Find research datasets worth reusing

Fig. 9 in Resolving the synonymy and polyphyly of the ' Drosophila bakoue species complex' (Diptera: Drosophilidae: ' D. montium species group') with descriptions of two new species from Madagascar

Fig. 9. Terminalia of the 'D. vulcana species complex'. A, C, E. D. vulcana Graber, 1957 (MNHN). A, C. ♂. E. ♀. B, D, F. D. mylenae David & Yassin sp. nov. (MNHN). B, D. ♂. F. ♀. Scale bars: A–B = 50 µm; D–F = 100 µm.

Fig. 2 in Resolving the synonymy and polyphyly of the ' Drosophila bakoue species complex' (Diptera: Drosophilidae: ' D. montium species group') with descriptions of two new species from Madagascar

Fig. 2. Comparison of Bayesian phylogenies of the 'D. seguyi species subgroup' Yassin, 2018 inferred from mitochondrial COI (left) and nuclear Amyrel (right) genes. Nodes supported by>95% posterior probability (pp) are labeled with black circles. An asterisk refers to species sequenced here, whereas two asterisks refer to the sequence of D. vulcana Graber, 1957 of Da Lage et al. (2007), which turned out to belong to D. seguyi Smart, 1945 from Kenya (see the text). Note the discrepancy in position of different geographical strains of D. bakoue Tsacas & Lachaise, 1974 (in red) between the two genes. Species belonging to 'D. bocqueti species complex' Tsacas & Lachaise, 1974, 'D. bakoue species complex' Rafael, 1984, 'D. nikananu species complex' Tsacas & Chassagnard, 1992, and 'D. megapyga species complex' Lachaise & Tsacas, 2001 are highlighted in orange, green, yellow and red, respectively.

Fig. 1 in Resolving the synonymy and polyphyly of the ' Drosophila bakoue species complex' (Diptera: Drosophilidae: ' D. montium species group') with descriptions of two new species from Madagascar

Fig. 1. Bayesian phylogeny of 19 species from the 'D. montium species group' Da Lage, 2007 inferred from complete mitochondrial genomes. Nodes supported by 100% posterior probability (pp) are not labeled, those with pp> 90% or 60% are labeled with gray and white circles, respectively. Species belonging to the 'D. bocqueti species complex' and the 'D. bakoue species complex' are highlighted in orange and green, respectively. 'K' and 'B' refer to the strains of D. aff tsacasi Bock & Wheeler, 1972 from Kenya and Bioko Island, respectively.

Fig. 6 in Resolving the synonymy and polyphyly of the ' Drosophila bakoue species complex' (Diptera: Drosophilidae: ' D. montium species group') with descriptions of two new species from Madagascar

Fig. 6. Female oviscapts of the 'D. seguyi species complex'. A–B. D. seguyi Smart, 1945 (MNHN). C–D. D. malagassya Tsacas & Rafael, 1982 (MNHN). E–F. D. curta Chassagnard & Tsacas, 1997 (MNHN). G–H. D. chocolata Yassin & David sp. nov. (MNHN). Scale bars: A, C, E, G = 100 µm; B, D, F, H = 50 µm.

Fig. 5 in Resolving the synonymy and polyphyly of the ' Drosophila bakoue species complex' (Diptera: Drosophilidae: ' D. montium species group') with descriptions of two new species from Madagascar

Fig. 5. Male terminalia of the 'D. seguyi species complex'. A. D. seguyi Smart, 1945 (MNHN). B. D. malagassya Tsacas & Rafael, 1982 (MNHN). C. D. curta Chassagnard & Tsacas, 1997 (MNHN). D–F. D. chocolata Yassin & David sp. nov. Scale bars: A–D = 50 µm; E–F = 100 µm..

Fig. 4. Adult habitus. A–B. D. seguyi Smart, 1945 in Resolving the synonymy and polyphyly of the ' Drosophila bakoue species complex' (Diptera: Drosophilidae: ' D. montium species group') with descriptions of two new species from Madagascar

Fig. 4. Adult habitus. A–B. D. seguyi Smart, 1945 (MNHN). A. ♂. B. ♀. C–D. D. malagassya Tsacas & Rafael, 1982 (MNHN). C. ♂. D. ♀. E–F. D. curta Chassagnard & Tsacas, 1997 (MNHN). E. ♂. F. ♀. G–H. D. chocolata Yassin & David sp. nov. (MNHN). G. ♂. H. ♀. Only dark morphs of females of species with female-limited color dimorphism are shown. Scale bar = 1 mm.

