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.
1,523
datasets available to search
ShareScore release 0.9.0
Dataset results
1,523 results for “speciation”
Fig. 9 in Phyletic evolution and iterative speciation in the persistent Pristiograptus dubius lineage
Fig. 9. SEM micrographs of the graptolite Pristiograptus lodenicensis Přibyl, 1943; Cyrtograptus lundgreni Biozone, Lower Homerian, Wenlock. A–D, F. Zawada borehole, Poland. A–C. Depth 1546.5–1552.7 m. A. ZPAL G. 44/13, general view of rhabdosome (A), lips of th3 and th4 (A), and th1 1 2 with sicula (A3). B. ZPAL G.44/14, general view of dorsal side of rhabdosome (B1), proximal end (B2). C. ZPAL G.44/15, general view of rhabdosome. D, F. Depth 1540–1546.5 m. D. ZPAL G.44/16, proximal end of rhabdosome. F. ZPAL G.44/17, proximal end of rhabdosome (F) and th2 lip with cortical 1 tissue "script" ("manta ray wing") (F2). E. VU P.P9−4b, Parovėja−9 borehole, Lithuania, depth 561.9 m, general view of rhabdosome (E1), depressions of thecal apertural lip (E2).
Fig. 3 in Phyletic evolution and iterative speciation in the persistent Pristiograptus dubius lineage
Fig. 3. Morphology of graptolite Pristiograptus rhabdosomes. A. Drawing of rhabdosome showing its characters (modified from Radzevičius 2003). B–E. Morphological features on flattened specimens. B. Pristiograptus lodenicensis Přibyl, 1948; VU−813, Likënai−396 borehole, Lithuania, depth 589.5 m; Cyrtograptus lundgreni Biozone, Riga Formation. C. Pristiograptus dubius magnus subsp. nov., VU−835, Parovėja−9 borehole, Lithuania, depth 599.8 m; Cyrtograptus perneri Biozone, whole specimen (C1), enlargement showing thecal apertural lip (C2). D. Pristiograptus dubius pseudodubius (Bouček, 1932), fragment of rhabdosome, VU−A3−0047a; C. lundgreni Biozone, Żdanów outcrop, Sudetes, Poland. E. Pristiograptus jaegeri Holland, Rickards, and Warren, 1969; Vilkaviškis−131 borehole, depth 1073.2 m, VU−8004, Colonograptus deubeli Biozone. Abbreviations: ss, angle between thecal lip and wall of succeeding theca; λ, angle between interthecal septum (thecal axis) and virgule; r, sicula ring; th1, first theca; tal, thecal apertural lip.
Fig. 2 in Phyletic evolution and iterative speciation in the persistent Pristiograptus dubius lineage
Fig. 2. Map of western margin of the East European Platform. A. Facies across the studied region (modified after Porębska et al. 2004). B. Location of the investigated boreholes in Lithuania and Poland.
Fig. 1 in Phyletic evolution and iterative speciation in the persistent Pristiograptus dubius lineage
Fig. 1. Graptolite phylogenetic relationships between the iterative of Pristiograptus dubius group taxa species and subspecies from Poland and Lithuania and their stratigraphical ranges. For more data concerning iterative clades that branched off the stem lineage see Fig. 4. Generalized graptolites biozones (Koren' et al. 1996) correlated with biozones of Poland and Lithuania (Urbanek and Teller 1997; Radzevičius 2007). Abbreviations: B., Bohemograptus; Col., Colonograptus; Cucullo., Cucullograptus; Cyrto., Cyrtograptus; d., dubius; G., Gothograptus; I., Istrograptus; L., Lobograptus; M., Monograptus; Neocol., Neocolonograptus; Neocucul., Neocucullograptus; Neodiver., Neodiversograptus; Neolob., Neolobograptus; P., Pristiograptus; S., Saetograptus; Slov., Slovinograptus; t., transgrediens; U., Uncinatograptus.
