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.
821
datasets available to search
ShareScore release 0.9.0
Dataset results
821 results for “Molecular Systematics”
FIGURE 4 in Molecular systematics of Serrasalmidae: Deciphering the identities of piranha species and unraveling their evolutionary histories
FIGURE 4. Map of northern South America showing collection sites of Serrasalmus manueli (triangles), S. gouldingi (circles), and Serrasalmus sp. "A" (diamond). Symbols may represent more than one collecting locality. Solid red symbols represent capture sites for material used in present genetic study (Maps A and B); numbers pertain to individual specimens, S. manueli (1-10), S. gouldingi (11-16), and Serrasalmus sp. "A" (17) (see Table 1). Hollow symbols on Map A are based on museum records and published information (specimen identities and capture localities were not verified for all records). Stars represent type localities for S. manueli (Pr, Rio Parguaza) and S. gouldingi (lower Rio Negro). Principal rivers: A, Amazon; B, Branco; C, Casiquiare; G-N, Guainia-Negro; J, Japurá; N, Negro; R, Orinoco; and S-A, Solimões. Other rivers: Ar, Arirará; Ca, Capanaparo; Ci, Cinaruco; Cu, Cunucunuma; Cv, Cuchiverio; D, Daraá; G, Guaypo-Sipapo; P, Pasimoni; Pr, Parguaza; Sb, San Bartolo (Guariquito system); Si, Siapa; T, Atabapo-Atacavi; and V, Ventuari.
PLATE 7 in Molecular systematics of Serrasalmidae: Deciphering the identities of piranha species and unraveling their evolutionary histories
PLATE 7. Piaractus brachypomus (33) (Photograph provided by Robert Lea). (No photograph or voucher available for specimen 32.)
FIGURE 8 in Molecular systematics of Serrasalmidae: Deciphering the identities of piranha species and unraveling their evolutionary histories
FIGURE 8. Phylogram of combined ribosomal and control region sequences. Analysis includes specimens appearing in bold font in Figure 7. Proportion of trees from posterior distribution possessing a given clade below branch, parsimony bootstrap proportions (>50%) above branch. Specimen sequences from original material appear in shadow boxes, associated number in parentheses (1–33) correspond to numbered specimens and information presented in Table 1 and elsewhere. GenBank sequences are followed by gb. Arrow marks branches with lengths that were not significantly different from zero. GenBank (gb) species with asterisk (*) indicate taxa of which we question the identification.
PLATE 4 in Molecular systematics of Serrasalmidae: Deciphering the identities of piranha species and unraveling their evolutionary histories
PLATE 4. Serrasalmus medinai (20) and S. irritans (21–23). (Photograph of live 20-S. medinai by Noel Burkhead.)
PLATE 3 in Molecular systematics of Serrasalmidae: Deciphering the identities of piranha species and unraveling their evolutionary histories
PLATE 3. Serrasalmus gouldingi (16), Serrasalmus sp. A (17), and S. medinai (18–19). Images of Serrasalmus sp. "A" are of specimen 17 (originally captured in 1991) at different ages, including the same fish live in captivity photographed in 1993 (as juvenile about 2+ years old), 2006, and after preservation in 2007.
FIGURE 2. A in A Molecular Systematic Analysis of Passiflora ovalis and Passiflora contracta (Passifloraceae)
FIGURE 2. A Bayesian phylogenetic tree inferred from an alignment of concatenated markers. The posterior probabilities (PP>0.5) were plotted above the branches.
FIGURE 1. Collection sites and latitudinal groups for P in A Molecular Systematic Analysis of Passiflora ovalis and Passiflora contracta (Passifloraceae)
FIGURE 1. Collection sites and latitudinal groups for P. ovalis (sensu Cervi 2006) samples. The different symbols correspond to the collection sites as in the figure legends. The geographical distribution of P. ovalis 1 (7– 19°S) and P. ovalis 2 (23°S) (sensu Cervi 2006) are indicated with dashed and solid lines, respectively.
