetic diversity, local adaptation, range shifts and population vulnerability based on exposure, sensitivity, and range shift potential.</p>
Data from: Climate change and population persistence in a hibernating marsupial
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Distinct population code for movement kinematics and changes of ongoing movements in human subthalamic nucleus
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Life on the edge: A new toolbox for population-level climate change vulnerability assessments
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Group and individual social network metrics are robust to changes in resource distribution in experimental populations of forked fungus beetles
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Run and output files from: Holocene population expansion of a tropical bee coincides with early human colonisation of Fiji rather than climate change
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Data from: Maintaining local adaptation is key for evolutionary rescue and long-term persistence of populations experiencing habitat loss and a changing environment
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The importance of peripheral populations in the face of novel environmental change
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Data for: Predicting the contribution of single trait evolution to rescuing a plant population from demographic impacts of climate change
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Data from: Widespread cultural change in declining populations of Amazon parrots
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Data and code for: Nonlinear life table response analysis: Decomposing nonlinear and nonadditive population growth responses to changes in environmental drivers
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Temporal change in the contribution of immigration to population growth in a wild seabird experiencing rapid population decline
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Differential changes in lifecycle-event phenology provide a window into regional population declines
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Modeling Viability of Avian Populations in the Southern Appalachians: Potential impacts of Climate Change from 2002 to 2004
There is a general consensus that the global climate has slowly warmed (0.6 degrees C) over the past 100 years and that this trend will continue at an accelerated rate over the next 100 years (1 degree to 6 degrees C) (Kattenburg et al. 1996). Aside from the mean annual increase in temperature, the frequency of weather extremes, such as heat waves, drought, and tropical storms are projected to increase across North America over the next century (Easterling et al. 2000). Past changes in temperature and precipitation have been accompanied by changes in insect and vertebrate distributions from both tropical and temperate environments (Parmesan 1996, Pounds et. Al 1999). We have developed bird-habitat models that allow us to predict the occurrences of species in specific forest types within and across national forests within the Blue Ridge physiographic province with a high degree of accuracy (Linder et al. submitted). These models categorize habitat as unsuitable, marginal or high quality as determined by the rate of occupancy over five years of point count data. We will validate our occurrence models with reproductive data. We hypothesize that reproductive success will correspond to predicted habitat quality. While stochastic events may obscure patterns in the short-term, long-term reproductive trends should reflect site quality.
Data from: Environmental change, if unaccounted, prevents detection of cryptic evolution in a wild population
Detecting contemporary evolution requires demonstrating that genetic change has occurred. Mixed-effects models allow estimation of quantitative genetic parameters and are widely used to study evolution in wild populations. However, predictions of evolution based on these parameters frequently fail to match observations. Furthermore, such studies often lack an independent measure of evolutionary change against which to verify predictions. Here, we applied three commonly used quantitative genetic approaches to predict the evolution of size at maturity in a wild population of Trinidadian guppies. Crucially, we tested our predictions against evolutionary change observed in common garden experiments performed on samples from the same population. We show that standard quantitative genetic models underestimated or failed to detect the cryptic evolution of this trait as demonstrated by the common garden experiments. The models failed because: 1) size at maturity and fitness both decreased with increases in population density, 2) offspring experienced higher population densities than their parents, and 3) selection on size was strongest at high densities. When we accounted for environmental change, predictions better matched observations in the common garden experiments, although substantial uncertainty remained. Our results demonstrate that predictions of evolution are unreliable if environmental change is not appropriately captured in models.
