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Fig. 1. a. Yucca brevifolia supporting 13 in Bagnalliella mojave (Thysanoptera: Phlaeothripidae) thrips inhabit small and isolated Yucca brevifolia (Agavaceae) host plants
Fig. 1. a. Yucca brevifolia supporting 13 leaf clusters and inhabited by Bagnalliella mojave. b. B. mojave adults and immatures on bases of young leaves at center of leaf cluster. c-f. Dorsal aspect of life stages illuminated from above: c, First-instar larva; d, Second-instar larva; e, Third instar (propupa); f, Brachypterous female mounted in euparal on slide.
Fig. 2 in Mexican strains of Hirsutella isolated from Diaphorina citri (Hemiptera: Liviidae): Morphologic and molecular characterization
Fig. 2. Phylogenetic tree constructed with sequences of the 28S ribosomal gene of 14 Hirsutella species enlisted in the NCBI and 7 Mexican strains isolated from D. citri in Mexico. Percentages from bootstrap analysis that support branches in the tree are shown in the respective nodes. Scale represents the number of substitutions/100 nucleotides.
Fig. 3 in Mexican strains of Hirsutella isolated from Diaphorina citri (Hemiptera: Liviidae): Morphologic and molecular characterization
Fig. 3. Percentage of mucilaginous colonies developed from fragments of mycelial colonies of 7 Hirsutella Mexican strains afer 5 days under dark conditions. Values followed by the same letter did not differ statistically (Tukey; P = 0.05). Lines in the bars indicate SD.
Screening of AMR-related genes in the genomes of Vibrio parahaemolyticus strains isolated in Europe from clinical, environmental and other sources
<p>The distribution of antimicrobial resistance (AMR) genes for the EU and European Free Trade Association (EFTA) countries data was obtained from the global <em>Vibrio parahaemolyticus</em> genomes based on a collection of nearly 10,000 genomes. Some of the strains are from the collection of prof. Jaime Martinez-Urtaza (Department of Genetics and Microbiology, Universitat Autònoma de Barcelona) or are part of ongoing studies to expand the genome collection; other genomes were retrieved from the European Nucleotide Archive (ENA at <a href="https://www.ebi.ac.uk/ena/browser/home" target="_blank" rel="noopener">https://www.ebi.ac.uk/ena/browser/home</a>) and the National Center for Biotechnology Information (NCBI) [GenBank at <a href="https://www.ncbi.nlm.nih.gov/genbank/" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/genbank/</a>; RefSeq at <a href="https://www.ncbi.nlm.nih.gov/refseq/" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/refseq/</a>; SRA at <a href="https://www.ncbi.nlm.nih.gov/sra" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/sra]</a>. For detection of AMR genes, a resistance genes detection pipeline based on one of the standard databases (CARD database at<a href="https://card.mcmaster.ca/" target="_blank" rel="noopener"> https://card.mcmaster.ca/</a>) was used. The phylogenetic tree was prepared and includes the reference genome from Japan <em>"Osaka" </em>as reference. The RIMD 2210633 strain has been added as the global reference strain which has been historically used for all the phylogenetic analysis of <em>V. parahaemolyticus</em>. The metadata includes the source of the strain, i.e., country, origin (clinical, environmental or unclear), date of isolation, and subtype. The antibiotic-resistant genes are shown as present, absent or not applicable. To build the ARGs European <em>V. parahaemolyticus</em> tree, the Parsnp tool, a fast core-genome multi-aligner and SNP detector, from the Harvest suite was used (Treangen et al., 2014). Parsnp calculates the MUMi distances between the reference genome (RIMD_2210633) and each one of the 152 genomes used in this study. The resulting Newick formatted core genome SNP tree was then uploaded onto the webtool I-Tol (Letunic and Bork, 2021), midpoint rooted and the metadata of the samples was incorporated.