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FIGURE 6 in Colour patterns to sequences: a perspective on the systematics of the Hyperolius viridiflavus group (Anura: Hyperoliidae) using mitochondrial DNA

FIGURE 6. Localities of sequences (black circles), type locality (star) and location of junior synonyms of Hyperolius marginatus. Locality codes are explained in Table 3.

FIGURE 7 in Colour patterns to sequences: a perspective on the systematics of the Hyperolius viridiflavus group (Anura: Hyperoliidae) using mitochondrial DNA

FIGURE 7. Localities of sequences (black circles), type locality (star) and location of junior synonyms of Hyperolius parallelus. Locality codes are explained in Table 3.

FIGURE 5 in Colour patterns to sequences: a perspective on the systematics of the Hyperolius viridiflavus group (Anura: Hyperoliidae) using mitochondrial DNA

FIGURE 5. Localities of sequences (black circles), type locality (star) and location of junior synonyms of Hyperolius marmoratus. Locality codes are explained in Table 3.

FIGURE 1 in Colour patterns to sequences: a perspective on the systematics of the Hyperolius viridiflavus group (Anura: Hyperoliidae) using mitochondrial DNA

FIGURE 1. Localities from where sequences were obtained (black circles), and from where available names were described (red triangles). The dashed lines indicate the range of the Hyperolius viridiflavus species complex.

FIGURE 4 in Colour patterns to sequences: a perspective on the systematics of the Hyperolius viridiflavus group (Anura: Hyperoliidae) using mitochondrial DNA

FIGURE 4. Localities of sequences (black circles), type locality (star) and location of junior synonyms of Hyperolius viridiflavus. Locality codes are explained in Table 3.

FIGURE 3 in Colour patterns to sequences: a perspective on the systematics of the Hyperolius viridiflavus group (Anura: Hyperoliidae) using mitochondrial DNA

FIGURE 3. Colour patterns of some of the variation recognised in taxa now included in H. viridiflavus. After Laurent (1983): 1–9, 11–13 Hyperolius karissimbiensis françoisi; 10, 14, 16–18 Hyperolius viridiflavus xanthogrammus; 15, 19–26 Hyperolius viridiflavus hybridus. After Ahl (1931): 27–31 Hyperolius variabilis. Ahl's illustrations were taken from Tornier (1897).

opencc-zeroJun 2022View details →

dryad32/100

Aligned DNA sequences of Vanilla

Premise Although vanilla is one of the best-known spices, there is a limited understanding of its biology and genetics within Mexico, where its cultivation originated and where phenotypic variability is high. This study aims to augment our understanding of vanilla's genetic resources by assessing species delimitation and genetic, geographic, and climatic variability within Mexican cultivated vanilla. Methods Nuclear and plastid DNA sequence data from 58 Mexican samples collected from three regions and 133 ex-situ accessions were used to assess species monophyly using phylogenetic analyses and genetic distances. Intra-specific genetic variation was summarized through the identification of haplotypes. Within the primarily cultivated species, V. planifolia, haplotype relationships were further verified using plastome and rRNA gene sequences. Climatic niche and haplotype composition were assessed across the landscape. Key Results Three species (Vanilla planifolia, V. pompona, and V. insignis) and 13 haplotypes were identified among Mexican vanilla. Within V. planifolia haplotypes, hard phylogenetic incongruences between plastid and nuclear sequences suggest past hybridization events. Eight haplotypes exclusively consisted of Mexican samples. The dominant V. planifolia haplotype occurred throughout all three regions as well as outside of its country of origin. Haplotype richness was found to be highest in regions around Papantla and La Chinantla. Conclusions Long histories of regional cultivation support the consideration of endemic haplotypes as landraces shaped by adaptation to local conditions and/or hybridization. Results may aid further genomic investigations of vanilla's genetic resources and ultimately support the preservation of genetic diversity within the economically important crop.

opencc-by-4.0Apr 2022View details →

Data for for Detecting cell-of-origin and cancer-specific methylation features of cell-free DNA from Nanopore sequencing

Datasets accompanying the paper https://doi.org/10.1101/2021.10.18.464684

FIGURE 22 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 22. Piribelba piriformis (Mihelčič, 1964), paralectotypes (originally syntypes of author). A—solenidion φ1; B— setation of genu III (GeIII), genu and tibia IV (GeIII, TiIV); C—aggenital seta and genital setae, lateral view; D—details of selected setae (all in same scale); E—details of leg setation of another specimen, genu III and IV (GeIII, GeIV), tibia and proximal part of tarsus I (TiI, TsI); F—deutonymph in lateral view (dashed area represents crack in medium where observation is more difficult). Scale bar 100 μm.

