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85 results for “Barcoding analysis”
Data from: Comparison of diets for largemouth and smallmouth bass in Eastern Lake Ontario using DNA barcoding and stable isotope analysis
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Data from: Identification of Swedish mosquitoes based on molecular barcoding of the COI gene and SNP analysis
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Data for morphometric analysis and DNA barcode sequence for the new fish species Polymixia hollisterae
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Data from: Species diversity can be overestimated by a fixed empirical threshold: insights from DNA barcoding of the genus Cletus (Hemiptera: Coreidae) and the meta-analysis of COI data from previous phylogeographical studies
The use of genetic distances to identify species within the framework of DNA barcoding has to some extent improved the development of biodiversity studies. However, using a fixed empirical threshold to delimit species may lead to overestimating species diversity. In this study, we use a new data set of COI sequences for 366 specimens within the genus of Cletus as well as conduct an analysis on the same genetic data for collected morphologically defined species from previous phylogeographical studies, to test whether high intraspecific genetic divergences are common with the premises of comprehensive sampling. The results indicate C. graminis Hsiao & Cheng 1964, is the same species with C. punctiger (Dallas, 1852) and should be synonymized and that the distributional record of C. pugnator (Fabricius, 1787) in China is correct. High intraspecific genetic differentiations (0%–4.35%) were found in C. punctiger. Furthermore, as to the mined data, the maximum intraspecific K2P distances of 186 species (48.44% of 384) exceed 3%, and 101 species (26.30%) can be divided into two or more clusters with a threshold of 3% in cluster analysis. If genetic distance is used to delimit species boundaries, the minimum interspecific K2P distance of the congeneric species should be considered rather than only using the fixed empirical value; otherwise, the species richness may be overestimated in some cases.
rAd-libraries barcode analysis underlying data
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Figure 9 from: Syromyatnikov MY, Golub VB, Kokina AV, Soboleva VA, Popov VN (2017) DNA barcoding and morphological analysis for rapid identification of most economically important crop-infesting Sunn pests belonging to Eurygaster Laporte, 1833 (Hemiptera, Scutelleridae). ZooKeys 706: 51-71. https://doi.org/10.3897/zookeys.706.13888
Figure 9 - Restriction fragments of COI PCR products (restriction enzyme, species): 1 AhlI, E. maura or E. testudinaria 2 AhlI, E. integriceps 3 PsiI, E. maura or E. testudinaria 4 PsiI, E. integriceps 5 Bst2UI, E. maura or E. testudinaria 6 Bst2UI, E. integriceps; M, 100 bp DNA ladder.
Figure 8 from: Syromyatnikov MY, Golub VB, Kokina AV, Soboleva VA, Popov VN (2017) DNA barcoding and morphological analysis for rapid identification of most economically important crop-infesting Sunn pests belonging to Eurygaster Laporte, 1833 (Hemiptera, Scutelleridae). ZooKeys 706: 51-71. https://doi.org/10.3897/zookeys.706.13888
Figure 8 - Neighbor joining analysis of COI gene sequences from Eurygaster species. * - sequences obtained in this work.
Figure 5 from: Syromyatnikov MY, Golub VB, Kokina AV, Soboleva VA, Popov VN (2017) DNA barcoding and morphological analysis for rapid identification of most economically important crop-infesting Sunn pests belonging to Eurygaster Laporte, 1833 (Hemiptera, Scutelleridae). ZooKeys 706: 51-71. https://doi.org/10.3897/zookeys.706.13888
Figure 5 - Species of the genus Eurygaster Laporte, general view: A E. integriceps (Puton) B E. maura L. C E. testudinaria (Geoffroy) D E. dilaticollis Dohrn. Specimens A–C were collected in the Voronezh Region; specimen D was from the Teberda Nature Reserve, Caucasus.
Figure 2 from: Syromyatnikov MY, Golub VB, Kokina AV, Soboleva VA, Popov VN (2017) DNA barcoding and morphological analysis for rapid identification of most economically important crop-infesting Sunn pests belonging to Eurygaster Laporte, 1833 (Hemiptera, Scutelleridae). ZooKeys 706: 51-71. https://doi.org/10.3897/zookeys.706.13888
Figure 2 - Range of Eurygaster maura (Linnaeus, 1758) (after Göllner-Scheiding 2006 and Vinokurov et al. 2010).
Figure 7 from: Syromyatnikov MY, Golub VB, Kokina AV, Soboleva VA, Popov VN (2017) DNA barcoding and morphological analysis for rapid identification of most economically important crop-infesting Sunn pests belonging to Eurygaster Laporte, 1833 (Hemiptera, Scutelleridae). ZooKeys 706: 51-71. https://doi.org/10.3897/zookeys.706.13888
Figure 7 - Structural details of Eurygaster Laporte species (a, clypeus; b, jugal plate): A E. austriaca (Schrank), head, dorsal view B E. integriceps (Puton), dorsal view C E. integriceps, aedeagus D E. maura L., aedeagus E E. testudinaria (Geoffroy), aedeagus (after Golub, 1980, with changes).
Figure 6 from: Syromyatnikov MY, Golub VB, Kokina AV, Soboleva VA, Popov VN (2017) DNA barcoding and morphological analysis for rapid identification of most economically important crop-infesting Sunn pests belonging to Eurygaster Laporte, 1833 (Hemiptera, Scutelleridae). ZooKeys 706: 51-71. https://doi.org/10.3897/zookeys.706.13888
Figure 6 - Head, anterior view (A, B) and female median genital plates (C, D) of E. maura L. (A, C) and E. testudinaria (Geoffroy) (B, D).
