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487 results for “population differences”
Data for: Temperature effects on growth rates of Daphnia from different populations
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Seedling response to water stress in valley oak (Quercus lobata) is shaped by different gene networks across populations
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Post-processed data for: Diverse operant control of different motor cortex populations during learning
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Soil pH: The Effect of Nitrogen Addition and Different pH Levels on Microorganism Populations
The purpose of this experiment was to measure the effect of NH4NO3 addition and different levels of pH on microorganism populations. The experiment was located in field B. This experiment was laid out as a full factorial design with 3 nitrogen levels and 4 pH levels. The pH levels strived for are 4.0, 5.5, 6.5, and controls. The nitrogen levels are E, G, and I are defined in fertilization details. The experiment had 4 replicates. The treatments were randomly assigned to the 48 plots. The plots were 4 by 4 meters and were laid out in a 6 by 8 grid. On May 5, 1995, a wildfire burned all of the plots in experiment 24 in field B.
Plant aboveground biomass data: The Effect of Nitrogen Addition and Different pH Levels on Microorganism Populations
The purpose of this experiment was to measure the effect of NH4NO3 addition and different levels of pH on microorganism populations. The experiment was located in field B. This experiment was laid out as a full factorial design with 3 nitrogen levels and 4 pH levels. The pH levels strived for are 4.0, 5.5, 6.5, and controls. The nitrogen levels are E, G, and I are defined in fertilization details. The experiment had 4 replicates. The treatments were randomly assigned to the 48 plots. The plots were 4 by 4 meters and were laid out in a 6 by 8 grid. On May 5, 1995, a wildfire burned all of the plots in experiment 24 in field B.
Soil ammonium: The Effect of Nitrogen Addition and Different pH Levels on Microorganism Populations
The purpose of this experiment was to measure the effect of NH4NO3 addition and different levels of pH on microorganism populations. The experiment was located in field B. This experiment was laid out as a full factorial design with 3 nitrogen levels and 4 pH levels. The pH levels strived for are 4.0, 5.5, 6.5, and controls. The nitrogen levels are E, G, and I are defined in fertilization details. The experiment had 4 replicates. The treatments were randomly assigned to the 48 plots. The plots were 4 by 4 meters and were laid out in a 6 by 8 grid. On May 5, 1995, a wildfire burned all of the plots in experiment 24 in field B.
Soil nitrate: The Effect of Nitrogen Addition and Different pH Levels on Microorganism Populations
The purpose of this experiment was to measure the effect of NH4NO3 addition and different levels of pH on microorganism populations. The experiment was located in field B. This experiment was laid out as a full factorial design with 3 nitrogen levels and 4 pH levels. The pH levels strived for are 4.0, 5.5, 6.5, and controls. The nitrogen levels are E, G, and I are defined in fertilization details. The experiment had 4 replicates. The treatments were randomly assigned to the 48 plots. The plots were 4 by 4 meters and were laid out in a 6 by 8 grid. On May 5, 1995, a wildfire burned all of the plots in experiment 24 in field B.
Percent light penetration: The Effect of Nitrogen Addition and Different pH Levels on Microorganism Populations
The purpose of this experiment was to measure the effect of NH4NO3 addition and different levels of pH on microorganism populations. The experiment was located in field B. This experiment was laid out as a full factorial design with 3 nitrogen levels and 4 pH levels. The pH levels strived for are 4.0, 5.5, 6.5, and controls. The nitrogen levels are E, G, and I are defined in fertilization details. The experiment had 4 replicates. The treatments were randomly assigned to the 48 plots. The plots were 4 by 4 meters and were laid out in a 6 by 8 grid. On May 5, 1995, a wildfire burned all of the plots in experiment 24 in field B.
Percent light penetration: Effect of Herbivores on Vegetation Treated with Different N Levels and the Effect of N Addition on Herbivore Populations.
The purpose of this experiment is to study the effect of NH4NO3 addition on vegetation and herbivore populations and the effects of various herbivores on vegetation treated with different nitrogen levels. This experiment is being conducted in fields A, B, and C and is nested within the macroplots of E004. There are 4 fence exclosures each designed to exclude a specific group of herbivores, a fence exclosure to exclude all 4 groups, a fence that should exclude no herbivores to measure fence effects, and a plot with no fence as a control. Exclosures are 2 by 4 meters and are located in macroplot subsections 3 and 8. Herbivore treatments are randomly placed in the grid. For a description of fertilizer added to E005, see file fertilization details. For a list of treatments, see the treatment layouts in file trmte05.
Plant aboveground biomass data: Effect of Herbivores on Vegetation Treated with Different N Levels and the Effect of N Addition on Herbivore Populations.
