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67 results for “signaling niche”
Data and script: Community size can affect the signals of ecological drift and niche selection on biodiversity
<p>Updated version of the code. Data files are the same. This is the final version of the code, associated with a manuscript published in Ecology (doi: 10.1002/ecy.3014). A preprint is also available: https://www.biorxiv.org/content/10.1101/515098v1.abstract</p> <p>This is a unique dataset on insect communities sampled identically in a total of 200 streams in climatically highly different regions (100 in Brazil and 100 in Finland). The sampling design included 5 streams (communities) per watershed and provided us replicates of metacommunities (watersheds). Data also include information on in-stream variables (such as current velocity (m/s), depth (cm), stream width (cm), % of sand (0.25-2 mm), gravel (2-16 mm), pebble (16-64 mm), cobble (64-256 mm), and boulder (256-1024 mm), % of canopy cover by riparian vegetation, pH, conductivity, total nitrogen, and total phosphorus) and catchment level variables (such as average slope, % of native forest cover, pasture, agriculture, planted forests, urban areas, mining, water bodies, bare soil, secondary forest cover, and mixed land uses).</p> <p>In addition to the dataset, here we also provide and R code used to investigate the relationship between beta diversity and community size. This code calculates 4 types of beta-diversity metric for each of 100 watersheds (5 streams) in Brazil and Finland. Beta diversity: Sorensen and Bray-Curtis dissimilarity between all pairs. Beta deviation from null models: Raup-Crick (vegan version) and Bray-Curtis beta-deviation (based on the scripts by Chris Catano and Jonathan Myers). These beta diversity metrics are modelled against community size, environmental heterogeneity and spatial extent.</p> <p> </p>
Vibroscape analysis reveals acoustic niche overlap and plastic alteration of vibratory courtship signals in ground-dwelling wolf spiders
<p>Soundscape ecology has enabled researchers to investigate natural interactions among biotic and abiotic sounds as well as their influence on local animals. To expand the scope of soundscape ecology to encompass substrate-borne vibrations (i.e. vibroscapes), we developed methods for recording and analyzing sounds produced by ground-dwelling arthropods to characterize the vibroscape of a deciduous forest floor using inexpensive contact microphone arrays followed by automated sound filtering and detection in large audio datasets. Through the collected data, we tested the hypothesis that closely related species of <em>Schizocosa</em> wolf spider partition their acoustic niche. In contrast to previous studies on acoustic niche partitioning, two closely related species - <em>S. stridulans</em> and <em>S. uetzi</em> - showed high acoustic niche overlap across space, time, and/or signal structure. Finally, we examined whether substrate-borne noise, including anthropogenic noise (e.g., airplanes) and heterospecific signals, promotes behavioral plasticity in signaling behavior to reduce the risk of signal interference. We found that all three focal <em>Schizocosa</em> species increased the dominant frequency of their vibratory courtship signals in noisier signaling environments. Also, <em>S. stridulans</em> males displayed increased vibratory signal complexity with an increased abundance of <em>S. uetzi</em>, their sister species with which they are highly overlapped in the acoustic niche.</p>
Vibroscape analysis reveals acoustic niche overlap and plastic alteration of vibratory courtship signals in ground-dwelling wolf spiders
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Data from: Expanded consumer niche widths may signal an early response to spatial protection
<p class="Normal1">Marine management interventions are increasingly being implemented with the explicit goal of rebuilding ocean ecosystems, but early responses may begin with alterations in ecological interactions preceding detectable changes in population-level characteristics. To establish a baseline from which to monitor the effects of spatial protection on reef fish trophic ecology and track future ecosystem-level changes, we quantified temperate reef fish densities, size, biomass, diets and isotopic signatures at nine sites nested within two fished and one five-year old marine protected area (MPA) on the northwest coast of Canada. We calculated rockfish (Sebastes spp.) community and species-specific niche breadth for fished and protected areas based on δ<sup>13</sup>C and δ<sup>15</sup>N values. We found that rockfish community niche width was greater inside the MPA relative to adjacent fished reefs due to an expanded nitrogen range, possibly reflecting early changes in trophic interactions following five years of spatial protection. Our data also demonstrated that the MPA had a positive effect on the δ<sup>15</sup>N signature of rockfish (i.e., trophic position), but the effect of rockfish length on its own was not well-supported. In addition, we found a positive interaction between rockfish length and δ<sup>15</sup>N signature, such that δ<sup>15</sup>N signatures of rockfish caught within the MPA increased more rapidly with body size than those caught in fished areas. Differences in rockfish size structure and biomass among fished and unfished areas were not clearly evident. Species of rockfish and lingcod varied in trophic and size responses, indicating that life-history traits play an important role in predicting MPA effects. These results may suggest early changes in trophic behavior of slow-growing rockfish due to predation risk by faster growing higher trophic level predators such as lingcod inside MPAs established on temperate reefs. Consequently, spatial protection may restore both the trophic and behavioral roles of previously fished consumers earlier and in measurable ways sooner than observable changes in abundance and size.</p>
