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Dataset results
22 results for “system shift”
Virophage replication mode drives ecological and evolutionary shifts in a host-virus-virophage system
<p>We studied how virophage replication modes affect the ecological dynamics of a host-virus-virophage system and the virophage’s evolutionary responses. By manipulating the level of virophage (Mavirus) integration into the host (Cafeteria burkhardae) alongside the Cafeteria roenbergensis virus (CroV), we found that higher integration improved host survival but decreased virophage reactivation. These communities had lower population densities and fewer fluctuations in host and virus populations, while virophage fluctuations increased. The virophage’s dual replication mode plays a key role in maintaining microbial community stability.</p>
Global dataset of Sentinel-1 azimuth shift values and derived horizontal displacements from COMET LiCSAR system
<p>For this dataset, we were exploiting spatio-temporal behaviour of side-products of coregistration of Sentinel-1 radar images, that were generated in last couple of years, within the COMET LiCSAR system for computing interferograms. These side-products are sub-pixel (azimuth) offsets, allowing for a very precise match of the images (up to a 0.0005 pixels). We have shown that by a proper approach, these offsets can be used as measurements of large-scale horizontal motion - in our case, using 250x250 km resolution cells, we aimed to measure motion of tectonic plates. Our measurements are fitting well to the latest ITRF2014 plate motion model, although the E component contains an extra overall shift, not explained at the moment of sharing the outputs.</p> <p>The sub-pixel offsets (result of intensity cross correlation and spectral diversity estimation, w.r.t. precise orbit ephemerides) were corrected for solid Earth tides and ionospheric phase advance, using external models. The code shared within the dataset includes the correction functions. The data contains both original and corrected values. Also, the data contains ITRF2014 plate motion values.</p> <p>The dataset contains outputs from both COMET LiCSAR frame units and their decomposition into N, E motion vectors, as well as some metadata on the frames that are necessary for the reprocessing if needed.</p>
Facultative polyandry under heat stress and the evolutionary potential for climate-driven shifts in mating systems
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Data from: Consequences of multiple mating-system shifts for population and range-wide genetic structure in a coastal dune plant
Evolutionary transitions from outcrossing to selfing can strongly affect the genetic diversity and structure of species at multiple spatial scales. We investigated the genetic consequences of mating system shifts in the North American, Pacific coast dune endemic plant Camissoniopsis cheiranthifolia (Onagraceae) by assaying variation at 13 nuclear (n) and six chloroplast (cp) microsatellite (SSR) loci for 38 populations across the species range. As predicted from the expected reduction of effective population size (Ne) caused by selfing, small-flowered, predominantly selfing (SF) populations had much lower nSSR diversity (but not cpSSR) than large flowered, predominantly outcrossing (LF) populations. The reduction of nSSR diversity was greater than expected from the effects of selfing on Ne alone, but could not be accounted for by indirect effects of selfing on population density. Although selfing should reduce gene flow, SF populations were not more genetically differentiated than LF populations. We detected five clusters of nSSR genotypes and three groups of cpSSR haplotypes across the species range consisting of parapatric groups of populations that usually (but not always) differed in mating system, suggesting that selfing may often initiate ecogeographic isolation. However, lineage-wide genetic variation was not lower for selfing clusters, failing to support the hypothesis that selection for reproductive assurance spurred the evolution of selfing in this species. Within three populations where LF and SF plants coexist we detected genetic differentiation among diverged floral phenotypes suggesting that reproductive isolation (probably postzygotic) may help maintain the striking mating system differentiation observed across the range of this species
Data from: What causes mating system shifts in plants? Arabidopsis lyrata as a case study
The genetic breakdown of self-incompatibility (SI) and subsequent mating system shifts to inbreeding has intrigued evolutionary geneticists for decades. Most of our knowledge is derived from interspecific comparisons between inbreeding species and their outcrossing relatives, where inferences may be confounded by secondary mutations that arose after the initial loss of SI. Here, we study an intraspecific breakdown of SI and its consequences in North American Arabidopsis lyrata to test whether: (1) particular S-locus haplotypes are associated with the loss of SI and/or the shift to inbreeding; (2) a population bottleneck may have played a role in driving the transition to inbreeding; and (3) the mutation(s) underlying the loss of SI are likely to have occurred at the S-locus. Combining multiple approaches for genotyping, we found that outcrossing populations on average harbour 5 to 9 S-locus receptor kinase (SRK) alleles, but only two, S1 and S19, are shared by most inbreeding populations. Self-compatibility (SC) behaved genetically as a recessive trait, as expected from a loss-of-function mutation. Bulked segregant analysis in SC × SI F2 individuals using deep sequencing confirmed that all SC plants were S1 homozygotes but not all S1 homozygotes were SC. This was also revealed in population surveys, where only a few S1 homozygotes were SC. Together with crossing data, this suggests that there is a recessive factor that causes SC that is physically unlinked to the S-locus. Overall, our results emphasise the value of combining classical genetics with advanced sequencing approaches to resolve long outstanding questions in evolutionary biology.
