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751 results for “geology”
Data from: Geological and climatic histories likely shaped the origins of terrestrial vertebrates endemic to the Tibetan Plateau
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Data and code from: Geologic history explains freshwater fish species richness across the conterminous USA
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Evidence of cospeciation between termites and their gut bacteria on a geological time scale
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Data from: Bedrock geological map predictions for Phanerozoic fossil occurrences
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Data from: Underlying geology and climate interactively shape climate change refugia in mountain streams
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Influence of anthropogenic landscape modifications and infrastructure on the geological characteristics of liquefaction
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Data from: leaf functional diversity and environmental filtering in a tropical dry forest: comparison between two geological substrates
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Geological characteristics and volcanic history of Hansteen Alpha: A silicic lunar volcanism
<p>The FeO, Al<sub>2</sub>O<sub>3</sub>, CaO, MgO and TiO<sub>2</sub> distribution maps of the Hansteen Alpha region derived from MI data based on particle swarm optimization (PSO)-support vector machine (SVM) algorithms .</p>
Geological model of Long Valley Caldera
<p>Borehole lithostratigraphic data (Table S1) and boundary surfaces (surface_01-05) of Long Valley Caldera 3D geological model. This geological model is used in Gola G., Barone A., Castaldo R., Chiodini G., D'Auria L., Garcia-Hernandez R., Pepe S., Solaro G. & Tizzani P. "A novel multidisciplinary approach for the thermo-rheological study of volcanic areas: The case study of Long Valley Caldera", which has been submitted for possible publication in Journal of Geophysical Research - Solid Earth.</p> <p>Coordinates: North America NAD27 UTM Zone 11N</p> <p>Easting: 311000 - 360000 m.; Northing: 4155000 - 4187000 m; XY resolution: 500 m.</p>
SiriusGeoOnto: an ontology tailored to the semantic annotation of geological images
<p>We have designed and implemented the <strong>SiriusGeoOnto</strong> ontology to cover the information embedded in the geological images. <strong>SiriusGeoOnto</strong> has been modelled in the OWL 2 ontology language using the ontology editor Protégé. <strong>SiriusGeoOnto </strong>is currently integrated with the <strong>SiriusGeoAnnotator. </strong></p> <p><strong>SiriusGeoAnnotator</strong> is a system that generates annotations in the form of a knowledge graph and drives the annotation process according to <strong>SiriusGeoOnto</strong> and the previously generated annotations.</p> <p><strong>SiriusGeoAnnotator: </strong><a href="https://sws.ifi.uio.no/project/sirius-geo-annotator/">https://sws.ifi.uio.no/project/sirius-geo-annotator/</a></p> <p> </p> <p> </p> <p> </p> <p> </p>
Data from: Postglacial recolonization of North America by spadefoot toads: integrating niche and corridor modeling to study species' range dynamics over geologic time
<p>Understanding the factors that shape species' distributions is a key topic in biogeography. As climates change, species can either cope with these changes through evolution, plasticity or by shifting their ranges to track the optimal climatic conditions. Ecological niche modeling (ENM) is a widespread technique in biogeography that estimates the niche of the organism by using occurrences and environmental data to estimate species' potential distributions. ENMs are often criticized for failing to take species' dispersal abilities into consideration. Here, we attempt to fill this gap by combining ENMs with dispersal and corridor modeling to study the range dynamics of North American spadefoot toads (Scaphiopodidae) over the Holocene. We first estimated the current and past distributions of spadefoot toads and then estimated their past distributions from the Last Glacial Maximum (LGM) to the present day. Then, we estimated how each taxon recolonized North American by using dispersal and corridor modeling. By combining these two modeling approaches we were able to 1) estimate the LGM refugia used by the North American spadefoot toads, 2) further refine these projections by estimating which of the putative LGM refugia contributed to the recolonization of North America via dispersal, and 3) estimate the relative influence of each LGM refugium to the current species' distributions. The models were tested using previously published phylogeographic data, revealing a high degree of congruence between our models and the genetic data. These results suggest that combining ENMs and dispersal modeling over time is a promising approach to investigate both historical and future species' range dynamics.</p>
