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4,669 results for “Environment;”
Data from: Lizards paid a greater opportunity cost to thermoregulate in a less heterogeneous environment
The theory of thermoregulation has developed slowly, hampering efforts to predict how individuals can buffer climate change through behaviour. Mixed results of field and laboratory experiments underscore the need to test hypotheses about thermoregulation explicitly, while measuring costs and benefits in different thermal landscapes. We simulated body temperature and energy expenditure of a virtual lizard that either thermoregulates optimally or thermoconforms in a landscape of either low or high quality (one or four basking sites, respectively). We then compare the predicted values in each landscape with the observed values for real lizards in experimental arenas. Lizards thermoregulated more accurately in the high-quality landscape than they did on the low-quality landscape, albeit only slightly so, but spent similar amounts of energy in these landscapes. Basking, rather than shuttling between heat sources, accounted for the majority of the energy consumed in both landscapes. These results did not support the predictions of our model. In the low-quality landscape, real lizards thermoregulated intensely despite the potential to save energy by thermoconforming. In the high-quality landscape, lizards moved more than expected, suggesting that lizards explored their surroundings despite being able to thermoregulate without doing so. Our results suggest that non-energetic benefits drive thermoregulatory behaviour in costly environments, despite the missed opportunities arising from thermoregulation. We propose that energetic costs associated with thermoregulatory movement will become substantial in homogeneous environments such as flat plains and dense forests. The theory of thermoregulation should incorporate these aspects if biologists wish to predict responses of ectotherms to changing climates and habitats.
Data from: Building a beetle: how larval environment leads to adult performance in a horned beetle
The link between the expression of the signals used by male animals in contests with the traits which determine success in those contests is poorly understood. This is particularly true in holometabolous insects such as horned beetles where signal expression is determined during metamorphosis and is fixed during adulthood, whereas performance is influenced by post-eclosion feeding. We used path analysis to investigate the relationships between larval and adult nutrition, horn and body size and fitness-related traits such as strength and testes mass in the horned beetle Euoniticellus intermedius. In males weight gain post-eclosion had a central role in determining both testes mass and strength. Weight gain was unaffected by adult nutrition but was strongly correlated with by horn length, itself determined by larval resource availability, indicating strong indirect effects of larval nutrition on the adult beetle's ability to assimilate food and grow tissues. Female strength was predicted by a simple path diagram where strength was determined by eclosion weight, itself determined by larval nutrition: weight gain post-eclosion was not a predictor of strength in this sex. Based on earlier findings we discuss the insulin-like signalling pathway as a possible mechanism by which larval nutrition could affect adult weight gain and thence traits such as strength.
Data from: Adaptation costs to constant and alternating polluted environments
Some populations quickly adapt to strong and novel selection pressures caused by anthropogenic stressors. However, this short-term evolutionary response to novel and harsh environmental conditions may lead to adaptation costs, and evaluating these costs is important if we want to understand the evolution of resistance to anthropogenic stressors. In this experimental evolution study, we exposed Caenorhabditis elegans populations to uranium (U populations), salt (NaCl populations), alternating uranium/salt treatments (U/NaCl populations), and to a control environment (C populations), over 22 generations. In parallel, we ran common-garden and reciprocal-transplant experiments to assess the adaptive costs for populations that have evolved in the different environmental conditions. Our results showed rapid evolutionary changes in life history characteristics of populations exposed to the different pollution regimes. Furthermore, adaptive costs depended on the type of pollutant: pollution-adapted populations had lower fitness than C populations, when the populations were returned to their original environment. Fitness in uranium environments was lower for NaCl populations than for U populations. In contrast, fitness in salt environments was similar between U and NaCl populations. Moreover, fitness of U/NaCl populations showed similar or higher fitness in both the uranium and the salt environments compared to populations adapted to constant uranium or salt environments. Our results show that adaptive evolution to a particular stressor, can lead to either adaptive costs or benefits once in contact with another stressor. Furthermore, we did not find any evidence that adaptation to alternating stressors was associated with additional adaption costs. This study highlights the need to incorporate adaptive cost assessments when undertaking ecological risk assessments of pollutants.
