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404 results for “DNA taxonomy”
Linked collectors and determiners for: Taxonomy of Diamesa steinboecki group (Diptera: Chironomidae: Diamesinae) with description and DNA barcoding of new species. I. Subgroups steinboecki and longipes.
Natural history specimen data linked to collectors and determiners held within, "Taxonomy of Diamesa steinboecki group (Diptera: Chironomidae: Diamesinae) with description and DNA barcoding of new species. I. Subgroups steinboecki and longipes". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/6a677d3b-0f91-4f11-8cf2-64f4ad2a47d2">https://bionomia.net/dataset/6a677d3b-0f91-4f11-8cf2-64f4ad2a47d2</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/6a677d3b-0f91-4f11-8cf2-64f4ad2a47d2">https://gbif.org/dataset/6a677d3b-0f91-4f11-8cf2-64f4ad2a47d2</a>. Formatted as a Frictionless Data package.
Fig. 3 in Combining morphology and DNA barcoding resolves the taxonomy of Western Malagasy Liotrigona Moure, 1961 (Hymenoptera: Apidae: Meliponini)
Fig. 3. Frontal view of the heads of all four Western Malagasy Liotrigona species to the same scale (unit = 0.1 mm): (A) L. mahafalya, (B) L. madecassa, (C) L. kinzelbachi, (D) L. bitika.
Fig. 2 in Combining morphology and DNA barcoding resolves the taxonomy of Western Malagasy Liotrigona Moure, 1961 (Hymenoptera: Apidae: Meliponini)
Fig. 2. Midpoint-rooted maximum likelihood tree for all COI sequences; values on branches indicate bootstrap support values (500 replicates) for Maximum Likelihood/Neighbour Joining/Maximum Parsimony analysis; tip labels include Genbank accession numbers.
Fig. 1 in Combining morphology and DNA barcoding resolves the taxonomy of Western Malagasy Liotrigona Moure, 1961 (Hymenoptera: Apidae: Meliponini)
Fig. 1. First two Principal Components for morphological measurements of all examined individuals and correspondence to genetic clusters in Fig. 2.
Figure 37 in DNA Barcoding and Integrative Taxonomy of the Heterolepisma sclerophylla species complex (Zygentoma: Lepismatidae: Heterolepismatinae) and the Description of Two New Species
Figure 37. Heterolepisma cooloola sp. nov. from leaf litter at Carlo Point.
Figure 1 in DNA Barcoding and Integrative Taxonomy of the Heterolepisma sclerophylla species complex (Zygentoma: Lepismatidae: Heterolepismatinae) and the Description of Two New Species
Figure 1. Collection localities.
Figure 6 in DNA Barcoding and Integrative Taxonomy of the Heterolepisma sclerophylla species complex (Zygentoma: Lepismatidae: Heterolepismatinae) and the Description of Two New Species
Figure 6. Heterolepisma coorongooba sp. nov. Glen Davis, NSW.
Supplementary Video: An End-to-End DNA Taxonomy Methodology for Benthic Biodiversity Survey in the Clarion-Clipperton Zone, Central Pacific Abyss
<p>Supplementary video for the article "<em>An End-to-End DNA Taxonomy Methodology for Benthic Biodiversity Survey in the Clarion-Clipperton Zone, Central Pacific Abyss</em>".</p>
Fig. 4 in Combining morphology and DNA barcoding resolves the taxonomy of Western Malagasy Liotrigona Moure, 1961 (Hymenoptera: Apidae: Meliponini)
Fig. 4. Holotype worker of Liotrigona kinzelbachi sp. n., lateral view. Scale unit = 0.1 mm.
FIGURE 2 in The disconnect between DNA and species names: lessons from reptile species in the NCBI taxonomy database
FIGURE 2. Growth of reptile species numbers in the Reptile Database and NCBI Taxonomy/ GenBank. "Genbank binomial species" are those that have a valid equivalent in the Reptile Database while GenBank all reptile "species" include all other unique names, even when their identity is not clear (or not reported to GenBank, see Table 1).
