Preprints
Filtering by Subject: Ecology and Evolutionary Biology
Predicting high pathogenicity avian influenza H5N1 susceptibility in wild birds
Published: 2025-05-07
Subjects: Ecology and Evolutionary Biology, Immunology and Infectious Disease
High pathogenicity avian influenza (HPAI) has caused widespread sickness and mortality in wildlife, especially since the emergence of a novel H5 virus belonging to clade 2.3.4.4b in 2021. The ongoing panzootic caused by this lineage has infected an unprecedented diversity of species across the globe, seeming capable of impacting all birds. Here, we analyse ecological and phylogenetic patterns in [...]
IQ2MC: A New Framework to Infer Phylogenetic Time Trees Using IQ-TREE 3 and MCMCTree with Mixture Models
Published: 2025-05-06
Subjects: Bioinformatics, Computational Biology, Ecology and Evolutionary Biology, Evolution, Genetics, Genetics and Genomics, Genomics, Life Sciences
IQ-TREE and MCMCTree are two widely used phylogenetic tools to infer phylogenetic trees and estimate divergence times, respectively. As MCMCTree performs fast approximate Markov Chain Monte Carlo sampling to obtain the times along a fixed tree topology, it would be natural to use IQ-TREE to obtain the tree. However, it is currently not possible to integrate these tools seamlessly, as MCMCTree [...]
Evolutionary rate incongruences in squamates reveal contrasting patterns of evolutionary novelties and innovation
Published: 2025-05-06
Subjects: Ecology and Evolutionary Biology, Evolution, Life Sciences
Understanding the rate of phenotypic evolution can reveal fundamental aspects of organismal evolutionary trajectories. Hence, several studies have attempted to detect the tempo of evolution for multiple organisms, although based on radically different datatypes (e.g., discrete and morphometric) and methods (phylodynamic vs comparative methods). Here, we ask whether these competing approaches [...]
Practical genetic diversity protection: an accessible framework for IUCN subpopulation and Evolutionarily Significant Unit identification
Published: 2025-05-05
Subjects: Biodiversity, Ecology and Evolutionary Biology, Genetics and Genomics, Life Sciences
The International Union for Conservation of Nature (IUCN) sets global conservation standards, including the Red List of Threatened Species and the Green Status of Species. Recent analyses showed that genetic diversity has not been effectively considered by IUCN species assessments, despite being fundamental to species’ fitness and adaptive potential. Incorporation of genetic diversity into IUCN [...]
Genetic load in Evolutionarily Significant Units (ESUs): conservation and management implications
Published: 2025-05-05
Subjects: Biodiversity, Ecology and Evolutionary Biology, Genetics and Genomics, Life Sciences
The Conservation Genetics Specialist Group of the International Union for Conservation of Nature (IUCN) proposes introducing Evolutionarily Significant Units (ESUs) as an additional new assessment unit in the IUCN Red List and Green Status. This proposal is made because ESUs possess unique evolutionary trajectories present within species and harbour genetic diversity that requires safeguarding. [...]
Using large language models to address the bottleneck of georeferencing natural history collections
Published: 2025-05-02
Subjects: Biodiversity, Ecology and Evolutionary Biology
Natural history collections are fundamental for biodiversity research. The broad use of them relies on the digitization effort, especially georeferencing that translates textual locality descriptions into geographic coordinates. However, traditional georeferencing approaches are labor-intensive and costly, thus georeferencing is a major bottleneck in the digitization process that prevents the [...]
The bright, the bold and the toxic: do coloration, personality, and toxicity represent an integrated phenotype in fire salamanders?
Published: 2025-05-02
Subjects: Ecology and Evolutionary Biology
Defensive coloration such as bright colors used to advertise secondary defenses (i.e., aposematic coloration) is very common but also shows high intraspecific variation. Similarly, consistent among-individual differences in behavior (i.e., animal personality) are pervasive in the animal kingdom. Therefore, aposematism and personality could be linked to produce an optimal defensive phenotype, [...]
