Preprints
Filtering by Subject: Research Methods in Life Sciences
Composite virulence: useful metric or conceptual trap?
Published: 2026-02-20
Subjects: Animal Diseases, Animal Experimentation and Research, Animal Sciences, Biodiversity, Biology, Ecology and Evolutionary Biology, Evolution, Immunity, Immunology and Infectious Disease, Immunology of Infectious Disease, Immunopathology, Life Sciences, Medical Microbiology, Microbiology, Other Ecology and Evolutionary Biology, Other Immunology and Infectious Disease, Parasitic Diseases, Parasitology, Pathogenic Microbiology, Plant Pathology, Research Methods in Life Sciences, Zoology
Virulence, defined as the harm an infection causes to its host, is central to evolutionary ecology, yet it remains difficult to quantify because infection impact is multidimensional, dynamic, and context-dependent. Composite measures have therefore emerged to summarise multiple traits into a single estimate of infection-induced harm. However, every composite embeds biological assumptions about [...]
One Toolbox, Many Tools: A Practitioner’s Guide to Model-based Ordination for Community Ecology
Published: 2026-02-05
Subjects: Ecology and Evolutionary Biology, Multivariate Analysis, Research Methods in Life Sciences, Statistical Methodology, Statistical Models
This article presents the case for model-based ordination by way of Generalized Linear Latent Variable Models (GLLVMs) as a go-to choice of statistical method for any community ecologist wanting to tackle a range of present-day ecological research questions. Model-based ordination brings tools and capabilities from classic (mixed-effects) regression models to multivariate community analysis, [...]
Shared acoustic manifolds for exploratory comparison of passerine vocalizations
Published: 2026-01-23
Subjects: Behavior and Ethology, Ecology and Evolutionary Biology, Research Methods in Life Sciences
This study presents a fixed-parameter pipeline designed to support reproducible embedding of frame-level representations of multiple passerine vocalizations within shared low-dimensional spaces. Three passerine species are considered: Eurasian Wren, Tree Pipit and Common Chaffinch, with a selection of four individuals for each species group. Vocalization frames from each species group are mapped [...]
Phenotyping avian bill sizes; combining the collection of standardized still images with software to obtain observer-independent measures of avian bill shapes
Published: 2026-01-02
Subjects: Animal Sciences, Ecology and Evolutionary Biology, Life Sciences, Research Methods in Life Sciences
Avian bill size is a morphological trait with evolutionary and ecological importance. Obtaining large-scale observer-independent measures of bill length and bill depth has proven to be challenging. We developed a device, the Bill Phenotyping Box, that allows taking standardized still images from wild small passerine birds in the field. We combine this with dedicated software that, based on a [...]
sitetool: an application for field site selection and evaluation
Published: 2025-10-27
Subjects: Life Sciences, Research Methods in Life Sciences
Field studies are fundamental to ecological research, yet many studies rely on unspecified or convenience-based methods for site selection, potentially introducing bias that can compromise research results. Remote-sensing data provides a quantitative way to evaluate potential sites without expensive pilot visits, however, interacting with spatial data can be computationally complex. We present an [...]
GhostNetZero: AI for Detecting Marine Ghost Nets
Published: 2025-09-23
Subjects: Artificial Intelligence and Robotics, Biodiversity, Databases and Information Systems, Environmental Monitoring, Marine Biology, Research Methods in Life Sciences, Sustainability
Abandoned, lost, or otherwise discarded fishing gears (ALDFG), commonly referred to as ghost nets, pose a persistent global threat to marine biodiversity. Constructed from durable synthetic polymers, ghost nets remain intact for decades, continuing to entangle and kill marine organisms while damaging habitats and imposing economic burdens on fisheries and coastal communities. Despite their [...]
The myth of the metabolic baseline: how sleep-wake cycles undermine a foundational assumption in organismal biology
Published: 2025-08-28
Subjects: Animal Experimentation and Research, Biochemistry, Biophysics, and Structural Biology, Biology, Comparative and Evolutionary Physiology, Life Sciences, Physiology, Research Methods in Life Sciences, Zoology
Basal and standard metabolic rates (BMR and SMR) are cornerstones of physiological ecology and are assumed to be relatively fixed intrinsic properties of organisms that represent the minimum energy required to sustain life. However, this assumption is conceptually flawed. Many core maintenance processes underlying SMR are temporally partitioned across sleep and wakefulness and are not [...]