The purpose of this experiment is to study the effect of NH4NO3 addition on vegetation and herbivore populations and the effects of various herbivores on vegetation treated with different nitrogen levels. This experiment is being conducted in fields A, B, and C and is nested within the macroplots of E004. There are 4 fence exclosures each designed to exclude a specific group of herbivores, a fence exclosure to exclude all 4 groups, a fence that should exclude no herbivores to measure fence effects, and a plot with no fence as a control. Exclosures are 2 by 4 meters and are located in macroplot subsections 3 and 8. Herbivore treatments are randomly placed in the grid. For a description of fertilizer added to E005, see file fertilization details. For a list of treatments, see the treatment layouts in file trmte05.
Supporting R-code and data for "Why are population growth rate estimates of past and present hunter-gatherers so different?" (Tallavaara and Jørgensen, 2020)
<p>This submission contains data and R-code that enable to reproduce the data manipulations and analyses in the paper “Why are population growth rate estimates of past and present hunter-gatherers so different?” by Miikka Tallavaara and Erlend Kirkeng Jørgensen (Philosophical transactions of the Royal Society B). Please, cite the paper and this Zenodo repository if you use the files included in this Zenodo record in your work.</p> <p>The submission includes a html-file titled “Why are population growth rate estimates of past and present hunter-gatherers so different? - Data analyses” (TJ2020.html) that contains R-code and instructions and comments for running the code (open this file in your browser). In addition, the submission includes Rdata-file (dataTJ2020.Rdata) containing all the data that are not created within the code and pure R-code (TJ2020.R).</p>
Data from: Temporal variation in spatial genetic structure during population outbreaks: distinguishing among different potential drivers of spatial synchrony
Spatial synchrony is a common characteristic of spatio-temporal population dynamics across many taxa. While it is known that both dispersal and spatially autocorrelated environmental variation (i.e., the Moran effect) can synchronize populations, the relative contributions of each, and how they interact, is generally unknown. Distinguishing these mechanisms and their effects on synchrony can help us to better understand spatial population dynamics, design conservation and management strategies, and predict climate change impacts. Population genetic data can be used to tease apart these two processes as the spatio-temporal genetic patterns they create are expected to be different. A challenge, however, is that genetic data are often collected at a single point in time, which may introduce context-specific bias. Spatio-temporal sampling strategies can be used to reduce bias and to improve our characterization of the drivers of spatial synchrony. Using spatio-temporal analyses of genotypic data, our objective was to identify the relative support for these two mechanisms to the spatial synchrony in population dynamics of the irruptive forest insect pest, the spruce budworm (Choristoneura fumiferana), in Quebec (Canada). AMOVA, cluster analysis, isolation by distance and sPCA were used to characterize spatio-temporal genomic variation using 1370 SBW larvae sampled over four years (2012-2015) and genotyped at 3,562 SNP loci. We found evidence of overall weak spatial genetic structure that decreased from 2012 to 2015 and a genetic diversity homogenization among the sites. We also found genetic evidence of a long-distance dispersal event over > 140 km. These results indicate that dispersal is the key mechanism involved in driving population synchrony of the outbreak. Early intervention management strategies that aim to control source populations have the potential to be effective through limiting dispersal. However, the timing of such interventions relative to outbreak progression is likely to influence their probability of success.
Data from: GPS tracking and population genomics suggest itinerant breeding across drastically different habitats in the Phainopepla
Migratory birds generally divide the annual cycle between discrete breeding and non-breeding ranges. Itinerant breeders, however, reproduce twice at different geographic locations, migrating between them. This unusual flexibility in movement ecology and breeding biology suggests that some species can rapidly modulate the conflicting physiological and behavioral traits required for migration and reproduction. The Phainopepla (Phainopepla nitens), a songbird of the southwestern USA, has long been suspected to breed first in desert habitats in spring, then migrate to woodland habitats to breed again in summer. However, direct evaluation of movement and gene flow among individuals breeding in different locations has previously been logistically intractable. We deployed GPS tags on free-flying Phainopeplas in southern California, all of which migrated to hypothesized woodland breeding habitats after desert breeding (an average distance of 232 km). GPS data also revealed previously unknown fall and spring stopover sites. Population genomic analyses revealed no genetic differentiation among desert and woodland breeding populations, indicating significant movement and gene flow across the region. Finally, we used random forest analyses to quantify substantial environmental differences among temporal stages. Our results provide direct evidence that individual Phainopeplas do indeed move between two drastically different breeding habitats in the same year, representing a rare and extreme example of life-history flexibility.
