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4,144 results for “ITS barcode”
Data from: Known knowns, known unknowns, unknown unknowns and unknown knowns in DNA barcoding: a comment on Dowton et al.
In a recent commentary, Dowton et al. (2014) propose a framework for "next-generation" DNA barcoding, whereby multi-locus datasets are coupled with coalescent-based species delimitation methods to make specimen identifications. They claim single-locus DNA barcoding is outdated, and a multilocus approach superior, with their assertions supported by an analysis of 33 species of Sarcophaga flesh flies. Here, we reanalyse their data and show that a standard DNA barcode analysis is in fact capable of identifying 99.8% (all but one) of their Sarcophaga specimens, and that their conclusions misrepresent their data. We also discuss the benefits and drawbacks to their vision of "next-gen" barcoding.
Data from: COI is better than 16S rRNA for DNA barcoding Asiatic salamanders (Amphibia: Caudata: Hynobiidae)
The 5' region of the mitochondrial DNA (mtDNA) gene cytochrome c oxidase I (COI) is the standard marker for DNA barcoding. However, because COI tends to be highly variable in amphibians, sequencing is often challenging. Consequently, another mtDNA gene, 16S rRNA gene, is often advocated for amphibian barcoding. Herein, we directly compare the usefulness of COI and 16S in discriminating species of hynobiid salamanders using 130 individuals. Species identification and classification of these animals, which are endemic to Asia, is often based on morphology only. Analysis of Kimura 2-parameter genetic distances (K2P) documents the mean intraspecific variation for COI and 16S rRNA genes to be 1.4% and 0.3%, respectively. Whereas COI can always identify species, sometimes 16S cannot. Intra- and interspecific genetic divergences occasionally overlap in both markers thus reducing the value of a barcoding gap to identify genera. Regardless, COI is the better DNA barcoding marker for hynobiids. In addition to the comparison of two potential markers, high levels of intraspecific divergence in COI (>5%) suggest that both Onychodactylus fischeri and Salamandrella keyserlingii might be composites of cryptic species.
FIGURE 3 in Use of DNA barcoding to distinguish the malaria vector An opheles neivai in Colombia
FIGURE 3. DNA barcode threshold optimization for An. neivai.
FIGURE 11 in DNA barcoding and morphological studies confirm the occurrence of three Atarbolana (Crustacea: Isopoda: Cirolanidae) species along the coastal zone of the Persian Gulf and Gulf of Oman
FIGURE 11. Atarbolana setosa, male, (ZMSU 1014); A–E, pleopods 1–5; F, penes.
FIGURE 9 in DNA barcoding and morphological studies confirm the occurrence of three Atarbolana (Crustacea: Isopoda: Cirolanidae) species along the coastal zone of the Persian Gulf and Gulf of Oman
FIGURE 9. Atarbolana setosa, male, (ZMSU 1014); A–D, pereopods 1– 4 respectively.
FIGURE 6 in DNA barcoding and morphological studies confirm the occurrence of three Atarbolana (Crustacea: Isopoda: Cirolanidae) species along the coastal zone of the Persian Gulf and Gulf of Oman
FIGURE 6. Atarbolana exoconta, male, (ZMSU 1010); A–E, pleopods 1–5; F, penes.
FIGURE 4 in DNA barcoding and morphological studies confirm the occurrence of three Atarbolana (Crustacea: Isopoda: Cirolanidae) species along the coastal zone of the Persian Gulf and Gulf of Oman
FIGURE 4. Atarbolana exoconta, male, (ZMSU 1010); A–D, pereopods 1–4 respectively.
FIGURE 1 in DNA barcoding and morphological studies confirm the occurrence of three Atarbolana (Crustacea: Isopoda: Cirolanidae) species along the coastal zone of the Persian Gulf and Gulf of Oman
FIGURE 1. Known geographical distribution of the three Atarbolana species.
