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501 results for “phylogenetic taxonomy”
Figure 9 in Taxonomy and molecular phylogenetic position of new species and new records of Coelosphaeridae (Demospongiae: Poecilosclerida) from the Mexican Pacific
Figure 9. SEM images of spicules of Lissodendoryx (Waldoschmittia) hawaiiana. A, Tylote and detail of its head; B, variety of oxeas morphology and detail of its ends: C, sigmas I; D, arcuate isochelae.
Figure 7 in Taxonomy and molecular phylogenetic position of new species and new records of Coelosphaeridae (Demospongiae: Poecilosclerida) from the Mexican Pacific
Figure 7. SEM images of spicules of Lissodendoryx (Lissodendoryx) albemarlensis. A-D, Specimen LEB-ICML-UNAM-27; E, H, specimen AHF-1736-49; A, E, tylotes and detail of their heads; B, F, styles and detail of their ends; C, G, sigmas; D, H, arcuate isochelae.
Figure 6 in Taxonomy and molecular phylogenetic position of new species and new records of Coelosphaeridae (Demospongiae: Poecilosclerida) from the Mexican Pacific
Figure 6. Lissodendoryx (Lissodendoryx) albemarlensis. A, B, External morphology of two alive specimens out of the water; drawings of (C) tangential view of ectosomal skeletal structure; D, cross-section view of choanosomal skeletal structure.
Figure 2 in Taxonomy and molecular phylogenetic position of new species and new records of Coelosphaeridae (Demospongiae: Poecilosclerida) from the Mexican Pacific
Figure 2. Celtodoryx chichiltik sp. nov. A, B, External morphology of alive and preserved specimens (respectively); C, drawing of a crosssection of the skeletal structure; D, drawings of spicule iso- or anisotylotes; E, drawings of spicule iso- or anisostrongyles.
Figure 1 in Taxonomy and molecular phylogenetic position of new species and new records of Coelosphaeridae (Demospongiae: Poecilosclerida) from the Mexican Pacific
Figure 1. Location of the sampling stations along the coast of Mexico. The numbers show the distribution of the species: (1) Celtodoryx chichiltik sp. nov.; (2) Lissodendoryx (Anomodoryx) incrustans sp. nov.; (3) Lissodendoryx (Lissodendoryx) albemarlensis; (4) L. (W.) hawaiiana.
Revised taxonomy of the Arctotis Annual Clade (Arctotideae, Asteraceae) from Southern Africa: integration of molecular phylogenetic and morphological evidence
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Data from: Reverse taxonomy applied to the Brachionus calyciflorus cryptic species complex: morphometric analysis confirms species delimitations revealed by molecular phylogenetic analysis and allows the (re)description of four species
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Data from: Phylogenetic inference in section Archerythroxylum informs taxonomy, biogeography, and the domestication of coca (Erythroxylum species)
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Data from: A phylogenetic taxonomy of the Cyrtodactylus peguensis group (Reptilia: Squamata: Gekkonidae) with descriptions of two new species from Myanmar
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Data from: Automated assembly of a reference taxonomy for phylogenetic data synthesis
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Figure 2 from: Samarakoon BC, Phookamsak R, Wanasinghe DN, Chomnunti P, Hyde KD, Mckenzie EHC, Promputtha I, Xu J-C, Li Y-J (2020) Taxonomy and phylogenetic appraisal of Spegazzinia musae sp. nov. and S. deightonii (Didymosphaeriaceae, Pleosporales) on Musaceae from Thailand. MycoKeys 70: 19-37. https://doi.org/10.3897/mycokeys.70.52043
Figure 2 Spegazzinia deightonii (MFLU 19-2908) a–c fungal colonies on host surface d conidiophore mother cell of α conidia e–g α conidia i a developmental stage of β conidia h, k conidia l colonies on PDA after 28 days showing sporulation j, m–p β conidia. Scale bars: 500μm (a), 200μm (b), 50 μm (c), 20μm (e–h), 10μm (d, k, m–p), 5 μm (i, j).