Neural population dynamics in motor cortex are different for reach and grasp
<p>Low-dimensional linear dynamics are observed in neuronal population activity in primary motor cortex (M1) when monkeys make reaching movements. This population-level behavior is consistent with a role for M1 as an autonomous pattern generator that drives muscles to give rise to movement. In the present study, we examine whether similar dynamics are also observed during grasping movements, which involve fundamentally different patterns of kinematics and muscle activations. Using a variety of analytical approaches, we show that M1 does not exhibit such dynamics during grasping movements. Rather, the grasp-related neuronal dynamics in M1 are similar to their counterparts in somatosensory cortex, whose activity is driven primarily by afferent inputs rather than by intrinsic dynamics. The basic structure of the neuronal activity underlying hand control is thus fundamentally different from that underlying arm control.Low-dimensional linear dynamics are observed in neuronal population activity in primary motor cortex (M1) when monkeys make reaching movements. This population-level behavior is consistent with a role for M1 as an autonomous pattern generator that drives muscles to give rise to movement. In the present study, we examine whether similar dynamics are also observed during grasping movements, which involve fundamentally different patterns of kinematics and muscle activations. Using a variety of analytical approaches, we show that M1 does not exhibit such dynamics during grasping movements. Rather, the grasp-related neuronal dynamics in M1 are similar to their counterparts in somatosensory cortex, whose activity is driven primarily by afferent inputs rather than by intrinsic dynamics. The basic structure of the neuronal activity underlying hand control is thus fundamentally different from that underlying arm control.</p>
Data from: Genetic assessment of population structure and connectivity in the threatened Mediterranean coral Astroides calycularis (Scleractinia, Dendrophylliidae) at different spatial scales
Understanding dispersal patterns, population structure and connectivity among populations is helpful in the management and conservation of threatened species. Molecular markers are useful tools as indirect estimators of these characteristics. In this study we assess the population genetic structure of the endemic Mediterranean coral Astroides calycularis in the Alboran Sea at local and regional scales, and at three localities outside of this basin. Bayesian clustering methods, traditional F-statistics and Dest statistics were used to determine the patterns of genetic structure. Likelihood and coalescence approaches were used to infer migration patterns and effective population sizes. The results obtained reveal a high level of connectivity among localities separated by as much as one kilometer and moderate levels of genetic differentiation among more distant localities, somewhat corresponding with a stepping-stone model of gene flow and connectivity. These data suggest that connectivity among populations of this coral is mainly driven by the biology of the species, with low dispersal abilities; in addition, hydrodynamic processes, oceanographic fronts and the distribution of rocky substrate along the coastline may influence larval dispersal.
Data from: Rain shadow effects predict population differences in thermal tolerance of leaf-cutting ant workers (Atta cephalotes)
<p>Tests of hypotheses for the evolution of thermal physiology often rely on mean temperatures, but mounting evidence suggests geographic variation in temperature extremes is also an important predictor of species' thermal tolerances. Although the tropics are less thermally variable than higher latitude regions, rain shadows on the leeward sides of mountains can experience greater diel and seasonal variation in temperature than windward sites. Rain shadows provide opportunities to test predictions about the relationships of extreme temperatures with thermal physiology while controlling for latitude. We tested the hypothesis that populations of leaf-cutting ants (Atta cephalotes) in leeward, montane, and windward sites in Costa Rica would differ in upper thermal tolerances (CT<sub>max</sub>) of workers. As predicted from rain shadow effects via extreme high temperatures, the leeward rain-shadow site yielded the highest mean CT<sub>max</sub> (rain shadow site 42.1±0.3 °C, Montane site 38.2±0.5 °C, windward site 38.2±0.3 °C). This suggests that high-temperature extremes in tropical rain shadow forests can select for higher thermal tolerances. CT<sub>max</sub> increased with worker body size within sites, but CT<sub>max</sub> increased with body size more gradually at the two lowland sites, as predicted if local high temperatures selected more strongly on the most thermally vulnerable society members (small workers). This suggests that warmer lowland climates selected for colonies with less variation in heat tolerance than cooler high elevation climates.</p>
Data from: Heritable differences in fitness-related traits among populations of the mustard hill coral, Porites astreoides
A population's potential for rapid evolutionary adaptation can be estimated from the amount of genetic variation in fitness-related traits. Inshore populations of the mustard hill coral (Porites astreoides) have been shown to be more tolerant to thermal stress than offshore populations, but it is unclear whether this difference is due to long-term physiological acclimatization or genetic adaptation. Here, we evaluated variation in growth rate and survival among 38 families of juvenile recruits of P. astreoides spawned by colonies originating from inshore and offshore locations. Recruits were reared in a common garden for 5 weeks and then subjected to two thermal treatments (28 and 31 °C) for 2.5 weeks. The most significant effects were detected during the first 5 weeks, before thermal stress was applied: 27–30% of variance in growth and 94% of variance in recruit survival was attributable to parental effects. Genotyping of eight microsatellite loci indicated that the high early mortality of some of the recruit families was not due to higher inbreeding. Post treatment, parental effects diminished such that only 10–15% of variance in growth rate was explained, which most likely reflects the dissipation of maternal effects. However, offshore-origin recruits still grew significantly less under elevated temperature compared with inshore-origin recruits. These differences observed in naive juvenile corals suggest that population-level variation in fitness in response to different thermal environments has a genetic basis and could represent raw material for natural selection in times of climate change.
