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.
10,767
datasets available to search
ShareScore release 0.9.0
Dataset results
10,767 results for “Contribution”
Large mammalian herbivores contribute to conspecific negative density dependence in a temperate forest
<p>1. The Janzen-Connell Hypothesis (JCH) predicts that density-responsive and host-specific natural enemies limit the population sizes of abundant species. Importantly, these interactions help to maintain local community diversity through time. While ample evidence exists for the demographic predictions of the JCH, it remains unclear which natural enemies drive these dynamics across different plant communities.</p> <p>2. While large mammalian herbivores are often assumed to lack the specialized diet needed to drive Janzen-Connell effects, they do show a degree of host-preference that could drive density-dependent plant demography. However, the potential role of large mammalian herbivores in Janzen-Connell interactions has only rarely been investigated.</p> <p>3. Using 204 seedling transects (1 x 10 m) at 51 sites across a 900-hectare forested reserve in southwestern Pennsylvania (USA), we examined the role that large mammals play in driving conspecific negative density dependence (CNDD) in temperate tree seedlings. Individual fences were erected around half of the transects (N=102) to exclude large mammals, and were paired with adjacent unfenced transects. Within transects, a total of ~15,000 individual seedlings were monitored over three growing seasons.</p> <p>4. Demographic neighborhood models were constructed to examine the influence of neighborhood composition and density on seedling survival and growth. An interaction term between conspecific neighbor density and fencing treatment was included to test the hypothesis that large herbivores cause CNDD.</p> <p>5. We found that seedling survival was influenced by both conspecific neighbor density and fencing. CNDD was strongest when large mammals were allowed access to seedlings, and these results were driven by two abundant taxa (Prunus serotina and Fraxinus spp). Despite evidence that large mammals mediate CNDD, we found no effect of fencing on rarified species richness or evenness in seedling transects during the study.</p> <p>6. Synthesis: Debate regarding the role of large herbivores in fostering the diversity and stability of forest communities continues. Our results indicate that large mammalian herbivores can cause CNDD in some temperate tree species, but whether they help to promote community diversity over time remains unclear. Further research is needed to assess the role of large mammalian herbivores in driving conspecific negative density dependence in plant communities.</p>
Transcriptome analysis of WT versus H2A.J-KO MEFs for the paper entitled: The H2A.J histone variant contributes to Interferon-Stimulated Gene expression in senescence by its weak interaction with H1 and the derepression of repeated DNA sequences
<p>Abstract for overall study:</p> <p>The histone variant H2A.J was previously shown to accumulate in senescent human fibroblasts with persistent DNA damage to promote inflammatory gene expression, but its mechanism of action was unknown. We show that H2A.J accumulation contributes to weakening the association of histone H1 to chromatin and increasing its turnover. Decreased H1 in senescence is correlated with increased expression of some repeated DNA sequences, increased expression of STAT/IRF transcription factors, and transcriptional activation of Interferon-Stimulated Genes (ISGs). The H2A.J-specific Val-11 moderates the transcriptional activity of H2A.J, and H2A.J-specific Ser-123 can be phosphorylated in response to DNA damage with potentiation of its transcriptional activity by the phospho-mimetic S123E mutation. Our work demonstrates the functional importance of H2A.J-specific residues and potential mechanisms for its function in promoting inflammatory gene expression in senescence.</p> <p>Specific description for this dataset:</p> <p>We further tested a role for H2A.J in Interferon-Stimulated Gene expression by analyzing the transcriptome of WT and H2A.J MEFs induced into senescence by etoposide. TruSeq stranded DNA libraries were prepared from polyA-selected RNA and sequenced as 43 bp paired-end reads. The fastq sequences were mapped to Gencode.vM24.transcripts.fa.gz (GRCm38 transcriptome) with salmon. Read counts were then aggregated to the gene level with tximeta, and differential gene expression was analysed with DESeq2, edgeR, and limma-voom. Gene set enrichment analysis was performed with camera.</p> <p>The transciptomes of senescent WT and H2AFJ-KO showed strong separation from proliferating MEFs, and a weaker separation distinguished WT and H2A.J-KO MEFs. Strikingly, gene set enrichment analysis indicated highly significant defects in Interferon Response Gene Expression in the H2A.J-KO MEFs in senescence with significant down-regulation in senescent H2A.J-KO cells of a series of oligoadenylate synthase genes (Oas1g, Oas1a, Oasl1, Oas2, Oasl2) and several ISGs. Thus, H2A.J also contributes to ISG expression in the heterologous context of senescent MEFs.</p>
