Preprints
Filtering by Subject: Evolution
The Geography of Speciation Across Andean-Centred Clades
Published: 2026-11-06
Subjects: Evolution, Life Sciences
Aim: Mountains harbour a disproportionate share of global biodiversity, yet the geographic pathways through which this diversity arises remain debated. In the Andes, diversification has been linked both to geographic isolation generated by complex topography and climatic dynamics, and to ecological divergence across steep environmental gradients. Here, we assess the predominant geographic modes [...]
Parental divergence as a predictor of hybridization outcomes
Published: 2026-11-06
Subjects: Evolution, Genomics
Hybridization can generate both fitness benefits and genetic incompatibilities, yet predicting how these opposing effects shape hybrid fitness and genome evolution remains a major challenge in evolutionary genomics. Parental genetic divergence is expected to play a central role, as increasing divergence can promote heterosis and adaptive novelty while simultaneously increasing incompatibilities [...]
Cave spider trophic dynamics, network structure and competition: cave zone, taxonomy and bat presence drive hypogean interactions
Published: 2026-11-03
Subjects: Biodiversity, Ecology and Evolutionary Biology, Entomology, Evolution, Life Sciences, Zoology
Cave ecosystems are shaped by unique environmental constraints, influencing species distributions and trophic interactions. Spiders are often the dominant predators in caves, but their diet is restricted by local parameters that likely intensify competition and other intraguild interactions, including the confinement of energy flows to detrital and chemoautotrophic pathways. The hypogean [...]
Pedigree metrics: What are they good for?
Published: 2026-10-30
Subjects: Ecology and Evolutionary Biology, Evolution, Life Sciences
Estimating additive genetic variance (V_A) is key to understanding evolutionary potential in wild populations. V_A is commonly estimated using relatedness data from pedigrees in so-called `animal models'. The accuracy of these estimates depends strongly on information in the pedigree. Typically metrics describing pedigree structure (such as the number of individuals, maternities, pedigree depth [...]
Genomic costs without functional consequences in short-range endemics trapped in evolutionary refugia
Published: 2026-10-30
Subjects: Biodiversity, Bioinformatics, Evolution, Genomics, Life Sciences, Molecular Genetics
Species with small geographic ranges are often concentrated in evolutionary refugia, landscapes that support viable populations through significant climate oscillations. Under long-term stable environments and with small population size, species are predicted to evolve narrow climatic tolerances, lose genetic diversity and accumulate harmful mutations. Together, these predictions suggest that [...]
Noise as a global change driver: a meta-analysis of its fitness consequences for birds
Published: 2026-10-29
Subjects: Behavior and Ethology, Biodiversity, Biology, Ecology and Evolutionary Biology, Evolution, Life Sciences, Pharmacology, Toxicology and Environmental Health
Anthropogenic noise is a widespread yet underappreciated global pollutant. Despite mounting evidence that noise may affect the physiology and behaviour of birds, its consequences for fitness, and thus its capacity to impact population and evolutionary processes, remain unclear. Here, we conduct a pre-registered systematic review and meta-analysis of the causal effects of anthropogenic noise on [...]
The e14 cryptic prophage belongs to a temperate phage lineage distributed across Escherichia and retains genes with potential anti-phage defence functions
Published: 2026-10-22
Subjects: Bacteriology, Bioinformatics, Biology, Evolution, Life Sciences, Other Microbiology
The e14 region of Escherichia coli str. K-12 is a cryptic prophage that retains functional excision and integration machinery despite extensive loss of phage reproductive functions. However, its evolutionary relationship to other bacteriophages remains poorly resolved. Here, we identify related prophages across four Escherichia species, alongside related, independently isolated bacteriophages. [...]
Size-dependent beak shape divergence between Parrot and Common Crossbills likely involves major developmental changes
Published: 2026-10-22
Subjects: Animal Sciences, Ecology and Evolutionary Biology, Evolution, Forest Biology, Life Sciences, Ornithology, Zoology
We studied allometry, here defined as shape-size covariation, to explore the unresolved case of divergence between the Parrot and Common Crossbill. Using geometric morphometrics, we compared beak shape and allometry among the Parrot Crossbill, the Common Crossbill and the more distantly related Two-Barred Crossbill. The Parrot Crossbill differed from the two other species in shape changes that [...]
