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.
126
datasets available to search
ShareScore release 0.9.0
Dataset results
126 results for “nuclear markers”
Fig. 5 in Introgression at the emerging secondary contact zone of magpie Pica pica subspecies (Aves: Corvidae): integrating data on nuclear and mitochondrial markers, vocalizations, and field observations
Fig. 5 Time-calibrated Bayesian tree based on mitochondrial control region sequences of Pica pica. Numbers at the branches indicate Bayesian posterior probability values (left) and bootstrap values of the ML analysis (right, in percent). Triangle widths are proportional to specimen numbers. Blue bars next to nodes indicate 95% credibility intervals for their age estimates. The figures in bold and the time scale below are in million years (Ma) before present
Fig. 4 in Introgression at the emerging secondary contact zone of magpie Pica pica subspecies (Aves: Corvidae): integrating data on nuclear and mitochondrial markers, vocalizations, and field observations
Fig. 4 Phylogenetic medianjoining network based on 256 mitochondrial control region sequences. Sizes of circles correspond to the number of birds sharing this haplotype; branch lengths are proportional to the number of substitutions and those over 2 are shown at the branches. Haplogroups 1–6 are indicated by numbers
Fig. 2 in Introgression at the emerging secondary contact zone of magpie Pica pica subspecies (Aves: Corvidae): integrating data on nuclear and mitochondrial markers, vocalizations, and field observations
Fig. 2 Map of sampling localities for mitochondrial DNA analysis in the zone of contact between Pica pica leucoptera and Pica pica jankowskii. Distribution of haplotypes is indicated by colours: Pica
Fig. 2 in Combination of nuclear and mitochondrial markers as a useful tool to identify Ctenophthalmus species and subspecies (Siphonaptera: Ctenophthalmidae)
Fig. 2 Morphological characteristics of males of C. b. arvernus and C. n. dobyi. A—C. b. arvernus distal arm of IX sternum (arrowed); B—C. b. arvernus dorsal process basimere with only one long setae (arrowed); C—C. b. arvernus ventral process basimere with an apical slot
Fig. 1 in Combination of nuclear and mitochondrial markers as a useful tool to identify Ctenophthalmus species and subspecies (Siphonaptera: Ctenophthalmidae)
Fig. 1 Morphological characteristics of males of C. a. catalaniensis. A—Distal arm of IX sternum (arrowed); B—dorsal process basimere with two long setae (arrowed); C—ventral process basimere with an apical slot (arrowed); D—telomere carrying one curved long setae (arrowed)
Fig. 5 in A new subfamily classification of the Citrus family (Rutaceae) based on six nuclear and plastid markers
Fig. 5. Ancestral state reconstruction for the characters growth form, flower symmetry, corolla tube, and winged vs. unwinged seeds. See Fig. 2 for taxon names.
Fig. 2 in A new subfamily classification of the Citrus family (Rutaceae) based on six nuclear and plastid markers
Fig. 2. Phylogenetic reconstruction of Rutaceae. The Bayesian 50% majority-rule consensus tree based on the concatenated alignments of all six markers is shown. Posterior probability (PP) and bootstrap (BS) support values are displayed next to each branch. Strongly supported branches are marked with an asterisk (*), branches with moderate and low support in the ML analyses are represented by a degree symbol (°) and a hash key (#) respectively. A hyphen (-) indicates branches that lack statistical support.
Fig. 1 in A new subfamily classification of the Citrus family (Rutaceae) based on six nuclear and plastid markers
Fig. 1. Diversity of flowers and fruits in Rutaceae. A, Trimerous and haplostemonous flower of Cneorum tricoccon L.; B, Tetramerous and diplostemonous flower of Ruta graveolens L.; C, Pentamerous and diplostemonous flower of Philotheca verrucosa (A.Rich.) Paul G.Wilson; D, Pentamerous and polystemonous flower of Citrus trifoliata L.; E, Zygomorphic flower of Dictamnus albus L.; F, Zygomorphic flower of Ravenia spectabilis (Lindl.) Planch. ex Griseb.; G, Tubular flower with connate petals of Correa lawrenceana Hook.; H, Inconspicuous flowers with tepals of the apomictic Zanthoxylum simulans Hance; I, Pendulous, capitate inflorescence with showy bracts of Diplolaena grandiflora Desf.; J, Baccate fruit of Triphasia trifolia (Burm.f.) P.Wilson; K, Capsular fruit of Melicope clusiifolia (A.Gray) T.G.Hartley & B.C.Stone, in which seeds remain attached to the carpels; L, Capsular fruit of Dictamnus albus L., in which seeds are ejected at maturity; M, Drupaceous fruit of Acronychia brassii T.G.Hartley; N, Young winged drupes of Spathelia splendens Urb.; O, Samaroid fruit of Ptelea trifoliata L.; P, Capsular fruit of Flindersia australis R.Br. — All photos by Marc S. Appelhans, except (F) by Milton Groppo and (P) by Paul I. Forster.