</p> <p>The accession IDs for the genomes included in the metadata are accessible in the following databases according to the first characters:<br>* GCA: GenBank (<a href="https://www.ncbi.nlm.nih.gov/genbank/" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/genbank/</a>)<br>* GCF: RefSeq (<a href="https://www.ncbi.nlm.nih.gov/refseq/" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/refseq/</a>)<br>* ERR: ENA (<a href="https://www.ebi.ac.uk/ena/browser/home" target="_blank" rel="noopener">https://www.ebi.ac.uk/ena/browser/home</a>)<br>* SRR: SRA (<a href="https://www.ncbi.nlm.nih.gov/sra" target="_blank" rel="noopener">https://www.ncbi.nlm.nih.gov/sra</a>)</p> <p>References</p> <p>Letunic I and Bork P, 2021. Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation. Nucleic Acids Res, 49:W293-w296. doi: 10.1093/nar/gkab301</p> <p>Treangen TJ, Ondov BD, Koren S and Phillippy AM, 2014. The Harvest suite for rapid core-genome alignment and visualization of thousands of intraspecific microbial genomes. Genome Biol, 15:524. doi: 10.1186/s13059-014-0524-x</p>
Fig. 4 in A report of 39 unrecorded bacterial species in Korea belonging to the classes Betaproteobacteria and Gammaproteobacteria isolated in 2018
Fig. 4. Neighbor-joining phylogenetic tree, based on 16S rRNA gene sequences, showing the relationship between the strains isolated in this study and their relatives of the orders Aeromonadales, Alteromonadales, Cellvibrionales and Enterobacterales in the class Gammaproteobacteria. Numbers at the nodes are levels of bootstrap value (%) based on 1000 replicated datasets; only values above 70% are shown. Bacillus subtilis subsp. subtilis NCIB 3610T (ABQL01000001) was used as an outgroup. Bar, 0.02 substitutions per nucleotide position.
Fig. 6 in A report of 39 unrecorded bacterial species in Korea belonging to the classes Betaproteobacteria and Gammaproteobacteria isolated in 2018
Fig. 6. Neighbor-joining phylogenetic tree, based on 16S rRNA gene sequences, showing the relationship between the strains isolated in this study and their relatives of the orders Pseudomonadales and Vibrionales in the class Gammaproteobacteria. Numbers at the nodes are levels of bootstrap value (%) based on 1000 replicated datasets; only values above 70% are shown. Bacillus subtilis subsp. subtilis NCIB 3610T (ABQL01000001) was used as an outgroup. Bar, 0.02 substitutions per nucleotide position.
Fig. 9 in Twelve unrecorded UV-resistant bacterial species isolated in 2020
Fig. 9. Neighbor-joining phylogenetic tree based on 16S rRNA gene sequences shows the relationship between the strains isolated in this study and their relatives of the genus Hymenobacter BT183. Bootstrap values (>70%) are shown above nodes. Bar: 0.01 substitutions per nucleotide position.
Fig. 3 in Twelve unrecorded UV-resistant bacterial species isolated in 2020
Fig. 3. Neighbor-joining phylogenetic tree based on 16S rRNA gene sequences shows the relationship between the strains isolated in this study and their relatives of the genus Rhodococcus BT623, BT581 and BT582. Bootstrap values (>70%) are shown above nodes. Bar: 0.01 substitutions per nucleotide position.
Fig. 2 in Twelve unrecorded UV-resistant bacterial species isolated in 2020
Fig. 2. Neighbor-joining phylogenetic tree based on 16S rRNA gene sequences shows the relationship between the strains isolated in this study and their relatives of the genus Aeromicrobium BT578 and BT579. Bootstrap values (>70%) are shown above nodes. Bar: 0.01 substitutions per nucleotide position.
FIGURE 6 in Massif Speciation Events in New Caledonian Lizards: Diversification in the Genus Marmorosphax (Scincidae) Tracks Isolation on the Island's Ultramafic Surfaces
FIGURE 6. The Mt. Kaala Massif in the distance from the summit of the Massif d'Ouazangou-Taom, separated by the low-lying Iouanga River valley.
FIGURE 3 in Massif Speciation Events in New Caledonian Lizards: Diversification in the Genus Marmorosphax (Scincidae) Tracks Isolation on the Island's Ultramafic Surfaces
FIGURE 3. High elevation forest habitat on the Massif d'Ouazangou-Taom (A) and exposed cuirasse rock cap variably distributed across the summit area and ridges of massifs in the central-west and northwest ultramafic region (B).