Gene duplications potentiate adaptive evolution of complex traits
Published: 2026-10-21
Subjects: Evolution
Much of extant genetic material is known to have resulted from earlier genetic duplications. On this basis, gene duplications are widely recognized as a key factor in the evolution of organismal complexity --- both in producing novel adaptations (i.e., neofunctionalization) and in accumulating functional specialization (i.e., subfunctionalization). However, across the tree of life, no ready [...]
Functional gene content of fungi in a pine needle disease system largely reflects their phylogeny
Published: 2026-10-21
Subjects: Bioinformatics, Computational Biology, Ecology and Evolutionary Biology, Environmental Microbiology and Microbial Ecology Life Sciences, Evolution, Forest Sciences, Genetics, Genetics and Genomics, Genomics, Life Sciences, Microbiology, Other Ecology and Evolutionary Biology, Pathogenic Microbiology, Plant Pathology, Plant Sciences
Background: Fungi recovered from diseased host tissue can differ substantially in functional gene content, but interpreting that variation requires knowing how it relates to evolutionary history. Results: We assembled and annotated genomes for 67 fungi cultured from pine needles with symptoms of brown spot needle blight and compared them with 13 reference genomes, including established pine [...]
Beyond the Vertebrate Model: Insights from Insect Stress Responses
Published: 2026-10-15
Subjects: Animal Sciences, Animal Studies, Behavioral Neurobiology, Behavior and Ethology, Biology, Cell and Developmental Biology, Cellular and Molecular Physiology, Cognitive Neuroscience, Comparative and Evolutionary Physiology, Ecology and Evolutionary Biology, Entomology, Evolution, Genetics, Molecular Genetics, Systems Biology, Zoology
Stress responses are essential for survival, coordinating behavioural, physiological and molecular adjustments that enable organisms to cope with challenges. Most research has focused on vertebrates, leaving invertebrate stress physiology comparatively underexplored, particularly in insects. In this review, we compare insect and vertebrate stress responses to examine what insects reveal about the [...]
Projecting kinship networks through time in variable environments
Published: 2026-10-09
Subjects: Ecology and Evolutionary Biology, Evolution, Life Sciences, Population Biology, Social and Behavioral Sciences, Social and Cultural Anthropology
Kinship networks shape key biological and social processes, yet their dynamics under changing environments remain poorly understood. Like population abundances, kinship structures are determined by past vital rates. Matrix population models provide a powerful framework for projecting population abundances through time and analysing the effects of environmental change on population dynamics, but [...]
Encounter behaviour shapes ecological distributions
Published: 2026-10-09
Subjects: Behavior and Ethology, Ecology and Evolutionary Biology, Evolution, Marine Biology, Other Ecology and Evolutionary Biology, Population Biology, Terrestrial and Aquatic Ecology
Ecology’s foundational models keep only the first moment of the stochastic distributions of encounters. Yet, encounter behaviour (how animals search, aggregate, hide and move) sets the whole distributional shape: zeros, variance, skew and, where particular behaviours build them, heavy tails. That shape decides vital rates, persistence and spatial pattern, because the rates involved are [...]
Toward a General Theory of Heteromorphic Reproduction
Published: 2026-09-30
Subjects: Ecology and Evolutionary Biology, Evolution, Life Sciences, Other Ecology and Evolutionary Biology, Research Methods in Life Sciences
Organisms often divide reproductive investment among outputs that differ in morphology, timing, or reproductive mechanism. In this paper I extend the minimum-risk treatment of seed heteromorphism to the more general question of organisms with ‘portfolios’ of biologically distinct reproductive outputs. The resulting framework specifies a common investment and fitness currency, calculates returns [...]
On the Promise (and Practice) of Deep Comparative Methods: Expressivity, Limitations, and Design
Published: 2026-09-28
Subjects: Artificial Intelligence and Robotics, Biodiversity, Ecology and Evolutionary Biology, Evolution
Comparative biologists explain the diversity of organismal form and function by deciding which traits to measure and which evolutionary processes to model. These decisions make inference possible, but they also confine it to traits, relationships, and processes that can be specified a priori. Neural networks can expand this space, learning characters directly from complex observations and [...]