Preprints
Filtering by Subject: Agriculture
Quantifying impacts of policy and practice interventions on biodiversity and climate
Published: 2025-11-27
Subjects: Agriculture, Biodiversity, Ecology and Evolutionary Biology, Forest Sciences, Life Sciences
There is urgent demand for ecosystem management interventions – targeted actions through policies and practices – that meaningfully address climate change and biodiversity loss while sustaining ecosystem delivery of water, food, fibre and fuel. Rigorous quantification of intervention outcomes is required for decision makers to identify, promote and scale effective interventions. Yet [...]
Large regional variation in global impacts of agriculture on terrestrial insects and other arthropods
Published: 2025-11-26
Subjects: Agriculture, Biodiversity, Ecology and Evolutionary Biology
Many insects and other arthropods are reported to be in rapid decline worldwide, mainly driven by changes in land use and climate. At the same time, arthropods provide many important services that benefit agriculture, and thus their losses may pose risks to food security. Although biodiversity responses vary between global realms, this spatial heterogeneity is not well-understood and is rarely [...]
CartograPlant: Bridging genomic, phenotypic, and environmental data to advance plant resilience and eco-evolutionary insight
Published: 2025-09-30
Subjects: Agriculture, Biodiversity, Bioinformatics, Ecology and Evolutionary Biology, Genetics and Genomics, Integrative Biology, Life Sciences, Plant Biology, Plant Breeding and Genetics Life Sciences, Plant Pathology, Systems Biology
Climate change is threatening plant health and productivity at all spatial scales, and these impacts are further compounded by the rising incidence of invasive pests and pathogens. Effectively addressing these challenges requires a comprehensive understanding of plant demography as well as the mechanisms and drivers of adaptation. Achieving this understanding requires the integration of [...]
Alternative Promoters Expand Transcriptional Complexity of Temperature Stress Responses in Cassava
Published: 2025-09-29
Subjects: Agriculture, Bioinformatics, Genetics and Genomics, Genomics, Plant Biology, Plant Sciences
Plant abiotic stress responses involve two major gene expression regulatory mechanisms: alternative promoter usage and differential expression. Although differentially expressed genes (DEGs) have been extensively studied, alternative promoter genes (APGs) remain poorly characterized despite their potential importance. We systematically compared APGs and DEGs in cassava (Manihot esculenta), a [...]
Building bridges between ecological and economic agent-based models of agriculture
Published: 2025-09-26
Subjects: Agricultural and Resource Economics, Agriculture, Biodiversity, