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.
35
datasets available to search
ShareScore release 0.9.0
Dataset results
35 results for “cave community”
Figure 2 in Comparison of the species composition of Gamasina mite communities (Acari: Mesostigmata) in selected caves of the Kraków-Cz stochowa Upland (southern Poland) and their immediate surroundings
Figure 2. Diagram of the correspondence analysis (CA) for the sampling sites. The diagram shows only the most important species (for abbreviations see Table 1).
Figure 1 in The micromycetes of fouling communities in the caves of Lovćen National Park, Montenegro
Figure 1. The dendrogram diagram based on the comparison of micromycetes composition in the studied caves.
Figure 4 in Phototrophic communities of Ahshtyrskaya Cave in the condition of artificial light
Figure 4. Scatter plots of 18 sites based on: a) total species composition, b) higher plants species composition, c) algae and cyanobacteria species composition; d) cluster analysis for 18 sites based on total species composition of communities in different cave zones.
Figure 3 in Phototrophic communities of Ahshtyrskaya Cave in the condition of artificial light
Figure 3. Scheme of Akhshtyrskaya Cave with the location of the lamps, scheme is given by Isaev & Starikh (2002).
Sequences, taxonomic assignments, and R script from Comparison of Lava Cave Bacterial Mat Communities to Overlying Surface Soil Bacterial Communities from Lava Beds National Monument, USA
<p>This set of files contain the 16S rDNA, taxonomic assignments from the greengenes database, and the R script for processing the data. </p> <p><strong>Abstract</strong></p> <p>Lava caves around the world often support extensive microbial mats on ceilings and walls in a range of colors. Little is known about lava cave microbial diversity and how these subsurface mats differ from microbial communities in overlying surface soils. We generated and analyzed bacterial 16S rDNA from 454 pyrosequencing from three colors of microbial mats (tan, white, and yellow) from seven lava caves in Lava Beds National Monument, CA, USA, and compared them with surface soils overlying each cave. <em>Actinobacteria</em> dominated in all samples, with 39% (caves) and 21% (surface soils). <em>Proteobacteria</em> made up 30% of phyla from caves and 36% from surface soil with <em>Gamma</em>- 20% and <em>Alpha</em>- 10% in the caves and <em>Gamma</em>- 18% with <em>Alpha</em>-17% in soil. Other major phyla in caves were <em>Nitrospirae</em> (7%) followed by Minor Phyla (7%), compared to surface soils with <em>Bacteriodetes</em> (8%) and Minor phyla (8%). A very high proportion (53.33%) of the most abundant sequences could not be identified to genus, indicating a high degree of novelty. Surface soil samples had more OTUs and greater diversity indices than cave samples. The same phyla were represented in both soils and cave microbial mats, but the overlap was only 11.2% at the operational taxonomic unit (OTU). Although surface soil microbes immigrate into underlying caves, the environment selects for microbes able to live in the cave habitats, resulting in very different cave microbial communities. In terms of species richness, diversity by mat color differed, but not significantly. Number of entrances per cave, distance from an entrance, cave length, and temperature also contributed to observed differences in diversity. With high levels of novel microbes, caves may represent excellent habitats for the isolation of new bioactive compounds. This study is the first comprehensive comparisons of bacterial communities in lava caves with the overlying soil community.</p>
Interpreting the mammal deposits of Cloggs Cave (SE Australia), GunaiKurnai Aboriginal Country, through community-led partnership research
<p>Palaeontological animal bone deposits are rarely investigated through research partnerships where the local First Nations communities have a defining hand in both the research questions asked and the research processes. Here we report research undertaken through such a partnership approach at the iconic archaeological site of Cloggs Cave (GunaiKurnai Country, East Gippsland), in the southern foothills of SE Australia's Great Dividing Range.</p> <p>A new excavation was combined with detailed chronometric dating, high-resolution 3D mapping, and geomorphological studies. This allowed for the interpretation of a sequence of stratigraphic layers spanning from a lowermost excavated mixed layer dated to between 25,640–48,470 cal BP, to a dense set of uppermost, ash layers dated to between 1460–3360 cal BP. This long and well-dated chronostratigraphic sequence enabled temporal trends in the abundant small mammal remains to be examined.</p> <p>The fossil assemblage consists of at least 31 taxa of mammals which change in proportions through time. Despite clear evidence that the Old Ancestors repeatedly carried vegetation into the cave to fuel cool fires (no visible vegetation grows in Cloggs Cave), we observed little to no evidence of cooking fires or calcined bone, suggesting that people had little involvement with the accumulation of the faunal remains. Small mammal bones were most likely deposited in the cave by large disc-faced owls, <em>Tyto novaehollandae</em> (Masked Owl) or <em>Tyto tenebricosa</em> (Sooty Owl).</p> <p>Despite being well-dated and largely undisturbed, the Cloggs Cave assemblage does not appear to track known Late Quaternary environmental change. Instead, the complex geomorphology of the area fostered a vegetation mosaic that supported mammals with divergent habitat preferences. The faunal deposit suggests a local ancestral landscape characterised by a resilient mosaic of habitats that persisted over thousands of years, signaling that the Old Ancestors burned landscape fires to encourage and manage patches of different vegetation types and ages within and through periods of climate change.</p>
Figure 1 in Phototrophic communities of Ahshtyrskaya Cave in the condition of artificial light
Figure 1. Lampenflora.
Figure 2 in Phototrophic communities of Ahshtyrskaya Cave in the condition of artificial light
Figure 2. One of the illuminated distant halls.