Data from: Exposure to a competitive social environment activates an epigenetic mechanism that limits pheomelanin synthesis in zebra finches
Competitive environments promote high testosterone levels, oxidative stress and, consequently, impair cellular homeostasis. The regulation of genes involved in the synthesis of the pigment pheomelanin in melanocytes seems to help to maintain homeostasis against environmental oxidative stress. Here, we experimentally increased social interactions in some zebra finch Taeniopygia guttata males by keeping them in groups of six birds during feather growth, while others were kept alone, to test if melanocytes show epigenetic lability under a competitive social environment. As these changes may depend on the oxidative status, we administrated buthionine sulfoximine (BSO) to decrease the antioxidant capacity of some birds. The competitive environment downregulated a gene involved in pheomelanin synthesis (Slc7a11) by changing the level of DNA methylation in feather melanocytes. In other genes involved in pheomelanin synthesis (Slc45a2, MC1R and AGRP), DNA methylation was also affected, but no changes in expression were detected. The exposure to the competitive environment did not affect systemic oxidative stress and damage, indicating that a protective epigenetic mechanism that changes the expression of Slc7a11 may have been activated. However, no changes on the pigmentation phenotype of birds were found, likely due to the short duration or low intensity of the competitive environment. BSO treatment did not affect the epigenetic mechanism, suggesting that the antioxidant capacity of birds was high enough to deal with the competitive environment. An epigenetic mechanism limiting pheomelanin synthesis gets therefore activated under exposure to a competitive environment in male zebra finches, which may help avoiding damage caused by competitive interactions.
Data from: Monitoring of plant-environment interactions by high throughput FTIR spectroscopy of pollen
Fourier transform infrared (FTIR) spectroscopy enables chemical analysis of pollen samples for plant phenotyping to study plant–environment interactions, such as influence of climate change or pathogens. However, current approach, such as microspectroscopy and attenuated total reflection spectroscopy, does not allow for high-throughput protocols. This study at hand suggests a new spectroscopic method for high-throughput characterization of pollen. Samples were measured as thin films of pollen fragments using a Bruker FTIR spectrometer with a high-throughput eXTension (HTS-XT) unit employing 384-well plates. In total, 146 pollen samples, belonging to 31 different pollen species of Fagaceae and Betulaceae and collected during three consecutive years (2012–2014) at locations in Croatia, Germany and Norway, were analysed. Critical steps in the sample preparation and measurement, such as variabilities between technical replicates, between microplates and between spectrometers, were studied. Measurement variations due to sample preparation, microplate holders and instrumentation were low, and thus allowed differentiation of samples with respect to phylogeny and biogeography. The spectral variability for a range of Fagales species (Fagus, Quercus, Betula, Corylus, Alnus and Ostrya) showed high-species-specific differences in pollen's chemical composition due to either location or year. Statistically significant inter-annual and locational differences in the pollen spectra indicate that pollen chemical composition has high phenotypic plasticity and is influenced by local climate conditions. The variations in composition are connected to lipids, proteins, carbohydrates and sporopollenins that play crucial roles in cold and desiccation tolerance, protection against UV radiation and as material and energy reserves. The results of this study demonstrate the value of high-throughput FTIR approach for the systematic collection of data on ecosystems. The novel FTIR approach offers fast, reliable and economical screening of large number of samples by semi-automated methodology. The high-throughput approach could provide crucial understanding on plant–climate interactions with respect to biochemical variation within genera, species and populations.
Data from: PhyloBayes MPI: phylogenetic reconstruction with infinite mixtures of profiles in a parallel environment
Modeling across site variation of the substitution process is increasingly recognized as important for obtaining more accurate phylogenetic reconstructions. Both finite and infinite mixture models have been proposed, and have been shown to significantly improve on classical single-matrix models. Compared to their finite counterparts, infinite mixtures have a greater expressivity. However, they are computationally more challenging. This has resulted in practical compromises in the design of infinite mixture models. In particular, a fast but simplified version of a Dirichlet process model over equilibirum frequency profiles implemented in PhyloBayes (Lartillot et al, 2007) has often been used in recent phylogenomics studies, while more refined model structures, more realistic and empirically more fit, have been practically out of reach. We introduce an Message Passing Interface (MPI) version of PhyloBayes, implementing the Dirichlet process mixture models as well as more classical empirical matrices and finite mixtures. The parallelization is made efficient thanks to the combination of two algorithmic strategies: a partial Gibbs sampling update of the tree topology, and the use of a truncated stick-breaking representation for the Dirichlet process prior. The implementation shows close to linear gains in computational speed for up to 64 cores, thus allowing faster phylogenetic reconstruction under complex mixture models. PhyloBayes MPI is freely available from our website www.phylobayes.org.
