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.
4,144
datasets available to search
ShareScore release 0.9.0
Dataset results
4,144 results for “ITS barcode”
Figure 1 in Barcoding, molecular taxonomy, and exploration of the diversity of shrews (Soricomorpha: Soricidae) on Mount Nimba (Guinea)
Figure 1. Phylogeny built using Bayesian inference analysis of the concatenated data set of two mitochondrial markers (cytochrome b and 16S) and one nuclear marker (the breast cancer gene, BRCA) (1852 bp). Values represented above and below branches are Bayesian posterior probabilities and bootstrap values (maximum likelihood, 1000 replicates), respectively. The tree was rooted with addition of three Soricinae shrews Neomys fodiens, Soriculus nigrescens, and Nectogale elegans.
Figures 7–10 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figures 7–10. Global distribution of material examined (grey spots) and successfully sequenced (black spots) for Bombus personatus, and for the species of the melanurus group. The inset scatter plots show activity by phenology (x-axis: day of the year, letters refer to months) and elevation (y-axis: metres).
Figure 103 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figure 103. Distribution of the principal colour patterns of Bombus subterraneus. White spots show specimens with bands of white hair on the thoracic dorsum (Figs 39, 40, 84; dlabolai); grey spots show specimens with bands of yellow hair on the thoracic dorsum (Figs 41–45, 85–88; latreillellus); black spots show female specimens with no obvious bands of pale hair on the thoracic dorsum (Figs 46, 47; subterraneus s.s.; males from this region have yellow bands). Introductions to New Zealand are not shown.
Figure 3 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figure 3. Estimate of phylogeny for all 11 Subterraneobombus species by Bayesian analysis of a single consensus CO1 barcode sequence for each species (derived from the sequences in Figure 2), from a consensus of 18 002 sample trees after burn-in. The out-group (Bombus haemorrhoidalis, not shown) was chosen using the results of Cameron et al. (2007). Values next to the nodes are Bayesian posterior probabilities (see Fig. 2). The scale bar represents 0.02 expected substitutions per nucleotide site.
Figure 106 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figure 106. Estimate of the phylogeny for all 11 Subterraneobombus species by Bayesian analysis of the total evidence of 658 CO1 nucleotides, reduced to consensus sequences for each species, and of 27 morphological characters for the species (Fig. 4), but with morphological character-state changes (Appendix 1) optimized with WINCLADA (ASADO v.1.7; http://www.cladistics.com, accessed 2009): numbers above the branches are the character numbers; numbers below the branches are the character-state changes; solid squares show unique character-state changes; open squares show parallel or reverse character-state changes.
Figure 6 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figure 6. Global distribution of sample sites indicated as coloured spots, with the colours showing the elevation (scale at left). Cartesian orthonormal projection (as for the following maps): north at the top of the map.
Figures 11–13 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figures 11–13. Global distribution of material examined (grey spots) and successfully sequenced (black spots) for the species of the fragrans group. The inset scatter plots show activity by phenology (x-axis: day of the year, letters refer to months) and elevation (y-axis: metres).
Figure 4 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figure 4. Estimate of phylogeny for all 11 Subterraneobombus species by Bayesian analysis of 27 morphological characters (excluding autapomorphies, data in Appendix 1) from a consensus of 18 002 sample trees after burn-in. The out-group (Bombus haemorrhoidalis, not shown) was chosen using the results of Cameron et al. (2007). Values next to the nodes are Bayesian posterior probabilities (see Fig. 2). The scale bar represents 0.06 expected state changes per character.
Figure 99. A biogeographic scenario for all 11 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figure 99. A biogeographic scenario for all 11 species of Subterraneobombus by dispersal–vicariance analysis with DIVA using the tree from Figure 5 as an estimate of the phylogeny. Shaded branches above show simplified reconstructions of the ancestral distributions for each of the nodes that they precede (where area reconstructions are ambiguous, the more inclusive/widespread solution is accepted). See the text for details of the area units.
Figure 5 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figure 5. Estimate of phylogeny for all 11 Subterraneobombus species by Bayesian analysis of the total evidence of 658 CO1 nucleotides (Fig. 2), reduced to a single consensus sequence for each species, in combination with the 27 morphological characters for the species (Fig. 4), from a consensus of 18 002 sample trees after burn-in. The out-group (Bombus haemorrhoidalis, not shown) was chosen using the results of Cameron et al. (2007). Values next to the nodes are Bayesian posterior probabilities (see Fig. 2). The scale bar represents 0.02 expected changes per nucleotide site or character.
