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opencc-by-4.0Mar 2017View details →

Raw data used for COI delineation of the Eupolybothrus species: Authors: Stoev et al. 2013 Data type: genomic The archive contains the following data: 1) fasta-Alignment as the basis for all analyses (.FASTA), 2) mega-file for the calculation of the genetic distances and the NJ tree (.MDSX), 3) NJ-tree in Newick format (.NWK), 4) graph of the TCS Software for the Statistical Parsimony method (.GRAPH) File: E_cavernicolus.rar from: Eupolybothrus cavernicolus Komerički & Stoev sp. n. (Chilopoda: Lithobiomorpha: Lithobiidae): the first eukaryotic species description combining transcriptomic, DNA barcoding and micro-CT imaging data - Biodiversity Data Journal 1: e1013 (28 October 2013) https://doi.org/10.3897/BDJ.1.e1013

Authors: Stoev et al. 2013 Data type: genomic The archive contains the following data: 1) fasta-Alignment as the basis for all analyses (.FASTA), 2) mega-file for the calculation of the genetic distances and the NJ tree (.MDSX), 3) NJ-tree in Newick format (.NWK), 4) graph of the TCS Software for the Statistical Parsimony method (.GRAPH) File: E_cavernicolus.rar

Fig. 36 in COI mtDNA barcoding and morphology for the description of a new species of ricinuleid of the genus Pseudocellus (Arachnida: Ricinulei: Ricinoididae) from El Triunfo Biosphere Reserve, Chiapas, Mexico

Fig. 36. Species of the genus Pseudocellus Platnick, 1980 described from Chiapas, Mexico, including the new species described herein. Star: El Triunfo Biosphere Reserve, El Quetzal Camp, Angel Albino Corzo Municipality. Red circle: Cerro Boquerón, Ejido Boquerón, Motozintla Municipality. Orange circle: Sumidero del Camino, 16 km NE of Comitán. Pink circle: Kolem-chen Cave "Cueva Grande", Chan-kin Reserve, Ocosingo Municipality. Blue circle: San Francisco Cave, La Trinitaria Municipality. Purple circle: Finca Guatimoc, south slope of the Tacaná volcano, 32 km north of Tapachula, near Cacahuatán. Green circle: Las Abejas Cave, San Fernando Municipality.

Fig. 1 in COI mtDNA barcoding and morphology for the description of a new species of ricinuleid of the genus Pseudocellus (Arachnida: Ricinulei: Ricinoididae) from El Triunfo Biosphere Reserve, Chiapas, Mexico

Fig. 1. Neighbour-Joining (NJ) tree with p-distances constructed with COI barcode sequences from different specimens and species of Pseudocellus Platnick, 1980. Colors of the branches indicate species of Pseudocellus already described, red branches indicate the new species. Numbers on the branches represent Bootstrap support values (>50% significant).

Figs 32–35 in COI mtDNA barcoding and morphology for the description of a new species of ricinuleid of the genus Pseudocellus (Arachnida: Ricinulei: Ricinoididae) from El Triunfo Biosphere Reserve, Chiapas, Mexico

Figs 32–35. Pseudocellus giribeti sp. nov. Paratypes (MCZ 80010). 32–33. Deutonymph, habitus, dorsal and ventral views. 34–35. Tritonymph, habitus, dorsal and ventral views. Scale bars = 2 mm.

Figs 20–26 in COI mtDNA barcoding and morphology for the description of a new species of ricinuleid of the genus Pseudocellus (Arachnida: Ricinulei: Ricinoididae) from El Triunfo Biosphere Reserve, Chiapas, Mexico

Figs 20–26. Pseudocellus giribeti sp. nov. Holotype, ♂ (MCZ 80010). 20–22. Right leg III (copulatory apparatus), retrolateral, prolateral and dorsal views. 23. Copulatory apparatus extended, prolateral view. 24. Copulatory apparatus, dorsal view. 25. Copulatory apparatus, prolateral view. 26. Tarsal process, distal half, prodorsal view. Scale bars: 20–22 = 0.5 mm; 23–25 = 0.2 mm; 26 = 0.1 mm.

Figs 7–10 in COI mtDNA barcoding and morphology for the description of a new species of ricinuleid of the genus Pseudocellus (Arachnida: Ricinulei: Ricinoididae) from El Triunfo Biosphere Reserve, Chiapas, Mexico

Figs 7–10. Pseudocellus giribeti sp. nov. Holotype, ♂ (MCZ 80010). 7–8. Opisthosoma, dorsal and ventral views. 9. Tergite XI, median plate (arrow indicates the lateral depression). 10. Pygidium, posterior view. Scale bars: 7–8 = 1 mm; 9 = 0.5 mm; 10 = 0.2 mm.

