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3,292 results for “DNA Barcode”
Isotope analysis combined with DNA barcoding provide new insights into the dietary niche of khulan in the Mongolian Gobi
<p><span>With increasing livestock numbers, competition and avoidance are increasingly shaping resource availability for wild ungulates. Shifts in the dietary niche of wild ungulates are likely and can be expected to negatively affect their fitness. The Mongolian Gobi constitutes the largest remaining refuge for several threatened ungulates, but unprecedentedly high livestock numbers are sparking growing concerns over rangeland health and impacts on threatened ungulates like the Asiatic wild ass (khulan).</span></p> <p><span>Previous stable isotope analysis of khulan tail hair from the Dzungarian Gobi suggested that they graze in summer but switch to a poorer mixed C3 grass / C4 shrub diet in winter, most likely in reaction to local herders and their livestock. Here we attempt to validate these findings with a different methodology, DNA metabarcoding. Further, we extend the scope of the original study to the South Gobi Region, where we expect higher proportions of low-quality browse in the khulan winter diet due to a higher human and livestock presence.</span></p> <p><span>Barcoding confirmed the assumptions behind the seasonal diet change observed in the Dzungarian Gobi isotope data, and new isotope analysis revealed a strong seasonal pattern and higher C4 plant intake in the South Gobi Region, in line with our expectations. However, DNA barcoding revealed C4 domination of winter diet was due to C4 grasses (rather than shrubs) for the South Gobi Region. Slight climatic differences result in regional shifts in the occurrence of C3 and C4 grasses and shrubs, which do not allow for an isotopic separation along the grazer-browser continuum over the entire Gobi. </span></p> <p><span>Our findings do not allow us to confirm human impacts upon dietary preferences in khulan as we lack seasonal samples from the South Gobi Region. However, these data provide novel insight into khulan diet, raise new questions about plant availability versus preference, and provide a cautionary tale about indirect analysis methods if used in isolation or extrapolated to the landscape level. Good concordance between relative read abundance of C4 genera from barcoding and proportion of C4 plants from isotope analysis adds to a growing body of evidence that barcoding is a promising quantitative tool to understand resource partitioning in ungulates.</span></p>
FIGURE 4. A in Pinellia hunanensis (Araceae), a new species supported by morphometric analysis and DNA barcoding
FIGURE 4. A classification tree of combined rbcL and matK data using neighbor-joining (NJ) and Bayesian of phylogenetic methods.
FIGURE 5 in Pinellia hunanensis (Araceae), a new species supported by morphometric analysis and DNA barcoding
FIGURE 5. Scatter plot of the first two axes from a detrended correspondence analysis (DCA) for 38 quantitative morphological variables (taxonomic characters) of 24 specimens (classification of 6 Pinellia species). The new species Pinellia hunanensis is circled, including its respective intraspecific variation.
FIGURE 2. Pinellia hunanensis—A in Pinellia hunanensis (Araceae), a new species supported by morphometric analysis and DNA barcoding
FIGURE 2. Pinellia hunanensis—A: habit; B: juvenile plant; C: leaf; D: inflorescence; E: spadix; F: infructescence; G: pistil; H: fruit; I: seed (Drawn after the holotype by Yitao Liu).
FIGURE 1 in Using DNA barcodes to assess identity and diversity of Dendropsophus minutus: Failure?
FIGURE 1. Hawkins et al. CO1 dataset reduced to the 163 bp that overlaps with the conventional DNA barcode region. Branch tips are labeled with Genbank accession numbers, collection accessions and population coding. See www.barcodinglife.org, Published Projects, Dendropsophus minutus CO1: Failure or Success?
Data for morphometric analysis and DNA barcode sequence for the new fish species Polymixia hollisterae
<p>Two datasets are provided to support the journal article (https://doi.org/10.1643/i2020112) by T. C. Grande and M. V. H. Wilson naming the new Bermuda fish species <em>Polymixia hollisterae</em>. The first dataset is for 2-D multivariate morphometric comparisons of selected specimens and species of the fish genus <em>Polymixia</em>. The file is in TPS format, as a plain text file, for use in the application MorphoJ. The data are for 27 specimens with pixel coordinates for 34 landmarks digitized in ImageJ and used to generate Fig. 13 in the referenced publication. The second dataset, published here courtesy of Dr. R. Eytan, is a mitochondrial DNA barcode sequence in fasta format for the second paratype specimen, a small juvenile of the new species. The specimen is only the third one known of the new species and the only one not from Bermuda. It was collected in the north-central Gulf of Mexico and is now deposited in the Harvard University MCZ fish collection as catalog number MCZ 174218. The fasta file can be used as input to the barcode identification function at boldsystems.org, although its original identification in BOLD was incorrect.</p>
FIGURE 3 in DNA barcodes for Cladocera and Copepoda from Mexico and Guatemala, highlights and new discoveries
FIGURE 3. Neighbour-joining tree of 140 COI sequences from 21 copepod species using K2P distances. The number of specimens sequenced, localities, and general distribution is in brackets. Abbreviations are the same as in Figure 1. No cultured specimens were used.