FIGURE 8 in Massif Speciation Events in New Caledonian Lizards: Diversification in the Genus Marmorosphax (Scincidae) Tracks Isolation on the Island's Ultramafic Surfaces
FIGURE 8. Distribution of ultramafic surfaces in the central-east region of Grande Terre showing location of populations in the Group 3 M. cf. tricolor lineage and regionally sympatric Group 4 M. tricolor lineage.
FIGURE 7 in Massif Speciation Events in New Caledonian Lizards: Diversification in the Genus Marmorosphax (Scincidae) Tracks Isolation on the Island's Ultramafic Surfaces
FIGURE 7. High elevation ranges of southern Grande Terre (from Pic Ningua), predominately maquis shrubland but with isolated forest at the top of the ranges.
Fig. 3 in The biology of an isolated Mashona mole-rat population from southern Malawi, with implications for the diversity and biogeography of the genus Fukomys
Fig. 3 Karyogram of a male Fukomys darlingi from Nsanje, Malawi; 2n = 54; aFN = 76. The chromosomes were paired by eye and ordered according to the position of the centromere and chromosome size. The X chromosome was arbitrarily designated. The vertical bar represents 10 µm
Fig. 2 in The biology of an isolated Mashona mole-rat population from southern Malawi, with implications for the diversity and biogeography of the genus Fukomys
Fig. 2 Selected Fukomys molerats from Malawi and adjacent regions. Shown are representatives of F. whytei from southern Tanzania (top left), nominate F. darlingi from Zimbabwe (top right), and F. darlingi from Nsanje in southern Malawi (below left: in the field on the day of capture; below right: captive family at the University of South Bohemia in České Budějovice). Photos by Tim Jackson and R. Šumbera
Fig. 1 in Isolation and characterization of two unrecorded yeast species in the phylum Basidiomycota
Fig. 1. Morphology of unrecorded strains incubated at 10℃. The colonies of Rhodotorula alborubescens B2UV-201 (A) and Rhodosporidiobolus odoratus DJ1-5-B-10C (B). Budding cells of Rhodotorula alborubescens B2UV-201 (C) and Rhodosporidiobolus odoratus DJ1-5-B-10C (D). All strains were grown for 3 days on YPD agar. Bars, 5 μm, and 10 μm, respectively.
Fig. 4 in New record of two feather mites (Acari: Sarcoptiformes: Astigmata) isolated from Actitis hypoleucos in South Korea
Fig. 4. Phyllochaeta interifolia, female; A, dorsal view; B, dorsal view of prodorsal shield; C, dorsal view of hysteronotal shield; D, ventral view of hysterosoma; E, setae cG of leg I and II; eg - epigynum. Scale bars: A, 0.2 mm; B-D, 0.1 mm; E, 0.02 mm.
Fig. 2. Avenzoaria totani, female. A in Three feather mites (Acari: Sarcoptiformes: Astigmata) isolated from Tringa glareola in South Korea
Fig. 2. Avenzoaria totani, female. A, dorsal view; B, dorsal view of idiosoma; C, ventral view of idiosoma; D, ventral veiew of opisthosoma. gp - genital papillae. Scale bars: A, 0.2 mm; B-D, 0.1 mm.
Fig. 5. Ingrassia veligera, male. A in Three feather mites (Acari: Sarcoptiformes: Astigmata) isolated from Tringa glareola in South Korea
Fig. 5. Ingrassia veligera, male. A, dorsal veiw; B, dorsal view of prodorsal shield; C, dorsal view of hysterosoma; D, ventral viewe of hysterosoma. Scale bars: A, 0.2 mm; B-D, 0.1 mm.
Fig. 4. Montchadskiana glareolae, female. A in Three feather mites (Acari: Sarcoptiformes: Astigmata) isolated from Tringa glareola in South Korea
Fig. 4. Montchadskiana glareolae, female. A, dorsal view; B, dorsal view of prodorsal shield; C, dorsal view of hysterosoma; D, ventral viewe of hysterosoma. gp - genital papillae, sc - supranal concavity. Scale bars: A, 0.2 mm; B-D, 0.1 mm.
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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.