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FIGURE 25 in Morphology and phylogeny of Halamphora yongxingensis sp. nov. (Bacillariophyta), a new marine benthic diatom isolated from Yongxing Island, South China Sea
FIGURE 25. Molecular phylogenetic tree based on rbcL gene sequences (692 positions included). The tree shown was resulted from Bayesian inference using GTR + I + G model. Nodal support values (NJ/ML/BI) greater than 50% (NJ, ML) and 0.50 (BI) were shown. Both of NJ and ML bootstrap analyses were performed with 1000 replicates.
FIGURE. 24 in Morphology and phylogeny of Halamphora yongxingensis sp. nov. (Bacillariophyta), a new marine benthic diatom isolated from Yongxing Island, South China Sea
FIGURE. 24. Molecular phylogenetic tree based on 18S rDNA sequences (1184 positions included). The tree shown was resulted from Bayesian inference using GTR + I + G model. Outgroup taxon was excluded. Nodal support values (NJ/ML/BI) greater than 50% (NJ, ML) and 0.50 (BI) were shown. Both of NJ and ML bootstrap analyses were performed with 1000 replicates.
FIGURES 19–23 in Morphology and phylogeny of Halamphora yongxingensis sp. nov. (Bacillariophyta), a new marine benthic diatom isolated from Yongxing Island, South China Sea
FIGURES 19–23. Halamphora yongxingensis sp. nov.,SEM micrographs. Fig. 19. Valve in internal view. Scale bar = 2 μm. Fig. 20. Central part of the valve in internal view. Note the proximal raphe ends terminate at a tongue-like expansion, the continuous striae on the ventral side of the valve (arrow a). A single row of elongated areolae close to the raphe-sternum is delimited by an internal longitudinal rib (arrow b) and not interrupted at the centre. Scale bar = 1 μm. Fig. 21. Valve apex in internal view showing distal raphe ending at a poorly developed helictoglossa (arrow). Scale bar = 1 μm. Fig. 22. Girdle bands on dorsal side of the frustule composed of two rows of ovoid or round poroids. Scale bar = 2 μm.
FIGURES 12–18 in Morphology and phylogeny of Halamphora yongxingensis sp. nov. (Bacillariophyta), a new marine benthic diatom isolated from Yongxing Island, South China Sea
FIGURES 12–18. Halamphora yongxingensis sp. nov.,SEM micrographs. Fig. 12. Frustule in dorsal view. Note the valve mantles and the girdle bands. Scale bar = 2 μm. Fig. 13. Frustule in ventral view. Note the small central area, girdle bands and uniseriate areolae on the valve dorsal striae. Scale bar = 2 μm. Fig. 14. Valve in external view showing the uniseriate dorsal striae, continuous ventral striae, the narrow conopeum and the raphe. Scale bar = 2 μm. Fig. 15. Valve in external view showing the high mantle on dorsal side. Scale bar = 2 μm. Figs 16, 17. Central part of the valve in external view. Scale bar = 1 μm. Fig. 16. Note the proximal raphe fissures bent dorsally, teardrop-shaped central pores. Fig. 17. Note the dorsal striae composed of uniseriate areolae throughout (arrow). Fig. 18. Detail of the valve apex in external view. Note the distal raphe fissure bent dorsally (arrow a). Also note the conopeum broadens at the poles and then tapers abruptly, forming a V-shape at the ends (arrow b). Scale bar = 2 μm.
FIGURES 1–11 in Morphology and phylogeny of Halamphora yongxingensis sp. nov. (Bacillariophyta), a new marine benthic diatom isolated from Yongxing Island, South China Sea
FIGURES 1–11. Halamphora yongxingensis sp. nov. Fig. 1. Untreated material showing the plastid structure. LM micrographs. Scale bar = 5 μm. Figs 2–11. Valve view showing the outline of the valve and size and shape variation. Fig. 8. Holotype. Fig. 9. The longest one. Fig. 10. The widest one. Fig. 11. The one with densest dorsal striae. Figs 2–8. LM micrographs. Figs 9–11. SEM micrographs. Scale bar = 5 μm.