Data from: Landscape genomics in Atlantic salmon (Salmo salar): searching for gene-environment interactions driving local adaptation
A growing number of studies are examining the factors driving historical and contemporary evolution in wild populations. By combining surveys of genomic variation with a comprehensive assessment of environmental parameters, such studies can increase our understanding of the genomic and geographical extent of local adaptation in wild populations. We utilized a large-scale landscape genomics approach to examine adaptive and neutral differentiation across 54 North American populations of Atlantic salmon representing seven previously defined genetically distinct regional groups. Over 5500 genome-wide SNPs were genotyped in 641 individuals and 28 bulk assays of 25 pooled individuals each. Genome scans, linkage map and 49 environmental variables were combined to conduct an innovative landscape genomic analysis. Our results provide valuable insight into the links between environmental variation and both neutral and potentially adaptive genetic divergence. In particular, we identified markers potentially under divergent selection, as well as associated selective environmental factors and biological functions with the observed adaptive divergence. Multivariate landscape genetic analysis revealed strong associations of both genetic and environmental structures. We found an enrichment of growth related functions among outlier markers. Climate (temperature-precipitation) and geological characteristics were significantly associated with both potentially adaptive and neutral genetic divergence and should be considered as candidate loci involved in adaptation at the regional scale in Atlantic salmon. Hence, this study significantly contributes to the improvement of tools used in modern conservation and management schemes of Atlantic salmon wild populations.
Data from: Role of sex and migration in adaptation to sink environments
Understanding the effects of sex and migration on adaptation to novel environments remains a key problem in evolutionary biology. Using a single-cell alga Chlamydomonas reinhardtii, we investigated how sex and migration affected rates of evolutionary rescue in a sink environment, and subsequent changes in fitness following evolutionary rescue. We show that sex and migration affect both the rate of evolutionary rescue and subsequent adaptation. However, their combined effects change as the populations adapt to a sink habitat. Both sex and migration independently increased rates of evolutionary rescue, but the effect of sex on subsequent fitness improvements, following initial rescue, changed with migration, as sex was beneficial in the absence of migration but constraining adaptation when combined with migration. These results suggest that sex and migration are beneficial during the initial stages of adaptation, but can become detrimental as the population adapts to its environment.
Data from: Quantitative genetics of female mate preferences in an ancestral and a novel environment
A female's mate preference is a potentially complex function relating variation in multiple male phenotypes with her probability of accepting individual males as a mate. Estimating the quantitative genetic basis of preference functions within a population is empirically challenging yet key to understanding preference evolution. We employed a recently described approach that uses random-coefficient mixed models in the analysis of function-valued traits. Using a half-sibling breeding design in a laboratory-adapted Drosophila serrata population, we estimated the genetic (co)variance function of female preference for male sexual displays composed of nine contact pheromones. The breeding design was performed across two environments: the food to which the population was well adapted and a novel food that reduced average female productivity by 35%. Significant genetic variance in female preference was detected and the majority (64.2%) was attributable to a single genetic dimension (eigenfunction), suggesting that preferences for different pheromones are not genetically independent. The second eigenfunction, accounting for 24% of the total genetic variance, approached significance in a conservative test, suggesting the existence of a second, independent genetic dimension. There was no evidence that the genetic basis of female preference differed between the two environments, suggesting the absence of genotype-by-environment interactions and hence a lack of condition-dependent preference expression.
Data from: How does parental environment influence the potential for adaptation to global change?
Parental environments are regularly shown to alter the mean fitness of offspring, but their impacts on the genetic variation for fitness, which predicts adaptive capacity and is also measured on offspring, are unclear. Consequently, how parental environments mediate adaptation to environmental stressors, like those accompanying global change, is largely unknown. Here, using an ecologically-important marine tubeworm in a quantitative-genetic breeding design, we tested how parental exposure to projected ocean warming alters the mean survival, and genetic variation for survival, of offspring during their most vulnerable life stage under current and projected temperatures. Offspring survival was higher when parent and offspring temperatures matched. Across offspring temperatures, parental exposure to warming altered the distribution of additive genetic variance for survival, making it covary across current and projected temperatures in a way that may aid adaptation to future warming. Parental exposure to warming also amplified nonadditive genetic variance for survival, suggesting that compatibilities between parental genomes may grow increasingly important under future warming. Our study shows that parental environments potentially have broader-ranging effects on adaptive capacity than currently appreciated, not only mitigating the negative impacts of global change, but also reshaping the raw fuel for evolutionary responses to it.