Data from: Contribution of small isolated habitats in creating refuges from biological invasions along a geomorphological gradient of floodplain waterbodies
<p>1. Habitat fragmentation, which involves habitat size reduction and isolation, is a major cause of biodiversity decline. However, interest in small isolated habitats has increased among ecosystem managers because these fragments can serve as remnant refuges for unique and/or endangered species in human-altered landscapes.</p> <p>2. In a fragmented floodplain of northern Japan, we demonstrate how habitat fragmentation and habitat quality shape the refuges for a unique endangered minnow (Rhynchocypris percnurus sachalinensis) from biological invasions. We focused on two invasive minnows, topmouth gudgeon (Pseudorasbora parva) and rosy bitterling (Rhodeus ocellatus ocellatus), which are the dominant invasive species. By using a graph theoretical approach and structural equation modeling, we elucidated the relationships among habitat fragmentation, habitat quality and the abundance of invasive minnows with the endangered swamp minnow.</p> <p>3. We found that the invasion of topmouth gudgeon, which has a high mobility and environmental tolerance, negatively affected swamp minnow populations. The invasive species may outcompete the native species in their overlapping trophic niche.</p> <p>4. Analyses indicated that habitat fragmentation (decreasing habitat size and connectivity) indirectly and positively affected the population abundance of swamp minnow by reducing the potential for invasion by topmouth gudgeon. We further found an interaction between the indirect effects of habitat fragmentation and local habitat quality: the indirect effects became more apparent in the relatively deeper habitats that were of better quality for natives. This result was likely attributed to the strong control effect of the abiotic stressor. Interspecific competition between the two minnows would be masked in shallow ponds because the native populations are primarily restricted by the abiotic factor, and its abundance is inherently limited regardless of pressure by invaders.</p> <p>5. In fragmented landscapes, evenly conserving all small fragments within a limited budget is difficult. The change in importance of small isolated ponds across a pond-depth gradient suggests that conservation priorities for small fragments should be established by considering local habitat quality. Our findings do not justify habitat fragmentation but suggest that both landscape-scale and local-scale perspectives synergistically aid in the management of biological invasions in modified habitat networks.</p>
FIGURE 12 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 12. Oscillograms and frequency spectra of the courtship song of Chorthippus dubius from Altai. Song recordings are presented at three different speeds (faster oscillograms of the indicated parts of the songs shown in B–E). In all oscillograms the two upper lines are recordings of hind leg movements and the lower line is the sound recording. Different elements of the courtship song are indicated by numbers 1–2. Frequency spectra shown for the element 1 (F) and the element 2 (G).
FIGURE 14 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 14. Oscillograms and frequency spectrum of the courtship songs of two males (A, B) of Chorthippus angulatus from Almaty region. Song recordings are presented at two different speeds (faster oscillograms of the indicated parts of the songs shown in C–F). In all oscillograms the two upper lines are recordings of hind leg movements and the lower line is the sound recording. Different elements of the courtship song are indicated by numbers 1–3. Frequency spectra shown for the element 1 (G) and the element 2 (H).
FIGURE 9 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 9. Oscillograms and frequency spectrum of the courtship songs of two males (A, B) of Gomphocerus sibiricus from Akmola region. Song recordings are presented at three different speeds (faster oscillograms of the indicated parts of the songs shown in C–F). In all oscillograms the two upper lines are recordings of hind leg movements and the lower line is the sound recording. Different elements of the courtship song are indicated by numbers 1–3. Frequency spectrum shown for the element 1 (G).
