Preprints
Filtering by Subject: Life Sciences
What time is it? Interactions between trees and fossils
Published: 2025-09-01
Subjects: Life Sciences
Molecular sequence data is not in itself informative about absolute evolutionary timescales. Fossils are therefore often analysed alongside molecular data in order to generate time-scaled reconstructions of the tree-of-life. Here, I analyse interactions between fossils and molecular based reconstructions of the tree-of-life, and explore the implications of these interactions for time-scaling the [...]
Irreversible evolution of plant mating system easily triggered by pollinator declines
Published: 2025-08-31
Subjects: Life Sciences
BPGA: an interactive Shiny application for basic population genetic analysis of genotype data
Published: 2025-08-31
Subjects: Bioinformatics, Education, Genetics and Genomics, Higher Education, Life Sciences
Background: Population structure and ancestry inference are routine in human genetics, yet remain inconvenient for non-experts because canonical tools (PLINK, GCTA, ADMIXTURE) require command-line expertise and careful data management. Results: BPGA (Basic Population Genetic Analysis) is an open-source R/Shiny application that provides an interactive workflow for educational and exploratory [...]
Mapping multiple dimensions of forest diversity using spaceborne spectroscopy
Published: 2025-08-31
Subjects: Biodiversity, Life Sciences
Observing biodiversity across space and time is essential for advancing and verifying conservation efforts toward global biodiversity and sustainability goals. Spaceborne imaging spectroscopy has emerged as a revolutionary tool for quantifying and tracking forest diversity, yet its application at large spatial scales remains a central challenge. We develop a framework to map multiple dimensions [...]
An evolving view of character macroevolution
Published: 2025-08-31
Subjects: Life Sciences
Phenotypes serve as the interface between organisms and their environments and are thus pivotal for comprehensive biological understanding. However, comparative analyses of species’ phenotypes must account for the non-independence of characters imposed by the branching pattern of macroevolution. Methods to account for this phylogenetic non-independence have historically been conceived of as their [...]
Ecological Kinetics and Evolutionary Dynamics of Antibiotic Resistance in Complex Environments
Published: 2025-08-28
Subjects: Life Sciences, Medicine and Health Sciences
Antibiotic-resistant bacteria are common in the natural environment, including the microbiota of animal and human hosts. The local physical, chemical, and biological conditions of environmental patches and matrices vary in both qualitative and quantitative aspects. Often, these conditions diffuse in gradients, creating intersections that can either facilitate or inhibit the spread and evolution [...]
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 [...]
Frequent shifts in pollination strategy are decoupled from diversification in the terrestrial orchids
Published: 2025-08-27
Subjects: Biodiversity, Bioinformatics, Biology, Botany, Ecology and Evolutionary Biology, Evolution, Life Sciences, Plant Sciences
Pollinator attraction strategies are central to orchid reproductive biology and have long been hypothesised to accelerate speciation rates, particularly through specialised coevolutionary interactions. However, most macroevolutionary evidence comes from studies of individual genera or tribes, leaving broad-scale patterns unresolved. Here, we reconstruct the evolution of pollination strategy in [...]
Modelling complex habitat use for threatened bat species decision-making in landscapes with competing priorities
Published: 2025-08-26
Subjects: Animal Sciences, Biodiversity, Desert Ecology, Ecology and Evolutionary Biology, Environmental Studies, Life Sciences, Zoology
Species distribution models (SDMs) provide valuable information to aid conservation decisions, particularly in landscapes where economic and biodiversity priorities compete. Generating SDMs for species that rely on discrete habitat types for different activities (e.g. roosting or foraging) can be challenging, and result in outputs that are not appropriately tailored for end use. We collated [...]
Cell Wall Bioactive Molecules as Signaling and Effector Agents in Bacterial Physiology and Virulence
Published: 2025-08-26
Subjects: Life Sciences, Medicine and Health Sciences
The molecules that make up the bacterial cell wall should be seen not only as passive structural components of the murein sacculus that protect and enclose the inner membrane containing the bacterial cytoplasm. They are also active bioactive molecules released during bacterial replication, especially after cell lysis, leading to a deconstructive process. These molecules vary in structure from [...]
Long-read sequencing for biodiversity analyses - a comprehensive guide
Published: 2025-08-26
Subjects: Biodiversity, Bioinformatics, Ecology and Evolutionary Biology, Environmental Monitoring, Genetics and Genomics, Life Sciences
DNA-based monitoring of biodiversity has revolutionised our ability to describe communities and rapidly assess anthropogenic impacts on biodiversity. Currently established molecular methods for biomonitoring rely heavily on classic metabarcoding utilising short reads, mostly through Illumina data. However, increasingly more studies use long-read sequencing technologies, such as Oxford Nanopore [...]
Fast evolving flowers drive cactus diversification
Published: 2025-08-22
Subjects: Biodiversity, Bioinformatics, Botany, Ecology and Evolutionary Biology, Evolution, Life Sciences
The rise of biodiversity is shaped by variation in diversification rates. Across the Tree of Life, numerous forces are thought to influence these rates, including the evolution of adaptive traits, climate change, and interactions with other organisms. In the flowering plants, a longstanding hypothesis favoured by Darwin suggests that floral evolution is a driving force for plant diversity. [...]
Genomic characteristics of root-knot nematodes: a major group of crop pests
Published: 2025-08-22
Subjects: Life Sciences
Nematodes constitute one of the most species-rich groups of animals, only paralleled by arthropods. They have a worldwide distribution being present in many biomes from deep sea sediments to deserts. Around 15% of them parasitize plants and they cause enormous damage to the global agricultural production despite the control methods deployed. Among those, the root-knot nematodes (genus [...]
Embryos are largely understudied in conservation physiology
Published: 2025-08-21
Subjects: Biodiversity, Biology, Ecology and Evolutionary Biology, Life Sciences, Marine Biology, Physiology
Understanding how animals respond to environmental stressors across their life cycle is essential for predicting species’ vulnerability to climate change. Here, we systematically reviewed the literature to quantify the variation in research effort on different life stages in the field of conservation physiology. Specifically, we reviewed experimental studies measuring physiological and [...]
Pleiotropy and the evolutionary stability of plastic phenotypes: a geometric framework
Published: 2025-08-20
Subjects: Life Sciences
Phenotypic plasticity allows organisms to express different traits in response to different environmental or genetic conditions. Understanding the evolution of conditional phenotypes is challenging because they are not expressed by all members of a population, which allows for the accumulation of deleterious variation due to drift. Theory suggests pleiotropic effects help prevent the decay of [...]