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501 results for “Phylogenetic tree”
FIGURE 1. Phylogenetic tree generated from a in Koorchaloma oryzae sp. nov. (Stachybotryaceae, Sordariomycetes), from Oryza sativa (Poaceae) in northern Thailand
FIGURE 1. Phylogenetic tree generated from a maximum likelihood analysis based on a concatenated alignment of ITS, LSU and RPB2 sequences data representing Koorchaloma and other genera in Stachybotriaceae. The tree is rooted with Calonectria ilicicola (CBS 190.50), Fusarium sambucinum (CBS 146.95) and Nectria cinnabarina (CBS 125165). Bootstrap support values equal to or higher than 65% ML (left) or posterior probability values equal to or higher than 0.95 Bayesian PP (right) are indicated on the nodes. The new species is in red.
FIGURE 9. Maximum likelihood phylogenetic tree with 100 bootstraps using the aligned 16,409 in Two new species of Rhinogobius (Gobiiformes: Oxudercidae) from Palawan, Philippines, with their phylogenetic placement
FIGURE 9. Maximum likelihood phylogenetic tree with 100 bootstraps using the aligned 16,409 bp of mitochondrial genomes in Rhinogobius including the two new species, R. estrellae and R. tandikan, with Tridentiger kuroiwae as an outgroup taxon. Material sequenced in the present study are shown with the catalogue numbers of the vouchers (beginning with NSMT-P, URM- P, or WPU-PPC-P) and sequences from the International Nucleotide Sequence Database are shown with the accession numbers (R. cliffordpopei, R. duospilus, and R. leavelli). The scale bar indicates 0.02 substitutions per site. Pictures shown along with the species names are of the specimens with an asterisk.
FIGURE 2. Bayesian Inference phylogenetic tree including species from Brachycephalus didactylus and B in New species of flea-toad, genus Brachycephalus (Anura: Brachycephalidae) from the Atlantic Forest of Espírito Santo, Brazil
FIGURE 2. Bayesian Inference phylogenetic tree including species from Brachycephalus didactylus and B. ephippium groups occurring northward the state of São Paulo, based on 12S + 16S (1,152 bp, 42 terminals) genes, under GTR+G model of nucleotide substitution. We highlight the three phenotypic groups. Tip labels of Brachycephalus puri sp. nov. are in bold. Numbers close to nodes are Bayesian posterior probabilities (BPP). Values below 0.7 not shown.
FIG. 5. Bayesian phylogenetic tree inferred from D2D3 in First record of Bursaphelenchus hildegardae Braasch et al., 2006 (Nematoda) in New Zealand with updated information on morphology, sequencing and a key to species of the eggersi-group
FIG. 5. Bayesian phylogenetic tree inferred from D2D3 gene DNA sequences of Bursaphelenchus hildegardae. Posterior probabilities greater than 50% are given on appropriate clades. Nematode species, GenBank accession numbers and locations are listed for each taxon, if known.
FIGURE 2. Optimal phylogenetic tree from Maximum Likelihood analyses for the nrITS1–5.8S–ITS2 in Morphology and molecular data of the species of Suillus (Suillaceae, Boletales) associated with Pinus sibirica at the European northeast of Russia
FIGURE 2. Optimal phylogenetic tree from Maximum Likelihood analyses for the nrITS1–5.8S–ITS2 Suillus data. Bootstrap values (BS ≥ 70%) is added to the left of a node as follows: nearest neighbour method / maximum likelihood method. Scale bar indicates expected changes per site. New sequences from the Komi Republic are marked with red blocks. The specimen GenBank accession numbers in parentheses follows the names.
Figure 10. Amphibioplana onnisi. A, holotype RMNH.VER. 19956.a in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 10. Amphibioplana onnisi. A, holotype RMNH.VER. 19956.a, photomicrograph of a horizontal section of the left ovary (lo) with tuba (tu) and origin of the left oviduct (lod), testes (t) and vitellaria (vi); B, RMNH.VER. 19956.d, photomicrograph of a sagittal section at the level of the left ovary (lo), with testes (t) and vitellaria (vi); C, CGAS Pla 19.2, photomicrograph of a sagittal section at the level of the left ovary (lo), showing in detail the dorsal (de) and ventral epidermis (ve) with the subepidermal musculature, some vitellaria (vi), and the ventral nerve cord (vnc).
