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3,761 results for “phylogenetic relationship”
Figure 3 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Figure 3 Genomic variation by non-parametric DAPC. ADAPC plot of the densities of U.antarctica (blue) and U.aurantiacoatra (green) on the first retained discriminant function B Bar plot of group membership probabilities.
Figure 2 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Figure 2 Pairwise Gst, G'st and D distribution. Pairwise values of Nei's Gst (green), Hedrick's G'st (blue) and Jost's D (yellow) are plotted by their frequency.
Figure 1 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Figure 1 Phylogenetic tree inferred from the U.antarctica and U.aurantiacoatraRADseq data. The clades of each species are highlighted by brackets. Bootstrap values are indicated at the branches. The unit of branch length is substitutions per site. Note that branches leading to both major clades were abbreviated by 0.4 substitutions per site.
Supplementary material 1 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Origin of samples used for this study :
Figure 4 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Figure 4 Clustered fineRADstructure co-ancestry matrix. A Full dataset including U.antarctica collected on the Antarctic Peninsula in addition to U.antarctica and U.aurantiacoatra collected on King George Island and Elephant Island B Reduced dataset with all U.antarctica and U.aurantiacoatra collected on King George Island and Elephant Island. Two major clades are corresponding to the two species U.antarctica (top-left) and U.aurantiacoatra (bottom-right). The top and left trees were calculated from the co-ancestry matrix to sort the individuals by their population structure. The matrix is diagonally split into the top-right half showing raw data and the bottom-left half displaying aggregated data.
Supplementary material 3 from: Grewe F, Lagostina E, Wu H, Printzen C, Lumbsch HT (2018) Population genomic analyses of RAD sequences resolves the phylogenetic relationship of the lichen-forming fungal species Usnea antarctica and Usnea aurantiacoatra. MycoKeys 43: 91-113. https://doi.org/10.3897/mycokeys.43.29093
Correlation of RADseq results after individual steps of RAD analyses :
Supplementary material 7 from: Desjardins SD, Bailey JP, Zhang B, Zhao K, Schwarzacher T (2023) New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae). PhytoKeys 220: 83-108. https://doi.org/10.3897/phytokeys.220.96922
Total evidence multiple-sequence alignment
Supplementary material 6 from: Desjardins SD, Bailey JP, Zhang B, Zhao K, Schwarzacher T (2023) New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae). PhytoKeys 220: 83-108. https://doi.org/10.3897/phytokeys.220.96922
Combined chloroplast multiple-sequence alignment
Supplementary material 4 from: Desjardins SD, Bailey JP, Zhang B, Zhao K, Schwarzacher T (2023) New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae). PhytoKeys 220: 83-108. https://doi.org/10.3897/phytokeys.220.96922
ITS multiple-sequence alignment
Supplementary material 2 from: Desjardins SD, Bailey JP, Zhang B, Zhao K, Schwarzacher T (2023) New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae). PhytoKeys 220: 83-108. https://doi.org/10.3897/phytokeys.220.96922
Accessions used in the current study
Supplementary material 3 from: Desjardins SD, Bailey JP, Zhang B, Zhao K, Schwarzacher T (2023) New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae). PhytoKeys 220: 83-108. https://doi.org/10.3897/phytokeys.220.96922
Primer sequences and PCR cycling conditions
Supplementary material 1 from: Desjardins SD, Bailey JP, Zhang B, Zhao K, Schwarzacher T (2023) New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae). PhytoKeys 220: 83-108. https://doi.org/10.3897/phytokeys.220.96922
Additional phylogenetic trees from ITS, LEAFYi2 and combined chloroplast analyses.
Supplementary material 5 from: Desjardins SD, Bailey JP, Zhang B, Zhao K, Schwarzacher T (2023) New insights into the phylogenetic relationships of Japanese knotweed (Reynoutria japonica) and allied taxa in subtribe Reynoutriinae (Polygonaceae). PhytoKeys 220: 83-108. https://doi.org/10.3897/phytokeys.220.96922
LEAFYi2 multiple-sequence alignment
Figure 4 in The fifth family of the true crickets (Insecta: Orthoptera: Ensifera: Grylloidea), Oecanthidae defin. nov.: phylogenetic relationships and divergence times
Figure 4. Distribution maps of Oecanthidae subfamilies and supertribes.
Figure 8 in The fifth family of the true crickets (Insecta: Orthoptera: Ensifera: Grylloidea), Oecanthidae defin. nov.: phylogenetic relationships and divergence times
Figure 8. Diatrypa (Diatrypa) tuberculata. A, female; B, male.
Fig. 2 in Croton restingae sp. nov. (Euphorbiaceae), a new species of section Adenophylli from the state of Rio de Janeiro, Brazil, and its phylogenetic relationships
Fig. 2. Croton restingae Sodré & Riina sp. nov. A. Flowering branch. B. Indument of branch. C. Trichomes of branches. D. Stipule. E. Leaf. F–G. Foliar base (adaxial surface) showing the nectaries. H. Foliar base (abaxial surface) showing the nectaries. I. Trichomes of adaxial and adaxial surfaces of the leaf blade. J. Pistillate bract, dorsal surface. K. Pistillate bract, ventral surface. L–M. Pistillate bracteoles, dorsal surface. N. Pistillate flower. O. Pistillate sepal, dorsal surface. P. Pistillate sepal, ventral surface. Q. Gynoecium. R. Nectary disk of pistillate flower and glandular petals. S. Staminate flower. T. Calyx of staminate flower, dorsal view. U. Capsule. V. Carpophore showing the columella with discrete appendages at the apex. Drawn by Renato Galhardo Neto. A–R, T from M.F. Vasconcelos s.n.; S from J. Fontella 2899; U from s.col. s.n. R[99957]; V from A. Souza et al. 3163.