Data from: Metabolic rate is canalized in the face of variable life history and nutritional environment
Despite its central importance in organismal physiology, we have poor understanding of how metabolic rate is influenced by two key factors – food nutritional content and an organism's physiological characteristics. We examined how variation in nutrients and physiological aspects of life history affect standard metabolic rate in Gryllus firmus cricket morphs that differ dramatically in flight capability and early-age fecundity. Newly moulted female morphs were fed one of 13 diets that differed in concentrations of protein and carbohydrate. Carbon dioxide production, respiratory exchange ratios (RERs), nutrient intake and mass and lipid levels were measured. CO2 production and RERs increased to a similar degree in both morphs as food macronutrient content increased. In contrast, no difference in whole-organism O2 consumption was observed across the protein–carbohydrate landscape or between morphs. Both morphs similarly increased food intake as nutrient concentration – particularly protein – decreased, but differed in mass and lipid gains, across the diets. Modulation of the substrate used for respiration coupled with compensating aspects of morph-specific metabolism appears to buffer the effects of variable nutrient intake and life history on standard metabolic rate. That is, respiration rate can be highly canalized in the face of dramatic variation in both the external nutritional environment and internal aspects of intermediary metabolism.
Data from: Direct and indirect effects of early-life environment on lifetime fitness of bighorn ewes
Cohort effects, when a common environment affects long-term performance, can have a major impact on population dynamics. Very few studies of wild animals have obtained the necessary data to study the mechanisms leading to cohort effects. We exploited 42 years of individual-based data on bighorn sheep to test for causal links between birth density, body mass, age at first reproduction, longevity, and lifetime reproductive success using path analysis. Specifically, we investigated whether the effect of early-life environment on lifetime fitness was the result of indirect effects through body mass or direct effects of early-life environment on fitness. Additionally, we evaluated whether the effects of early-life environment where dependant on the environment experienced during adulthood. Contrary to expectation, the effect on lifetime reproductive success mediated through body mass was weak compared to the effects found via a delay in age at first reproduction, reduced longevity, and the direct effect of birth density. Birth density also had an important indirect effect on lifetime reproductive success through reduced longevity, but only when adult density was high. Our results show that the potential long-term consequences of a harsh early-life environment on fitness are likely to be underestimated if investigations are limited to body mass instead of fitness at several life stages, or if the interactions between past and present environment is ignored.
Data from: Environmental heterogeneity generates opposite gene-by-environment interactions for two fitness-related traits within a population
Theory predicts that environmental heterogeneity offers a potential solution to the maintenance of genetic variation within populations, but empirical evidence remains sparse. The livebearing fish Xiphophorus variatus exhibits polymorphism at a single locus, with different alleles resulting in up to five distinct melanistic "tailspot" patterns within populations. We investigated the effects of heterogeneity in two ubiquitous environmental variables (temperature and food availability) on two fitness-related traits (upper thermal limits and body condition) in two different tailspot types (wildtype and upper cut crescent). We found gene-by-environment (GxE) interactions between tailspot type and food level affecting upper thermal limits (UTL), as well as between tailspot type and thermal environment affecting body condition. Exploring mechanistic bases underlying these GxE patterns, we found no differences between tailspot types in hsp70 gene expression despite significant overall increases in expression under both thermal and food stress. Similarly, there was no difference in routine metabolic rates between the tailspot types. The reversal of relative performance of the two tailspot types under different environmental conditions revealed a mechanism by which environmental heterogeneity can balance polymorphism within populations through selection on different fitness-related traits.
Data from: Using an insect mushroom body circuit to encode route memory in complex natural environments
Ants, like many other animals, use visual memory to follow extended routes through complex environments, but it is unknown how their small brains implement this capability. The mushroom body neuropils have been identified as a crucial memory circuit in the insect brain, but their function has mostly been explored for simple olfactory association tasks. We show that a spiking neural model of this circuit originally developed to describe fruitfly (Drosophila melanogaster) olfactory association, can also account for the ability of desert ants (Cataglyphis velox) to rapidly learn visual routes through complex natural environments. We further demonstrate that abstracting the key computational principles of this circuit, which include one-shot learning of sparse codes, enables the theoretical storage capacity of the ant mushroom body to be estimated at hundreds of independent images.