Figure 14 in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 14. Amphibioplana onnisi. Photomicrographs of the copulatory apparatus; sagittal sections. A, holotype RMNH. VER. 19956.a, showing penis bulb (pb), penis papilla (pp), genital atrium (ga), and the gonopore (go) opening into the cupshaped chamber (csc); anterior to the right; B, CGAS Pla 19. 2, showing copulatory bursa (cb), penis bulb, penis papilla and genital atrium; anterior to the right; C, RMNH.VER. 19958.d, showing copulatory bursa with a voluminous mass of sperm (s) in its lumen, penis bulb, penis papilla and genital atrium; anterior to the left; D, CGAS Pla 19.1b, showing copulatory bursa with sperm in its lumen, penis bulb, penis papilla and genital atrium; anterior to the left; E, CGAS Pla 24.5, sagittal section showing the proximal tract of the bursal canal (bc) with its diaphragm-like protrusion (bcd) into the copulatory bursa; anterior to the left; F, CGAS Pla 22. 6, transverse section showing the penis papilla with the two vasa deferentia (vd) running parallel before their fusion to form the ejaculatory duct.
Figure 3. Amphibioplana onnisi. A in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 3. Amphibioplana onnisi. A single, curled up specimen from under a stone in the Grutta 'e Pauli Cave. Scale bar not available.
Figure 9. Amphibioplana onnisi. A, RMNH.VER. 19956.d in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 9. Amphibioplana onnisi. A, RMNH.VER. 19956.d, photomicrograph of a sagittal section of the prepharyngeal region, showing the brain (b), the anterior intestinal branch (aib), the most anterior testes (t) and vitellaria (vi) and the left ovary (lo); B, photograph of a preserved specimen from the Grutta 'e Pauli Cave in ventral view, showing the vitellaria (vi), testes (t), pharynx (ph), and copulatory apparatus (ca).
Figure 8 in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 8. Amphibioplana onnisi. Photomicrographs of the pharynx, sagittal sections. A, CGAS Pla 19.2, oesophageal protrusion (oep) and convoluted tract of the pharynx (cph); anterior to the right; B, RMNH.VER. 19956.c, oesophageal protrusion (oep), also showing xanthophil (xg) and erythrophil (eg) secretions in the pharynx; anterior to the left.
Figure 5 in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 5. Amphibioplana onnisi. Habitus of live specimens from the Grutta 'e Pauli Cave. A, specimen with constriction just behind copulatory apparatus; B, C, anterior portion of specimen with regenerating blastema (rb) at the margin of the prepharyngeal part of the body; D, specimen with caudal tip located just behind the pharynx, suggesting a recent postpharyngeal fission; E, specimen with caudal tip located just behind the copulatory apparatus (ca), suggesting a recent caudal fission; F, specimen with a regenerating blastema behind the copulatory apparatus. Scale bars not available.
Figure 4 in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 4. Amphibioplana onnisi. Habitat in freshwater environments. A, entrance of Grutta 'e Pauli Cave; B, collection site in Grutta 'e Pauli Cave; C, collection site in San Pietro Cave; D, collection site in Istirzili Cave. Details on precise locations of the sampling sites in the caves are omitted for reasons of species protection.
Figure 2 in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 2. Maximum-likelihood tree inferred from the concatenated dataset, including the filtered 18S and 28S alignments (Table 2) of representatives of the various suborders of the Tricladida. Values at nodes correspond to UFB/SH-aLRT/PP; –: PP values below 0.5. Scale bar: number of substitutions per nucleotide position.
Figure 1 in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 1. Geographic distribution of Amphibioplana onnisi in the Mediterranean region. Rectangular inset corresponds with area enlarged to right-hand side, showing the island of Sardinia. Filled black circles indicate location of caves from which populations were sampled; green areas indicate the karst regions.