Fig. 4 in A new subfamily classification of the Citrus family (Rutaceae) based on six nuclear and plastid markers
Fig. 4. Ancestral state reconstruction for the characters ovules per locule, fruit type, presence of endosperm, and chromosome number. Dashed gray lines indicate unknown character states. See Fig. 2 for taxon names.
Standardized nuclear markers improve and homogenize species delimitation in Metazoa
Open the record for dataset details and reuse information.
Nuclear genetic diversity and structure of Anastrepha ludens wild populations evidenced by microsatellite markers
<p class="MsoNormal"><span>The Mexican fruit fly, <em>Anastrepha ludens </em>is an important pest that causes widespread damage to a number of fruit crops in Mexico. The Sterile Insect Technique (SIT) is commonly used for its control. However, the existence of natural barriers can give rise to a population structure in neutral loci and possibly behavioral or adaptive traits that interfere with SIT. For this reason, it is important to understand the genetic diversity and structure of<em> A. ludens </em>populations and to better understand the evolutionary ecology and population processes in view of possible expansions and possible host shifts due to climate change. We genotyped nine nuclear DNA (nDNA) microsatellite loci among fruit fly populations collected from five biogeographic areas within Mexico, Mexican Plateau, the Northeastern Coastal Plain, the Pacific Coast, the Gulf Coast of Mexico, the Soconusco and a laboratory strain. The nuclear genetic diversity was moderate (from <em>H</em>e = 0.34 to <em>H</em>e = 0.39) within the wild mexfly population. We found that populations were clustered in three genetic groups (<em>K</em>=3). The diversity and genetic structure of <em>A. ludens</em> are produced by environmental and geological conditions as well as local conditions like anthropogenic perturbation which would produce population expansion and the existence of possible predators that would affect the population density. Gene flow showed recent migration among populations. The laboratory strain showed less diversity than the wild samples. Large values of current and ancestral population size suggest high resistance to climatic changes, probably due to biological attributes, such as its polyphagous, multivoltine and high dispersal characteristics. In particular ecosystem fragmentation and perturbation as well as the existence of new plant hosts all of which would probably increase the abundance of flies.</span></p>
Phylomitogenomics reveals mito-nuclear concordance in social wasps: the performance of mitochondrial markers and gene order for hymenopteran systematics.
<p>Mitochondrial (mtDNA) genes have served as widely utilized genetic loci for animal phylogenetics and phylogeography studies. However, the phylogenetic performance of many mtDNA genes has not been empirically evaluated across lineages within hymenopteran wasps. To address this question, we assembled and analyzed mitogenomic data from social wasps, representing the four recognized tribes of Polistinae and also all Epiponini genera. Additionally, we evaluated whether mtDNA gene order in Polistinae is congruent with its tribal classification. Using concatenation phylogenetic methods, we show phylogenetic congruence between mitogenomic and nuclear data. Statistically comparing the phylogenetic performance of individual mtDNA genes, we demonstrate that for social wasps the molecular markers COI, 16S, NAD5, and NAD2 perform best, while ATP6, COII, and 12S show the worst results. Finally, we verified that the tRNA cluster close to the noncoding region is a hotspot of rearrangement in Vespidae and can be used as additional information for the systematics of this group. Together, these results indicate that mitogenomes contain robust phylogenetic signal to elucidate the evolutionary history of Vespidae. Moreover, our study identifies the best choice of mitochondrial markers for systematic investigations of social wasps.</p>
Data from: Comparative phylogeography of trans-Andean freshwater fishes based on genome-wide nuclear and mitochondrial markers
Open the record for dataset details and reuse information.
Nuclear genetic diversity and structure of Anastrepha ludens wild populations evidenced by microsatellite markers
Open the record for dataset details and reuse information.
FIGURE 10 in Phylogeny of the genus Austinixa Heard & Manning, 1997, inferred from mitochondrial and nuclear molecular markers, with descriptions of three new species and redescription of Austinixa felipensis (Glassell, 1935) (Decapoda: Brachyura: Pinnotheridae)
FIGURE 10. Austinixa felipensis; male, cw 12.3 mm (ULLZ 5556); from San Felipe, Baja California, Mexico. A, carapace, chelipeds, and right ambulatory appendages, dorsal; B, carapace frontal region, from anterior; C. third maxilliped, external; D, right chela, internal; E, right cheliped, external; F, left cheliped internal; G, left cheliped external; H, right pereopod 2, dorsal; I, right pereopod 3, dorsal; J, right pereopod 4, dorsal; K, right pereopod 5, dorsal. Scale bars = 2.0 mm.