FIGURE 1. 1.1 in DNA barcodes for Cladocera and Copepoda from Mexico and Guatemala, highlights and new discoveries
FIGURE 1. 1.1 Sampling localities for all taxa; 1.2 Distribution of C. rigaudi complex: ⊕ C. cf. rigaudi 1, ∧ C. cf. rigaudi 2, ′ C. cf. rigaudi 3; 1.3 Distribution of C. cf. dubia; 1.4 Moina micrura group: M. cf. micrura 1, M. cf. micrura 2, ® M. cf. micrura 3; 1.5 Arctodiaptomus dorsalis: ℜ A. cf. dorsalis, ρA. dorsalis, A. cf. dorsalis 1 from Lachua Lake, ′ A. cf. dorsalis 2; 1.6 Mastigodiaptomus albuquerquensis: ♦M. albuquerquensis, ⊕ M. cf. albuquerquensis.
Figure 1 in Two new species of Hudsonimyia Roback, 1979 (Diptera: Chironomidae: Tanypodinae) from Neotropical Region unveiled by morphology and DNA barcoding
Figure 1. Hudsonimyia caissara sp. nov.: adult male. (A) Head, frontal view. (B) Apex of antenna. (C) Thorax. (D) Wing. (E–G) Tibial spurs of P1 (E), P2 (F), and P3 (G). (H) Tergite IX and anal point. (I) Hypopygium with tergite IX and anal point removed, left: dorsal aspect, right: ventral aspect.
Figure 6 in Two new species of Hudsonimyia Roback, 1979 (Diptera: Chironomidae: Tanypodinae) from Neotropical Region unveiled by morphology and DNA barcoding
Figure 6. Hudsonimyia araxa sp. nov.: larva. (A) Head with chaetotaxy, left: dorsal aspect, right: ventral aspect. (B) Antenna. (C) Maxillary palp detail. (D) Mandible. (E) Mentum and M appendage. (F). Ligula and paraligula. (G) Pecten hypopharyngis. (H) Abdomen.
Figure 2 in Two new species of Hudsonimyia Roback, 1979 (Diptera: Chironomidae: Tanypodinae) from Neotropical Region unveiled by morphology and DNA barcoding
Figure 2. Hudsonimyia caissara sp. nov.: pupa. (A) Thoracic horn with basal lobe. (B) Thoracic horn surface opposite to plastron plate. (C) Abdominal segments with chaetotaxy, anal lobe and male genital sac, right: ventral aspect, left: dorsal aspect. (D) Shagreen pattern on abdominal segments surface.
Figure 5 in Two new species of Hudsonimyia Roback, 1979 (Diptera: Chironomidae: Tanypodinae) from Neotropical Region unveiled by morphology and DNA barcoding
Figure 5. Hudsonimyia araxa sp. nov.: pupa. (A) Thoracic horn with basal lobe. (B) Thoracic horn surface opposite to plastron plate. (C) Abdominal segments with chaetotaxy and anal lobe and male genital sac, right: ventral aspect, left: dorsal aspect. (D) Shagreen pattern on abdominal segments surface.
Figure 4 in Two new species of Hudsonimyia Roback, 1979 (Diptera: Chironomidae: Tanypodinae) from Neotropical Region unveiled by morphology and DNA barcoding
Figure 4. Hudsonimyia araxa sp. nov.: adult male and female. (A) Male head, frontal view. (B) Male thorax. (C) Male wing. (D) Hypopygium, left: ventral aspect, right: dorsal aspect. (E–G) Female tibial spurs of P1 (E), P2 (F), and P3 (G). (H) Female genitalia, ventral view.
Figure 3 in Two new species of Hudsonimyia Roback, 1979 (Diptera: Chironomidae: Tanypodinae) from Neotropical Region unveiled by morphology and DNA barcoding
Figure 3. Hudsonimyia caissara sp. nov.: larva. (A) Head with chaetotaxy, left: dorsal aspect, right: ventral aspect. (B) Antenna. (C) Maxillary palp detail. (D) Mandible. (E) Mentum and M appendage. (F). Ligula and paraligula. (G) Pecten hypopharyngis.
FIGURES 3–6 in Descriptions of two new species of Hemileucinae (Lepidoptera: Saturniidae) from the region of Muzo in Colombia-evidence from morphology and DNA barcodes
FIGURES 3–6. Wing patterns of Leucanella bonillensis n. sp. and closely related species. 3. Male Holotype, dorsal view; 4. Idem, ventral view; 5. Male of Leucanella acutissima, dorsal (left) and ventral (right) views; 6. Male of Leucanella newmani dorsal (left) and ventral (right) views.
