Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
32
datasets available to search
ShareScore release 0.9.0
Dataset results
32 results for “Nematostella”
Data from: Hypoxia disrupts sex-specific physiology and gene expression leading to decreased fitness in the estuarine sea anemone Nematostella vectensis
Open the record for dataset details and reuse information.
Nematostella vectensis full length opsin sequences and transcriptomes
<p>Opsins are the primary proteins responsible for light detection in animals. Cnidarians (jellyfish, sea anemones, corals) have diverse visual systems that have evolved in parallel with bilaterians (squid, flies, fish) for hundreds of millions of years. Medusozoans (e.g. jellyfish, hydroids) have evolved eyes multiple times, each time independently incorporating distinct opsin orthologs. Anthozoans (e.g. corals, sea anemones,) have diverse light-mediated behaviors and, despite being eyeless, exhibit more extensive opsin duplications than medusozoans. To better understand the evolution of photosensitivity in animals without eyes we increased anthozoan representation in the phylogeny of animal opsins and investigated the large but poorly characterized opsin family in the sea anemone <em>Nematostella</em> <em>vectensis</em>. We analyzed genomic and transcriptomic data from 16 species of cnidarians to generate a large opsin phylogeny (708 sequences) with the largest sampling of anthozoan sequences to date. We identified 29 opsins from <em>N. vectensis</em> (NvOpsins) with high confidence, using transcriptomic and genomic datasets. We found that lineage-specific opsin duplications are common across Cnidaria, with anthozoan lineages exhibiting among the highest numbers of opsins in animals. To establish the putative photosensory function of NvOpsins, we identified canonically conserved protein domains and amino acid sequences essential for opsin function in other animal species. We show high sequence diversity among NvOpsins at sites important for photoreception and transduction, suggesting potentially diverse functions. We further examined the spatiotemporal expression of NvOpsins and found both dynamic expression of opsins during embryonic development and sexually dimorphic opsin expression in adults. These data show that lineage-specific duplication and divergence have led to expansive diversity of opsins in eyeless cnidarians, suggesting opsins from these animals may exhibit novel biochemical functions. The variable expression patterns of opsins in <em>N. vectensis </em>suggest opsin gene duplications allowed for a radiation of unique sensory cell types with tissue- and stage-specific functions. This diffuse network of distinct sensory cell types could be an adaptive solution for varied sensory tasks experienced in distinct life history stages in anthozoans.</p>
Data for: Associative learning in the sea anemone Nematostella vectensis
<p>Supporting information for the manuscript "Associative learning in the sea anemone <em>Nematostella vectensis</em>".</p> <p>The following items can be found in this repository:</p> <p>1. <strong>Fig.1D_raw data.xlsx </strong></p> <p>Raw data for the Figure 1D. Manual counting of animals retracting for each condition.</p> <p><strong>2. Fig2CD_raw data.xlsx</strong></p> <p>Raw data for the Figure 2C and D. Output results of the tracking data analysis for each video file.</p> <p><strong>3. 220427_csv files.zip </strong></p> <p>Raw DLC output tracking files for 1 experiment (220427). To be used as an example to run the R markdown script below.</p> <p><strong>4. Tracking_data_Analysis_code.Rmd </strong></p> <p>This file is the R markdown file used to analyze the tracking data. It has been developed to analyze a batch of DLC output tracking files (.csv) for each experiment at once. The calculations carried out by the function are explained in the <em>SI appendix </em>and in the .pdf knitted version of the file below.</p> <p><strong>5. Tracking_data_Analysis_code.pdf </strong></p> <p>Knitted version of the R markdown file.</p>
Nematostella vectensis full length opsin sequences and transcriptomes
Open the record for dataset details and reuse information.
Nematostella OA
<p>Nematostella OA</p>
Data from: Endogenous tagging of multiple cellular components in the sea anemone Nematostella vectensis
<p>Data from: Endogenous tagging of multiple cellular components in the sea anemone <em>Nematostella</em> <em>vectensis </em></p> <p>The cnidarian <em>Nematostella</em> <em>vectensis</em> is a powerful model system to study the mechanisms underlying animal development. However, endogenous protein tagging is still challenging. Here we provide information to knock-in fluorescent protein reporters (at lamin, actin, mhc, cdh1, sec61b, rab11a and col4 loci) in <em>the Nematostella</em> genome using CRISPR/Cas9.</p>
Data from: Early and late response of Nematostella vectensis transcriptome to heavy metals
Open the record for dataset details and reuse information.