FIGURE 12 in Phylogeny of the genus Austinixa Heard & Manning, 1997, inferred from mitochondrial and nuclear molecular markers, with descriptions of three new species and redescription of Austinixa felipensis (Glassell, 1935) (Decapoda: Brachyura: Pinnotheridae)
FIGURE 12. Austinixa artankeri sp. nov.; A, male, cw 8.9 mm, Panama Caribbean (UF 18950, photograph from A. Anker); B, ovigerous female, cw 6.8 mm, Panama Caribbean (ULLZ 13336); C, female, Panama Caribbean (ULLZ 13334). Austinixa roblesi sp. nov.; D, male, cw 9.2 mm, Belize (ULLZ 12114); E, ovigerous female, cw 7.8 mm, Panama Caribbean (ULLZ 13335); F, ovigerous female, cw 11.1 mm, Belize (ULLZ 12114). Austinixa cuestai sp. nov.; G, male, cw 7.7 mm, Panama Pacific (USNM1552956); H, male, cw 11.1 mm, Panama Pacific (USNM 1552956); I, female, cw 8.5 mm, Panama Pacific (USNM 1552957); J, ovigerous female, cw 10.7 mm, Panama Pacific (USNM 1552958) (photographs from J. Scioli).
FIGURE 8 in Phylogeny of the genus Austinixa Heard & Manning, 1997, inferred from mitochondrial and nuclear molecular markers, with descriptions of three new species and redescription of Austinixa felipensis (Glassell, 1935) (Decapoda: Brachyura: Pinnotheridae)
FIGURE 8. Austinixa roblesi sp. nov.; A, B, D–G, male paratype, cw 9.0 mm (USNM 1558340); C, H, I, male holotype, cw 9.9 mm (USNM 1558341); both from Dangriga, Belize. A, carapace, chelipeds, and right ambulatory appendages, dorsal; B, carapace frontal region, from anterior; C. third maxilliped, external; D, right chela, internal, setae not shown; E, right pereopod 4, dorsal; F, right pereopod 5, dorsal; G, male pleon; H, left first gonopod tip, pleonal surface; I left first gonopod tip, sternal surface. Scale bars = 1.0 mm.
FIGURE 4 in Phylogeny of the genus Austinixa Heard & Manning, 1997, inferred from mitochondrial and nuclear molecular markers, with descriptions of three new species and redescription of Austinixa felipensis (Glassell, 1935) (Decapoda: Brachyura: Pinnotheridae)
FIGURE 4. Austinixa artankeri sp. nov.; male holotype, cw 7.6 mm (USNM 1558334), Bocas del Toro, Caribbean coast of Panama. A, carapace and right appendages, dorsal; B, carapace frontal region, from anterior; C, left third maxilliped, external; D, right chela, internal; E, right pereopod 2, dorsal; F, right pereopod 3, dorsal; G, right pereopod 4, dorsal; H, right pereopod 4 setae not shown, dorsal; I, right pereopod 4, ventral; J. right pereopod 5, dorsal. Scale bars = 1.0 mm.
FIGURE 7 in Phylogeny of the genus Austinixa Heard & Manning, 1997, inferred from mitochondrial and nuclear molecular markers, with descriptions of three new species and redescription of Austinixa felipensis (Glassell, 1935) (Decapoda: Brachyura: Pinnotheridae)
FIGURE 7. Austinixa cuestai sp. nov.; A–C, male paratype, cw 8.3 mm (ULLZ 5566); D–F ovigerous female paratype, cw 8.3 mm (ULLZ 5566); both from Nagualapa, Pacific coast of Nicaragua. A, male pleon; B, left first gonopod, sternal surface; C, left first gonopod tip, pleonal surface; D, right cheliped, internal; E, right cheliped, external; F, female pleon. Scale bars = 1.0 mm (A, B, D–F), 0.5 mm (C).
FIGURE 11 in Phylogeny of the genus Austinixa Heard & Manning, 1997, inferred from mitochondrial and nuclear molecular markers, with descriptions of three new species and redescription of Austinixa felipensis (Glassell, 1935) (Decapoda: Brachyura: Pinnotheridae)
FIGURE 11. Austinixa felipensis; A–C, male, cw 12.3 mm (ULLZ 5556); D–F, female cw 10.6 mm, both from San Felipe, Baja California, Mexico. A, male pleon; B, right first gonopod, sternal surface; C, right first gonopod tip, pleonal surface; D, left chela, external; E, left chela, internal. Scale bars = 1.0 mm (A, B, D–F), 0.5 mm (C).
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.