Fig. 2 in The origin and diversification of the Entorrhizales: deep evolutionary roots but recent speciation with a phylogenetic and phenotypic split between associates of the Cyperaceae and Juncaceae
Fig. 2 Collapsed chronogram for Basidiomycota and Entorrhizomycota evolution. The tree topology represents the consensus of trees inferred with BEAST from combined 18S + 28S + rpb1 domains B-C sequences from 83 Basidiomycota species, three Entorrhizomycota species and three Ascomycota species as outgroup. Alignment length = 3903. The age estimation mean is followed by the 95% highest density probability range in square brackets. Numbers on branches represent bootstrap values obtained from 1000 replicates (values ≥ 70), maximum support of 100 is encoded with bold lines. For full dataset, see Supplementary material (Fig. S1). Abbreviations: Ordo., Ordovician; Sil., Silurian; Carbon., Carboniferous; Paleo., Paleogene; N., Neogene
Linked collectors and determiners for: A molecular phylogeny and revision of the genus Pyropteron Newman, 1832 (Lepidoptera, Sesiidae) reveals unexpected diversity and frequent hostplant switch as a driver of speciation.
Natural history specimen data linked to collectors and determiners held within, "A molecular phylogeny and revision of the genus Pyropteron Newman, 1832 (Lepidoptera, Sesiidae) reveals unexpected diversity and frequent hostplant switch as a driver of speciation". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/cdd9688e-9a3f-4602-992e-1f8693caab9b">https://bionomia.net/dataset/cdd9688e-9a3f-4602-992e-1f8693caab9b</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/cdd9688e-9a3f-4602-992e-1f8693caab9b">https://gbif.org/dataset/cdd9688e-9a3f-4602-992e-1f8693caab9b</a>. Formatted as a Frictionless Data package.
Fig. 3 in The Wettstein tesseract: A tool for conceptualising species-rank decisions and illustrating speciation trajectories
Fig. 3. The Wettstein tesseract as a tool for illustrating geographical (allopatric, peripatric, parapatric) or non-geographical (sympatric) pathways of speciation. Arrows indicate different paths through the tesseract from a coherent population to final stage of two evolutionary independent entities (species). Note that these paths end whenever species rank is achieved; subsequent changes of biogeographical patterns (allopatrically, peripatrically, or parapatrically formed species becoming sympatric and sympatrically formed species becoming allopatric) are not illustrated.
Fig. 2 in The Wettstein tesseract: A tool for conceptualising species-rank decisions and illustrating speciation trajectories
Fig. 2. The Wettstein tesseract unfolded, with vertices representing binary-coded (statistically significant) genealogical, geographical, ecological, and morphological differences between two sister-taxa under study (left) and their taxonomical counterparts (right). Colours of vertices are just for clarity of the illustration and have no semantic implication.
Fig. 1. The Wettstein tesseract – a in The Wettstein tesseract: A tool for conceptualising species-rank decisions and illustrating speciation trajectories
Fig. 1. The Wettstein tesseract – a four-dimensional hypercube for illustrating species delimitation and speciation trajectories, with the four dimensions representing geographical differentiation, ecological divergence, morphological difference, and genealogical independence, respectively, and species rank attributed to the vertices in red (while vertices in black and white indicate infraspecific diversification patterns without or with significant contribution of a genealogical factor, respectively).
Figure 1 in 'Mainland-island' population structure of a terrestrial salamander in a forest-bocage landscape with little evidence for in situ ecological speciation
Figure 1. ContinentalFrancewiththedepartmentMayennehighlighted (A) andhabitatmodelforthe Fire salamander indepartment Mayenne (B). Themap representsthe habitat suitability model Ps = (1/ (1 + exp(−0.0303*percent_forest_cover-0.00562*altitude-0.0299*percent_hedgerow_cover + 1.769))) and was visualized with ILWIS 3.6 software58, available at https://52north.org/software/software-projects/ilwis/. Habitat suitability increases from deep blue with a probability of occurrence of zero to deep red with a probability of occurrence at unity (see colour bar). Prime fire salamander habitats are found at higher altitudes and are forested (in black) or with a dense hedgerow cover. Populations genetically investigated are located in and around the largely deciduous forests Forêt de Bourgon (FB) and Bois de Hermet (BH) and listed in Table 1.The outer geographicalcoordinates of the department are 1.239–0.049W and 47.733–48.568N.