Supplementary material 1 from: Mohamadzade Namin S, Huang J, An J, Jung C (2023) Genetic variation and phylogenetic relationships of commercial populations of Bombus ignitus (Hymenoptera, Apidae) with wild populations in Eastern Asia. Journal of Hymenoptera Research 96: 495-506. https://doi.org/10.3897/jhr.96.102569
Information for COI sequences of Bombus ignitus from this study and NCBI-Genbank database
FIG. 3 in Cranial And Postcranial Morphology Of The Insectivoran-Grade Mammals Hsiangolestes And Naranius (Mammalia, Eutheria) With Analyses Of Their Phylogenetic Relationships
FIG. 3. Composite carbon isotope and magnetic stratigraphy of the Hengyang Basin Paleocene/Eocene boundary interval. A. (above) Composite stratigraphic data from local sections 1 (diamonds), 2 (circles) and 3 (squares) projected on the section 1 stratigraphic scale. The positions of Hengyang Basin (HB) faunal horizons are indicated by LC-L: lower Lingcha fauna from Limuping Formation, LC-U: upper Lingcha fauna from Lingcha Formation. Paleomagnetic data, presented as the latitude of the Virtual Geomagnetic Pole (VGP) corresponding to the average site direction for each sampling locality. Solid symbols represent data from alpha sites, and open circles represent beta sites. Magnetochron assignments are made with reference to marine Paleocene/Eocene boundary section (Kennett and Stott, 1991). B. (opposite page) The Paleocene/Eocene boundary is placed at the base of the carbon isotope excursion, and assigned an age of 54.97 Ma after Wing et al. (1999). Modified from Ting et al. (2003).
Data matrix for phylogenetic analysis of fossil insectivorans in: Cranial and postcranial morphology of the insectivoran-grade mammals Hsiangolestes and Naranius (Mammalia, Eutheria) with analyses of their phylogenetic relationships
<p>Early Cenozoic "insectivorans" possess some of the most primitive morphologies among eutherian mammals. Studies of these archaic mammals offer insights into the early diversifications of basal eutherians. Despite such importance, early fossil "insectivorans" from Asia are poorly known due to a scarcity of fossil remains, which often consist only of fragmentary jaws and teeth. Discoveries of remarkably well-preserved fossil "insectivorans", including complete skulls and articulated postcranial skeletons, from the early Eocene Hengyang Basin in south-central Hunan Province, China, offer a rare opportunity to thoroughly study two taxa belonging to different families.</p> <p>Fine-grained red beds from Hengyang Basin preserve extraordinary fossils with morphological structures rarely seen elsewhere. Thin sections of a skull of Hsiangolestes youngi Zheng and Huang, 1984, for example, reveal the extremely delicate nasal and maxillary turbinates, which, as far as we are aware, are the first known from fossils of this age. We thus take this opportunity to document in detail the cranial and dental morphology, as well as postcranial skeletons, of the Hengyang "insectivorans."</p> <p>In this monograph, we describe several complete skulls and serial sections of a skull, as well as many partial skulls, mandibles, and postcranial skeletons of Hsiangolestes youngi, an Asian early Eocene insectivoran-grade mammal. We also report a new species of Naranius Russell and Dashzeveg 1986—N. hengdongensis—an Asian early Eocene cimolestid and describe its well-preserved skulls and mandibles.</p> <p>Hsiangolestes is endemic to Asia. It is currently known only from the earliest Eocene Lingcha Formation, Hengyang Basin, Hunan Province, China. Naranius closely resembles Cimolestes Marsh, 1889, the type genus of the family Cimolestidae. It is mainly distributed in Asia and known from the earliest Eocene deposits in the Bumban Member of the Naran Bulak Formation, Nemegt Basin, of Mongolia, and the Lingcha Formation, Hengyang Basin, Hunan Province, China. The only record of Naranius reported outside of Asia is N. americanus from the early Wasatchian Red Hot Local Fauna, Mississippi, United States.</p> <p>Using PAUP and TNT search algorithms, we place these Hengyang taxa within phylogenetic context of other fossil "insectivorans" from the Mesozoic and early Cenozoic of Asia together with some well-known Holarctic taxa. A phylogenetic analysis of 290 cranial and dental characters from 36 fossil and modern insectivoran-grade taxa is presented, focusing on new materials of Hsiangolestes youngi and Naranius hengdongensis. Based on the results of our phylogenetic analyses, we propose that (1) Hsiangolestes, Prosarcodon, Sarcodon, and Sinosinopa, form a monophyletic group, for which we propose the family name Sarcodontidae; (2) the family Cimolestidae should be restricted to Naranius and Cimolestes, which are sister taxa; (3) the systematic position of Naranius americanus is uncertain; and (4) the family Micropternodontidae should be restricted to Micropternodus and its allies in North America.</p>
Fig. 1 in Specialised metabolites as chemotaxonomic markers of Coptosapelta diffusa, supporting its delimitation as sisterhood phylogenetic relationships with Rubioideae
Fig. 1. The chemical structures of compounds 1–21.
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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)
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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.