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293 results for “host range”
liampshaw/Pathogen-host-range: Pathogen-host-range initial code release
<p>Release of code and dataset for publication of associated paper: "The phylogenetic range of bacterial and viral pathogens of vertebrates" (doi: 10.1111/mec.15463).</p>
A curated database of fungal pathogens and their host range
<p>This database contains a manually curated set of human, animal and plant pathogens, annotated with their confirmed host range and relevant sources. In addition to that, we include additional sets of plant-associated fungi (which may include non-pathogens), as well as fungi with an automatically assigned, putative human, animal or plant host. The labelled fungal species are linked to their representative GenBank genomes wherever possible. Genomes that were screened, but no label was found, are also included.</p> <p><strong>[Last update on: 11 Dec 2022]</strong><br> [Home page: <a href="https://dacs-hpi.gitlab.io/pathogenic-fungi/">https://dacs-hpi.gitlab.io/pathogenic-fungi/</a>]<br> <br> The database is stored in a flat-file format. All metadata are stored in all_data_[date].csv, and all_data_[date].rds contains the same data in a compressed format that can be easily loaded in R. The database was first compiled on 9 Oct 2021 (v1.0), and then updated on 2 Jan 2022 (v1.1) and 11 Dec 2022 (v1.2).</p> <p>The core database is limited to manually confirmed human, animal and plant pathogens with available genomes as of 9 Oct 2021. Those data are a subset of all_data, and are stored in core_fungal_pathogens.csv and core_fungal_pathogens.rds.</p> <p>The temporal-test subset contains confirmed pathogens with genomes added to GenBank between 9 Oct 2021 and 2 Jan 2022.</p> <p>You may also be interested in trained neural network models predicting pathogenic potentials of novel fungi from DNA sequences (<a href="https://zenodo.org/record/5711877">https://zenodo.org/record/5711877</a>) and simulated Illumina read sets used to train them (<a href="https://zenodo.org/record/5846397">https://zenodo.org/record/5846397</a>).<br> <br> See also the preprint: <a href="https://www.biorxiv.org/content/10.1101/2021.11.30.470625">https://www.biorxiv.org/content/10.1101/2021.11.30.470625</a> and <strong>the paper</strong> presented at ECCB '22 and published in <em>Bioinformatics:</em> <a href="https://doi.org/10.1093/bioinformatics/btac495">https://doi.org/10.1093/bioinformatics/btac495.</a></p>
Geographic range size and species morphology determines the organization of sponge host-guest interaction networks across tropical coral reefs (Raw data)
<p>Datasets for the analysis developed in the Article "<em><strong>Geographic range size and species morphology determines the organization of sponge host-guest interaction networks across tropical coral reefs</strong></em>". For more information, please refer to the original publication.</p> <p>Network_Structural_Index_&_SpogeTraits.csv <- Structural Index for the sponge-dwelling fauna network, sponge accumulated area and sponges’ morphology.</p> <p>NWTA_CoralReefs_Sponges_ interactions.csv <- Relationship between host sponges and guest fauna in the Northwester Atlantic coral reefs</p> <p>NWTA_CoralReefs_Sponge_reacords.csv <- Sponge species incidence records in the Northwester Atlantic coral reefs</p> <p>sponges_morphological_description.csv <- Sponge morphological standardization</p> <p>Network.html <- Interactive sponge-dwelling fauna network</p> <p>Enjoy!<br> </p>
Fig. 4 in New record of endoparasitic Pseudempleurosoma haywardi (Monogenea: Dactylogyridae) in sillaginid fishes from Thailand, with updates on host range, zoogeography, and morphological variation
Fig. 4. Schematic drawings of different shapes of MCO of the current Pseudempleurosoma haywardi specimens. Scale bar = 10 µm.
Fig. 1 in New record of endoparasitic Pseudempleurosoma haywardi (Monogenea: Dactylogyridae) in sillaginid fishes from Thailand, with updates on host range, zoogeography, and morphological variation
Fig. 1. Schematic measurement characteristics of the organs of Pseudempleurosoma haywardi. A, MCO with Accessory piece; B, egg; C, muscular genital atrium; D, ovary; E, testis; F, dorsal anchors; G, dorsal bar; H, ventral anchor with attached ventral bar; I, detached ventral bar; J, marginal hook. Abbreviations used: APL: accessory piece length, AVBL: attached ventral bar length, DAL: dorsal anchor length, DBL: dorsal bar length, DBW: dorsal bar width, DVBL: detached ventral bar length, EL: egg length, EW: egg width, MAL: muscular genital atrium length, MAW: muscular genital atrium width, MCO: male copulatory organ, MCOL: male copulatory organ length, MHL: marginal hook length, OL: ovary length, OW: ovary width, TL: testis length, TW: testis width, VAL: ventral anchor length.