FIGURE 4 in Molecular systematics of terraranas (Anura: Brachycephaloidea) with an assessment of the effects of alignment and optimality criteria
FIGURE 4. Tree-alignment + parsimony: strict consensus of 536 most parsimonious trees of 94413 steps showing relationships among 430 terminals of Brachycephaloidea and 25 outgroup taxa. Dashed branches indicate clades that collapse due to the wildcard Eleutherodactylus dilatus. Numbers above branches are Goodman-Bremer values excluding E. dilatus and those below branches are jackknife percentages excluding (upper) and including (lower) E. dilatus. Linnaean taxa follow previous studies except when otherwise indicated. Non-monophyletic taxa are highlighted in red (monophyletic taxa within paraphyletic groups remain in black).
FIGURE 12 in Molecular systematics of terraranas (Anura: Brachycephaloidea) with an assessment of the effects of alignment and optimality criteria
FIGURE 12. Similarity-alignment + parsimony: strict consensus of 205 most parsimonious trees of 105810 steps for a dataset of 17233 aligned sites of mitochondrial and nuclear DNA showing relationships among 430 terminals of Brachycephaloidea and 25 outgroup taxa. Dashed branches indicate clades that collapse due to the wildcard Eleutherodactylus dilatus. Numbers above branches are Goodman-Bremer values excluding E. dilatus and those below branches are jackknife percentages excluding (upper) and including (lower) E. dilatus; jackknife values reported as a dash (-) were recovered in <5 pseudoreplicates. Non-monophyletic taxa of other authors or differing from the results of our similarity-alignment + parsimony are highlighted in red (monophyletic taxa within paraphyletic groups remain in black).
FIGURE 8 in Molecular systematics of terraranas (Anura: Brachycephaloidea) with an assessment of the effects of alignment and optimality criteria
FIGURE 8. Relationships among families and subfamilies of Brachycephaloidea recognized by Hedges et al. (2008a): (A) similarity-alignment + maximum likelihood of analysis 3 of Hedges et al. (2008a); (B) similarity-alignment + maximum likelihood of the 17-gene analysis of Heinicke et al. (2009); (C) similarity-alignment + maximum likelihood of total evidence analysis of Pyron & Wiens (2011); (D) tree-alignment + parsimony, this study; (E) similarity-alignment + parsimony, this study; (F) similarity-alignment + maximum likelihood, this study. Non-monophyletic taxa are highlighted in red.
Figure 2 in Molecular phylogeny of Acanthochitonina (Mollusca: Polyplacophora: Chitonida): three new mitochondrial genomes, rearranged gene orders and systematics
Figure 2. Molecular phylogeny of Acanthochitonina. Majority-rule consensus tree from the Bayesian analysis of the multilocus nucleotide data set, which includes three mitochondrial and two nuclear markers. Additional phylogenetic results are available in the Supplemental File 2. Note the proposed taxonomic arrangements shown by vertical lines. Numbers at nodes are support values from posterior probabilities and maximum likelihood bootstrap proportions, respectively. Scale bar is in substitutions per site.
Figure 1 in Molecular phylogeny of Acanthochitonina (Mollusca: Polyplacophora: Chitonida): three new mitochondrial genomes, rearranged gene orders and systematics
Figure 1. Phylogenetic relationships and gene arrangements of available chiton mitochondrial genomes. Majority-rule consensus tree from the Bayesian analysis of the mitochondrial genome nucleotide data set (outgroup taxa is omitted for simplicity). Identical topologies were recovered from all other analyses of mitochondrial genome data sets (see main text). Numbers at nodes are posterior probabilities and maximum likelihood bootstrap proportions, respectively. Scale bar is in substitutions per site. Mitochondrial gene orders of Haliotis rubra (Gastropoda), Octopus vulgaris (Cephalopoda) and Solemya velum (Bivalvia) are shown for comparison. Genes encoded by the minus strand are underlined; rearranged genes are highlighted in red (translocations) and green (changes of coding strands).
FIGURE 2 in Molecular systematics of the armored neotropical catfish subfamily Neoplecostominae (Siluriformes: Loricariidae)
FIGURE 2. Majority rule consensus tree obtained in Bayesian analysis. Numbers below branches are posterior probabilities obtained from 45,000 trees. Numbers above branches are bootstrap values from 1,000 bootstrap pseudoreplicates obtained in maximum-parsimony analysis. Values below 50% are not shown.