FIGURES 2, 3. Wagnerinus frugivorus Yoshitake. 2. Dorsal habitus. 3 in A new Wagnerinus (Coleoptera: Curculionidae) from northern Japan: Description including a DNA barcode
FIGURES 2, 3. Wagnerinus frugivorus Yoshitake. 2. Dorsal habitus. 3. Lateral habitus.
FIGURE 6 in Glaucalges tytonis sp. n. (Analgoidea, Xolalgidae) from the barn owl Tyto alba (Strigiformes, Tytonidae): compiling morphology with DNA barcode data for taxon descriptions in mites (Acari)
FIGURE 6. Length of setae d2 and e2 in males of Glaucalges tytonis sp. n. and G. attenuatus.
FIGURE 4 in Glaucalges tytonis sp. n. (Analgoidea, Xolalgidae) from the barn owl Tyto alba (Strigiformes, Tytonidae): compiling morphology with DNA barcode data for taxon descriptions in mites (Acari)
FIGURE 4. Epigynum and oviporus in female Glaucalges tytonis sp. n. GA—genital acetabula.
FIGURE 12 in Revision of the Australian Oenochroma vinaria Guenée, 1858 species-complex (Lepidoptera: Geometridae, Oenochrominae): DNA barcoding reveals cryptic diversity and assesses status of type specimen without dissection
FIGURE 12. Egg of Oenochroma barcodificata. sp. nov. freshly laid egg, scale bar 1 mm. (photo CY)
FIGURE 19 in Taxonomic decision as a compromise: Acasis appensata (Eversmann, 1832) in Central Italy—a case of conflicting evidence between DNA barcode and morphology (Lepidoptera: Geometridae)
FIGURE 19. Type-locality of A. appensata callaina ssp. nov. (Monte Terminillo, Abruzzi, Italy).
FIGURE 1 in Monophyly, review, six new species and DNA barcode of micropterous Afromontane Afropictinus (Heteroptera: Aradidae)
FIGURE 1. Distribution of species of Afropictinus in East Africa.
FIGURE 11 in DNA barcodes reveal that the widespread European tortricid moth Phalonidia manniana (Lepidoptera: Tortricidae) is a mixture of two species
FIGURE 11. Larval gallery and larva of Phalonidia udana in stem of Lysimachia thyrsiflora.
FIGURE 7 in Oziella sibirica (Acari: Eriophyoidea: Phytoptidae), a new eriophyoid mite species described using confocal microscopy, COI barcoding and 3 D surface reconstruction
FIGURE 7. Variation found in the internal genitalia of Oziella sibirica sp. nov. specimens.
FIGURE 1 in A new feather mite species of the genus Proctophyllodes Robin, 1877 (Astigmata: Proctophyllodidae) from the Long-tailed Tit Aegithalos caudatus (Passeriformes: Aegithalidae) — morphological description with DNA barcode data
FIGURE 1. Proctophyllodes valchukae sp. n., male. A—dorsal view, B—ventral view.
FIGURE 3 in A new feather mite species of the genus Proctophyllodes Robin, 1877 (Astigmata: Proctophyllodidae) from the Long-tailed Tit Aegithalos caudatus (Passeriformes: Aegithalidae) — morphological description with DNA barcode data
FIGURE 3. Proctophyllodes valchukae sp. n., female. A—dorsal view, B— ventral view.
FIGURE 2 in Rediscovery of Sagittalarva inornata n. gen., n. comb. (Gilbert, 1890) (Perciformes: Labridae), a long-lost deepwater fish from the eastern Pacific Ocean: a case study of a forensic approach to taxonomy using DNA barcoding
FIGURE 2. Upper jaw of Pseudojuloides severnsi showing spatulate incisiform teeth behind canine.
FIGURE 6 in Rediscovery of Sagittalarva inornata n. gen., n. comb. (Gilbert, 1890) (Perciformes: Labridae), a long-lost deepwater fish from the eastern Pacific Ocean: a case study of a forensic approach to taxonomy using DNA barcoding
FIGURE 6. Upper lip flap on male Sagittalarva inornata, 136 mm SL, SIO 07-94.
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International Brain Laboratory public data
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OpenNeuro
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