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.
402
datasets available to search
ShareScore release 0.9.0
Dataset results
402 results for “MtDNA”
Supplementary material 1 from: Landvik M, Miraldo A, Niemelä P, Valainis U, Cibuļskis R, Roslin T (2017) Evidence for geographic substructuring of mtDNA variation in the East European Hermit beetle (Osmoderma barnabita). In: Campanaro A, Hardersen S, Sabbatini Peverieri G, Carpaneto GM (Eds) Monitoring of saproxylic beetles and other insects protected in the European Union. Nature Conservation 19: 171-189. https://doi.org/10.3897/natureconservation.19.12877
Details of the Osmoderma barnabita specimens included in the data set : Data type: specimens data
Figure 3 from: Potapov G, Kondakov A, Kolosova Y, Tomilova A, Filippov B, Gofarov M, Bolotov I (2018) Widespread continental mtDNA lineages prevail in the bumblebee fauna of Iceland. ZooKeys 774: 141-153. https://doi.org/10.3897/zookeys.774.26466
Figure 3 Approximate distribution ranges of the widespread ubiquistic COI lineages recorded in bumblebee populations from Iceland (see Suppl. material 1 for details). Northern range boundaries of Bombus lucorum and B. hortorum lineages are in accordance with published sources (Williams et al. 2012, Kolosova et al. 2016, Potapov and Kolosova 2016). The map was created using ESRI ArcGIS 10 software (www.esri.com/arcgis). The topographic base of the map was created with Natural Earth Free Vector and Raster Map Data (www.naturalearthdata.com).
Figure 2 from: Potapov G, Kondakov A, Kolosova Y, Tomilova A, Filippov B, Gofarov M, Bolotov I (2018) Widespread continental mtDNA lineages prevail in the bumblebee fauna of Iceland. ZooKeys 774: 141-153. https://doi.org/10.3897/zookeys.774.26466
Figure 2 Median-joining haplotype networks of the available COI sequences of bumblebee species inhabiting Iceland. The circle size is proportional to the number of available sequences belonging to a certain haplotype. The small red dots indicate hypothetical ancestral haplotypes. Red numbers near branches indicate the number of nucleotide substitutions between haplotypes. Black codes indicate the COI lineages inhabiting Iceland. A Bombus jonellus (N = 29) B B. lucorum (N = 115) C B. hortorum (N = 33). Photographs by Yulia S. Kolosova.
Figure 1 from: Potapov G, Kondakov A, Kolosova Y, Tomilova A, Filippov B, Gofarov M, Bolotov I (2018) Widespread continental mtDNA lineages prevail in the bumblebee fauna of Iceland. ZooKeys 774: 141-153. https://doi.org/10.3897/zookeys.774.26466
Figure 1 Map of study sites and typical habitat of Bombus jonellus in Iceland. A Map of study sites (see Table 1 for details). Red circles indicate sampling locations. B Shore of Mývatn Lake, a site with sympatric occurrences of the two lineages of Bombus jonellus (BJ-01 and BJ-02) in mountain herb-dwarf shrub tundra assemblages. Photograph by Mikhail Yu. Gofarov.
Figure 2. A neighbour-joining tree using 604 cytochrome c oxidase subunit I in Phylogenetic relationship among slender loris species (Primates, Lorisidae: Loris) in Sri Lanka based on mtDNA CO1 barcoding
Figure 2. A neighbour-joining tree using 604 cytochrome c oxidase subunit I (CO1) sequences from 7 different slender loris (Loris) taxas found in Sri Lanka with their external appearance.
Reproductive fitness of Callosobruchus maculatus mtDNA haplotypes
<p><span><span><span><span><span><span><span><span><span><span><span>Mitochondrial DNA (mtDNA) consists of few but vital maternally inherited genes that interact closely with nuclear genes to produce cellular energy. How important mtDNA polymorphism is for adaptation is still unclear. The assumption in population genetic studies is often that segregating mtDNA variation is selectively neutral. This contrasts with empirical observations of mtDNA haplotypes affecting fitness related traits and thermal sensitivity, and latitudinal clines in mtDNA haplotype frequencies. Here we experimentally test whether ambient temperature affects selection on mtDNA variation, and whether such thermal effects are influenced by intergenomic epistasis due to interactions between mitochondrial and nuclear genes, using replicated experimental evolution in <i>Callosobruchus maculatus</i> seed beetle populations seeded with a mixture of different mtDNA haplotypes. We also test for sex-specific consequences of mtDNA evolution on reproductive success, given that mtDNA mutations can have sexually antagonistic fitness effects. Our results demonstrate natural selection on mtDNA haplotypes, with some support for thermal environment influencing mtDNA evolution through mitonuclear epistasis. The changes in male and female reproductive fitness were both aligned with changes in mtDNA haplotype frequencies, suggesting that natural selection on mtDNA is sexually concordant in stressful thermal environments. We discuss the implications of our findings for the evolution of mtDNA. </span></span></span></span></span></span></span></span></span></span></span></p>
Figure 2 in Genetic diversity of Atherina hepsetus (Osteichthyes: Atherinidae) populations as determined by RFLP analysis of three mtDNA regions
Figure 2. Neighbor-joining (Saitou and Nei 1987) cladogram, based on the net nucleotide divergence.
