Preprints
There are 2270 Preprints listed.
Negative effects of climate change and fishing activities on Alaskan seabird populations (2002-2011)
Published: 2025-05-12
Subjects: Ecology and Evolutionary Biology, Life Sciences, Population Biology, Terrestrial and Aquatic Ecology
Seabird populations along the Alaskan coast have been rapidly declining due to anthropogenic climate change and other associated factors. This study examines the effects of sea surface temperature (SST) and fishing activity on the abundance of Alaskan seabird species. We downloaded bird observation data from the International Pacific Halibut Commission (IPHC) and then matched the seabird [...]
Differential assembly of core and non-core host-microbe network structures along a land-use change gradient
Published: 2025-05-12
Subjects: Ecology and Evolutionary Biology, Life Sciences
Microbial communities are fundamental to host health, yet their assembly dynamics under environmental change remain poorly understood. We analyzed individual-level host-microbe networks in the non-native wild black rats (Rattus rattus) across a land-use gradient in Madagascar. By applying a moving prevalence threshold, we distinguished between core and non-core microbes and compared the assembly [...]
Culmulative Cultural Evolution - A Flawed Concept
Published: 2025-05-12
Subjects: Social and Behavioral Sciences
Abstract: The concept of cumulative cultural evolution (CCE) is fundamentally flawed. The second process of evolution is enacted via imagination at the individual level. This process utilizes an artificial genome within our mind when conceiving a new idea. Homo sapiens has expanded the artificial genome available to each of us, but this does not amount to a cumulative process practically. It is [...]
The distribution of genetic diversity in ecological communities: A unifying measure for monitoring biodiversity change
Published: 2025-05-12
Subjects: Biodiversity
Monitoring the “health” of an ecological community is a critical component of conservation planning. We propose that aggregating intraspecific genetic variation across all species of an ecological community (Community Genetic Distribution; CGD) provides a new way to measure biodiversity that is unifying across taxa, economically scalable, and geographically transferable. Such community-scale data [...]
Applying essential ecosystem service variables to analyse thirty years of wild salmon provisioning trends in Canada
Published: 2025-05-12
Subjects: Biodiversity, Life Sciences
Wild salmon commercial fisheries in British Columbia (BC), Canada, have seen decreasing return and catch numbers across multiple salmon populations. Successful management of this ecosystem service (ES) has been elusive, but there is recognition that a wider social-ecological perspective is needed to support recovery. While ES monitoring is essential for evidence-based management, the [...]
Direct and indirect interactions among warming, water, and growing condition slow decomposition rates of temperate-boreal tree litter
Published: 2025-05-12
Subjects: Life Sciences
Plant litter decomposition is a primary control on carbon fluxes in terrestrial ecosystems around the world. Individually, the key mediators of decomposition rates—litter traits, temperature, and moisture—are relatively well understood. However, our understanding of how combined drivers influence decomposition remains limited. To test how multiple, interactive climate change factors directly [...]
Microclimf: fast modelling of microclimate across real landscapes in R
Published: 2025-05-08
Subjects: Biochemistry, Biophysics, and Structural Biology, Climate, Ecology and Evolutionary Biology
1. Many ecological studies require climate data, but readily available datasets are poor surrogates for the conditions that organisms experience in nature. Understanding the climatic conditions experienced by organisms requires modelling microclimate rather than relying on coarse, station-based climate data. 2. I present microclimf, a mechanistic microclimate model designed for computationally [...]
The ecological relevance of fast-cycling mineral-associated organic matter – a dynamic pool of 'persistent’ soil carbon and nitrogen
Published: 2025-05-08
Subjects: Agriculture, Biogeochemistry, Soil Science, Terrestrial and Aquatic Ecology
Longstanding theories and models classify mineral-associated organic matter (MAOM) as the large (~60%) but slow-cycling and persistent portion of the soil organic matter (SOM) pool. Strong physico-chemical interactions and diffusion limitations restrict the turnover of MAOM, allowing carbon and nitrogen bound therein to persist in soil for as long as centuries to millennia. However, MAOM is a [...]
The promise of environmental RNA research beyond mRNA
Published: 2025-05-08
Subjects: Biology, Ecology and Evolutionary Biology, Life Sciences
Environmental RNA (eRNA) studies have primarily focused on species detection and community composition through metabarcoding or metatranscriptomics, and on gene expression through messenger RNA (mRNA) abundance analysis. While valuable, this focus overlooks the broader functional roles of other RNA types in cellular metabolism. Beyond mRNA, non-coding RNAs as well as structural RNAs play critical [...]
Unifying occupancy-detection and local frequency scaling (Frescalo) models
Published: 2025-05-08
Subjects: Life Sciences
Frescalo’s “local frequency scaling” and classical occupancy-detection models both seek to recover true species‐occurrence signals from imperfect data. In this paper, we show that the two approaches rest on the same underlying detection mathematics. Occupancy models treat each site’s repeat visits as independent detection trials and separately estimate occupancy probability and per-visit [...]
Removing dead coral after marine heatwaves can mitigate coral-algae competition and increase viable coral recruitment
Published: 2025-05-08
Subjects: Ecology and Evolutionary Biology, Marine Biology
Ecological disturbance regimes are shifting and leaving behind novel legacies, like the remnant structures of dead foundation species, which have poorly known impacts on ecosystem resilience. We explored how dead coral skeletons produced by marine heatwaves–material legacies of increasingly common disturbances on coral reefs–influence spatial competition between corals and macroalgae, focusing on [...]
Inter-specific relationships and their ecological role in an oceanic elasmobranch community
Published: 2025-05-08
Subjects: Life Sciences
Marine ecosystems support a diverse array of co-occurring species, whose presence and abundance influence the behavior, population dynamics, and distribution of interacting organisms. Elasmobranchs play a central role in marine ecological processes as top and meso-predators across various ecosystems. Previous work has shown that some elasmobranchs are key to ecosystem health and resilience, [...]
Biodiversity science is improved when silent herbaria speak
Published: 2025-05-08
Subjects: Life Sciences
Herbaria represent a global biodiversity heritage essential for botanical research and conservation assessments. Despite their importance, herbaria in many parts of the world—especially in under-resourced regions such as much of Africa—are “silent”. These silent collections are poorly integrated into global research networks and hence underused and especially vulnerable to neglect. Here, we [...]
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 poultry and 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 outbreak notifications of [...]
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 [...]