“But I can’t preregister my research”: Improving the reproducibility and transparency of ecology and conservation with adaptive preregistration for model-based research
Published: 2025-08-19
Subjects: Ecology and Evolutionary Biology, Research Methods in Life Sciences
1. Preregistration is an open-science practice which aims to improve research transparency and mitigate questionable research practices, like cherry-picking results. It helps protect against cognitive biases, like hindsight bias, that can influence how study outcomes are interpreted. There has been little uptake of preregistration in ecology and conservation, arguably because existing [...]
movetrack: An R package to model flight paths from radio-telemetry networks
Published: 2025-07-04
Subjects: Research Methods in Life Sciences
Tracking small- to large-scale movements of animals is important for studying their interactions with the environment, including how they adjust and adapt their migration in response to environmental and human-induced changes. Despite the technical progress in tracking devices, a major challenge remains for small animals-such as songbirds, bats, and insects-because GPS transmitters are still too [...]
Going Global by Going Local: Impacts and Opportunities of Geographically Focused Data Integration
Published: 2025-06-16
Subjects: Biodiversity, Life Sciences, Research Methods in Life Sciences
Biodiversity conservation is a global challenge that requires the integration of global and local data. Expanding global data infrastructures have opened unprecedented opportunities for biodiversity data storage, curation, and dissemination. Within one such infrastructure – the Global Biodiversity Information Facility (GBIF) – these benefits are achieved by aggregating data from over 100 regional [...]
Elevating the importance of Risk of Bias assessment for ecology and evolution
Published: 2025-06-16
Subjects: Agriculture, Animal Sciences, Biodiversity, Biology, Ecology and Evolutionary Biology, Entomology, Life Sciences, Marine Biology, Microbiology, Plant Sciences, Research Methods in Life Sciences
Systematic reviews and meta-analyses are key evidence synthesis methods informing research and policy. An assessment of the Risk of Bias (RoB) in included studies is normally considered an essential component of these. However, RoB assessment is rare in ecology and evolutionary biology (EEB), and tools from other fields are seldom adopted. To identify reasons for this limited uptake, we surveyed [...]
Gendered male and high-income country authors dominate publication at a One Health research organization
Published: 2025-05-28
Subjects: Life Sciences, Publishing, Research Methods in Life Sciences, Social and Behavioral Sciences
Authorship on academic publications is consequential for researchers in science fields. One’s position in a list of authors is typically used to signal information about author contributions and status, with the first and last author positions regarded as the most prestigious and important for career advancement. Therefore, any inequities that exist in the allocation of authorship (e.g. [...]
Deep-learning technology provides insights into the morphological evolution of birds
Published: 2025-04-09
Subjects: Biodiversity, Bioinformatics, Computational Engineering, Evolution, Life Sciences, Ornithology, Research Methods in Life Sciences
The evolution of biological morphology is critical for understanding the diversity of the natural world, yet traditional analyses often involve subjective biases in the selection and coding of morphological traits. This study employs deep learning techniques, utilizing a pretrained ResNet34 model capable of recognizing over 10,000 bird species, to explore avian morphological evolution. We [...]
Assessment of Urban Bias in Iberian Butterfly Sampling through Citizen Science Data
Published: 2025-01-24
Subjects: Entomology, Life Sciences, Research Methods in Life Sciences, Terrestrial and Aquatic Ecology
Citizen science platforms have revolutionized biodiversity monitoring by enabling large-scale data collection. However, concerns about potential biases, such as urban sampling bias, have raised questions about the quality and representativeness of these datasets. This study assesses the spatial distribution of butterfly observations collected through the citizen science platform Biodiversidad [...]
Effect of bulb type on moth trap catch and composition in UK gardens
Published: 2024-11-15
Subjects: Biodiversity, Ecology and Evolutionary Biology, Entomology, Research Methods in Life Sciences
1. Light traps are a key method for monitoring moth populations. A wide variety of light sources are employed for this purpose, differing in brightness and spectrum. Relatively little is known about how this affects the resulting sample. 2. We analyse seven moth trap bulb types using ten years of records from the Garden Moth Scheme (GMS) to provide the largest and most comprehensive [...]