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298 results for “biological invasions”
Invasion Biology WikiProject Scientific Papers: Text Data Mining and LLM-based Information Extraction of Species, Locations, Habitats, and Ecosystems
<p>This dataset contains the abstract and full-text for publication DOIs from the Invasion Biology WikiProject (DOI: <a href="https://www.doi.org/10.5281/zenodo.12518036">10.5281/zenodo.12518036</a>). The data was retrieved using the <a href="https://ask.orkg.org/">ask.orkg.org</a> <a href="https://api.ask.orkg.org/docs#tag/Semantic-Neural-Search/operation/explore_documents_index_explore_get">API</a>. For the <a href="https://github.com/jd-coderepos/invasion-biology-IE/blob/main/scripts/ask-doi-list-fulltext-search.py">script</a> used to obtain the data, refer to the accompanying GitHub repository: <a href="https://github.com/jd-coderepos/invasion-biology-IE/" target="_blank" rel="noopener">https://github.com/jd-coderepos/invasion-biology-IE/</a>.</p> <p>The resulting CSV file includes the following fields: <code>"ASK ID"</code>, <code>"DOI"</code>, <code>"Title"</code>, <code>"Abstract"</code>, and <code>"Full-text"</code>.</p> <p>Of the 49,438 queried DOIs, the ASK database provided:</p> <ul> <li><strong>Total DOIs processed:</strong> 12,636</li> <li><strong>DOIs with neither abstract nor full-text:</strong> 36 (abstract token count was less than 10)</li> <li><strong>DOIs with abstracts but no full-text:</strong> 12,636</li> <li><strong>DOIs with both abstract and full-text:</strong> 2,834</li> </ul> <p>The second part of the dataset contains structured information extracted from the publications using the GPT-4o Large Language Model. This structured data is included in the zipped folder <code>structured-publications.zip</code>.</p> <p>The accompanying GitHub repository provides access to the code and scripts used at various stages of the information extraction (IE) process.</p> <p><strong>Theme of the Study:</strong><br>"Mining for Species, Locations, Habitats, and Ecosystems from Scientific Papers in Invasion Biology: A Large-Scale Exploratory Study with Large Language Models."</p>
A mapping of keywords from published papers on alien squirrels to biological invasion research themes
<p><strong>Context</strong></p> <p>This dataset was used to produce the worldl and the graphs in the editorial to the research topic <a href="https://www.frontiersin.org/research-topics/29270/ecology-impact-and-management-of-squirrel-invasions"><em>Ecology, impact and management of squirrel invasions</em></a> (La Morgia et al. 2023).</p> <p><strong>Contents of the dataset</strong></p> <p>The dataset contains the keywords of papers since 2000 harvested with a Web of Science search (performed on 29/05/2023) using the advanced search string TS=(invasive squirrel) OR TI=(invasive squirrel) OR AB=(invasive squirrel). We screened the search results, excluding papers irrelevant to alien squirrels, for example, papers on computer science or physiology, medical or other aspects without any bearing to conservation science. To do this, we checked the abstract and keywords of the papers. Out of the 401 initial papers, after this first screening, we kept 217 in this dataset. The keywords of these papers were manually assigned to alien squirrel research topics by the authors of this dataset (using an own categorisation) and then mapped to the seven broad themes of invasive alien species research of <a href="https://doi.org/10.1007/s10530-023-03067-7">Stevenson et al. (2023)</a>: </p> <ol> <li>Ecosystems: topics which discuss a specific region, or biome, or focused on a particular species strongly associated with one ecosystem type;</li> <li>Monitoring: topics regarding all aspects of monitoring, including detection, identification, and distributional mapping;</li> <li>Management and decision-making: topics discussing the management and socio-political aspects of invasion science, such as prevention, control, and policy;</li> <li>Interactions: topics discussing the interactions with native species, or the effects of those interactions</li> <li>Assessing change: topics focused on studying and analysing temporal and ecological change;</li> <li>Traits: topics that explored the characteristics of alien squirrels;</li> <li>Invasion mechanisms: topics discussing dispersal pathways and drivers of spread.</li> </ol> <p><strong>Dataset description</strong></p> <p>Every row (N = 1275) in the comma-separated .csv represents one original keyword with reference to the paper in which that keyword appears and mapped to the research topics on invasive squirrels and the broad themes in invasion biology research. The .csv contains the following fields:</p> <ul> <li>ID: a unique ID assigned to the combination of an original keyword and the corresponding paper harvested from the WoS search</li> <li>original_keyword: the original keywords associated with the paper (WoS search)</li> <li>keyword_topic: categorization of original keywords into topics related to invasive squirrel research by La Morgia et al. (2023)</li> <li>mapped_category: mapping to one of the seven broad themes of invasive alien species research of <a href="https://doi.org/10.1007/s10530-023-03067-7">Stevenson et al. (2023)</a> as listed and described above</li> <li>authors: author(s) of the paper (WoS search)</li> <li>year: publication year of paper (WoS search)</li> <li>title: title of the paper (WoS search)</li> <li>journal: full journal name (WoS search)</li> <li>doi: full doi of the paper (WoS search)</li> </ul> <p><strong>Potential applications of the dataset</strong></p> <p>This dataset can be used to reproduce the graphs in La Morgia et al. (2023) or to perform more in-depth review or analysis of the literature on alien squirrel invasions. For more information and graph code, we refer to <a href="https://github.com/Vale-LaMo/squirrels">this GitHub repository</a>.</p>