Fig. 8. Adult habitus. A–B. D. vulcana Graber, 1957 in Resolving the synonymy and polyphyly of the ' Drosophila bakoue species complex' (Diptera: Drosophilidae: ' D. montium species group') with descriptions of two new species from Madagascar

Fig. 8. Adult habitus. A–B. D. vulcana Graber, 1957 (MNHN). A. ♂. B. ♀. C–D. D. mylenae David & Yassin sp. nov. (MNHN). C. ♂. D. ♀. Scale bar = 1 mm.

Fig. 7 in Resolving the synonymy and polyphyly of the ' Drosophila bakoue species complex' (Diptera: Drosophilidae: ' D. montium species group') with descriptions of two new species from Madagascar

Fig. 7. Photomicrographs of D. ifestia Tsacas, 1984. A. Holotype (P. Vanschuytbroeck and J. Kelenbosch leg.; MNHN). B. Paratype (P. Vanschuytbroeck and J. Kelenbosch leg.; MNHN). Scale bar = 1 mm.

Fig. 3 in Resolving the synonymy and polyphyly of the ' Drosophila bakoue species complex' (Diptera: Drosophilidae: ' D. montium species group') with descriptions of two new species from Madagascar

Fig. 3. Photomicrographs of male periphallic organs. A. D. seguyi Smart, 1945 (MNHN). B. D. aff. tsacasi Bock & Wheeler, 1972 (MNHN). C. D. mylenae David & Yassin sp. nov. (MNHN). Scale bars = 0.1 mm.

opencc-zeroJan 2024View details →

Linked collectors and determiners for: Phylogeny indicates polyphyly in Cnodocentron (Trichoptera: Xiphocentronidae): biogeography and revision of New World species (Caenocentron).

Natural history specimen data linked to collectors and determiners held within, "Phylogeny indicates polyphyly in Cnodocentron (Trichoptera: Xiphocentronidae): biogeography and revision of New World species (Caenocentron)". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/5e350c66-bf9d-4f32-b68f-16a6b329a76f">https://bionomia.net/dataset/5e350c66-bf9d-4f32-b68f-16a6b329a76f</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/5e350c66-bf9d-4f32-b68f-16a6b329a76f">https://gbif.org/dataset/5e350c66-bf9d-4f32-b68f-16a6b329a76f</a>. Formatted as a Frictionless Data package.

Fig. 1 in Confirmed polyphyly, generic recircumscription and typification of Dysoxylum (Meliaceae), with revised disposition of currently accepted species

Fig. 1. Phylogenetic tree based on BI analysis of the four-marker dataset (ITS, ETS, trnL-F, rps15-ycf1) with two runs of six MCMC chains of 50 million generations and corresponding posterior probability values. In square brackets, we provide the previous species names for all newly resurrected genera. Accession numbers in the tree correspond to specimens listed in Appendix 1. A, Clade 10 (green) represents all accessions of Chisocheton referred to as "Ch."; clade 11 (pink) shows all accessions of Prasoxylon referred to as "Pra."; clade 12 (orange) shows all accessions of Anthocarapa referred to as "An.", and Synoum as "Sy."; outgroup (white/no colour) with Trichilia as "Tr.", Cipadessa as "Ci.", Nymania as "Ny." and Turraea as "Tu.". B, Clade 1 (yellow) represents all accessions of Didymocheton referred to as "D."; clade 2 (dark blue) shows Cabralea referred to as "C."; clade 3 (green) represents Aglaieae sensu Pennington & Styles, containing Aglaia referred to as "Ag.", Aphanamixis as "A.", Reinwardtiodendron as "Re.", Lansium as "La.", and Sphaerosacme as "Sph."; clades 4 and 5 (pink) show all accessions of Epicharis referred to as "E."; clades 6 (light blue), 7 (purple) and 8 (red) show all accessions of Dysoxylum s.str. referred to as "Dys.", Pseudocarapa referred to as "Ps.", and Goniocheton referred to as "G.", respectively; clade 9 (orange) with the large parts of 'Guareeae' represents all accessions of Heckeldora referred to as "H.", Guarea as "Gu.", Leplaea as "Le.", Neoguarea as "Neog.", Ruagea as "Ru.", and Turraeanthus as "Tur.".