Figure 3 in 'Mainland-island' population structure of a terrestrial salamander in a forest-bocage landscape with little evidence for in situ ecological speciation
Figure 3. (A) Clustering of pairwise Fst-values of Kottenforstfire salamanderpopulations (localities K01-K47) with the UPGMA-method. Numbers K01-K27 represent populations in the western section of the forest and K28-K47 represent populationsin the eastern section of the forest. The basal cluster at Fst <0.04 is composed of two groups (shaded) composed of mostly eastern (14/16 = 88%) or mostlywestern localities (14/15 = 93%). Populations breeding in streams are shown by the letter S. Note that populations that join the dendrogram at higher Fst-values are characterized by mostlysmall effectivepopulation sizes (Ňe ≤ 10, indicated by small open dots; X – Ňe not determined). B top panel - Populationsplotted along the firstand second axis of a principal component analysis. Middle panel - Ellipses represent means ± standarddeviation for sevenstream populations (left ellipse) and 40 non-streampopulations (right ellipse). Lower panel - Ellipsesrepresent means ± standard deviation forthe western (left) and eastern (right) sectionof the Kottenforst, forsmall populations (Ňe ≤ 10) shown by interruptedlines andfor larger populations (Ňe> 10) shown by uninterrupted lines. Notethat for the larger populations the ellipses for western and eastern localities do not overlap.
Figure 4. MicrosatellitepopulationgeneticdataforthefiresalamanderintheKottenforst, Germany21,24 in 'Mainland-island' population structure of a terrestrial salamander in a forest-bocage landscape with little evidence for in situ ecological speciation
Figure 4. MicrosatellitepopulationgeneticdataforthefiresalamanderintheKottenforst, Germany21,24 analyzed in the framework of allopatric speciation, i.e. a secondary spatial contact of a western pond-breeding lineage and an eastern stream-breeding lineage. The 95% credible cline regions are shown by grey shading. Solid and open round symbolsrepresent larger (Ňe> 10) andsmall populations (Ňe ≤ 10), respectively. Note that the stream-breeding populations that gave the composite genotype its name are all located in the eastern section of the Kottenforst (six data points indicated with a forward slash (/). One 'intermittent stream' in the western section is indicated by a backward slash. Also note the paucity of data at and around the steepest part of the clines. A – loadings on the first PC axis versus geographical distance. The clinecentre is at km 365.3 of the Universal Transverse Mercator (UTM) grid. Cline width is 3952 m. B – frequency of the stream-breeding genotype versus distance (after21). Thecline centre is at UTM km 365.1 and the cline widthis 1108 m. For model details see Supplementary Information VI.
Figure 2 in 'Mainland-island' population structure of a terrestrial salamander in a forest-bocage landscape with little evidence for in situ ecological speciation
Figure 2. (A) Clustering of pairwise Fst-values of firesalamander populations (Mayenne localities 1–41) with the UPGMA-method. The basal cluster at Fst <0.010 is mostly composed of forest populations (F, 17/21 = 81%) whereas populationsthat jointhe dendrogramat higher Fst-values are mostly fromthe bocage (B, 14/20 = 70%). At Fst> 0.025 the contribution of the bocage populations is eightout of eight. Notethat populations thatjoin the dendrogram at the highest Fst-values are characterizedby mostly small effective population sizes (Ňe ≤ 10, indicated by small open dots). (B) Populations plotted along the first and second axis of a principal component analysis. The 23 forest populations are shown by small solid round symbols and the solid ellipse represents the mean ± standard deviation. Eighteenpopulations from the bocageare shown by large open round symbols, with the mean ± standard deviation shown bythe widerellipse with the interrupted line.