Data from: Prepared for the future: a strong signal of evolution towards the adult benthic niche during the pelagic stage in Labrid fishes
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Data from: Expanded consumer niche widths may signal an early response to spatial protection
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Data from: Phosphorylated Groucho delays differentiation in the follicle stem cell lineage by providing a molecular memory of EGFR signaling in the niche
In the epithelial follicle stem cells (FSCs) of the Drosophila ovary, Epidermal Growth Factor Receptor (EGFR) signaling promotes self-renewal, whereas Notch signaling promotes differentiation of the prefollicle cell (pFC) daughters. We have identified two proteins, Six4 and Groucho (Gro), that link the activity of these two pathways to regulate the earliest cell fate decision in the FSC lineage. Our data indicate that Six4 and Gro promote differentiation towards the polar cell fate by promoting Notch pathway activity. This activity of Gro is antagonized by EGFR signaling, which inhibits Gro-dependent repression via p-ERK mediated phosphorylation. We have found that the phosphorylated form of Gro persists in newly formed pFCs, which may delay differentiation and provide these cells with a temporary memory of the EGFR signal. Collectively, these findings demonstrate that phosphorylated Gro labels a transition state in the FSC lineage and describe the interplay between Notch and EGFR signaling that governs the differentiation processes during this period.
Data from: Phosphorylated Groucho delays differentiation in the follicle stem cell lineage by providing a molecular memory of EGFR signaling in the niche
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Genetic analyses reveal the signaling and transcriptional mechanisms of stomach stromal stem cell niches. [RNA-Seq]
GEO Series GSE114450. Mus musculus. 4 samples. Type: Expression profiling by high throughput sequencing.
Chemotactic Signalling Triggers Dental Pulp Fibrosis in the Stem Cell Niches During
GEO Series GSE253259. Mus musculus. 1 samples. Type: Expression profiling by high throughput sequencing.
CXCL12-CXCR4 signaling mediates the formation of a macrophageal niche for mammary gland stem cells
GEO Series GSE262432. Mus musculus. 17 samples. Type: Expression profiling by high throughput sequencing.
Stromal androgen and hedgehog signaling regulates stem cell niches in pubertal prostate development
GEO Series GSE156168. Mus musculus. 2 samples. Type: Expression profiling by high throughput sequencing.
Phosphorylated Groucho delays differentiation in the follicle stem cell lineage by providing a molecular memory of EGFR signaling in the niche
GEO Series GSE144167. Drosophila melanogaster. 4 samples. Type: Expression profiling by high throughput sequencing.
Decellularized Spinal Cord Matrix Manipulate Glial Niche Alteration via Serglycin Mediated Signalling Pathway [scRNA-seq]
GEO Series GSE202731. Rattus norvegicus; Homo sapiens. 5 samples. Type: Expression profiling by high throughput sequencing.
Integrative Spatial Multi-Omics Reveal Niche-Specific Inflammatory Signaling and Differentiation Hierarchies in Acute Myeloid Leukemia
GEO Series GSE279576. Homo sapiens. 6 samples. Type: Other.
Graded BMP signaling within intestinal crypt architecture directs self-organization of the Wnt-secreting stem cell niche
GEO Series GSE212601. Mus musculus. 1 samples. Type: Expression profiling by high throughput sequencing.
An interactive resource of molecular signalling in the developing human haematopoietic stem cell (HSC) niche [LCM-Seq]
GEO Series GSE233126. Homo sapiens. 24 samples. Type: Expression profiling by high throughput sequencing.
Decellularized Spinal Cord Matrix Manipulate Glial Niche Alteration via Serglycin Mediated Signalling Pathway
GEO Series GSE202733. Rattus norvegicus; Homo sapiens. 21 samples. Type: Expression profiling by high throughput sequencing.
Microbial Energy Metabolism Fuels a CSF2-dependent Intestinal Macrophage Niche within Solitary Isolated Lymphoid Tissues via purinergic signaling.
GEO Series GSE231371. Mus musculus. 4 samples. Type: Expression profiling by high throughput sequencing.
Embryonic attenuated Wnt/β-catenin signaling defines niche location and long-term stem cell fate in hair follicle
GEO Series GSE76223. Mus musculus. 4 samples. Type: Expression profiling by high throughput sequencing.
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.