FIGURE 1 in Molecular systematics of the armored neotropical catfish subfamily Neoplecostominae (Siluriformes: Loricariidae)
FIGURE 1. Geographical distribution of Neoplecostominae samples used in the phylogenetic analysis from southeastern Brazil.
Figure 3 in Phylogeny, phylogeography, and systematics of the American pea crab genus Calyptraeotheres Campos, 1990, inferred from molecular markers
Figure 3. Histogram of Kimura two-parameter genetic distances for (A) the cytochrome oxidase I and (B) the large ribosomal subunit (16S) data sets. Species and number of specimens used for intraspecific and interspecific distance calculations are detailed in Table 1.
Figure 4. A in Phylogeny, phylogeography, and systematics of the American pea crab genus Calyptraeotheres Campos, 1990, inferred from molecular markers
Figure 4. A, median-joining haplotype network for cytochrome oxidase I (COI) mtDNA sequences of Calyptraeotheres garthi, including some samples of Calyptraeotheres hernandezi and Calyptraeotheres politus. Area of the circles is proportional to the number of individuals of each haplotype found. White dots represent missing, probably unsampled, haplotypes or extinct lineages. Lines between circles represent additional mutational steps. B, mismatch distributions of C. garthi. Solid lines indicate the observed distribution, and dashed lines indicate the expected distribution. C, Bayesian skyline plot based on COI sequences of C. garthi showing change in population size through time. The y-axis is the product of effective population size (Ne) and generation length (t) on a log scale. The heavy solid line is the median estimated under the assumption of a per site mutation rate of 1.66% million years-1, and the dotted lines indicate 95% highest posterior density regions. Abbreviations: ARI, Arica; CAR, Caraguatatuba; ICU, Isla Cubagua; MDP, Mar del Plata; PMO, Puerto Montt; RIA, Ría de San António; SCL, San Clemente; SOT, El Sótano.
Figure 1 in Phylogeny, phylogeography, and systematics of the American pea crab genus Calyptraeotheres Campos, 1990, inferred from molecular markers
Figure 1. Distribution of species of Calyptraeotheres in the Americas (dark grey) with collection sites (black stars). Abbreviations: ARI, Arica; CAR, Caraguatatuba; ICO, Ilha Comprida; ICU, Isla Cubagua; IPR, Ilha Prumirim; MDP, Mar del Plata; PMO, Puerto Montt; RIA, Ría de San António; SCL, San Clemente; SOT, El Sótano.
Figure 2 in Phylogeny, phylogeography, and systematics of the American pea crab genus Calyptraeotheres Campos, 1990, inferred from molecular markers
Figure 2. Bayesian (BAY) tree for Calyptraeotheres species, Tumidotheres maculatus, Dissodactylus crinitichelis, and selected outgroups (Austinixa aidae and Austinixa patagoniensis) based on the cytochrome oxidase I (COI) and large ribosomal subunit (16S) concatenated data set. Values represent bootstrap and Bayesian posterior probabilities (maximum likelihood/maximum parsimony/BAY) expressed as percentages. Values ³ 50% are not shown. The Calyptraeotheres subdivision proposed by Hernández-Ávila & Campos (2006) is highlighted in grey.
FIGURE 3 in The Cause and Effect of Polarization: Thoughts on the "Morphological vs. Molecular Debate" in Systematics, with Examples from the Study of Sturgeons (Actinopterygii: Acipenseridae)
FIGURE 3. Alternative reconstruction for the recovered morphological hypothesis based on a matrix of 62 characters. Nodes in common between the morphological and molecular character matrices are numbered the same and are denoted with an asterisk.
FIGURE 4 in The Cause and Effect of Polarization: Thoughts on the "Morphological vs. Molecular Debate" in Systematics, with Examples from the Study of Sturgeons (Actinopterygii: Acipenseridae)
FIGURE 4. One of three reconstructed molecular topologies based on the mitochondrial Cytochrome b gene. Nodes in common between the morphological and molecular character matrices are numbered the same and are denoted with an asterisk.
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.