Preprints
Filtering by Subject: Biodiversity
OSEA, a deep learning-based bird classification tool, with pre-trained model, mobile and command line applications
Published: 2025-01-07
Subjects: Biodiversity, Bioinformatics, Life Sciences, Ornithology
In response to the challenges of traditional biodiversity monitoring methods, we introduce OSEA (Open Species Estimation for Avians), a multi-platform, offline tool for bird species identification. Designed to recognize over 10,000 bird species, OSEA includes both a mobile application and a command-line interface (CLI), facilitating efficient bird species identification. The mobile app, developed [...]
AI and Big Data for invasion biology: finding, modelling and forecasting the population dynamics of invaders
Published: 2025-01-07
Subjects: Biodiversity, Bioinformatics, Life Sciences, Population Biology
Artificial intelligence (AI) is rapidly transforming the study and management of invasive species through analytical and predictive tools that optimize detection, monitoring, and automated eradication. In this work, we reviewed the fundamental principles of machine learning and deep learning, illustrated with recent case studies on invasive species. We also present the first systematic review of [...]
Phytoremediation of Heavy Metals: Techniques, Challenges, and Prospects
Published: 2025-01-02
Subjects: Biodiversity, Biology, Ecology and Evolutionary Biology, Life Sciences, Plant Sciences
Heavy metals, characterized by their high atomic mass and density, can pose significant risks to soil, water, plants, and human health. Contamination sources include manufacturing activities, mining, farming practices, and improper waste management. Metals such as arsenic, mercury, lead, chromium, and cadmium are most toxic with health consequences that can result from organ dysfunction to [...]
GUBIC: the global urban biological invasions compendium for plants
Published: 2024-12-27
Subjects: Biodiversity, Ecology and Evolutionary Biology
1. Urban areas are foci for the introduction of non-native plant species, and they often act as launching sites for invasions into the wider environment. Although interest in biological invasions in urban areas is growing rapidly, and the extent and complexity of problems associated with invasions in these systems have increased, data on the composition and numbers of non-native plants in [...]
Environmental RNA mitigates fish ghosts related to fish feeds for aquaculture in molecular ecological survey in a bay.
Published: 2024-12-19
Subjects: Aquaculture and Fisheries Life Sciences, Biodiversity, Genomics, Terrestrial and Aquatic Ecology
The use of environmental DNA for molecular ecological surveys has become widely utilized in ecological assessments of various water environments, from rivers to coastal and marine areas. However, it is important to consider the scenarios of potential contamination of environmental nucleic acids in interpreting the results. In this study, we analyzed the fish species present in the feed that may [...]
A phylogenetic sectional taxonomy of Leucheria Lag. (Asteraceae; Nassauvieae)
Published: 2024-12-19
Subjects: Biodiversity, Life Sciences
Multiple molecular phylogenetic analyses have demonstrated that the genus Polyachyrus Lag. (8 spp.) is phylogenetically nested among four well-supported but unnamed monophyletic lineages of the genus Leucheria Lag. (28-46 spp.; Asteraceae; Nassauvieae). In order to facilitate reference to these lineages per current phylogenetic taxonomic and botanical nomenclatural conventions, a phylogenetic [...]
A curated benchmark dataset for molecular identification based on genome skimming
Published: 2024-12-19
Subjects: Biodiversity, Bioinformatics, Ecology and Evolutionary Biology, Genetics and Genomics, Life Sciences
Genome skimming is a promising sequencing strategy for DNA-based taxonomic identification. However, the lack of standardized datasets for benchmarking genome skimming tools presents a challenge in comparing new methods to existing ones. As part of the development of varKoder, a new tool for DNA-based identification, we curated four datasets designed for comparing molecular identification tools [...]
Selecting indicators to track progress towards the Global Biodiversity Framework: A case study of Quebec's 2030 Nature Plan
Published: 2024-12-19
Subjects: Biodiversity, Ecology and Evolutionary Biology
Selecting biodiversity indicators to report national and subnational progress towards the Kunming-Montreal Global Biodiversity Framework (GBF) is a major challenge, one made even more urgent by the fast approaching 2030 targets. To efficiently identify appropriate indicators, the selection process must be streamlined, while remaining transparent, effective, and with the active engagement of [...]