Figure 1 from: Samarakoon BC, Phookamsak R, Wanasinghe DN, Chomnunti P, Hyde KD, Mckenzie EHC, Promputtha I, Xu J-C, Li Y-J (2020) Taxonomy and phylogenetic appraisal of Spegazzinia musae sp. nov. and S. deightonii (Didymosphaeriaceae, Pleosporales) on Musaceae from Thailand. MycoKeys 70: 19-37. https://doi.org/10.3897/mycokeys.70.52043
Figure 1 Maximum likelihood tree revealed by RAxML from an analysis of SSU, LSU and ITS and TEF1-α sequence data of selected genera of family Didymosphaeriaceae, showing the phylogenetic position of Spegazzinia musae (MFLUCC 20-0001) and S. deightonii (MFLUCC 20-0002). ML bootstrap supports (≥60 %) and Bayesian posterior probabilities (≥ 0.95 BYPP) are given above in the branches, respectively. The tree was rooted with Pleospora herbarum and Stemphylium botryosum (Pleosporaceae). Strains generated in this study are indicated in red-bold. Ex-type species are indicated in bold. The scale bar represents the expected number of nucleotide substitutions per site. A best scoring RAxML tree is shown with a final ML optimization likelihood value of -13516.66. The matrix had 795 distinct alignment patterns, with 33.60% of undetermined characters or gaps. Estimated base frequencies were: A = 0.239862, C = 0.245185, G = 0.277025, T = 0.237927; substitution rates AC = 1.626982, AG = 2.468452, AT = 1.211822, CG = 1.092437, CT = 6.295657, GT = 1.000000; proportion of invariable sites I = 0.484119; gamma distribution shape parameter α = 0.445929.
Figure 3 from: Samarakoon BC, Phookamsak R, Wanasinghe DN, Chomnunti P, Hyde KD, Mckenzie EHC, Promputtha I, Xu J-C, Li Y-J (2020) Taxonomy and phylogenetic appraisal of Spegazzinia musae sp. nov. and S. deightonii (Didymosphaeriaceae, Pleosporales) on Musaceae from Thailand. MycoKeys 70: 19-37. https://doi.org/10.3897/mycokeys.70.52043
Figure 3 Spegazzinia musae (MFLU 19-2907, holotype) a–c fungal colonies on host surface d mature conidia e conidiophore of α conidia with the mother cell f, g α conidia h–q β conidia r colony on PDA after 28 days. Scale bars: 200 μm (a–c), 20 μm (d–g, j), 10 μm (h, i, k–q).
Data from: The fossil Osmundales (Royal Ferns)—a phylogenetic network analysis, revised taxonomy, and evolutionary classification of anatomically preserved trunks and rhizomes
The Osmundales (Royal Fern order) originated in the late Paleozoic and is the most ancient surviving lineage of leptosporangiate ferns. In contrast to its low diversity today (less than 20 species in six genera), it has the richest fossil record of any extant group of ferns. The structurally preserved trunks and rhizomes alone are referable to more than 100 fossil species that are classified in up to 20 genera, four subfamilies, and two families. This diverse fossil record constitutes an exceptional source of information on the evolutionary history of the group from the Permian to the present. However, inconsistent terminology, varying formats of description, and the general lack of a uniform taxonomic concept renders this wealth of information poorly accessible. To this end, we provide a comprehensive review of the diversity of structural features of osmundalean axes under a standardized, descriptive terminology. A novel morphological character matrix with 45 anatomical characters scored for 15 extant species and for 114 fossil operational units (species or specimens) is analysed using networks in order to establish systematic relationships among fossil and extant Osmundales rooted in axis anatomy. The results lead us to propose an evolutionary classification for fossil Osmundales and a revised, standardized taxonomy for all taxa down to the rank of (sub)genus. We introduce several nomenclatural novelties: (1) a new subfamily Itopsidemoideae (Guaireaceae) is established to contain Itopsidema, Donwelliacaulis, and Tiania; (2) the thamnopteroid genera Zalesskya, Iegosigopteris, and Petcheropteris are all considered synonymous with Thamnopteris; (3) 12 species of Millerocaulis and Ashicaulis are assigned to modern genera (tribe Osmundeae); (4) the hitherto enigmatic Aurealcaulis is identified as an extinct subgenus of Plenasium; and (5) the poorly known Osmundites tuhajkulensis is assigned to Millerocaulis. In addition, we consider Millerocaulis stipabonettiorum a possible member of Palaeosmunda and Millerocaulis estipularis as probably constituting the earliest representative of the (Todea-)Leptopteris lineage (subtribe Todeinae) of modern Osmundoideae.