Mountain biodiversity and ecosystem functions: Interplay between geology and contemporary environments
<p><span>Although biodiversity and ecosystem functions are strongly shaped by contemporary environments such as climate and local biotic and abiotic attributes, relatively little is known about how they depend on long-term geological processes. Here, along a 3000-m elevational gradient with tectonic faults on the Tibetan Plateau, we studied the joint effects of geological and contemporary environments on biological communities<i>, </i>such as the diversity and community composition of plants and soil bacteria,<i> </i>and ecosystem functions<i>.</i> We found that these biological communities and ecosystem functions generally show consistent elevational breakpoints at 2000–2800 m, which coincide with Indus-Yalu suture zone fault and are similar to the elevational breakpoints of soil bacteria on another mountain range 1000 km away. Mean annual temperature, soil pH and moisture were the primary contemporary determinants of biodiversity and ecosystem functions, which supports previous findings. However, compared to the models excluding geological processes, inclusion of geological effects, including parent rock and weathering, increased 67.9% and 35.9% of the explained variations in plant and bacterial communities, respectively. Such inclusion increased 27.6% of the explained variations in ecosystem functions. The geological processes thus provide additional links to ecosystem properties, which are prominent but show divergent effects on biodiversity and ecosystem functions: parent rock and weathering exert considerable direct effects on biodiversity, whereas indirectly influence ecosystem functions via interactions with biodiversity and contemporary environments. Thus, the integration of geological processes with environmental gradients could enhance our understanding of biodiversity and, ultimately, ecosystem functioning across different climatic zones.</span></p>
GC-MS analysis of standard mix for geological biomarkers quantification
<p>Result from GC-MS analysis of standard mix prepared for geological biomarkers quantification.</p>
Jie Huang Marine Geology submitted
<p>Grain size, clay mineral and magnetic property data of surface sediments in the southern South China Sea</p>
Data from: Geologic and geomorphic controls on rockfall hazard: how well do past rockfalls predict future distributions?
To evaluate the geospatial hazard relationships between recent (contemporary) rockfalls and their prehistoric predecessors, we compare the locations, physical characteristics, and lithologies of rockfall boulders deposited during the 2010-2011 Canterbury earthquake sequence (CES) (n=185) with those deposited prior to the CES (n=1093). Population ratios of pre-CES to CES boulders at two study sites vary spatially from ~5:1 to 8.5:1. This is interpreted to reflect (i) variations in CES rockfall flux due to intra- and inter-event spatial differences in ground motions (e.g. directionality) and associated variations in source cliff responses, (ii) possible variations in the triggering mechanism(s), frequency, flux, record duration, boulder size distributions, and post-depositional mobilization of pre-CES rockfalls relative to CES rockfalls, and (iii) geological variations in the source cliffs of CES and pre-CES rockfalls. On interfluves, CES boulders traveled approximately 100 to 250 m further downslope than prehistoric (pre-CES) boulders, interpreted to reflect reduced resistance to CES rockfall transport due to preceding anthropogenic hillslope de-vegetation. Volcanic breccia boulders are more dimensionally equant, rounded, larger, and traveled further downslope than coherent lava boulders, illustrating clear geological control on rockfall hazard. In valley bottoms, the furthest-traveled pre-CES boulders are situated further downslope than CES boulders due to (i) remobilization of pre-CES boulders by post-depositional processes such as debris flows, and (ii) reduction of CES boulder velocities and travel distances by collisional impacts with pre-CES boulders. A considered earth-systems approach is required when using preserved distributions of rockfall deposits to predict the severity and extents of future rockfall events.
Data from: Geological and climatic changes in quaternary shaped the evolutionary history of Calibrachoa heterophylla, an endemic South-Atlantic species of petunia
Background: The glacial and interglacial cycles that characterized the Quaternary greatly affected the distribution and genetic diversity of plants. In the Neotropics, few phylogeographic studies have focused on coastal species outside of the Atlantic Rainforest. Climatic and sea level changes during the Quaternary played an important role in the evolutionary history of many organisms found in coastal regions. To contribute to a better understanding of plant evolution in this environment in Southern South America, we focused on Calibrachoa heterophylla (Solanaceae), an endemic and vulnerable wild petunia species from the South Atlantic Coastal Plain (SACP). Results: We assessed DNA sequences from two cpDNA intergenic spacers and analyzed them using a phylogeographic approach. The present phylogeographic study reveals the influence of complex geologic and climatic events on patterns of genetic diversification. The results indicate that C. heterophylla originated inland and subsequently colonized the SACP; the data show that the inland haplogroup is more ancient than the coastal one and that the inland was not affected by sea level changes in the Quaternary. The major diversification of C. heterophylla that occurred after 0.4 Myr was linked to sea level oscillations in the Quaternary, and any diversification that occurred before this time was obscured by marine transgressions that occurred before the coastal sand barrier's formation. Results of the Bayesian skyline plot showed a recent population expansion detected in C. heterophylla seems to be related to an increase in temperature and humidity that occurred at the beginning of the Holocene. Conclusions: The geographic clades have been formed when the coastal plain was deeply dissected by paleochannels and these correlate very well with the distributional limits of the clades. The four major sea transgressions formed a series of four sand barriers parallel to the coast that progressively increased the availability of coastal areas after the regressions and that may have promoted the geographic structuring of genetic diversity observed today. The recent population expansion for the entire species may be linked with the event of marine regression after the most recent sea transgression at ~5 kya.
Data from: The role of climatic and geological events in generating diversity in Ethiopian grass frogs (genus Ptychadena)
Ethiopia is a world biodiversity hotspot and harbours levels of biotic endemism unmatched in the Horn of Africa, largely due to topographic—and thus habitat—complexity, which results from a very active geological and climatic history. Among Ethiopian vertebrate fauna, amphibians harbour the highest levels of endemism, making amphibians a compelling system for the exploration of the impacts of Ethiopia's complex abiotic history on biotic diversification. Grass frogs of the genus Ptychadena are notably diverse in Ethiopia, where they have undergone an evolutionary radiation. We used molecular data and expanded taxon sampling to test for cryptic diversity and to explore diversification patterns in both the highland radiation and two widespread lowland Ptychadena. Species delimitation results support the presence of nine highland species and four lowland species in our dataset, and divergence dating suggests that both geologic events and climatic fluctuations played a complex and confounded role in the diversification of Ptychadena in Ethiopia. We rectify the taxonomy of the endemic P. neumanni species complex, elevating one formally synonymized name and describing three novel taxa. Finally, we describe two novel lowland Ptychadena species that occur in Ethiopia and may be more broadly distributed.
Data from: Influence of introgression and geological processes on phylogenetic relationships of western North American mountain suckers (Pantosteus, Catostomidae)
Intense geological activity caused major topographic changes in Western North America over the past 15 million years. Major rivers here are composites of different ancient rivers, resulting in isolation and mixing episodes between river basins over time. This history influenced the diversification of most of the aquatic fauna. The genus Pantosteus is one of several clades centered in this tectonically active region. The eight recognized Pantosteus species are widespread and common across southwestern Canada, western USA and into northern Mexico. They are typically found in medium gradient, middle-elevation reaches of rivers over rocky substrates. This study (1) compares molecular data with morphological and paleontological data for proposed species of Pantosteus, (2) tests hypotheses of their monophyly, (3) uses these data for phylogenetic inferences of sister-group relationships, and (4) estimates timing of divergence events of identified lineages. Using 8055 base pairs from mitochondrial DNA protein coding genes, Pantosteus and Catostomus are reciprocally monophyletic, in contrast with morphological data. The only exception to a monophyletic Pantosteus is P. columbianus whose mtDNA is closely aligned with C. tahoensis because of introgression. Within Pantosteus, several species have deep genetic divergences among allopatric sister lineages, several of which are diagnosed and elevated to species, bringing the total diversity in the group to 11 species. Conflicting molecular and morphological data may be resolved when patterns of divergence are shown to be correlated with sympatry and evidence of introgression.