opencc-by-4.0Jun 2011View details →

FIG. 3. — Key morphological features distinguishing Bikkia Reinw. s.s in Reinstatement of the endemic New Caledonian genus Thiollierea Montrouz. (Rubiaceae) necessitated by the polyphyly of Bikkia Reinw. as currently circumscribed

FIG. 3. — Key morphological features distinguishing Bikkia Reinw. s.s. and Thiollierea Montrouz., part 2: A, twisting of anthers; B, indument of filament; C, organization of placentation; D, shape of seeds (L. Barrabé & M. Toussirot). Scale bars: A, B, 1 cm; C, D, 1 mm.

opencc-by-4.0Jun 2011View details →

FIG. 2. — Key morphological features distinguishing Bikkia Reinw. s.s in Reinstatement of the endemic New Caledonian genus Thiollierea Montrouz. (Rubiaceae) necessitated by the polyphyly of Bikkia Reinw. as currently circumscribed

FIG. 2. — Key morphological features distinguishing Bikkia Reinw. s.s. and Thiollierea Montrouz., part 1: A, texture of abaxial leaf lamina; B, type and apex of stipules; C, inflorescence habit; D, margins of calyx lobes (L. Barrabé & M. Toussirot). Scale bars: A, C, 1 cm; B, D, 1 mm.

opencc-by-4.0Jun 2011View details →

FIG. 1 in Reinstatement of the endemic New Caledonian genus Thiollierea Montrouz. (Rubiaceae) necessitated by the polyphyly of Bikkia Reinw. as currently circumscribed

FIG. 1. — Simplified phylogeny of the clade "C" of the Catesbaeeae- Chiococceae Complex (CCC, Motley et al. 2005), on which two homoplasic morphological characters (flowers type and fruits type) between Bikkia Reinw. s.s. and Thiollierea Montrouz. and the autapomorphy (twisted anthers) of Thiollierea were mapped.

dryad36/100

Alignments and tree files from: Phylogenetic relationships within tribe Hibisceae (Malvaceae) reveal complex patterns of polyphyly in Hibiscus and Pavonia

The diverse and spectacular Hibisceae tribe comprises over 750 species. No studies, however, have broadly sampled across the dozens of genera in the tribe, leading to uncertainty in the relationships among genera. The non-monophyly of the genus Hibiscus is infamous and challenging, whereas the monophyly of most other genera in the tribe has yet to be assessed, including the large genus Pavonia. Here we significantly increase taxon sampling in the most complete phylogenetic study of the tribe to date. We assess monophyly of most currently recognized genera in the tribe and include three and thirteen newly sampled sections of Hibiscus and Pavonia, respectively. We also include five rarely sampled genera and 137 species previously unsampled. Our phylogenetic trees demonstrate that Hibiscus, as traditionally defined, encompasses at least 20 additional genera. The status of Pavonia emerges as comparable in complexity to Hibiscus. We offer clarity in the phylogenetic placement of several taxa of uncertain affinity (e.g., Helicteropsis, Hibiscadelphus, Jumelleanthus, and Wercklea). We also identify two new clades and elevate them to the generic rank with the recognition of two, new monotypic genera: 1) Blanchardia M.M.Hanes & R.L.Barrett is a surprising Caribbean lineage that is sister to the entire tribe, and 2) Astrohibiscus McLay & R.L.Barrett represents former members of Hibiscus caesius s.l. Cravenia McLay & R.L.Barrett is also described as a new genus for the Hibiscus panduriformis clade which is allied to Abelmoschus. Finally, we introduce a new classification for the tribe and clarify the boundaries of Hibiscus and Pavonia.

opencc-zeroFeb 2024View details →

dryad36/100

Supplementary datasets for: Prodigious polyphyly in Pleuroceridae (Gastropoda: Cerithioidea)