Data from: Multi-population seedling and soil transplants show possible responses of a common tropical montane tree species (Weinmannia bangii) to climate change
<p>A possible response of many plant species to global warming is migration to higher elevations. However, these migrations may not be required if species can tolerate higher temperatures, or may be prevented if there are other factors such as changes in soil conditions that make upslope areas unsuitable.</p> <p>We used a set of 3-year field transplant experiments in the remote Peruvian Andes to simulate two possible responses of an abundant tropical montane cloudforest tree species (Weinmania bangii) to global warming: (1) "upward migration", in which case seedlings of W. bangii's were grown at their current elevation/temperature but in soils transplanted from higher elevations; and (2) "migration failure", in which case seedlings were transplanted downslope along with their home soils into areas that are 1°C or 2°C warmer. We conducted separate experiments with populations from the upper/leading edge, middle and lower/trailing edges of W. bangii's elevational/thermal range to assess the influence of local adaptation on responses to changes in temperature or soil.</p> <p>We found that seedling survival and growth were not affected by changes in soil conditions, regardless of the origin population. However, seedling survival decreased with temperature. A simulated warming of 1°C caused a significant reduction in the survival of seedlings transplanted from the mid-range population, and 2°C warming caused a severe decrease in the survival of seedlings transplanted from both the mid-range and bottom-edge populations.</p> <p>Synthesis. Our findings reveal that rising temperatures are a serious threat to plants, especially in populations growing in the hotter portion of their species' range. At least in the case of W. bangii, novel soil conditions will not limit the establishment or growth of seedlings at higher elevations. As such, decreases in the survivorship at lower elevations may be offset through upward migrations as temperatures continue to increase.</p>
Monitoring Plasmodium falciparum and Plasmodium vivax using microsatellite markers indicates limited changes in population structure after substantial transmission decline in Papua New Guinea
Monitoring the genetic structure of pathogen populations may be an economical and sensitive approach to quantify the impact of control on transmission dynamics, highlighting the need for a better understanding of changes in population genetic parameters as transmission declines. Here we describe the first population genetic analysis of the major human malaria parasites, <i>Plasmodium falciparum</i> (Pf) and <i>Plasmodium vivax</i> (Pv) populations following nationwide distribution of long-lasting insecticide treated nets (LLIN) in Papua New Guinea (PNG). Parasite isolates from pre- (2005-6) and post-LLIN (2010-2014) were genotyped using microsatellite markers. Despite parasite prevalence declining substantially (East Sepik: Pf=54.9-8.5%, Pv=35.7-5.6%, Madang: Pf=38.0-9.0%, Pv: 31.8-19.7%), genetically diverse and intermixing parasite populations remained. Pf diversity declined modestly post-LLIN relative to pre-LLIN (East Sepik: Rs = 7.1-6.4, He = 0.77-0.71; Madang: Rs= 8.2-6.1, He = 0.79-0.71). Unexpectedly, population structure present in pre-LLIN populations was lost post-LLIN, suggesting that more frequent human movement between provinces may have contributed to higher gene flow. Pv prevalence initially declined but increased again in one province, yet diversity remained high throughout the study period (East Sepik: Rs=11.4-9.3, He=0.83-0.80; Madang: Rs=12.2-14.5, He=0.85-0.88). Although genetic differentiation values increased between provinces over time, no significant population structure was observed at any time point. For both species, a decline in multiple infections and increasing clonal transmission and significant multilocus linkage disequilibrium (mLD) post-LLIN was a positive indicator of impact on the parasite population using microsatellite markers. These parameters may be useful adjuncts to traditional epidemiological tools in the early stages of transmission reduction.
Data from: Changes in age-structure over four decades were a key determinant of population growth rate in a long-lived mammal
<p>1. A changing environment directly influences birth and mortality rates, and thus population growth rates. However, population growth rates in the short-term are also influenced by population age-structure. Despite its importance, the contribution of age-structure to population growth rates has rarely been explored empirically in wildlife populations with long-term demographic data.</p> <p>2. Here, we assessed how changes in age-structure influenced short-term population dynamics in a semi-captive population of Asian elephants (Elephas maximus).</p> <p>3. We addressed this question using a demographic dataset of female Asian elephants from timber camps in Myanmar spanning 45 years (1970-2014). First, we explored temporal variation in age-structure. Then, using annual matrix population models, we used a retrospective approach to assess the contributions of age-structure and vital rates to short-term population growth rates with respect to the average environment.</p> <p>4. Age-structure was highly variable over the study period, with large proportions of juveniles in the years 1970 and 1985, and made a substantial contribution to annual population growth rate deviations. High adult birth rates between 1970-1980 would have resulted in large positive population growth rates, but these were prevented by a low proportion of reproductive-aged females.</p> <p>5. We highlight that an understanding of both age-specific vital rates and age-structure is needed to assess short-term population dynamics. Furthermore, this example from a human-managed system suggests that the importance of age-structure may be accentuated in populations experiencing human disturbance where age-structure is unstable, such as those in captivity or for endangered species. Ultimately, changes to the environment drive population dynamics by influencing birth and mortality rates, but understanding demographic structure is crucial for assessing population growth.</p>
Using UCEs to track the influence of sea-level change on leafy seadragon populations
<p>Data and code used in bioinformatic processing, bathymetry calculations, population genetic analyses and their output files. Ultraconserved Elements (UCEs) were sequenced in 68 individuals of leafy seadragons (<em>Phycodurus eques</em>, Syngnathidae) sampled across their range along the southern Australian coast.</p> <p>The repository contains</p> <p>A) Scripts to process the sequence data and the resulting</p> <ul> <li>BAM read mapping files</li> <li>VCF files with SNPs before and after filtering</li> </ul> <p> </p> <p>B) Scripts, input files, and output files for the analyses to</p> <ul> <li>reconstruct shallow water areas at different sea levels</li> <li>estimate population structure (PCA, DAPC, Structure, SVDquartets), and spatial genetic patterns (IBD plots, EEMS)</li> <li>calculate genetic diversity (individual-level heterozygosity, population-level heterozygosity, Tajima's D)</li> <li>perform phylogeographic modeling (DIYABC).</li> </ul>
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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.