Data from: Endogenous tagging of multiple cellular components in the sea anemone Nematostella vectensis
Open the record for dataset details and reuse information.
Data from: Diel patterning in the bacterial community associated with the sea anemone Nematostella vectensis
Microbes can play an important role in the physiology of animals by providing essential nutrients, inducing immune pathways, and influencing the specific species that compose the microbiome through competitive or facilitatory interactions. The community of microbes associated with animals can be dynamic depending on the local environment, and factors that influence the composition of the microbiome are essential to our understanding of how microbes may influence the biology of their animal hosts. Regularly repeated changes in the environment, such as diel lighting, can result in two different organismal responses: a direct response to the presence and absence of exogenous light and endogenous rhythms resulting from a molecular circadian clock, both of which can influence the associated microbiota. Here, we report how diel lighting and a potential circadian clock impacts the diversity and relative abundance of bacteria in the model cnidarian Nematostella vectensis using an amplicon-based sequencing approach. Comparisons of bacterial communities associated with anemones cultured in constant darkness and in light:dark conditions revealed that individuals entrained in the dark had a more diverse microbiota. Overall community composition showed little variation over a 24-hour period in either treatment; however, abundances of individual bacterial OTUs showed significant cycling in each treatment. A comparative analysis of genes involved in the innate immune system of cnidarians showed differential expression between lighting conditions in N. vectensis, with significant up-regulation during long-term darkness for a subset of genes. Together, our studies support a hypothesis that the bacterial community associated with this species is relatively stable under diel light conditions when compared with static conditions and that particular bacterial members may have time-dependent abundance that coincides with the diel photoperiod in an otherwise stable community.
Data from: Diel patterning in the bacterial community associated with the sea anemone Nematostella vectensis
Open the record for dataset details and reuse information.
Nanos-2 mutant line of the sea anemone Nematostella vectensis
GEO Series GSE253068. Nematostella vectensis. 1 samples. Type: Expression profiling by high throughput sequencing.
Post transcriptional modifications of miRNAs in the cnidarian Nematostella vectensis
GEO Series GSE94526. Nematostella vectensis. 30 samples. Type: Non-coding RNA profiling by high throughput sequencing.
Graded FGF activity patterns distinct cell types within the apical sensory organ of the sea anemone Nematostella vectensis
GEO Series GSE213278. Nematostella vectensis. 1 samples. Type: Expression profiling by high throughput sequencing.
Cyclic dinucleotide stimulation of Nematostella vectensis
GEO Series GSE175984. Nematostella vectensis. 33 samples. Type: Expression profiling by high throughput sequencing.
Early and late response of Nematostella vectensis transcriptome to heavy metals
GEO Series GSE58769. Nematostella vectensis. 16 samples. Type: Expression profiling by high throughput sequencing.
Spatial transcriptome of Nematostella vectensis apical organ reveals its molecular signature and associated cells
GEO Series GSE159166. Nematostella vectensis. 10 samples. Type: Expression profiling by high throughput sequencing.
Antagonistic BMP–cWNT signaling in the cnidarian Nematostella vectensis reveals insight into the evolution of mesoderm
GEO Series GSE101604. Nematostella vectensis. 9 samples. Type: Expression profiling by high throughput sequencing.
Mechanisms of tentacle morphogenesis in the sea anemone, Nematostella vectensis
GEO Series GSE45588. Nematostella vectensis. 6 samples. Type: Expression profiling by array.
Environmental and molecular regulation of asexual reproduction in the cnidarian Nematostella vectensis
GEO Series GSE223794. Nematostella vectensis. 6 samples. Type: Expression profiling by high throughput sequencing.
Spatial transcriptomics reveals a conserved segment polarity program that governs muscle patterning in Nematostella vectensis
GEO Series GSE173786. Nematostella vectensis. 31 samples. Type: Expression profiling by high throughput sequencing.
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.