FIGURE 2 in Phyllosiphon ari sp. nov. (Watanabea clade, Trebouxiophyceae), a new parasitic species isolated from leaves of Arum italicum (Araceae)
FIGURE 2. Ultrastructure of Phyllosiphon ari sp. nov. A. Cross section of parasitic filaments with thick cell wall containing endospores. B. Detail of an endospore with parietal chloroplast and large extraplastidial oil droplet. C. Autosporangium with autospores inside. Note the autospore released by rupture of autosporangial cell wall, strain CAUP H8803. D. Detail of chlorelloid cell with mitochondria, plastid containing plastoglobuli and starch grains, and extraplastidial oil droplet, strain CAUP H8803. Abbreviations: c, chloroplast; cw, cell wall; m, mitochondria; n, nucleus; o, oil droplet; s, starch grain. Scale bars: 0.5 μm (A–B, D), 2 μm (C).
FIGURE 4 in Phyllosiphon ari sp. nov. (Watanabea clade, Trebouxiophyceae), a new parasitic species isolated from leaves of Arum italicum (Araceae)
FIGURE 4. Bayesian analysis of Trebouxiophyceae based on the rbcL dataset. Numbers at nodes indicate statistical support (BPP> 0.95/ ML> 50 %/MP> 50 %). Thick branches represent nodes receiving the highest BPP support (1.00). The sequences newly acquired in this study are shown in bold. The scale bar shows the estimated number of substitutions per site.
FIGURE 1 in Phyllosiphon ari sp. nov. (Watanabea clade, Trebouxiophyceae), a new parasitic species isolated from leaves of Arum italicum (Araceae)
FIGURE 1. Morphology of Phyllosiphon ari sp. nov. A–B. A leaf of Arum at different stages of infection caused by Phyllosiphon ari. C. Branching filaments in the leaf parenchyma containing endospores. D. Detail of P. ari endospores released from filaments. E. Autosporangium of P. ari, strain N8. F. Vegetative cells with a remnant of the mother cell wall, strain N8. G. Vegetative cell and two-celled autosporangium, strain N8. H. Four-celled autosporangium, strain KRK-12. I. Vegetative cell with a detail of an ornamented cell wall, strain N5. J. Vegetative cells, strain N5. K. Vegetative cells, strain N6. L. Four-celled autosporangium, vegetative cells and autospore, strain N6. Scale bars: 1 cm (A–B), 20 μm (C), 5 μm (D–L).
FIGURE 3 in Phyllosiphon ari sp. nov. (Watanabea clade, Trebouxiophyceae), a new parasitic species isolated from leaves of Arum italicum (Araceae)
FIGURE 3. Bayesian analysis of Trebouxiophyceae based on the 18S rDNA dataset. Numbers at nodes indicate statistical support (BPP> 0.95/ML> 50 %/MP> 50 %). Thick branches represent nodes receiving the highest BPP support (1.00). The sequences newly acquired in this study are shown in bold. The scale bar shows the estimated number of substitutions per site.
FIGURE 2 in A new species of Mucor (Mucoromycotina, Mucorales) isolated from an enclave of Upland Atlantic Forest in the semi-arid region of Brazil
FIGURE 2. Phylogenetic tree of Mucoraceae constructed using the large subunit (LSU) rDNA sequences. Mortierella parvispora, Backusella lamprospora, B. grandis, Rhizopus microsporus, and Actinomucor elegans were used as outgroups. Sequences are labeled with their database accession numbers. Support values are from Bayesian inference and maximum likelihood analyses (values above and below the branches, respectively). The sequences obtained in this study are in boldface.
FIGURE 3 in A new species of Mucor (Mucoromycotina, Mucorales) isolated from an enclave of Upland Atlantic Forest in the semi-arid region of Brazil
FIGURE 3. Mucor septatum (holotype). A–D: branched multiseptate (arrows) sporangiophores; E–F: Unbranched multiseptate sporangiophores and columella; G: Unbranched septate sporangiophore with sporangium; H: sporangiospores.
FIGURE 1 in A new species of Mucor (Mucoromycotina, Mucorales) isolated from an enclave of Upland Atlantic Forest in the semi-arid region of Brazil
FIGURE 1. Phylogenetic tree of Mucor septatum and related species constructed using the ITS rDNA sequences. Mucor amphibiorum was used as an outgroup. Sequences are labeled with their database accession numbers. Support values are from Bayesian inference and maximum likelihood analyses (values above and below the branches, respectively). The sequences obtained in this study are in boldface.