FIGURE 10 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 10. Positions of antennae in a male of Gomphocerus sibiricus during courtship, when producing the element 1 (A), when producing the element 3 (B–F). The antennae are swung in such a way as they describe a cone when producing one longer pulse and 3–4 shorter pulses (see Fig. 9 E).
FIGURE 8 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 8. Positions of a male of Stenobothrus miramae during the element 3 of courtship. (A) The male hits a female several times with his head; (B) the male slowly raises both hind femora and keeps them over head.
FIGURE 6 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 6. Movements of antennae during the element 3 of courtship in Myrmeleotettix pallidus. Figures A–F demonstrate successive stages of the antennae position.
FIGURE 13 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 13. Oscillograms and frequency spectrum of the courtship songs of two males of Chorthippus karelini from Almaty region (A) and Aktobe region (B). Song recordings are presented at three different speeds (faster oscillograms of the indicated parts of the songs shown in C–F). In all oscillograms the two upper lines are recordings of hind leg movements and the lower line is the sound recording. Different elements of the courtship song are indicated by numbers 1–5, drawings show different positions of the hind legs and abdomen at the corresponding moments of the song. Frequency spectra shown for the element 3 (G), the element 4 (H), the element 5 (I–J).
FIGURE 3 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 3. Oscillograms (A-D) and frequency spectra (E-F) of the courtship song of Omocestus haemorrhoidalis from Orenburg region. Song recordings are presented at three different speeds (faster oscillograms of the indicated parts of the songs shown in B–D). In all oscillograms the two upper lines are recordings of hind leg movements and the lower line is the sound recording. Different elements of the courtship song are indicated by numbers 1–3. Frequency spectra shown for the elements 1 (E) and 2 (F).
FIGURE 4 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 4. Oscillograms and frequency spectrum of the courtship songs of two males (A, B) of Omocestus petraeus from Orenburg region. Song recordings are presented at three different speeds (faster oscillograms of the indicated parts of the songs shown in C–F). In all oscillograms the two upper lines are recordings of hind leg movements and the lower line is the sound recording. Different elements of the courtship song are indicated by numbers 1–3. Frequency spectrum (G) shown for element 2.
FIGURE 2 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 2. Oscillograms and frequency spectra of the courtship songs of two males (A, B) of Omocestus viridulus from Altai Republic. Song recordings are presented at three different speeds (faster oscillograms of the indicated parts of the songs shown in C–E). In all oscillograms the two upper lines are recordings of hind leg movements and the lower line is the sound recording. Different elements of the courtship song are indicated by numbers 1–4. Frequency spectra shown for the elements 1 (F) and 3 (G).
FIGURE 1 in Contributions to the study of the grasshopper (Orthoptera: Acrididae Gomphocerinae) courtship songs from Kazakhstan and adjacent territories
FIGURE 1. Map of localities where the specimens were collected for the song recordings. Kazakhstan: 1—10 SE of Aktobe, near Aktjubinsk reservoir; 2—Akmola region, ab. 90 km SW of Kokshetau, near Balkashino; 3—Akmola region, ab. 60 km SE km of Nur-Sultan, environs of Vishnevka, near Vjacheslavskoe reservoir, 4—Akmola region, ab. 40 km NW of Ereimentau, Baysary; 5—Pavlodar region, ab. 48 km W of Ekibastuz, ab. 3 km W of Schiderty; 6—Pavlodar region, ab. 44 km SW of Pavlodar, environs of Pogranichnoe; 7—Pavlodar region, between Terenkol' and Beregovoe, near Irtysh river; 8—Pavlodar region, Zhelezinsky district, near Pyatiryzhsk; 9—Pavlodar region, environs of Irtyshsk; 10—Almaty region, ab. 60 km NE of Taldykorgan, near Kapal; 11- Almaty region, between Saryozek and Zharkent, environs of Basshi; 12—Almaty region, ab. 6 km SW of Zharkent; 13—Almaty region, ab. 4 km SE of Kegen, flood-lands of Kegen river; 14—Orenburg region, ab. 10 km W of Novosergievka; 15—ab. 10 km E of Orenburg, near Ural river; 16—Orenburg region, ab. 20 km NW of Orsk, environs of railway station Guberlja; 17—Altai Republic, ab. 26 km S of Shebalino, Semensky pass; 18—Altai Republic, ab. 26 km SE of Ongudai, environs of Kupchegen'.