Interpreting the mammal deposits of Cloggs Cave (SE Australia), GunaiKurnai Aboriginal Country, through community-led partnership research
Open the record for dataset details and reuse information.
Data from: Substrate and spatial variables are major determinants of fungal community in karst caves in Southwest China
Aim: Previous studies primarily based on the culture method have revealed that caves host a high fungal diversity and that exogenous carbon sources influence fungal communities. Here, we assess the fungal diversity and distribution patterns in karst caves in Southwest China and reveal the major factors that shape the fungal communities. Location: Southwest China. Methods: Samples of air, rock, sediment, and water were collected from eight caves in Southwest China. Using high-throughput sequencing of the internal transcribed spacer 1 region of fungal rDNA, we examined the cave fungal communities in Southwest China and studied their correlations with potentially influential factors, such as substrate, cave, location and environmental variables. Results: Approximately 10,000 fungal operational taxonomic units (OTUs) spanning 15 phyla were obtained. The highest diversity genus was Penicillium, while Mortierella had the highest relative abundance. Compared with air and rock samples, sediment and water samples harboured higher diversity and distinct communities. Substrate and cave were revealed to be the key determinants of the fungal communities in caves. Sample location and sampling distance from the entrance had more significant impacts on rock and sediment communities than on air and water assemblages. The fungal assemblages in air and water samples from the cave and outside cave environments were similar, while those of rock and sediment samples were significantly different. Main conclusions: Our results indicate that sediment and water harboured higher fungal diversity than air and rock, and substrate and spatial variables are key determinants of fungal communities in caves.
Figure 1 in The marine soft-sediment benthic communities of Hong Kong: a comparison of submarine cave and open habitats
Figure 1. Particle-size histograms by proportionate weight of the sediments from eight of the sampling sites, grouped into 1Φ divisions (silt-clay fractions amalgamated).
Figure 2. A in The marine soft-sediment benthic communities of Hong Kong: a comparison of submarine cave and open habitats
Figure 2. A, dendrogram of Bray-Curtis similarity (%) based on square-root-transformed data for the benthic community from each sampling site; B, MDS ordination of the data shown in Figure 2A, with definition of clusters at 20, 30 and 40% from that figure.
Data from: Co-occurrence pattern and function prediction of bacterial community in Karst cave
Open the record for dataset details and reuse information.
Data from: Substrate and spatial variables are major determinants of fungal community in karst caves in Southwest China
Open the record for dataset details and reuse information.
Figure 3 from: Souza Silva M, Iniesta LFM, Ferreira RL (2020) Invertebrates diversity in mountain Neotropical quartzite caves: which factors can influence the composition, richness, and distribution of the cave communities? Subterranean Biology 33: 23-43. https://doi.org/10.3897/subtbiol.33.46444
Figure 3 Obligate cave species found in the Ibitipoca Estadual Park, Brazil. AHypogastruridaeBBlattodeaCBrasilomma enigmatica (Prodidomidae) DProjapygidaeEEukoenenia ibitipoca (Palpigradi).
Figure 2 from: Souza Silva M, Iniesta LFM, Ferreira RL (2020) Invertebrates diversity in mountain Neotropical quartzite caves: which factors can influence the composition, richness, and distribution of the cave communities? Subterranean Biology 33: 23-43. https://doi.org/10.3897/subtbiol.33.46444
Figure 2 Higher taxa invertebrate abundance, taxonomic diversity (richness) (A) and average taxonomic distinctness (Δ+) (B) in all 20 quartzite caves placed above 1200 m high in Minas Gerais (Brazil).
Figure 5 from: Souza Silva M, Iniesta LFM, Ferreira RL (2020) Invertebrates diversity in mountain Neotropical quartzite caves: which factors can influence the composition, richness, and distribution of the cave communities? Subterranean Biology 33: 23-43. https://doi.org/10.3897/subtbiol.33.46444
Figure 5 Metric multidimensional scaling (MDS) ordination plot of the 20 quartzite caves with and without a stream using bootstrap regions for group means around their centroids (triangles). Average (Av).
Figure 1 from: Souza Silva M, Iniesta LFM, Ferreira RL (2020) Invertebrates diversity in mountain Neotropical quartzite caves: which factors can influence the composition, richness, and distribution of the cave communities? Subterranean Biology 33: 23-43. https://doi.org/10.3897/subtbiol.33.46444
Figure 1 Borders of the Ibitipoca Estadual Park (A), sampled caves (white dots) and altitudinal layers (red lines 1610–1780, blue lines 1460–1600, yellow lines 1310–1450, green lines 1124–1450, black lines 950–1100 meters). Vegetation types vary from slope forest (B) to grasslands (D and C) on the top of the hills.
Figure 4 from: Souza Silva M, Iniesta LFM, Ferreira RL (2020) Invertebrates diversity in mountain Neotropical quartzite caves: which factors can influence the composition, richness, and distribution of the cave communities? Subterranean Biology 33: 23-43. https://doi.org/10.3897/subtbiol.33.46444
Figure 4 Distance-based redundancy analysis (dbRDA) showing the influences of the environmental factors on cave fauna composition in the 20 studied caves. The two axes explained nearly 55% of the variability in the fitted model and nearly 17% of the total variation in the data cloud. The first overlay shows how the first dbRDA axis is strongly related to cave sampled extension.
Figure 1 in Comparison of the species composition of Gamasina mite communities (Acari: Mesostigmata) in selected caves of the Kraków-Cz stochowa Upland (southern Poland) and their immediate surroundings
Figure 1. Comparison of the species composition of Gamasina mite communities at the sampling sites based on Bray–Curtis distance (for abbreviations see Table 1).
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.