FIGURE 3 in Description of Halichoeres rubrovirens, a new species of wrasse (Labridae: Perciformes) from the Trindade and Martin Vaz Island group, southeastern Brazil, with a preliminary mtDNA molecular phylogeny of New World Halichoeres
FIGURE 3. Recently collected intermediate phase (A) and juvenile (B) Halichoeres rubrovirens.
FIGURE 2 in Description of Halichoeres rubrovirens, a new species of wrasse (Labridae: Perciformes) from the Trindade and Martin Vaz Island group, southeastern Brazil, with a preliminary mtDNA molecular phylogeny of New World Halichoeres
FIGURE 2. Underwater photographs of terminal male (A) and female (B) Halichoeres rubrovirens.
FIGURE 1 in Description of Halichoeres rubrovirens, a new species of wrasse (Labridae: Perciformes) from the Trindade and Martin Vaz Island group, southeastern Brazil, with a preliminary mtDNA molecular phylogeny of New World Halichoeres
FIGURE 1. Holotype of Halichoeres rubrovirens (CIUFES 1470).
Final matrices: SNPs and mtDNA of Synallaxis albigularis / Mazaria propinqua
<p>Differentiated habitat use can predict the diversity and genetic structure of Amazonian birds. Making this link between the intrinsic characteristics of organisms and the patterns of genetic diversity can provide us with insights into the evolutionary processes that act on species and also on the history of environments. About 15% of non-aquatic birds in the Amazon are restricted to river-created habitats, and have different levels of habitat affinity. In this study we investigated the evolutionary history of Synallaxis albigularis and Mazaria propinqua, two morphologically very similar species, which occur in the initial successional vegetation along the floodplains in western and central Amazonia, co-occurring along the Solimões River. Although sympatric, they are not syntopic, M. propinqua occurs predominantly in river islands of white water rivers, while S. albigularis occurs along alluvial plains on the river banks, using more diverse types of habitat. We used occurrence data from the museum collections and public databases, and generated genomic data (UCEs, SNPs, and mtDNA) for 49 samples of the two species. Our results showed that the two species present different ages of diversification and population history, and that the different use of the habitat can explain the incongruous patterns found. More ephemeral habitats can produce a higher rate of extinction, producing the bottleneck effect, consequently the populations associated with these environments have low genetic variability, with very recent diversification dates, little structure and smaller population size. More resilient habits show the opposite. In addition, climatic variations in the late Pleistocene and Holocene produced changes in the different types of environments in the Amazonian floodplains that affected the connectivity and the size of the bird populations associated with these environments.</p>
Data from: Extensive hybridization between two Andean warbler species with shallow divergence in mtDNA
<p><span>Studying processes acting on differentiated populations upon secondary contact, such as hybridization, is important to comprehensively understand how species are formed and maintained over time. However, avian speciation studies in the tropical Andes have largely focused on the role of topographic and ecological barriers promoting divergence in allopatry, seldom examining hybridization and introgression. We describe a hybrid zone involving 2 closely related Andean warblers (Parulidae), the Golden-fronted Redstart (<i>Myioborus ornatus</i>)<i> </i>and the Spectacled Redstart (<i>Myioborus melanocephalus</i>). Geographic ranges of these species abut near the Colombia-Ecuador border and many specimens from the region exhibit intermediate phenotypes, but a formal description of phenotypic variation in the contact zone were heretofore lacking. We collected specimens across a transect encompassing the area where ranges abut and areas where only "pure" parental phenotypes of <i>M. ornatus chrysops </i>and <i>M. melanocephalus ruficoronatus</i> occur. We described variation in plumage traits including patterns of head and ventral coloration and tail markings based on 321 specimens. To describe genetic variation in the contact zone and over a broader phylogeographic context, we used sequences of the mitochondrial ND2 gene for 219 individuals across the transect and the entire range of both species, including all subspecies, from Venezuela to Bolivia. We documented a hybrid zone ~200 km wide based on head coloration, where intermediate plumage phenotypes are most common and "pure" forms do not overlap geographically, consistent with extensive hybridization. Across the range of the <i>M. ornatus</i>–<i>M. melanocephalus</i> complex, mitochondrial genetic structure was shallow, with genetic breaks only coinciding clearly with one topographic feature. Such<i> </i>low genetic structure is striking given the high diversity in plumage phenotypes and current taxonomy of the group<i>. </i>Our phenotypic data suggest that barriers to hybridization are not strong, and allow us to postulate hypotheses to be tested using forthcoming genomic data.</span></p>
Figure 4 from: Basibuyuk H, Budak M, Korkmaz E (2011) A molecular phylogeny of the Cephinae (Hymenoptera, Cephidae) based on mtDNA COI gene: a test of traditional classification. ZooKeys 130: 363-378. https://doi.org/10.3897/zookeys.130.1466
Figure 4 - Bayesian interface tree based on the mitochondrial COI gene sequences of the Cephinae. Host plants are indicated in parentheses. Numbers at nodes indicate the posterior values.