Data from: Complex genetic effects on early vegetative development shape resource allocation differences between Arabidopsis lyrata populations
Costs of reproduction due to resource allocation trade-offs have long been recognized as key forces in life history evolution, but little is known about their functional or genetic basis. Arabidopsis lyrata, a perennial relative of the annual model plant A. thaliana with a wide climatic distribution, has populations that are strongly diverged in resource allocation. In this study, we evaluated the genetic and functional basis for variation in resource allocation in a reciprocal transplant experiment, using four A. lyrata populations and F2 progeny from a cross between North Carolina (USA) and Norway parents, which had the most divergent resource allocation patterns. Local alleles at quantitative trait loci (QTL) at a North Carolina field site increased reproductive output while reducing vegetative growth. These QTL had little overlap with flowering date QTL. Structural equation models incorporating QTL genotypes and traits indicated that resource allocation differences result primarily from QTL effects on early vegetative growth patterns, with cascading effects on later vegetative and reproductive development. At a Norway field site, North Carolina alleles at some of the same QTL regions reduced survival and reproductive output components, but these effects were not associated with resource allocation trade-offs in the Norway environment. Our results indicate that resource allocation in perennial plants may involve important adaptive mechanisms largely independent of flowering time. Moreover, the contributions of resource allocation QTL to local adaptation appear to result from their effects on developmental timing and its interaction with environmental constraints, and not from simple models of reproductive costs.
Data from: Congruent signals of population history but radically different patterns of genetic diversity between mitochondrial and nuclear markers in a mountain lizard
Historical factors, current population size, population connectivity and selective processes at linked loci contribute to shaping contemporary patterns of neutral genetic diversity. It is now widely acknowledged that nuclear and mitochondrial markers react differently to current demography as well as to past history, so the use of both types of markers is often advocated to gain insight on both historical and contemporary processes. We used 12 microsatellite loci genotyped in 13 populations of a mountain lizard (Iberolacerta bonnali) to test if the historical scenario favoured by a previous mitochondrial study was also supported by nuclear markers and thereby evaluated the consequences of post-glacial range movements on nuclear diversity. Congruent signals of recent history were revealed by nuclear and mitochondrial markers using an Approximate Bayesian Computation approach but contemporary patterns of mtDNA and nuclear DNA diversity were radically different. Although dispersal in this species is probably highly restricted at all spatial scales, colonisation abilities have been historically good, suggesting capability for reestablishment of locally extinct populations except in fully disconnected habitats.
Data from: Pollinator shifts between Ophrys sphegodes populations: might adaptation to different pollinators drive population divergence?
Local adaptation to different pollinators is considered one of the possible initial stages of ecological speciation as reproductive isolation is a by-product of the divergence in pollination systems. However, pollinator-mediated divergent selection will not necessarily result in complete reproductive isolation, because incipient speciation is often overcome by gene flow. We investigated the potential of pollinator shift in the sexually deceptive orchids Ophrys sphegodes and Ophrys exaltata and compared the levels of floral isolation vs. genetic distance among populations with contrasting predominant pollinators. We analysed floral hydrocarbons as a proxy for floral divergence between populations. Floral adoption of pollinators and their fidelity was tested using pollinator choice experiments. Interpopulation gene flow and population differentiation levels were estimated using AFLP markers. The Tyrrhenian O. sphegodes population preferentially attracted the pollinator bee Andrena bimaculata, whereas the Adriatic O. sphegodes population exclusively attracted A. nigroaenea. Significant differences in scent component proportions were identified in O. sphegodes populations that attracted different preferred pollinators. High interpopulation gene flow was detected, but populations were genetically structured at species level. The high interpopulation gene flow levels independent of preferred pollinators suggest that local adaptation to different pollinators has not (yet) generated detectable genome-wide separation. Alternatively, despite extensive gene flow, few genes underlying floral isolation remain differentiated as a consequence of divergent selection. Different pollination ecotypes in O. sphegodes might represent a local selective response imposed by temporal variation in a geographical mosaic of pollinators as a consequence of the frequent disturbance regimes typical of Ophrys habitats.
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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.