Figure 3 from: Syromyatnikov MY, Golub VB, Kokina AV, Soboleva VA, Popov VN (2017) DNA barcoding and morphological analysis for rapid identification of most economically important crop-infesting Sunn pests belonging to Eurygaster Laporte, 1833 (Hemiptera, Scutelleridae). ZooKeys 706: 51-71. https://doi.org/10.3897/zookeys.706.13888
Figure 3 - Range of Eurygaster testudinaria (Geoffray, 1758) (after Göllner-Scheiding 2006 and Vinokurov et al. 2010).
Figure 4 from: Syromyatnikov MY, Golub VB, Kokina AV, Soboleva VA, Popov VN (2017) DNA barcoding and morphological analysis for rapid identification of most economically important crop-infesting Sunn pests belonging to Eurygaster Laporte, 1833 (Hemiptera, Scutelleridae). ZooKeys 706: 51-71. https://doi.org/10.3897/zookeys.706.13888
Figure 4 - Range of Eurygaster dilaticollis Dohrn, 1860 (after Göllner-Scheiding 2006 and Vinokurov et al. 2010).
Figure 1 from: Syromyatnikov MY, Golub VB, Kokina AV, Soboleva VA, Popov VN (2017) DNA barcoding and morphological analysis for rapid identification of most economically important crop-infesting Sunn pests belonging to Eurygaster Laporte, 1833 (Hemiptera, Scutelleridae). ZooKeys 706: 51-71. https://doi.org/10.3897/zookeys.706.13888
Figure 1 - Range of Eurygaster integriceps (Puton, 1881) (after Göllner-Scheiding 2006 and Vinokurov et al. 2010).
FIGURE 7. The Kalmius River near Pyshchevyk village. 1 June 2006 in DNA barcode based phylogeographic analysis of the Aricia anteros (Freyer, 1838) species complex (Lepidoptera: Lycaenidae) with description of a new subspecies from SE Europe
FIGURE 7. The Kalmius River near Pyshchevyk village. 1 June 2006. Photo: R. Botman.
FIGURE 1 in Pinellia hunanensis (Araceae), a new species supported by morphometric analysis and DNA barcoding
FIGURE 1. Sketch map of East Asia, indicating distribution of Pinellia.
Figure 13 from: Winterbottom R, Hanner R, Burridge M, Zur M (2014) A cornucopia of cryptic species - a DNA barcode analysis of the gobiid fish genus Trimma (Percomorpha, Gobiiformes). ZooKeys 381: 79-111. https://doi.org/10.3897/zookeys.381.6445
Figure 13 - Left lateral views of freshly collected specimens of 10 of the 11 haplogroups forming the Trimma tevegae group (no image available for Trimma xanthochrum Group 2a, from Ceram), plus the phenetically basal taxon, Trimma habrum. All images by R. Winterbottom, except for C and I (courtesy of Mark V. Erdmann). Standard length, sex, locality and catalogue number given where available. A Trimma habrum, 16.8 male, Penemu I., Raja Ampat, ROM 84881 B Trimma tevegae (Group 1), 14.4 female, Uchelbeluu Reef, Palau, ROM 80390 (note prolapsed intestine) C Trimma gigantum (Group 9), Fam Is., Raja Ampat D Trimma xanthochrum (Group 2c), 19.8 male, Uchelbeluu Reef, Palau, ROM 93075 E Trimma gigantum (Group 8), 27.7 female, Uchelbelu Reef, Palau, ROM 80353 F Trimma xanthochrum (Group 2), 22.0 female, Penemu I., Raja Ampat, ROM 84885 G Trimma xanthochrum (Group 2b), 18.4 female, Rabaul, New Britain, ROM 88170 H Trimma tevegae (Group 5), 22.5 male, Koror, Palau, ROM 80312 I Trimma tevegae (Group 4), SE Misool, Raja Ampat J Trimma caudomaculatum (Group 7), 21.5 female, Rabaul, ROM 92109 (Note broken tip of second spine of first dorsal fin) K Trimma tevegae (Group 6), 16.0 male, Rabaul, ROM 92319 (group 6 is believed to represent the 'true' Trimma tevegae).
Figure 1 from: Winterbottom R, Hanner R, Burridge M, Zur M (2014) A cornucopia of cryptic species - a DNA barcode analysis of the gobiid fish genus Trimma (Percomorpha, Gobiiformes). ZooKeys 381: 79-111. https://doi.org/10.3897/zookeys.381.6445
Figure 1 - Condensed Neighbour-Joining network of the COI gene based on an analysis of 473 specimens of Trimma. Solid bars represent approximate within group variation. Species names/numbers are followed by the locality of the specimens, with the number of specimens followed by the percentage variation within the group in parentheses. Scale bar: 2% genetic distance. Coloured boxes and their alphabetical notations refer to the sequential groups discussed in the text. Type localities for each species are underlined where such samples were available. "Queensland" is used in lieu of "Great Barrier Reef".
Figure 2 from: Winterbottom R, Hanner R, Burridge M, Zur M (2014) A cornucopia of cryptic species - a DNA barcode analysis of the gobiid fish genus Trimma (Percomorpha, Gobiiformes). ZooKeys 381: 79-111. https://doi.org/10.3897/zookeys.381.6445
Figure 2 - Map of the Indo-Pacific, showing localities where samples were collected. Inset - details of the Raja Ampat islands and Bird's Head region of Papua New Guinea.
Figure 4 from: Winterbottom R, Hanner R, Burridge M, Zur M (2014) A cornucopia of cryptic species - a DNA barcode analysis of the gobiid fish genus Trimma (Percomorpha, Gobiiformes). ZooKeys 381: 79-111. https://doi.org/10.3897/zookeys.381.6445
Figure 4 - Relationships of 54 specimens of the Trimma tevegae – Trimma caudomaculatum group based on COI.
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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.