Figure 12. Amphibioplana onnisi. CGAS Pla 24.5 in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 12. Amphibioplana onnisi. CGAS Pla 24.5, sagittal reconstruction of the copulatory apparatus; anterior to the left.
Figure 15 in Amphibioplanidae: a new branch and family on the phylogenetic tree of the triclad flatworms (Platyhelminthes: Tricladida), represented by a species from Sardinian caves with a remarkable lifestyle
Figure 15. Amphibioplana onnisi. Photomicrographs of the copulatory apparatus. A, CGAS Pla 19.1b, sagittal section showing copulatory bursa (cb), bursal canal (bc) with its diverticulum (di), and common oviduct (cod); anterior to the left; B, RMNH.VER. 19957.a, sagittal section showing copulatory bursa (cb), penis papilla (pp), genital atrium (ga), cup-shaped chamber (csc), common oviduct (cod), and right oviduct (rod); anterior to the left.
Alignement and phylogenetic tree of 106 Lepidoptera
<p>We used both published and de novo sequences from one mitochondrial gene and seven nuclear genes, representing a total length of 7433 bp to infer a molecular phylogeny for 106 lepidopteran species.</p> <p>Müllerian mimicry is a positive interspecific interaction, whereby co-occurring defended prey species share a common aposematic signal. In Lepidoptera, aposematic species typically harbour conspicuous opaque wing colour patterns with convergent optical properties among co-mimetic species. Surprisingly, some aposematic mimetic species have partially transparent wings, raising the questions of whether optical properties of transparent patches are also convergent, and of how transparency is achieved. Here we conducted a comparative study of wing optics, micro and nanostructures in neotropical mimetic clearwing Lepidoptera, using spectrophotometry and microscopy imaging. We show that transparency, as perceived by predators, is convergent among co-mimics. Underlying micro- and nanostructures are also convergent despite a large structural diversity. We reveal that while transparency is primarily produced by microstructure modifications, nanostructures largely influence light transmission, maybe enabling additional fine-tuning in transmission properties. This study shows that transparency might not only enable camouflage but can also be part of aposematic signals.</p>
FIGURE 1. Strict consensus tree obtained from 12 in Revised classification of the New World Cylapini (Heteroptera: Miridae: Cylapinae): taxonomic review of the genera Cylapinus, Cylapoides and Peltidocylapus and a morphology-based phylogenetic analysis of tribe Cylapini
FIGURE 1. Strict consensus tree obtained from 12 most parsimonious trees under equal weights. Bremer support values are indicated below branches.
FIGURE. Phylogenetic tree based on RAxML analyses of a combined LSU, ITS and SSU dataset. Bootstrap support values for ML and MP equal to or greater than 75% and PP value greater than 0.95 are in thickened. Ex-type isolates are in bold, and new taxa are indicated in red. The tree is rooted with Atractospora aquatica (S-1297) and A. aquatica (MFLU 18–2322). in Conlarium sichuanense sp. nov., on Ficus virens from Sichuan Province, China
FIGURE. Phylogenetic tree based on RAxML analyses of a combined LSU, ITS and SSU dataset. Bootstrap support values for ML and MP equal to or greater than 75% and PP value greater than 0.95 are in thickened. Ex-type isolates are in bold, and new taxa are indicated in red. The tree is rooted with Atractospora aquatica (S-1297) and A. aquatica (MFLU 18–2322).
FIGURE 1. Phylogenetic tree obtained inferred from 69 taxa and 4287 in Dothidea kunmingensis, a novel asexual species of Dothideaceae on Jasminum nudiflorum (winter jasmine) from Southwestern China
FIGURE 1. Phylogenetic tree obtained inferred from 69 taxa and 4287 sites of a combined SSU, LSU, ITS, tub2 and tef1-α sequence dataset. Numerical values at the nodes indicate maximum likelihood bootstrap support (MLBS) and posterior probabilities (PP) in this order. Bootstrap support values for ML higher than 70 % and PP higher than 0.95 are indicated at the node. Ex-type strains are in bold font; the newly generated sequence is in blue bold font.
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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.