FIGURE 1 in The disconnect between DNA and species names: lessons from reptile species in the NCBI taxonomy database
FIGURE 1. Relationship between databases, such as the NCBI Taxonomy, the Reptile Database, and other taxonomic databases and data sources. Some of the resources shown are examples for other data resources not shown. Arrows indicate data flow or referencing (linking) between databases. For instance, iNaturalist uses names from the Reptile Database, with the latter linking back directly to iNaturalist species pages. Arrows to and from collections (and collection data aggregators such as VertNet) indicate cross-referencing of specimens, but not necessarily hyperlinks.
FIGURES 7–14 in Taxonomy of some Boreoheptagyiini Brundin (Diptera: Chironomidae Diamesinae) from the mountains of Central Asia and the Middle East, with description and DNA barcoding of new taxa
FIGURES 7–14. Palatovia lorestanica sp. nov., male. 7, hypopygium in dorsal view; 8, hypopygium in ventral view; 9, wing; 10, antenna; 11, head; 12, transverse sternapodema and aedeagal lobes; 13, thorax in lateral view; 14, gonostylus in ventral view.
FIGURES 1–6 in Taxonomy of some Boreoheptagyiini Brundin (Diptera: Chironomidae Diamesinae) from the mountains of Central Asia and the Middle East, with description and DNA barcoding of new taxa
FIGURES 1–6. Palatovia lorestanica sp. nov., male. 1, lobe of pronotum (straightened); 2, anterior part of mesonotum in dorsal view; 3, median volsella and aedeagal lobe in ventral view; 4, hypopygium in dorsal view; 5–6, subapical part of gonostylus. MVo—median volsella; Al—aedeagal lobe. Scale bars: Figs. 1, 4—100 μm; Fig. 2—200 μm; Figs. 3, 5–6—50 μm.
FIGURES 22–27 in Taxonomy of some Boreoheptagyiini Brundin (Diptera: Chironomidae Diamesinae) from the mountains of Central Asia and the Middle East, with description and DNA barcoding of new taxa
FIGURES 22–27. Boreoheptagyia joeli sp. nov. (22–26) and B. phoenicia Moubayed (27), males. 22, thorax in lateral view; 23–24, hypopygium in dorsal view; 25, antenna; 26, middle part of hypopygium without tergite IX; 27, gonostylus.
FIGURE 46 in Taxonomy of some Boreoheptagyiini Brundin (Diptera: Chironomidae Diamesinae) from the mountains of Central Asia and the Middle East, with description and DNA barcoding of new taxa
FIGURE 46. Bayesian tree based on mitochondrion COI gene for available members of the tribe Boreoheptagiini. Pagastia orientalis (Tshernovskij) (tribe Diamesini) was used as outgroup to root the tree. Bayesian posterior probabilities (PP) are given above tree nodes and bootstrap support values found in the ML analysis are shown below nodes. Specimens obtained in this study are in bold.
Data from: Untangling taxonomy: a DNA barcode reference library for Canadian spiders
Approximately 1460 species of spiders have been reported from Canada, 3% of the global fauna. This study provides a DNA barcode reference library for 1018 of these species based upon the analysis of more than 30 000 specimens. The sequence results show a clear barcode gap in most cases with a mean intraspecific divergence of 0.78% vs. a minimum nearest-neighbour (NN) distance averaging 7.85%. The sequences were assigned to 1359 Barcode index numbers (BINs) with 1344 of these BINs composed of specimens belonging to a single currently recognized species. There was a perfect correspondence between BIN membership and a known species in 795 cases, while another 197 species were assigned to two or more BINs (556 in total). A few other species (26) were involved in BIN merges or in a combination of merges and splits. There was only a weak relationship between the number of specimens analysed for a species and its BIN count. However, three species were clear outliers with their specimens being placed in 11–22 BINs. Although all BIN splits need further study to clarify the taxonomic status of the entities involved, DNA barcodes discriminated 98% of the 1018 species. The present survey conservatively revealed 16 species new to science, 52 species new to Canada and major range extensions for 426 species. However, if most BIN splits detected in this study reflect cryptic taxa, the true species count for Canadian spiders could be 30–50% higher than currently recognized.