Phylogenomic studies with hundreds or thousands of loci are rare for most invertebrate groups, including freshwater gastropods. This can prevent understanding of phylogeny, which hinders many areas of research. Pleuroceridae is a family of freshwater snails that is highly imperiled and plays an essential role in the ecology of many freshwater systems of the eastern United States. However, the evolutionary history of the family is not understood, and the systematics of the family has not been revised in a modern framework. Pleurocerids display a variety of egg-deposition behaviors and shell shapes, making the family an ideal system for studying evolution of invertebrate life history and morphology. However, past mitochondrial-based phylogenetic analyses have failed to produce meaningful phylogenetic hypotheses, preventing conclusions about pleurocerid systematics and evolution. Here, we generated a novel anchored hybrid enrichment probe set with phylogenetic utility for Pleuroceridae. We sampled pleurocerids from across their range to test the probe set and generated a backbone phylogeny. Our analyses uncovered striking levels of polyphyly among currently accepted genera. Numerous species were also polyphyletic, indicative of unrecognized diversity. Phylogenetic patterns also revealed considerable convergence of shell morphologies. In contrast, anatomical and life history features appeared to be much less homoplastic. Despite generic paraphyly, high support for most major clades and phylogenetic cohesiveness of non-shell characters indicate utility of the AHE probe set for studying pleurocerid evolution.

opencc-zeroJun 2022View details →

zenodo36/100

Table 2 in Confirmed polyphyly, generic recircumscription and typification of Dysoxylum (Meliaceae), with revised disposition of currently accepted species

Table 2. List of species represented in the tree, arranged according to the clades to which they belong. The species within in each clade are listed alphabetically.<table><tbody><tr><th>Clade</th><th>Species</th></tr></tbody><tbody><tr><th>1</th><td>Didymocheton aliquantulus</td></tr><tr><th>(Didymocheton)</th><td>Didymocheton alliaceus</td></tr><tr><th></th><td>Didymocheton aneityensis</td></tr><tr><th></th><td>Didymocheton annae</td></tr><tr><th></th><td>Didymocheton bijugus</td></tr><tr><th></th><td>Didymocheton canalensis</td></tr><tr><th></th><td>Didymocheton fraserianus</td></tr><tr><th></th><td>Didymocheton gaudichaudianus</td></tr><tr><th></th><td>Didymocheton hornei var. glabratus</td></tr><tr><th></th><td>Didymocheton hornei var. hornei</td></tr><tr><th></th><td>Didymocheton huntii</td></tr><tr><th></th><td>Didymocheton lenticellaris</td></tr><tr><th></th><td>Didymocheton macranthus</td></tr><tr><th></th><td>Didymocheton maota</td></tr><tr><th></th><td>Didymocheton minutiflorus</td></tr><tr><th></th><td>Didymocheton mollis</td></tr><tr><th></th><td>Didymocheton mollissimus</td></tr><tr><th></th><td>Didymocheton multijugus</td></tr><tr><th></th><td>Didymocheton myriandrus</td></tr><tr><th></th><td>Didymocheton nutans</td></tr><tr><th></th><td>Didymocheton pachyphyllus</td></tr><tr><th></th><td>Didymocheton pachypodus</td></tr><tr><th></th><td>Didymocheton papuanus</td></tr><tr><th></th><td>Didymocheton pettigrewianus</td></tr><tr><th></th><td>Didymocheton quercifolius</td></tr><tr><th></th><td>Didymocheton roseus</td></tr><tr><th></th><td>Didymocheton samoensis</td></tr><tr><th></th><td>Didymocheton setosus</td></tr><tr><th></th><td>Didymocheton sparsiflorus</td></tr><tr><th></th><td>Didymocheton spectabilis</td></tr><tr><th></th><td>Didymocheton tenuiflorus</td></tr><tr><th></th><td>Didymocheton tongensis</td></tr><tr><th></th><td>Didymocheton variabilis</td></tr><tr><th>2</th><td>Cabralea canjerana</td></tr><tr><th>(Cabralea)</th><td>Cabralea canjerana subsp. canjerana</td></tr><tr><th></th><td>Cabralea canjerana subsp. polytricha</td></tr><tr><th>3</th><td>Aglaia agglomerata</td></tr><tr><th>(Aglaieae sensu</th><td>Aglaia argentea</td></tr><tr><th>Pennington &</th><td>Aglaia cucullata</td></tr><tr><th>Styles, 1975)</th><td>Aglaia leptantha</td></tr><tr><th></th><td>Aglaia membranifolia</td></tr><tr><th></th><td>Aglaia nyaruensis</td></tr><tr><th></th><td>Aglaia odorata</td></tr><tr><th></th><td>Aglaia teysmanniana</td></tr><tr><th></th><td>Aphanamixis borneensis</td></tr><tr><th></th><td>Aphanamixis polystachya</td></tr><tr><th></th><td>Aphanamixis sumatrana</td></tr><tr><th></th><td>Lansium domesticum</td></tr><tr><th></th><td>Lansium membranaceum</td></tr><tr><th></th><td>Reinwardtiodendron celebicum</td></tr><tr><th></th><td>Reinwardtiodendron humile</td></tr><tr><th></th><td>Reinwardtiodendron kinabaluense</td></tr><tr><th></th><td>Sphaerosacme decandra</td></tr><tr><th>4</th><td>Epicharis brevipanicula</td></tr><tr><th>(Epicharis)</th><td>Epicharis cumingiana</td></tr><tr><th></th><td>Epicharis cuneata</td></tr><tr><th></th><td>Epicharis densiflora</td></tr><tr><th></th><td>Epicharis gillespieana</td></tr></tbody></table>