FIGURE 3 in Contribution to the knowledge of Mediterranean lichen-feeding darkling beetles of the genus Stenohelops Reitter, 1922 (Coleoptera: Tenebrionidae)
FIGURE 3. Stenohelops gratus (J. Frivaldszky, 1894), lectotype, male (© photographs, Hungarian Natural History Museum): A—habitus, B—aedeagus, lateral view, C—labels.
FIGURE 2 in Contribution to the knowledge of Mediterranean lichen-feeding darkling beetles of the genus Stenohelops Reitter, 1922 (Coleoptera: Tenebrionidae)
FIGURE 2. Stenohelops (Helopelius) habitus: A—S. aeneipennis (Allard, 1876), male, alive (Rhodes: Koskinou); B—the same species, female in the nature (Rhodes: Attaviros Mt.); C—S. otini (Antoine, 1949) (Morocco, Sidi-Ali Lake).
FIGURE 1 in Contribution to the knowledge of Mediterranean lichen-feeding darkling beetles of the genus Stenohelops Reitter, 1922 (Coleoptera: Tenebrionidae)
FIGURE 1. Stenohelops (Helopelius) aeneipennis (Allard, 1876), habitus (A–D—© photographs, Natural History Museum London; E–H—© photographs, Naturhistorische Museum, Basel): A—lectotype of Stenomax aeneipennis, female; B—labels of the lectotype of S. aeneipennis; C—labels of non-type male from Rhodes (NHML); D—non-type male from Rhodes (NHML); E—lectotype of Cylindrinotus disgregus, male dorsally; F—the same, laterally; G—the same, ventrally; H—labels of the lectotype of C. disgregus.
FIGURES 42–46 in Contributions to the knowledge of the Eratoidae. X. Revision of the genus Archierato Schilder, 1933 (Mollusca: Gastropoda)
FIGURES 42–46. Comparison of the E Pacific Archierato species (the shells are equally sized for better comparison, consider, e.g., Tab. 1 for their real dimension). 42. A. michaelmonti, holotype. 43. A. rhondae, holotype. 44. A. panamaensis, lectotype. 45. A. columbella, neotype. 46. A. galapagensis, holotype.
FIGURES 36–41 in Contributions to the knowledge of the Eratoidae. X. Revision of the genus Archierato Schilder, 1933 (Mollusca: Gastropoda)
FIGURES 36–41. Comparison of the W Atlantic Archierato species (the shells are equally sized for better comparison, consider, e.g., Tab. 1 for their real dimension). 36. A. guadeloupensis, holotype. 37. A. dalli, holotype. 38. A. dalli, off Florianópolis, Santa Catarina State, Brazil. 39. A. martinicensis, holotype. 40. A. maugeriae, lectotype. 41. A. janae, holotype.
FIGURES 24–26 in Contributions to the knowledge of the Eratoidae. X. Revision of the genus Archierato Schilder, 1933 (Mollusca: Gastropoda)
FIGURES 24–26. Archierato martinicensis (Schilder, 1933) specimens. 24. DFB 7626-1, L 3.7 mm, Bocas Toro, Gulf of Mosquito, E. Panama. 25. A. martinicensis DFB 7626-4, L 3.4 mm (same place). 26. DFB7628-2, L 3.8 mm, Maiquetia, Federal District, Venezuela.
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.