Data from: Taxonomy, biogeography and DNA barcodes of Geodia species (Porifera, Demospongiae, Tetractinellida) in the Atlantic boreo-arctic region
Geodia species north of 60°N in the Atlantic appeared in the literature for the first time when Bowerbank described Geodia barretti and G. macandrewii in 1858 from western Norway. Since then, a number of species have been based on material from various parts of the region: G. simplex, Isops phlegraei, I. pallida, I. sphaeroides, Synops pyriformis, G. parva, G. normani, G. atlantica, Sidonops mesotriaena (now called G. hentscheli), and G. simplicissima. In addition to these 12 nominal species, four species described from elsewhere are claimed to have been identified in material from the northeast Atlantic, namely G. nodastrella and G. cydonium (and its synonyms Cydonium muelleri and Geodia gigas). In this paper, we revise the boreo-arctic Geodia species using morphological, molecular, and biogeographical data. We notably compare northwest and northeast Atlantic specimens. Biological data (reproduction, biochemistry, microbiology, epibionts) for each species are also reviewed. Our results show that there are six valid species of boreo-arctic Atlantic Geodia while other names are synonyms or mis-identifications. Geodia barretti, G. atlantica, G. macandrewii, and G. hentscheli are well established and widely distributed. The same goes for Geodia phlegraei, but this species shows a striking geographical and bathymetric variation, which led us to recognize two species, G. phlegraei and G. parva (here resurrected). Some Geodia are arctic species (G. hentscheli, G. parva), while others are typically boreal (G. atlantica, G. barretti, G. phlegraei, G. macandrewii). No morphological differences were found between specimens from the northeast and northwest Atlantic, except for G. parva. The Folmer cytochrome oxidase subunit I (COI) fragment is unique for every species and invariable over their whole distribution range, except for G. barretti which had two haplotypes. 18S is unique for four species but cannot discriminate G. phlegraei and G. parva. Two keys to the boreo-arctic Geodia are included, one based on external morphology, the other based on spicule morphology.
Data from: Integrative taxonomy at work: DNA barcoding of taeniids harbored by wild and domestic cats
In modern taxonomy, DNA barcoding is particularly useful where biometric parameters are difficult to determine or useless due to the poor quality of samples. These situations are frequent in parasitology. Here we present an integrated study, based on both DNA barcoding and morphological analysis, on cestodes belonging to the genus Taenia, for which biodiversity is still largely underestimated. In particular, we characterized cestodes from Italian wildcats (Felis silvestris silvestris), free-ranging domestic cats (F. s. catus) and their hybrids populations. Adult taeniids were collected by post-mortem examinations of the hosts, and morphologically identified as Taenia taeniaeformis. We produced the cox1 barcode sequences for all the analyzed specimens and we compared them with reference sequences of individuals belonging to the genus Taenia retrieved from GenBank. In order to evaluate the performance of a DNA barcoding approach to discriminate these parasites, the strength of correlation between species identification based on classical morphology-based approaches and the molecular divergence of cox1 sequences was measured. Our study provides clear evidence that DNA barcoding is highly efficient to reveal the presence of cryptic lineages within already described taeniid species. Indeed, we detected three well-defined molecular lineages within the whole panel of specimens morphologically identified as T. taeniaeformis. Two of these molecular groups were already identified by other authors and should be ranked at species level. The third molecular group encompasses only samples collected in Italy during this study, and it represents a third candidate species, still morphologically undescribed.
FIGURE 14 in Cytotaxonomy and DNA taxonomy of lizards (Squamata, Sauria) from a tropical dry forest in the Chamela-Cuixmala Biosphere Reserve on the coast of Jalisco, Mexico
FIGURE 14. Neighbour-Joining tree of 16S rDNA haplotypes (462 bp) of Aspidoscelis species. Bootstrap values (%) obtained by the NJ, ML and MP are shown. The substitution model selected for ML was the GTR model with rate variation among sites (+G), a proportion of invariable sites I = 0.4604 and a gamma distribution shape parameter of 0.4453. Asterisks indicate taxon with paraphyletic haplotypes.
FIGURE 9 in Cytotaxonomy and DNA taxonomy of lizards (Squamata, Sauria) from a tropical dry forest in the Chamela-Cuixmala Biosphere Reserve on the coast of Jalisco, Mexico
FIGURE 9. Karyotype of Norops nebulosus, male (2n=30). Note the three pairs of heteromorphic chromosomes (pairs 5, 6 and 7).
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International Brain Laboratory public data
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OpenNeuro
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