Figs 3–6 in COI mtDNA barcoding and morphology for the description of a new species of ricinuleid of the genus Pseudocellus (Arachnida: Ricinulei: Ricinoididae) from El Triunfo Biosphere Reserve, Chiapas, Mexico

Figs 3–6. Pseudocellus giribeti sp. nov. Holotype, ♂ (MCZ 80010). 3–4. Habitus, dorsal and ventral views. 5. Carapace, dorsal view. 6. Prosoma, ventral view, showing coxosternal region. Scale bars: 3–4 = 2 mm; 5–6 = 0.5 mm.

opencc-by-4.0Sep 2019View details →

Fig. 3 in Application Of Dna Barcoding In Taxonomy And Phylogeny: An Individual Case Of Coi Partial Gene Sequencing From Seven Animal Species

Fig. 3. Phylogenetic position of Macrobiotus sp., Bayesian inference phylogenetic tree. Sequences obtained by us are written in bold.

opencc-by-4.0Sep 2019View details →

Fig. 1 in Application Of Dna Barcoding In Taxonomy And Phylogeny: An Individual Case Of Coi Partial Gene Sequencing From Seven Animal Species

Fig. 1. Phylogenetic position of D. lindholmi and L. a. exigua, Bayesian inference phylogenetic tree. Sequences obtained by us are written in bold.

opencc-by-4.0Jul 2022View details →

Supplemental files to "A COI DNA Barcode Library for Anastrepha Schiner (Diptera: Tephritidae)"

The attached files are the supplemental material from Moore et al., "A COI DNA Barcode Library for Anastrepha Schiner (Diptera: Tephritidae)". They contain various DNA sequence alignments, calculation tables, tree files, taxonomic information on Anastrepha, and a R script.

Fig. 5 in Same information, new applications: revisiting primers for the avian COI gene and improving DNA barcoding identification

Fig. 5 Percentage of template sequences coverage of the primer subsets analyzed on the second evaluation round. The red dashed line represents the complete coverage of the analyzed template sequences

Fig. 4 Primers binding position distributed along the 1,500 in Same information, new applications: revisiting primers for the avian COI gene and improving DNA barcoding identification

Fig. 4 Primers binding position distributed along the 1,500 bp of the avian COI gene. A Binding position of forward primers. B Binding position of reverse primers

Fig. 3 in Same information, new applications: revisiting primers for the avian COI gene and improving DNA barcoding identification

Fig. 3 Effect of the number of allowed primer-template mismatches on primer binding. Y-axis = number of primers with at least one binding event on every scenario of allowed mismatches (X-axis)

Fig. 1 Retrieved data distribution. A in Same information, new applications: revisiting primers for the avian COI gene and improving DNA barcoding identification

Fig. 1 Retrieved data distribution. A Distribution of published primers for the barcode region of the avian COI gene throughout the years. B Number of complete COI sequences available for each bird order

Fig. 2 in Same information, new applications: revisiting primers for the avian COI gene and improving DNA barcoding identification

Fig. 2 Variation on the number of primers bound to the template sequences of each bird order. The dots represent data outliers

opencc-zeroJan 2024View details →

Wing geometric morphometrics and COI barcoding of Culex pipiens subgroup in the Republic of Korea

Two members of the Culex pipiens subgroup, Culex pallens and Culex pipiens f. molestus, are known to occur in the Republic of Korea (ROK). These species exhibit morphologically similar features and are challenging to distinguish below the species level. Therefore, this study utilized wing geometric morphometrics (GM) on the right wing of the Culex pipiens subgroup, alongside sequencing of the cytochrome c oxidase subunit I (COI) region. Mosquitoes were collected from 11 locations between June and October to minimize regional and seasonal variations. Additionally, Culex pipiens f. pipiens, which is not native to the ROK, was included in the analysis. Culex tritaeniorhynchus, Aedes albopictus, and Anopheles sinensis, the primary vectors in the ROK, were used as outgroups for comparison. All three taxa within the Culex pipiens subgroup could be identified with an 82.4%–97.0% accuracy using GM. However, a comparison of the COI regions of the Culex pipiens subgroup revealed no clear differences between the taxa. These data can be used for accurate identification, contributing to effective mosquito control, in addition to providing a foundation for evolutionary and ecological studies on wing shape differences.

opencc-zeroSep 2023View details →

COI Barcode sequences for arthropod species from the high Appalachian Mountains, USA

Developing systematic conservation plans depends on a wealth of information on a region's biodiversity. For 'dark taxa' such as arthropods, such data is usually very incomplete and in most cases left out from assessments. Sky islands are important and often fragile biodiversity hotspots. Southern Appalachian high-elevation spruce-fir forests represent a particularly threatened sky-island ecosystem, hosting numerous endemic and threatened species, but their arthropods remain understudied. Here we use voucher-based megabarcoding to explore genetic differentiation among leaf-litter arthropod communities of these highlands, and to examine the extent to which they represent dispersed communities of more or less coherent species, manageable as a distributed unit. We assembled a dataset comprising >6000 COI sequences representing diverse arthropod groups to assess species richness and sharing across peaks and ranges. Comparisons were standardized across taxa using automated species delimitation, measuring endemism levels by putative species. Species-richness was high, with sites hosting from 86-199 litter arthropod species (not including mites or myriapods). Community profiles suggest that around one-fourth of these species are unique to single sky islands and more than one-third of all species are limited to a particular range. Across major taxa, endemicity was lowest in Araneae, and highest in neglected groups like Isopoda, Pseudoscorpionida, Protura, and Diplura. Southern Appalachian sky islands of spruce-fir habitat host significantly distinct leaf litter arthropod communities, with high levels of local endemicity. This is the first work to provide such a clear picture of peak and range uniqueness for a taxonomically broad sample. Ensuring the protection of a sizeable fraction of high-elevation litter species richness will therefore require attention at a relatively fine spatial scale.

publicJan 2024View details →

Wing geometric morphometrics and COI barcoding of Culex pipiens subgroup in the Republic of Korea

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publicSep 2025View details →

Multiple full-length variants of the Mitochondrial COI DNA Barcode Region are prevalent in North European Sawflies

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