Data from: Parallel genetic adaptation across environments differing in mode of growth or resource availability
Evolution experiments have demonstrated high levels of genetic parallelism between populations evolving in identical environments. However, natural populations evolve in complex environments that can vary in many ways, likely sharing some characteristics but not others. Here we ask whether shared selection pressures drive parallel evolution across distinct environments. We addressed this question in experimentally evolved populations founded from a clone of the bacterium <i>Burkholderia cenocepacia</i>. These populations evolved for 90 days (approximately 600 generations) under all combinations of high or low carbon availability and selection for either planktonic or biofilm modes of growth. Populations that evolved in environments with shared selection pressures (either level of carbon availability or mode of growth) were more genetically similar to each other than populations from environments that shared neither characteristic. However, not all shared selection pressures led to parallel evolution. Genetic parallelism between low-carbon biofilm and low-carbon planktonic populations was very low despite shared selection for growth under low-carbon conditions, suggesting that evolution in low-carbon environments may generate stronger tradeoffs between biofilm and planktonic modes of growth. For all environments, a population's fitness in a particular environment was positively correlated with the genetic similarity between that population and the populations that evolved in that particular environment. Although genetic similarity was low between low-carbon environments, overall, evolution in similar environments led to higher levels of genetic parallelism and that genetic parallelism, in turn, was correlated with fitness in a particular environment.
Winter is coming: harsh environments limit independent reproduction of cooperative-breeding queens in a socially polymorphic ant
<p><span>Animals that live in cooperative breeding groups frequently inhabit harsh environments. It is widely accepted that harsh environments hinder independent reproduction, and this constraint favours individuals staying in family groups. Yet the assumption that harsh ecological conditions reduce the success of members of cooperative breeding groups when breeding independently has not been experimentally tested. We addressed this shortcoming using the socially polymorphic Alpine silver ant, <i>Formica selysi</i>. This species has single-queen (independent breeders), and multiple-queen (cooperative breeders) colonies</span><span> coexisting within populations</span><span>. We placed newly mated queens emerging from each type of colony to breed alone in either a harsh or mild winter condition and recorded their </span>brood production and survival.<span> Queens emerging from single-queen colonies were unaffected by the winter condition and had higher survival and larger broods than queens from multiple-queen colonies. In contrast, queens from multiple-queen colonies had higher mortality after a harsh than after a mild winter. These results support the long-held assumption that harsh environments constrain independent reproduction of members of cooperative breeding groups. </span></p>
FIGURES 1–3. Ptomaphaminus granophilus n in One new species of Ptomaphaminus Perreau, 2000 (Coleoptera: Leiodidae: Cholevinae: Ptomaphagini) from a granitic subterranean environment in Vietnam
FIGURES 1–3. Ptomaphaminus granophilus n. sp. 1-2: biotope: the granitic blockfield. 3: habitus.
FIGURE 17 in One new species of Ptomaphaminus Perreau, 2000 (Coleoptera: Leiodidae: Cholevinae: Ptomaphagini) from a granitic subterranean environment in Vietnam
FIGURE 17. Distribution map of the genus Ptomaphaminus from Indo-China Peninsula.
FIGURE 1 in Galatheid and chirostylid crustaceans (Decapoda: Anomura) from a cold seep environment in the northeastern South China Sea
FIGURE 1. Location of the cold seep field, where the specimens were collected.
D-PLACE – the Database of Places, Language, Culture and Environment v1.0
<p>From the foods we eat, to who we can marry, to the types of games we teach our children, the diversity of cultural practices in the world is astounding. Yet, our ability to visualize and understand this diversity is often limited by the ways it traditionally has been documented and shared: on a culture-by-culture basis, in locally-told stories or difficult-to-access books and articles.</p> <p>D-PLACE, which stands for ‘Database of Places, Language, Culture, and Environment,’ represents an attempt to bring together this dispersed corpus of information. It aims to make it easy for individuals to contrast their own cultural practices with those of other societies, and to consider the factors that may underlie cultural similarities and differences.</p>
ScienceDex guides
Understand access before you commit
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.