Data from: Controls on niche stability in geologic time Congruent responses to biotic and abiotic environmental changes among Cincinnatian (Late Ordovician) marine invertebrates
The set of environmental conditions under which a taxon can survive and maintain viable populations, known as the ecological niche, is a fundamental determinant of a taxon's distribution. Because of the central importance of ecological niches, they have been assumed to remain relatively stable during intervals of morphological stasis. However, the assumption of niche stability has rarely been tested directly with fossil data spanning multiple temporal intervals. Thus, the conditions under which this assumption is likely to be accurate are not well understood. In this study, we use ecological niche modeling (ENM) to reconstruct the ecological niche for 11 genera of marine benthos (crinoids, trilobites, molluscs, bryozoans, and corals) from the Type Cincinnatian Series (Late Ordovician, Katian Stage) across nine temporal intervals spanning approximately three million years. This interval includes both abiotic environmental change (gradual sea-level fall) and biotic change (rapid pulses of the Richmondian Invasion), thus allowing the relative effect of different environmental perturbations to be constrained. A previous symmetrical analysis of niche stability of brachiopod species recovered an increase in niche evolution following the Richmondian Invasion. Herein we test the generality of the brachiopod pattern within the community. Niche stability was evaluated in geographic space, ecological space, and niche parameter space. Niche stability varied through time; during the Pre-Invasion interval, taxa exhibited niche stability during gradual shallowing of sea level in the basin, whereas niche evolution became more common during the Richmondian Invasion. Taxa adjusted to the increased competition by altering aspects of their niche. Notably, surviving taxa contracted their niche into a subset of their previous niche parameters. This represents an adaptive response to increased competition for resources with the newly established invader taxa, and it was employed most successfully by generalist taxa. Patterns of niche evolution were congruent between clades, among feeding styles, and across taxonomic levels.
Data from: An integrative approach to phylogeography: investigating the effects of ancient seaways, climate, and historical geology on multi-locus phylogeographic boundaries of the arboreal salamander (Aneides lugubris)
Background: Phylogeography is an important tool that can be used to reveal cryptic biodiversity and to better understand the processes that promote lineage diversification. We studied the phylogeographic history of the Arboreal Salamander (Aneides lugubris), a wide-ranging species endemic to the California floristic province. We used multi-locus data to reconstruct the evolutionary history of A. lugubris and to discover the geographic location of major genetic breaks within the species. We also used species distribution modeling and comparative phylogeography to better understand the environmental factors that have shaped the genetic history of A. lugubris. Results: We found six major mitochondrial clades in A. lugubris. Nuclear loci supported the existence of at least three genetically distinct groups, corresponding to populations north of the San Francisco Bay and in the Sierra Nevada, in the Santa Cruz Mountains, and in the central coast and southern California. All of the genetic breaks in mitochondrial and nuclear loci corresponded to regions where historical barriers to dispersal have been observed in other species. Geologic or water barriers likely were the most important factors restricting gene flow among clades. Climatic unsuitability during glacial maximum may have contributed to the isolation of the mitochondrial clades in the central coast and southern California. A projection of our species distribution model to a future scenario with a moderate amount of climate change suggests that most of the range of A. lugubris will remain climatically suitable, but climatic conditions in the Sierra Nevada and low elevation areas in Southern California are likely to deteriorate. Conclusions: Aneides lugubris contains substantial cryptic genetic diversity as a result of historical isolation of populations. At least two (and perhaps three) evolutionarily significant units in A. lugubris merit protection; all six mitochondrial clades should be considered as management units within the species.
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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.