FIGURE 2 in Integrative taxonomy reveals cryptic diversity in neotropical grasshoppers: taxonomy, phylogenetics, and evolution of the genus Sphenarium Charpentier, 1842 (Orthoptera: Pyrgomorphidae)
FIGURE 2. (Continued)
FIGURE 11 in Integrative taxonomy reveals cryptic diversity in neotropical grasshoppers: taxonomy, phylogenetics, and evolution of the genus Sphenarium Charpentier, 1842 (Orthoptera: Pyrgomorphidae)
FIGURE 11. (Continued)
Database of: The Mexican flora as a study case in systematics (Taxonomy, Phylogenetics, and Evolution); GenBank's accession meta-analysis
<p>Result database of The Mexican flora as a study case in systematics (Taxonomy, Phylogenetics, and Evolution); GenBank’s accession meta-analysis.</p>
Data from: Taxonomy in the phylogenomic era: Species boundaries and phylogenetic relationships among North American ants of the Crematogaster scutellaris group
<p>We investigate the species-level taxonomy and evolutionary history of Nearctic ants in the <i>Crematogaster scutellaris</i> group (Hymenoptera: Formicidae), drawing on evidence from morphology and UCE (ultraconserved element) phylogenomics. The New World species in this group form a well supported clade that originated in the late Miocene (~7.3 Ma) and subsequently diverged into three major lineages: the <i>coarctata</i> clade (southwest Nearctic), the <i>opaca</i> clade (southwest Nearctic and northern Neotropics), and the <i>lineolata</i> clade (eastern Nearctic and Caribbean, with four isolated Southwest endemics). We hypothesize trans-Beringian dispersal into the New World, west-to-east movement within North America, and restriction of mesophilic species to the east with increasing aridification of the west. The ancestral nesting behavior of these ants is inferred to be ground-dwelling, and this is still the predominant condition in the arid west, whereas most species in eastern United States are arboreal. We resurrect from synonymy nine species, and describe three new species: <i>C. detecta</i> <b>sp. nov.</b> (from Nevada)<i>, C. parapilosa</i> <b>sp. nov.</b> (Florida), and <i>C. vetusta</i> <b>sp. nov.</b> (Arizona). We provide a worker-based key to the thirty-four species of <i>Crematogaster</i> occurring in America north of Mexico, but emphasize that there are still ongoing taxonomic issues that need to be resolved.</p>
Supplementary material 1 from: Shi Y, Zeng Z, Wang J, Zhang S, Deng L, Wang A (2022) Three new species of Macrostomum (Platyhelminthes, Macrostomorpha) from China and Australia, with notes on taxonomy and phylogenetics. ZooKeys 1099: 1-28. https://doi.org/10.3897/zookeys.1099.72964
Table S1
Supplementary material 5 from: Shi Y, Zeng Z, Wang J, Zhang S, Deng L, Wang A (2022) Three new species of Macrostomum (Platyhelminthes, Macrostomorpha) from China and Australia, with notes on taxonomy and phylogenetics. ZooKeys 1099: 1-28. https://doi.org/10.3897/zookeys.1099.72964
Figure S2
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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.