Figure 2 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figure 2. Estimate of phylogeny for 212 samples of all 11 Subterraneobombus species by Bayesian analysis of CO1 barcode data (frame length 658 nucleotides, sequence data available from BOLD, specimen data available from the DB#) from a consensus of 36 002 sample trees after burn-in. The out-group (Bombus haemorrhoidalis) was chosen using the results of Cameron et al. (2007). The codes following the taxon names are the four-figure specimen identifiers (DB#), or longer IDs from BOLD, with country abbreviations: BUL, Bulgaria; CAN, Canada; CHN, China; FRA, France; IND, India; IRN, Iran; KAZ, Kazakhstan; KYR, Kyrgyzstan; MON, Mongolia; NEP, Nepal; NZL, New Zealand; POL, Poland; RUS, Russia; SWE, Sweden; SYR, Syria; THA, Thailand; TUR, Turkey; UKB, Britain; USA, United States of America. Values next to the nodes are Bayesian posterior probabilities for groups (groups with values of less than 0.9 are considered unreliable); values of less than 0.5 within species have been removed. Asterisks mark individuals from sites closest to the type localities of the primary types for each of the species names, which were regarded as informal proxies for types when applying names within this analysis. The scale bar represents 0.3 expected substitutions per nucleotide site.
Figure 1 in The bumblebees of the subgenus Subterraneobombus: integrating evidence from morphology and DNA barcodes (Hymenoptera, Apidae, Bombus)
Figure 1. Estimate of phylogeny for eight of the 11 Subterraneobombus species (vouchers identified by PW) by Bayesian analysis of five genes (opsin, EF-1a, arginine kinase, PEPCK, and 16S) from Cameron et al. (2007), with divergence times estimated by Hines (2008) (the time scale is in millions of years before the present; values next to the nodes are Bayesian posterior probabilities/parsimony bootstrap values). Redrawn from Hines (2008).
Figure 2 in Not just cryptic, but a barcode bush: PTP re-analysis of global data for the bumblebee subgenus Bombus s. str. supports additional species (Apidae, genus Bombus)
Figure 2. Estimate of phylogeny from MrBayes for the fast-evolving COI gene of Bombus s. str. as a metric tree from the longest examples of sampled unique COI-barcode haplotypes (from data for 559 sequences from Williams, Brown, et al. 2012), combined with the Bayesian Poisson-tree-process (PTP) solution with spots showing the nodes with the highest support for coalescents of candidate species by maximum likelihood (outgroup B. vagans not shown). Values above the nodes are MrBayes Bayesian posterior probabilities, showing branch support for groups; values below the nodes are PTP maximum-likelihood support values that all daughter haplotypes are parts of a single species. The scale bar is calibrated in substitutions per nucleotide site. Each sample sequence is labelled with: the sequence length in number of nucleotides; a taxon name, often referring to a particular colour pattern; a code that consists of a specimen identifier from the project database and a sequence identifier; followed with its geographic origin. Lineages with high probabilities of representing one or more candidate species in the PTP results are shown with thick lines and the most recent common ancestor of each candidate species (the species' coalescent) is shown with a black spot. The branches within the candidate species are shown with thin lines.
Figure 1 in Not just cryptic, but a barcode bush: PTP re-analysis of global data for the bumblebee subgenus Bombus s. str. supports additional species (Apidae, genus Bombus)
Figure 1. Global distribution of sample sites for the samples of the subgenus Bombus s. str. with the 559 COI-barcode sequences from Williams, Brown, et al. (2012) that are re-analysed here (these bumblebees are not indigenous to sub-Saharan Africa, the Arabian peninsula, lowland India, Southeast Asia, Australia, or Central and South America). Spots are coloured to show the site elevation (scale in metres a.s.l. at left). Cartesian orthonormal projection, north at the top of the map.
Lepidoptera caterpillars barcodes in FASTA format
<p>The dataset contains COI barcodes of Lepidoptera caterpillars collected from a subtropical forest in Jiangxi, China.</p>
FIGURES 8–11. Lasioseius foliatisetus n in A new species of Lasioseius (Acari: Blattisociidae) from Brazil with morphological and DNA barcode data
FIGURES 8–11. Lasioseius foliatisetus n. sp., adult female. 8. Ventral idiosoma; 9. Tritosternum; 10. Part of peritreme; 11. Spermathecal apparatus.
FIGURES 5–7. Lasioseius foliatisetus n in A new species of Lasioseius (Acari: Blattisociidae) from Brazil with morphological and DNA barcode data
FIGURES 5–7. Lasioseius foliatisetus n. sp., adult female. 5. Dorsal idiosoma; 6. Seta Z4; 7. Seta R1.
FIGURES 1–4. Lasioseius foliatisetus n in A new species of Lasioseius (Acari: Blattisociidae) from Brazil with morphological and DNA barcode data
FIGURES 1–4. Lasioseius foliatisetus n. sp., adult female. 1. Lateral (antiaxial) view of chelicera; 2. Palp; 3. Epistome; 4. Hypostome.
FIGURE 17 in A new species of Lasioseius (Acari: Blattisociidae) from Brazil with morphological and DNA barcode data
FIGURE 17. Maximum Likelihood analysis showing position of the Lasioseius foliatisetus n. sp. and its relationships with other Mesostigmata species based on sequences of the CytB gene. Numbers above the branches indicate bootstrap values based on 1000 replications
FIGURE 18 in A new species of Lasioseius (Acari: Blattisociidae) from Brazil with morphological and DNA barcode data
FIGURE 18. Maximum Likelihood analysis showing position of the Lasioseius foliatisetus n. sp. and its relationships with other Mesostigmata species based on sequences of the 28S 1–3 domain gene. Numbers above the branches indicate bootstrap values based on 1000 replications
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.