Wood density variation across an Andes-to-Amazon elevational gradient
Published: 2024-12-17
Subjects: Biodiversity, Ecology and Evolutionary Biology, Forest Sciences, Life Sciences
1. Understanding how functional traits are related to species diversity and ecosystem properties is a central goal of ecology. Wood density is a trait that integrates many aspects of plant form and function and is highly variable among species. Previous studies of wood density across elevational gradients have been based on limited sampling and have reported declines with increasing elevation, [...]
iNaturalist as a platform for documenting Chilean funga
Published: 2024-12-09
Subjects: Biodiversity, Environmental Policy, Life Sciences, Other Life Sciences
This study analyzes the impact of iNaturalist on the recording and documentation of fungi in Chile from 2008 to 2024, highlighting its role in integrating citizen science into biodiversity monitoring. This community effort—which currently totals more than 63,000 observations representing 1,245 species—is concentrated in the central and southern regions of the country, mainly in urban areas, where [...]
Phenological and life history/form idiosyncraticity of facultatively annual Cistanthe philhershkovitziana Hershk. (C. sect. Cistanthe; Montiaceae) in Chile’s southern Central Littoral Zone, with comments on the incidence of the facultative annual condition among “Portullugo” (Caryophyllales) and o
Published: 2024-12-09
Subjects: Biodiversity
Cistanthe philhershkovitziana Hershk. was described from the north-central Chilean coast in 2018. Based on the apparent absence of plants during drought years, it was described as the only species of C. sect. Cistanthe with a putatively annual life history (~therophytic life form). The species occurs primarily in coastal habitats, but also in some seasonally moist sites up to perhaps 50 km [...]
Different sources of wind turbine data produce sharp differences in collision risk estimates for foraging vultures
Published: 2024-12-06
Subjects: Biodiversity, Environmental Monitoring, Systems Biology, Zoology
Multiple studies assessed the collision risk of different vulture species with wind turbines. However, they relied on different sources of wind turbine data, and the effect of this data heterogeneity, on the estimated collision risk and the comparability of these assessments, has not been investigated. We used GPS and accelerometer data, collected from 6 adult Griffon Vultures living in Sardinia [...]
Unbaited underwater video evidences the presence of previ-ously unrecorded fish species, sea krait (Laticauda sp.) and a high frequency of sharks at a remote reef complex (Coral Sea Marine Park, Southwest Pacific)
Published: 2024-12-06
Subjects: Biodiversity, Ecology and Evolutionary Biology, Life Sciences, Marine Biology
The Chesterfield-Bellona atolls and reefs are a vast reef complex located in the Coral Sea Marine Park, estab-lished in 2014 in the New Caledonian Economic Exclusive Zone. In 2013, the New Caledonia government supported the first assessment of fish and benthic habitats conducted in all habitats and over the entire area. The assessment provided a primary knowledge base for establishing the [...]
Enhancing Canopy Research in Africa: Insights from Tree Climbing Workshop in Ghana
Published: 2024-11-28
Subjects: Biodiversity, Biology, Ecology and Evolutionary Biology, Entomology
The report shares the background and experience executing a tree climbing workshop in Ghana. In most cases, canopy research in Africa is conducted under the umbrella of parachute science, leaving local scientists deprived of canopy access skills and equipment. Consequently, tropical Africa experiences a closed canopy so far as canopy ecology is concerned. In May 2024, ten (10) early career [...]
Overcoming the disconnect between species interaction networks and biodiversity conservation
Published: 2024-11-27
Subjects: Biodiversity, Ecology and Evolutionary Biology
Decision-makers need to act now to halt biodiversity loss, and ecologists must provide them with relevant species interaction indicators to inform about community- and ecosystem-level changes. Yet, the integration of ecological networks into conservation is still virtually non-existent. Here, we argue that existing data and methodologies are sufficient to generate network information usable for [...]