FIGURE 29 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 29. Piribelba piriformis (Mihelčič, 1964), adult specimens from Slovakia (A–E: Dreveník, F–G: Sivec). A—dorsal view of the body; B—seta le; C—general view of the body with carried load of debris on notogaster, lateral view; D—legs I–III in lateral view, E—leg IV in lateral view; F—form "lanceata", lateral view; G—form "lanceata", detail of seta d of femur IV.

FIGURE 19 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 19. Piribelba rossica (Bulanova-Zachvatkina, 1957), nymphs from Kemerovo region, light microscope images: A, B—tritonymph, apodemes III at different focus of the microscope; C, D—tritonymph, apodemes II at different focus of the microscope; E—tritonymph, part of prodorsum with lamellar seta; F—deutonymph, genu IV; G—deutonymph, part of tibia IV. Scale bar 50 μm.

FIGURE 26 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 26. Piribelba piriformis (Mihelčič, 1964), adult. Specimen from Austria (Dörfertal): A—dorsal view; B—ventral view; C—seta le in different aspects (left: dorsal to dorsolateral view, right: dorsomedial view); D—bothridial complex. Specimen from Slovakia (Sivec), form "lanceata": E—dorsal view, F—ventral view, G—anal and genital shields; H—seta of ventral and dorsal parts of the body. Scale bars 100 μm (A, B, E, F), 50 μm (D, G, H).

FIGURE 16 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 16. Piribelba rossica (Bulanova-Zachvatkina, 1957), tritonymph from Kemerovo region: A—dorsal view (legs only partly drawn); B—ventral view (gnathosoma not shown, legs only partly drawn), C—lateral view (gnathosoma and legs only partly drawn). Scale bar 100 μm.

FIGURE 15 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 15. Piribelba rossica (Bulanova-Zachvatkina, 1957), deutonymph from Kemerovo region: A—leg I, right, antiaxial view; B—leg II, right, antiaxial view; C—leg III, right, antiaxial view; D—leg IV, right, antiaxial view. Scale bar 100 μm.

FIGURE 14 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 14. Piribelba rossica (Bulanova-Zachvatkina, 1957), deutonymph from Kemerovo region: A—dorsal view (legs only partly drawn); B—ventral view (gnathosoma not shown, legs only partly drawn), C—lateral view (gnathosoma and legs only partly drawn). Scale bar 100 μm.

FIGURE 9 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 9. Piribelba rossica (Bulanova-Zachvatkina, 1957), adult from Novosibirsk (A–E) and Tuva (F–K) regions (from Bulanova-Zachvatkina collection), light microscope images: A, F—slides from the collection with type specimen; B—epimeral III–IV and anogenital plates, ventral view; C, D, I–K—notogastral setae; E—femur, genu and tibia I, antiaxial view; G— prodorsum, part, dorsal view; H—distal part of bothridial setae. Scale bars 100 μm (B, G), 50 μm (D–C, H–K).

FIGURE 11 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 11. Piribelba rossica (Bulanova-Zachvatkina, 1957), larva from Kemerovo region: A—leg I, left, antiaxial view; B—tarsus I, left, dorsal view; C—leg II, left, antiaxial view; D—leg IV, left, antiaxial view; E—genu IV, right, dorsal view. Scale bar 100 μm.

FIGURE 28 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 28. Piribelba piriformis (Mihelčič, 1964), adult specimen from Austria (Dörfertal). A —dorsal view; B—ventral view, C—lateral view, D—rostrum and mouthparts in lateral view; E—seta le in dorsal view; F—leg IV, G—detail of femur and genu IV; H—detail of tibia III and IV; I—detail of femur and genu I; J—anterior genital setae in lateral view.

FIGURE 12 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 12. Piribelba rossica (Bulanova-Zachvatkina, 1957), protonymph from Kemerovo region: A—dorsal view (legs only partly drawn); B—ventral view (gnathosoma not shown, legs only partly drawn), C—lateral view (gnathosoma and legs only partly drawn). Scale bar 100 μm.

FIGURE 8 in Taxonomy of European Damaeidae (Acari, Oribatida) XI. European species of the genus Piribelba Miko 2021: redescriptions of P. rossica (Bulanova-Zachvatkina 1957) and P. piriformis (Mihelčič, 1964) using morphology and DNA sequence data

FIGURE 8. Piribelba rossica (Bulanova-Zachvatkina, 1957), adult from Kemerovo region, light microscope images: A–F— notogastral setae; G–J—lamellar setae (in various specimens); H—lateral view of the body. Arrow points to distal spines. Scale bars 100 μm (H), 50 μm (A–J).