Fig. 3 in New record of endoparasitic Pseudempleurosoma haywardi (Monogenea: Dactylogyridae) in sillaginid fishes from Thailand, with updates on host range, zoogeography, and morphological variation
Fig. 3. Schematic drawings of Pseudempleurosoma haywardi. A, whole body; B, MCO; C, ventral anchor with attached ventral bar; D, marginal hooks; E, dorsal anchor; F, egg; G, detached ventral bar; H, dorsal bar. Scale bars: A = 500 µm; B–H = 10 µm.
Fig. 2 in New record of endoparasitic Pseudempleurosoma haywardi (Monogenea: Dactylogyridae) in sillaginid fishes from Thailand, with updates on host range, zoogeography, and morphological variation
Fig. 2. General morphology of Pseudempleurosoma haywardi under phase-contrast microscope (A, B) and light microscope (C–G). A, whole body; B, opisthaptor part; C, opisthaptor with anchors, bar and marginal hooks; D, egg with MCO; E, egg; F, funnel-shaped of MCO with accessory pieces; G, cup-shaped MCO with accessory pieces. Abbreviations used: ASP: accessory piece, AVB: attached ventral bar, DA: dorsal anchor, DB: dorsal bar, DVB: detached ventral bar, E: egg, ES: eye spot, HG: head glands, MCO: male copulatory organ, MH: marginal hook, OP: opisthaptor, P: pharynx, VA: ventral anchor, VF: vitelline follicles. Scale bars: A = 100 µm; B–G = 20 µm.
Fig. 6 in New record of endoparasitic Pseudempleurosoma haywardi (Monogenea: Dactylogyridae) in sillaginid fishes from Thailand, with updates on host range, zoogeography, and morphological variation
Fig. 6. Phylogenetic tree of partial 28S rRNA of monogeneans based on Maximum Likelihood methods. Two major Clades A and B are distinguished. External branches with and without round tips represent members of Dactylogyridae and Ancyrocephalidae, respectively (when classified following the NCBI database), except for the outgroup. Bootstrap support values are indicated at each node. Monogenean sequence data from this study are shown in bold. Scale bar represents the number of nucleotide substitutions per site.
Fig. 5 in New record of endoparasitic Pseudempleurosoma haywardi (Monogenea: Dactylogyridae) in sillaginid fishes from Thailand, with updates on host range, zoogeography, and morphological variation
Fig. 5. General morphology of the infected sillaginid fishes, (A) Sillago aeolus and (B) Sillago sihama. Scale bars = 1 cm.
Fig. 1 in Field host range of Apanteles opuntiarum (Hymenoptera: Braconidae) in Argentina, a potential biocontrol agent of Cactoblastis cactorum (Lepidoptera: Pyralidae) in North America
Fig. 1. Distribution of Apanteles opuntiarum (circles) and Apanteles alexanderi (triangles) that emerged from species of Pyralidae collected in Argentina, Aug 2007–Mar 2014.
Fig. 2 in Host range expansion and increasing damage potential of Euwallacea nr. fornicatus (Coleoptera: Curculionidae) in Florida
Fig. 2. Relationships among host tree diameter, height above ground, and site of attack by Euwallacea nr. fornicatus. Density of beetle entrance holes versus the trunk or branch diameter (A) and the trunk or branch height (B) of host Lysiloma latisiliquum from 4 trees. Mean values topped by the same letter are not significantly different (Tukey's test, P = 0.05).
Fig. 1 in Host range expansion and increasing damage potential of Euwallacea nr. fornicatus (Coleoptera: Curculionidae) in Florida
Fig. 1. Ambrosia beetle gallery entrances in the trunk of a Lysiloma latisiliquum. Euwallacea nr. fornicatus and Theoborus ricini were the two most abundant species of ambrosia beetle recovered from L. latisiliquum.
Fig. 3 in Host range of the invasive tomato pest Tuta absoluta Meyrick (Lepidoptera: Gelechiidae) on solanaceous crops and weeds in Tanzania
Fig. 3. Tuta absoluta-related damage in solanaceous crops and weeds in Tanzania. Damage values are averaged across all survey locations (see Table 1). Damage was quantified as the number of T. absoluta mines per leaf (A) and percentage of T. absoluta-damaged fruits (B) in 10 locations within each sampled field. Six to 12 fields were sampled per crop, and 1 to 3 fields per weed species (see Table 2). Tomato, Solanum lycopersicum; eggplant or aubergine, Solanum melongena; African (Afr.) eggplant, Solanum aethiopicum; African (Afr.) nightshades, Solanum nigrum and Solanum americanum; pepper, Capsicum annuum; and 3 weed species, Datura stramonium, Nicandra physalodes, and Solanum incanum.