FIGURES 7–15 in Descriptions of two new species of Hemileucinae (Lepidoptera: Saturniidae) from the region of Muzo in Colombia-evidence from morphology and DNA barcodes
FIGURES 7–15. Genitalia patterns of Leucanella bonillensis n. sp. and closely related species. 7. Holotype genitalia, dorsal view (genitalia prep. TD#171; 8. Idem, ventral view; 9. Idem, edeagus; 10. Genitalia of Leucanella acutissima, dorsal view (genitalia prep. TD#176); 11. Idem, ventral view; 12. Idem, edeagus; 13. Genitalia of Leucanella newmani, dorsal view (genitalia prep. TD#169); 14. Idem, ventral view; 15. Idem, edeagus.
FIGURE 1 in Descriptions of two new species of Hemileucinae (Lepidoptera: Saturniidae) from the region of Muzo in Colombia-evidence from morphology and DNA barcodes
FIGURE 1. Single most parsimonious tree (L=98, CI=0.84, RI=0.96) obtained from the phylogenetic analysis of the DNA barcode sequences for the specimens of the genus Leucanella. Each specimen is identified by its ProcessID code (see Table 1). Branch length is proportional to the number of substitutions, and values above branches are the number of inferred changes (FAST optimization) and bootstrap supports, respectively.
FIGURES 24–31 in Descriptions of two new species of Hemileucinae (Lepidoptera: Saturniidae) from the region of Muzo in Colombia-evidence from morphology and DNA barcodes
FIGURES 24–31. Genitalia patterns of Cerodirphia zulemae n. sp. and closely related species. 24. 7th tergite of the Holotype of C. zulemae, dorsal view (genitalia prep. TD#141); 25. Same structure, Cerodirphia apunctata (genitalia prep. S–RR#57); 26. Same structure, Cerodirphia brunnea (genitalia prep. TD#174); 27. Same structure, Cerodirphia speciosa (genitalia prep. RR#295); 28. 7th sternite of the Holotype of C. zulemae, ventral view; 29. Same structure, C. apunctata; 30. Same structure, C. brunnea; 31. Same structure, C. speciosa.
FIGURES 16–23 in Descriptions of two new species of Hemileucinae (Lepidoptera: Saturniidae) from the region of Muzo in Colombia-evidence from morphology and DNA barcodes
FIGURES 16–23. Wing patterns of Cerodirphia zulemae n. sp. and closely related species. 16. Male Holotype, dorsal vew; 17. Female Allotype, dorsal view; 18. Male paratype, dorsal view; 19. Idem, ventral view; 20. Male of Cerodirphia apunctata, dorsal view (French Guyana, crossroad RN2-Cacao, 25 i 1999, leg. R. Rougerie, ex larva–emerged 30 vii 1999, genitalia prep. S–RR#57); 21. Male of C. apunctata, dorsal view (Venezuela, Bolivar, road El Dorado – Sta Elena, km18, la Escalera, 1400m asl, 7–20 xi 1990, leg. P. Bleuzen, genitalia prep. C. Lemaire # 5718). 22. Male of Cerodirphia speciosa, dorsal view (French Guyana, Cayenne, i 1972, leg. J.J. de Granville, genitalia prep RR#295); 23. Male of Cerodirphia brunnea, dorsal view (Bolivia, La Paz, Nor Yungas, Carrasco, 1450m asl, xi 1990, leg. T. Decaëns & G. Lecourt).
FIGURES 32–51 in Descriptions of two new species of Hemileucinae (Lepidoptera: Saturniidae) from the region of Muzo in Colombia-evidence from morphology and DNA barcodes
FIGURES 32–51. Male genitalia patterns of Cerodirphia zulemae n. sp. and closely related species. 32. Genitalia of the Holotype of C. zulemae, dorsal view (genitalia prep. TD#141); 33. Idem, ventral view; 34. Idem, lateral view; 35. Idem, lateral view of the edeagus; 36. idem, dorsal view of the edeagus; 37. Genitalia of Cerodirphia apunctata, dorsal view (genitalia prep. S–RR#57); 38. Idem, ventral view; 39. Idem, lateral view; 40. Idem, lateral view of the edeagus; 41. idem, dorsal view of the edeagus; 42. Genitalia of Cerodirphia brunnea, dorsal view (genitalia prep. TD#174); 43. Idem, ventral view; 44. Idem, lateral view; 45. Idem, lateral view of the edeagus; 46. idem, dorsal view of the edeagus; 47. Genitalia of Cerodirphia speciosa, dorsal view (genitalia prep. RR#295); 48. Idem, ventral view; 49. Idem, lateral view; 50. Idem, lateral view of the edeagus; 51. idem, dorsal view of the edeagus.
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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.