The role of neutral and adaptive genomic variation in population diversification and speciation in two ground squirrel species of conservation concern
<p>Understanding the neutral (demographic) and adaptive processes leading to the differentiation of species and populations is a critical component of evolutionary and conservation biology. In this context, recently diverged taxa represent a unique opportunity to study the process of genetic differentiation. Northern and southern Idaho ground squirrels (Urocitellus brunneus – NIDGS, and U. endemicus - SIDGS, respectively) are a recently diverged pair of sister species that have undergone dramatic declines in the last 50 years and are currently found in metapopulations across restricted spatial areas with distinct environmental pressures. Here we genotyped single-nucleotide polymorphisms (SNPs) from buccal swabs with restriction site-associated DNA sequencing (RADseq). With these data we evaluated neutral genetic structure at both the inter- and intraspecific level, and identified putatively adaptive SNPs using population structure outlier detection and genotype-environment association (GEA) analyses. At the interspecific level, we detected a clear separation between NIDGS and SIDGS, and evidence for adaptive differentiation putatively linked to torpor patterns. At the intraspecific level, we found evidence of both neutral and adaptive differentiation. For NIDGS, elevation appears to be the main driver of adaptive differentiation, while neutral variation patterns match and expand information on the low connectivity between some populations identified in previous studies using microsatellite markers. For SIDGS, neutral substructure generally reflected natural geographic barriers, while adaptive variation reflected differences in land cover and temperature, as well as elevation. These results clearly highlight the roles of neutral and adaptive processes for understanding the complexity of the processes leading to species and population differentiation, which can have important conservation implications in susceptible and threatened species.</p>
Molecular signatures of resource competition: Clonal interference favors ecological diversification and can lead to incipient speciation
<p>Microbial ecosystems harbor an astonishing diversity that can persist for long times. To understand how such diversity is structured and maintained, ecological and evolutionary processes need to be integrated at similar timescales. Here, we study a model of resource competition that allows for evolution via de novo mutation, and focus on rapidly adapting asexual populations with large mutational inputs, as typical of many bacteria species. We characterize the adaptation and diversification of an initially maladapted population and show how the eco-evolutionary dynamics are shaped by the interaction between simultaneously emerging lineages – clonal interference. We find that in large populations, more intense clonal interference can foster diversification under sympatry, increasing the probability that phenotypically and genetically distinct clusters coexist. In smaller populations, the accumulation of deleterious and compensatory mutations can push further the diversification process and kick-start speciation. Our findings have implications beyond microbial populations, providing novel insights about the interplay between ecology and evolution in clonal populations.</p>
Neurogenomic divergence during speciation by reinforcement of mating behaviors in chorus frogs (Pseudacris) – De novo reference transcriptome: Assemblerd contigs and gene annotations
<p>Assembled contigs (Trinity) and gene annotations (Trinotate) of a reference transcriptome for the Upland Chorus Frog, <em>Pseudacris feriarum</em>. Data to assemble the contigs were obtained by sequencing four tissue types: Brain, eyes, testis, and somatic (liver/heart/lung/skin/muscle). Raw reads are stored in the NCBI-SRA database (BioProject PRJNA723357).</p>
Speciation of a subterranean amphipod on the southern margin of the Alpine ice-shield
<p>Supplementary material comprising all the data used for the analyses in the "Speciation of a subterranean amphipod on the southern margin of the Alpine ice-shield " paper by Delić et al. 2021</p>
Figure 3 in Aedeagus evolution promotes speciation? A primary pattern in rove beetle phylogeny
Figure 3. Plotting Paramere-to-Median-lobe Index (PM Index) and the number of species of the selected genera (Y axis) with the divergence time (X axis) estimated. PM Index variations along with divergence time (a, c); species number variations along with evolutionary time (b, d). The abbreviation of geological ages are as follows: Jur—Jurassic; Cre—Cretaceous; Pal—Paleocene; Eoc— Eocene; Oli—Oligocene; Mio—Miocene; Pli—Pliocene.
Figure 2. Figure 2 in Aedeagus evolution promotes speciation? A primary pattern in rove beetle phylogeny
Figure 2. Figure 2. Phylogeny of the subfamily Staphylininae with divergence time estimates based on the concatenated sequence. Blue bars at each node show 95% highest posterior density interval for the main nodes. Colored branches and circled capital letters are as in Figure 1. Circled numbers refer to three main sub-clades within Clade A discussed in text. Circled roman letters represent the calibration points. Capital letter 'A', 'P' and 'N' represent aedeagus, paramere and species number of each corresponding genus respectively. Colored arrows refer to phylogenetic patterns of aedeagus morphology discussed in text. Dot lines with lower case letters refer to divergence times discussed in text. The abbreviation of geological ages are as follows: Jur—Jurassic; Cre—Cretaceous; Pal— Paleocene; Eoc—Eocene; Oli—Oligocene; Mio—Miocene; Pli—Pliocene.
Figure 1 in Aedeagus evolution promotes speciation? A primary pattern in rove beetle phylogeny
Figure 1. Bayesian phylogenetic tree for the partitioned combined analysis of four genes. Only posterior probabilities above 0.60 are shown. Colored branches represent the mainly monophyletic groups resolved in the phylogenetic inference. Verticle bars: thick bars denote the tribes of Staphylinini, thin bars the subtribes, grey bar the outgroup. The capital letters "A" and "B" refer to two main clades discussed in the text.
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.