zenodo36/100

Appendix 3 in Confirmed polyphyly, generic recircumscription and typification of Dysoxylum (Meliaceae), with revised disposition of currently accepted species

Appendix 3. Key morphological “spot” characters for the former Dysoxylum s.l. as well as the newly resurrected genera.<table><tbody><tr><th>Genus</th><th>Morphological characters</th></tr></tbody><tbody><tr><th>Dysoxylum s.l.</th><td>Leaves pinnate; pseudogemmula 0</td></tr><tr><th></th><td>Flowers unisexual; calyx tubular or sepals discrete; petals free or adnate to staminal tube; staminal tube cylindrical to urceolate</td></tr><tr><th></th><td>Seeds anatropous</td></tr><tr><th>Dysoxylum s.str.</th><td>Apical leaf-buds stiletto-like Inflorescence spiciform</td></tr><tr><th>Didymocheton</th><td>Petals adnate to staminal tube</td></tr><tr><th>Epicharis</th><td>Inflorescence racemose. ramiflorous/cauliflorous Calyx closed, later splitting into irregular lobes and basally circumscissile</td></tr><tr><th>Goniocheton</th><td>Leaves imparipinnate Fruits white to pink Seeds aril-less, pachychalazal</td></tr><tr><th>Prasoxylon</th><td>Seeds unitegmic Leaves and seeds with strong odour</td></tr><tr><th>Pseudocarapa</th><td>Leaves paripinnate Staminal tube cylindrical with appendages Disk annular or patelliform Pollen sheds in tetrads</td></tr></tbody></table>

zenodo36/100

Appendix 2 in Confirmed polyphyly, generic recircumscription and typification of Dysoxylum (Meliaceae), with revised disposition of currently accepted species

Appendix 2. Nucleotide substitution models used in the BI analyses for each marker in the alignment without and with applying Gblocks (Castresana, 2000).<table><tbody><tr><th></th><th>Nucleotide substitution model for alignment without Gblocks</th><th>Nucleotide substitution model for alignment using Gblocks</th></tr></tbody><tbody><tr><th>ITS</th><td>GTR+I+Γ (Tavaré, 1986)</td><td>GTR+I+Γ (Tavaré, 1986)</td></tr><tr><th>ETS</th><td>TVM+Γ (Posada, 2003)</td><td>TVM+Γ (Posada, 2003)</td></tr><tr><th>trnL-F</th><td>TVM+Γ (Posada, 2003)</td><td>HKY (Hasegawa & al., 1985)</td></tr><tr><th>rps15-ycf1 HKY+Γ (Hasegawa & al., 1985)</th><td>—*</td></tr></tbody></table>