Denovo SPAdes assemblies for isolates included in the 1000-genome panel of Zymoseptoria tritici
<p>SPAdes draft assemblies for isolates included in the 1000-genome panel of <em>Zymoseptoria tritici</em></p> <p> </p> <p>For methods, please refer to: <a href="https://doi.org/10.1038/s41467-023-36674-y"><span>https://doi.org/10.1038/s41467-023-36674-y</span></a></p> <div> <div> </div> </div> <p>Original abstract: </p> <div> <div> <p>Human activity impacts the evolutionary trajectories of many species worldwide. Global trade of agricultural goods contributes to the dispersal of pathogens reshaping their genetic makeup and providing opportunities for virulence gains. Understanding how pathogens surmount control strategies and cope with new climates is crucial to predicting the future impact of crop pathogens. Here, we address this by assembling a global thousand-genome panel of <em>Zymoseptoria tritici</em>, a major fungal pathogen of wheat reported in all production areas worldwide. We identify the global invasion routes and ongoing genetic exchange of the pathogen among wheat-growing regions. We find that the global expansion was accompanied by increased activity of transposable elements and weakened genomic defenses. Finally, we find significant standing variation for adaptation to new climates encountered during the global spread. Our work shows how large population genomic panels enable deep insights into the evolutionary trajectory of a major crop pathogen.</p> </div> </div>
FIGURE 2 in A novel Pestalotiopsis species isolated from Bulbophyllum thouars in Guangxi Province, China
FIGURE 2. Maximum parsimony phylogram generated from combined ITS, LSU, β-tubulin and tef1 analysis of Pestalotiopsis species. TL=2328, CI=0.59, RI=0.89, RC=0.53, HI=0.41. MP values (>50 %) resulting from 1000 bootstrap replicates. The tree is rooted with Neopestalotiopsis saprophyta.
FIGURE 1 in A novel Pestalotiopsis species isolated from Bulbophyllum thouars in Guangxi Province, China
FIGURE 1. Pestalotiopsis bulbophylli (HGUP 7001, holotype). a Host material. b Colony on PDA from above. c. Colony on PDA from below. d−e Vertical section of conidioma. f Conidiophores and conidia. g−h Conidia. Scale bars: d−e = 20 μm, f−h = 10 μm.
FIGURE 1 in Entoloma chamaemori (Entolomataceae, Basidiomycota)-a new boreal species, with isolated phylogenetic position
FIGURE 1. Maximum likelihood phylogeny (ITS) of selected members of the genus Entoloma inferred from RAxML analysis. Newly generated sequences are highlighted in bold. Sequence origins (GenBank) as well as voucher numbers (where available) are given. RAxML bootstrap supports values (>70%) and Bayesian posterior probabilities (>0.90) are indicated on the branches at nodes (ML/PP). The bar indicates 0.05 expected change per site per branch.
FIGURE 4. Entoloma chamaemori. a. Basidiospores, b. Basidia, c in Entoloma chamaemori (Entolomataceae, Basidiomycota)-a new boreal species, with isolated phylogenetic position
FIGURE 4. Entoloma chamaemori. a. Basidiospores, b. Basidia, c. Pileipellis. Bar = 10 μm. Drawings by Machiel Noordeloos.
Data underlying figures in "Turning on the emission from isolated GFP chromophore anions at cryogenic temperatures"
Open the record for dataset details and reuse information.
FIGURE 3. Mucor pernambucoensis strain URM 7640 in Description Of Mucor Pernambucoensis (Mucorales, Mucoromycota), A New Species Isolated From The Brazilian Upland Rainforest
FIGURE 3. Mucor pernambucoensis strain URM 7640 (holotype): A. colony surface after five days at 25 ºC on MEA; B. sporangiophore repeatedly sympodially branched with globose sporangia; C. sporangiophore with globose sporangia; D. sporangiophore with sporangium and globose columella visible; E, F. sporangiophores with columellae; G. chlamydospores globose; H. sporangiospores
FIGURE 2 in Description Of Mucor Pernambucoensis (Mucorales, Mucoromycota), A New Species Isolated From The Brazilian Upland Rainforest
FIGURE 2. Phylogenetic tree of Mucor constructed using the ITS rDNA sequences. Mortierella parvispora was used as an outgroup. Sequences are labeled with their database accession numbers. Support values are from Bayesian inference and maximum likelihood analyses (values above and below of the branches, respectively). The sequence obtained in this study is annotated in boldface.
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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.