Data from: Effects of contemporary shifts of range margins on patterns of genetic structure and mating system in two coastal plant species
Species' geographical ranges are often restricted due to niche limitation resulting in geographical isolation and reduced population size at range margins. Under the 'abundant center' paradigm, static marginal populations are thus expected to show higher genetic differentiation and lower genetic diversity than core populations. Low mate availability may also drive shifts towards higher propensity for selfing in geographically marginal populations. However, these predictions remain to be validated for contemporary range shifts occurring under current environmental change. This study is devoted to bridging this gap and assesses the spatial patterns of genetic structure and mating system across the geographical range of two coastal plant species characterized by contrasting contemporary range dynamics: the receding myrmecochorous Dune pansy (Viola tricolor subsp. curtisii) and the widespread expanding hydrochorous Rock samphire (Crithmum maritimum) Both species exhibited high propensity for selfing, with indications of inbreeding depression acting at early life stages. In Dune pansy, a biogeographical break was observed between core and marginal populations, with trailing-edge populations showing higher levels of genetic differentiation, reduced genetic diversity and higher levels of selfing estimated through progeny arrays. In contrast, genetic structuring was weak in Rock samphire and no clear spatial trends were observed in genetic diversity nor in mating system, likely the result of efficient long-distance seed dispersal by sea-surface currents. Our study highlights that key species differences in life-history traits related to dispersal and/or mate limitation modify the expectations of genetic diversity loss and mating system shift in contemporary range-expanding populations, as compared to historical core populations.
Dynamic shifts in the Southern Benguela Upwelling System since the latest Miocene
<p>The dataset consists of planktic foraminiferal abundance data and stable oxygen and carbon isotope records of shallow and deep-dwelling planktic foraminifera.</p>
Supplementary Datasets for 'Reducing climate change impacts from the global food system through diet shifts'
<p>Supplementary Datasets for <em>Reducing climate change impacts from the global food system through diet shifts.</em></p>
Third and fourth trophic level composition shift in an aphid-parasitoid-hyperparasitoid food web limits aphid control in an intercropping system
<p>1. Understanding how resource diversification affects ecological interactions, food web structure and ecosystem functioning is essential in both fundamental and applied ecology. While plant diversification strategies (either in- or around-field) are often proposed in agricultural landscapes as practices to improve the biological control of herbivores by natural enemies, results remain variable and unsure.</p> <p>2. Here, we studied the effect of an in-field diversification practice (the intercropping of leguminous crops within cereal fields, an increasingly common practice but with inconsistent results on biological control) on cereal aphid control and the structure of a cereal-aphid-parasitoid-hyperparasitoid food web for two years.</p> <p>3. We report that aphid control was not increased in mixed fields, nor was cereal parasitoid diversity and food web complexity. Nevertheless, the provision of alternative hosts in mixed fields led to a functional community composition shift, favouring generalist parasitoid species over specialist ones.</p> <p>4. Moreover, we observed a higher hyperparasitism rate in mixed fields, suggesting that secondary parasitoids were favoured by alternative resources, which may have disrupted aphid control by primary parasitoids.</p> <p>5.<i> Synthesis and applications.</i> This study demonstrates that parasitoid community composition shift and increased top-down control by the fourth trophic level can impact parasitoid efficiency to control herbivores. These results highlight the necessity to study fine-scale mechanisms within food webs to be able to set-up efficient methods to support biodiversity and associated ecosystem services in agricultural landscapes.</p>
Implementing an Education- and Health System Task-shifting Approach for Child Mental Health Promotion in Uganda
ClinicalTrials.gov study NCT06275672. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Data from: Effects of contemporary shifts of range margins on patterns of genetic structure and mating system in two coastal plant species
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Data from: Consequences of multiple mating-system shifts for population and range-wide genetic structure in a coastal dune plant
Open the record for dataset details and reuse information.
Data from: What causes mating system shifts in plants? Arabidopsis lyrata as a case study
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Third and fourth trophic level composition shift in an aphid-parasitoid-hyperparasitoid food web limits aphid control in an intercropping system
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Data from: Mating system shifts a species’ range
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Data from: Regime shifts in marine communities: a complex systems perspective on food web dynamics
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Data from: Evolutionary shifts in the melanin-based color system of birds
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Friend or foe? a parasitic wasp shifts the cost/benefit ratio in a nursery pollination system impacting plant fitness.
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Diet driven differences in host tolerance are linked to shifts in global gene expression in a common avian host-pathogen system
GEO Series GSE273665. Serinus canaria. 105 samples. Type: Expression profiling by high throughput sequencing.
Suppression of Spurious Mixing in FWM-based Systems through Mid-Span Pump Phase Shift
<p>We propose and demonstrate a new technique to suppress spurious idler generation during four-wave mixing, by applying a 𝜋𝜋 radian phase shift to the pumps at the mid-point of the processing medium.</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.