Nature requires investment: applying Priority Threat Management to support biodiversity and climate targets
Published: 2025-05-01
Subjects: Biodiversity, Ecology and Evolutionary Biology, Natural Resources and Conservation, Natural Resources Management and Policy
1. Stemming biodiversity loss requires greater investment in conservation and more efficient use of available resources. Prioritizing conservation actions that yield the most biodiversity benefit for the least cost can help maximize return on investment. Actions that have co-benefits for other objectives, such as climate change mitigation, can also help mobilize additional funds for [...]
Creating woodland through natural processes: Current understanding and knowledge gaps in Great Britain
Published: 2025-04-30
Subjects: Agriculture, Ecology and Evolutionary Biology, Forest Management, Forest Sciences, Life Sciences, Terrestrial and Aquatic Ecology
1. Creating new woodlands through natural processes, as opposed to traditional tree planting, is expected to result in more structurally diverse, locally-adapted woodlands that enhance the resilience of existing treescapes. However, the outcomes of natural colonisation can be variable, and there is still considerable uncertainty around the ecological processes involved. 2. To address knowledge [...]
Seasonal upwelling and depth-driven gradients foster functional overdispersion in Southwestern Atlantic annelid assemblages
Published: 2025-04-28
Subjects: Biodiversity, Ecology and Evolutionary Biology, Marine Biology
Marine communities on continental shelves form through a combination of environmental filtering, biotic interaction, and dispersal-based processes. These shelves present depth-related environmental gradients from nearshore and seasonal upwelling systems, which periodically supply cold, dispersalenhancing, nutrient-rich waters, providing an ideal setting to explore spatiotemporal [...]
Facing the heat: behavioral and molecular underpinnings of heat stress in bumblebees
Published: 2025-04-25
Subjects: Animal Studies, Behavior and Ethology, Behavioral Neurobiology, Ecology and Evolutionary Biology, Entomology, Environmental Studies, Life Sciences, Neuroscience and Neurobiology, Social and Behavioral Sciences
Climate change heralds an era of increased heat waves. Insects, due to their short generation times and their sensitive ecological requirements, offer a powerful model for studying rapid physiological and behavioral responses to high temperatures. Solitary insects primarily respond to temperature extremes by moving in space or time to remain in a constant environment, or by exploiting phenotypic [...]
Designing Multi-Modal Ecosystem Monitoring Technologies: A Network of Networks Approach
Published: 2025-04-23
Subjects: Bioinformatics, Ecology and Evolutionary Biology, Environmental Monitoring, Software Engineering
The central promise of ecosystem monitoring technologies — like bioacoustic, camera trap, citizen science, eDNA, and satellite data — is to reveal changes in the structure and composition of the Earth’s ecological systems to facilitate timely and effective conservation action. Following the evolution and maturation of these technology systems, the fusion of multimodal observation systems — where [...]
Improving landscape fire frequency estimates by integrating public land fire data and satellite imagery
Published: 2025-04-23
Subjects: Ecology and Evolutionary Biology
Background Contemporary fire regimes are changing rapidly, and effective fire management requires knowledge of fire history, often derived from satellite imagery. Satellites, however, are not well suited to detecting low intensity fires, meaning fire history data are often inaccurate. Aims We aimed to improve satellite fire frequency estimates by incorporating data from fire history on public [...]
Leveraging large language models for ecological interpretation using an eBird chatbot case study
Published: 2025-04-23
Subjects: Biodiversity, Bioinformatics, Ecology and Evolutionary Biology
1. The anthropocene presents significant challenges for global biodiversity, public health, and long-term ecosystem stability. The wealth of publicly available near-real-time ecology and climate data can be used to monitor these challenges and allow practitioners to develop mitigation strategies. 2. There is untapped potential to apply Large Language Models (LLMs) to quantitative ecological and [...]
Short reproductive periods dominate mast seeding across diverse tree species
Published: 2025-04-23
Subjects: Ecology and Evolutionary Biology, Forest Biology
Mast seeding, synchronous and highly variable reproduction among perennial plants, profoundly impacts ecosystem dynamics and species interactions. However, the extent of periodicity in mast seeding, defined as cyclical but not strictly regular intervals between reproduction, remains poorly understood, including how it varies across and within species. Here, we used autoregressive analyses on seed [...]