Figure 3 from: Basibuyuk H, Budak M, Korkmaz E (2011) A molecular phylogeny of the Cephinae (Hymenoptera, Cephidae) based on mtDNA COI gene: a test of traditional classification. ZooKeys 130: 363-378. https://doi.org/10.3897/zookeys.130.1466
Figure 3 - Likelihood mapping analysis of the sequence alignments of COI gene present in the Cephinae. The regions at the corners of the triangles correspond to the three possible tree topologies for a quartet; the lateral regions to partly resolved trees and the central region to unresolved trees. The numbers indicate the percentage of quartets falling in each region.
Figure 2 from: Basibuyuk H, Budak M, Korkmaz E (2011) A molecular phylogeny of the Cephinae (Hymenoptera, Cephidae) based on mtDNA COI gene: a test of traditional classification. ZooKeys 130: 363-378. https://doi.org/10.3897/zookeys.130.1466
Figure 2 - Saturation plots of transversion and transition rates against JC69 distance at a first codon position b second codon position c third codon position, and d sum of data.
Figure 8 from: Stahls G, Haarto A (2014) When mtDNA COI is misleading: congruent signal of ITS2 molecular marker and morphology for North European Melanostoma Schiner, 1860 (Diptera, Syrphidae). ZooKeys 431: 93-134. https://doi.org/10.3897/zookeys.431.7207
Figure 8 - Postgonite, lateral view. A Melanostoma scalare B Melanostoma certum C Melanostoma mellarium and D Melanostoma mellinum.
Figure 9 from: Stahls G, Haarto A (2014) When mtDNA COI is misleading: congruent signal of ITS2 molecular marker and morphology for North European Melanostoma Schiner, 1860 (Diptera, Syrphidae). ZooKeys 431: 93-134. https://doi.org/10.3897/zookeys.431.7207
Figure 9 - Postgonite, ventral view. A Melanostoma scalare B Melanostoma certum C Melanostoma mellarium and D Melanostoma mellinum.
Figure 6 from: Stahls G, Haarto A (2014) When mtDNA COI is misleading: congruent signal of ITS2 molecular marker and morphology for North European Melanostoma Schiner, 1860 (Diptera, Syrphidae). ZooKeys 431: 93-134. https://doi.org/10.3897/zookeys.431.7207
Figure 6 - Cerci and surstyli, dorsal view and surstyli, lateral view. A Melanostoma scalare B Melanostoma certum C Melanostoma mellarium and D Melanostoma mellinum.
Figure 5 from: Stahls G, Haarto A (2014) When mtDNA COI is misleading: congruent signal of ITS2 molecular marker and morphology for North European Melanostoma Schiner, 1860 (Diptera, Syrphidae). ZooKeys 431: 93-134. https://doi.org/10.3897/zookeys.431.7207
Figure 5 - Shape of male sterna 2–4. A Melanostoma scalare B Melanostoma certum C Melanostoma mellarium and D Melanostoma mellinum.
Figure 7 from: Stahls G, Haarto A (2014) When mtDNA COI is misleading: congruent signal of ITS2 molecular marker and morphology for North European Melanostoma Schiner, 1860 (Diptera, Syrphidae). ZooKeys 431: 93-134. https://doi.org/10.3897/zookeys.431.7207
Figure 7 - Postgonite and anterior part of hypandrium, lateral view. A Melanostoma scalare B Melanostoma certum C Melanostoma mellarium and D Melanostoma mellinum.
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.