Different facets of the same niche: integrating citizen science and scientific survey data to predict biological invasion risk under multiple global change drivers
<p>Raw data (occurrences and environmental predictors) used in the manuscript "Different facets of the same niche: integrating citizen science and scientific survey data to predict biological invasion risk under multiple global change drivers"</p>
Fig. 1 in New data on distribution and biology of the invasive species Hydrotaea aenescens (Wiedemann, 1830) (Diptera, Muscidae)
Fig. 1. Map showing the records of H. aenescens: 1 – Turkey, Antalya, near Side; 2 – Russia, Sochi region, near Veseloe; 3 – Russia, 60 km North of Narjan-Mar, 68.15N 53.65E. Countries where H.aenescens was previously recorded (Pont et al. 2007) are marked in green.
Figure 2 in Aculus taihangensis (Acari: Prostigmata: Eriophyidae), a potential biological control agent identified from the highly invasive pest plant, tree of heaven, in Türkiye
Figure 2. Aculus taihangensis. Prodorsal shield and part of dorsal opisthosoma: A. Protogyne, B. Deutogyne.
Figure 4 in Aculus taihangensis (Acari: Prostigmata: Eriophyidae), a potential biological control agent identified from the highly invasive pest plant, tree of heaven, in Türkiye
Figure 4. Aculus taihangensis – Male: A. Prodorsal shield and part of dorsal opisthosoma, B. Coxigenital region.
Figure 5 in Aculus taihangensis (Acari: Prostigmata: Eriophyidae), a potential biological control agent identified from the highly invasive pest plant, tree of heaven, in Türkiye
Figure 5. Dense aggregation of Aculus taihangensis along the midrib of a leaflet of the tree of heaven.
Figure 1 in Aculus taihangensis (Acari: Prostigmata: Eriophyidae), a potential biological control agent identified from the highly invasive pest plant, tree of heaven, in Türkiye
Figure 1. Map of Türkiye showing the provinces from which leaf samples were collected from the tree of heaven in 2022 and 2023 (* indicates the site in Çanakkale Province at which the eriophyid mite, Aculus taihangensis, was collected).
The Invasion Biology Ontology (INBIO)
<p>The Invasion Biology Ontology (INBIO) contains terms and concepts relevant in the field of invasion biology, which is a research area dealing with the translocation, establishment, spread, impact and management of species outside of their native ranges, where they are called non-native or alien species. This first version of the ontology covers terms and concepts needed to describe twelve major invasion hypotheses building the <a href="https://hi-knowledge.org/invasion-biology/">hierarchical hypothesis network</a> (see also Jeschke JM, Heger T (Eds) (2018) Invasion Biology: Hypotheses and Evidence. CABI, Wallingford, UK).</p>
Evidence for continent-wide convergent evolution and stasis throughout 150 years of a biological invasion
<p>The extent to which evolution can rescue a species from extinction, or facilitate range expansion, depends critically on the rate, duration, and geographical extent of the evolutionary response to natural selection. Adaptive evolution can occur quickly, but the duration and geographical extent of contemporary evolution in natural systems remains poorly studied. This is particularly true for species with large geographical ranges and for timescales that lie between 'long-term' field experiments and the fossil record. Here, we introduce the Virtual Common Garden (VCG) to investigate phenotypic evolution in natural history collections while controlling for phenotypic plasticity in response to local growing conditions. Reconstructing 150 years of evolution in <em>Lythrum salicaria </em>(purple loosestrife) as it invaded North America, we analyze phenology measurements of 3,429 herbarium records, reconstruct growing conditions from more than 12 million local temperature records, and validate predictions across three common gardens spanning 10 degrees of latitude. We find that phenology clines have evolved along parallel climatic gradients, repeatedly throughout the range, during the first century of evolution. Thereafter, the rate of microevolution stalls, recapitulating macroevolutionary stasis observed in the fossil record. Our study demonstrates that preserved specimens are a critical resource for investigating limits to evolution in natural populations. Our results show how natural selection and trade-offs measured in field studies predict adaptive divergence observable in herbarium specimens over 15 decades at a continental scale.</p>
Fig. 1 in Uzbekistan - The Alleged Native Range Of The Invasive Ant Lasius Neglectus (Hymenoptera, Formicidae): Geographical, Ecological And Biological Evidences
Fig. 1. Collection sites of Lasius neglectus in Uzbekistan (1–20) and Tajikistan (21). Note: numbering of collection sites as in table 1; the bold line encircles the assumed native range of L. neglectus.