Fig. 1 in Host range of the invasive tomato pest Tuta absoluta Meyrick (Lepidoptera: Gelechiidae) on solanaceous crops and weeds in Tanzania
Fig. 1. Map of locations surveyed to determine host range and infestation level of Tuta absoluta in solanaceous crops and weeds in 2015. Four districts were targeted, each within the major tomato-producing regions of Tanzania. Within each district, 3 villages (indicated by black circles) were randomly selected for the survey (see Table 1).
Fig. 7 in A study of Cactoblastis cactorum (Lepidoptera: Pyralidae) in its native range: further insights into life cycle, larval identification, developmental parameters, natural enemies, and damage to the host plant Opuntia ficus-indica (Caryophyllales: Cactaceae)
Fig. 7. Comparison of 3 characteristic forms of damage: (a) hole and feces coming from inside the pad, useful to distinguish pads with Cactoblastis cactorum; (b) typical damage observed in plants that were attacked by C. cactorum; (c) circular black spot fungal damage; (d) map black spot fungal damage.
Fig. 6 in A study of Cactoblastis cactorum (Lepidoptera: Pyralidae) in its native range: further insights into life cycle, larval identification, developmental parameters, natural enemies, and damage to the host plant Opuntia ficus-indica (Caryophyllales: Cactaceae)
Fig. 6. Proportion of Cactoblastis cactorum infected cladodes parasitized by Apanteles opuntiarum and proportion per cladode of C. cactorum larvae parasitized by A. opuntiarum throughout the yr for sites from Santiago del Estero, Córdoba, and Tucumán provinces. The average and standard deviation of the number of pupae of A. opuntiarum per C. cactorum larvae also is shown.
Fig. 2 in A study of Cactoblastis cactorum (Lepidoptera: Pyralidae) in its native range: further insights into life cycle, larval identification, developmental parameters, natural enemies, and damage to the host plant Opuntia ficus-indica (Caryophyllales: Cactaceae)
Fig. 2. Description of spots and setae from larval I to VI, shown in the pro- and meso-thoracic segment, and the seventh and anal abdominal segments: D1–2: dorsal setae; SD1–2: subdorsal setae; XD1–2: prothoracic setae; L1–3: lateral setae; SV1–2: subventral setae; PP1: posterior setae; spot "k" in prothorax, "h" in mesothorax, "a" and "c" in the seventh abdominal segment, and anal shield in the tenth and last abdominal segment.
Fig. 5 in A study of Cactoblastis cactorum (Lepidoptera: Pyralidae) in its native range: further insights into life cycle, larval identification, developmental parameters, natural enemies, and damage to the host plant Opuntia ficus-indica (Caryophyllales: Cactaceae)
Fig. 5. Number of larvae of Cactoblastis cactorum per mo from all sites of Tucumán and the proportion of those that were parasitized by Apanteles.
Fig. 1 in A study of Cactoblastis cactorum (Lepidoptera: Pyralidae) in its native range: further insights into life cycle, larval identification, developmental parameters, natural enemies, and damage to the host plant Opuntia ficus-indica (Caryophyllales: Cactaceae)
Fig. 1. (a) An eggstick oviposited on a pad of Opuntia ficus indica; (b) Anterior part of the larva exhibiting the cephalic capsule and prothorax starting to sclerotize; (c) Larva II has a dark shield on the prothorax and small macula at the base of each setae in the abdomen; (d) Larva III with bigger maculae with alternating color intensity on successive segments; (e) Larva IV with a white line between the head capsule and prothorax shield; (f) Larva V characterized by almost continuous black rings on the abdomen on an orange-brownish back- ground; (g) Typical bright orange larval VI with the prothorax shield fractured in 2 and apparently continuous black rings; (h) pupa within silk cocoon and naked pupa; Cactoblastis cactorum females (lef) and males (right); females have longer palps (i) than males (j). Both genders are characterized by a transverse line in the distal part of the wings (k, l).
Fig. 3 in A study of Cactoblastis cactorum (Lepidoptera: Pyralidae) in its native range: further insights into life cycle, larval identification, developmental parameters, natural enemies, and damage to the host plant Opuntia ficus-indica (Caryophyllales: Cactaceae)
Fig. 3. Proportion of individuals of different developmental stages of Cactoblastis cactorum in Tucumán throughout the year. Inside the bars: E = eggsticks, L = larvae, P = pupae.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.