Supplementary material 2 from: Bonnett G, Kushner J, Saltonstall K (2014) The reproductive biology of Saccharum spontaneum L.: implications for management of this invasive weed in Panama. NeoBiota 20: 61-79. https://doi.org/10.3897/neobiota.20.6163
Proportion of seeds that germinated each week between September and December from samples taken at 12 sites. 100 seeds were germinated from each of three replicate samples and tested for germination in laboratory conditions. Results are presented as the mean and the error bar represents the standard error of the mean.
Supplementary material 1 from: Bonnett G, Kushner J, Saltonstall K (2014) The reproductive biology of Saccharum spontaneum L.: implications for management of this invasive weed in Panama. NeoBiota 20: 61-79. https://doi.org/10.3897/neobiota.20.6163
The table gives the latitude and longitude, description and number of genotypes found among the 3 plants of Saccharum spontaneum tested from each of 22 Sites. Sites 1–12 were used to assess seed germinability through time.
Figure 2 in "One is the loneliest number"; are we witnessing the death throes of the single-author research paper in the field of biological invasions?
Figure 2. Changes in % of research papers published over time by single-authors (white circles and grey line) and four or more authors (black circles and black line) in issues of (a) BioInvasions Records, (b) Aquatic Invasions and (c) Management of Biological Invasions.
Figure 1 in "One is the loneliest number"; are we witnessing the death throes of the single-author research paper in the field of biological invasions?
Figure 1. Mean (± SE) % of research papers published in each issue of BioInvasions Records, Aquatic Invasions and Management of Biological Invasions categorised by number of authors.
Fig. 2 in Brazilian collections and laboratory biology of the thrips Pseudophilothrips ichini (Thysanoptera: Phlaeothripidae): a potential biological control agent of the invasive weed Brazilian peppertree (Sapindales: Anacardiaceae)
Fig. 2. Life history stages of the thrips Pseudophilothrips ichini reared on leaves of Schinus terebinthifolia in quarantine at the United States Department of Agriculture, Agricultural Research Service, Invasive Plant Research Laboratory (horizontal bars = 0.5 mm).
Fig. 1 in Brazilian collections and laboratory biology of the thrips Pseudophilothrips ichini (Thysanoptera: Phlaeothripidae): a potential biological control agent of the invasive weed Brazilian peppertree (Sapindales: Anacardiaceae)
Fig. 1. Map showing the distribution of the host Brazilian peppertree, Schinus terebinthifolia, in its native range (black dots) and the thrips Pseudophilothrips ichini (red dots). Thrips introduced to quarantine for life history studies were collected from a population near Ouro Preto, Minas Gerais, Brazil.
Fig. 3 in Biology and life history of Atanycolus cappaerti (Hymenoptera: Braconidae), a North American larval parasitoid attacking the invasive emerald ash borer (Coleoptera: Buprestidae)
Fig. 3. Immature stages of Atanycolus cappaerti. (A) Egg on Agrilus planipennis larva at 3× magnification; (B) 1st instar at 3× magnification; (C) 2nd instar at 3× magnification; (D) 3rd instar at 3× magnification; (E) 4th instar at 3× magnification; (F) 5th instar at 1.8× magnification; (G) 6th instar at 1.8× magnification; (H) pupal cocoon at 1.8× magnification; (I) eclosed adult.
Fig. 2 in Biology and life history of Atanycolus cappaerti (Hymenoptera: Braconidae), a North American larval parasitoid attacking the invasive emerald ash borer (Coleoptera: Buprestidae)
Fig. 2. Diapause behavior of Atanycolus cappaerti progeny when reared in normal rearing conditions (25 ± 2 °C, 65 ± 10% RH, and a photoperiod of 16:8 h L:D).
Fig. 1 in Biology and life history of Atanycolus cappaerti (Hymenoptera: Braconidae), a North American larval parasitoid attacking the invasive emerald ash borer (Coleoptera: Buprestidae)
Fig. 1. (A) Longevity and (B) realized fecundity and host utilization (parasitism) rate of adults of Atanycolus cappaerti when reared in single mating pairs (n = 16 for both sexes) and continually provided with emerald ash borer larvae on a weekly basis for their lifespan.
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Allen Brain Atlas
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OpenNeuro
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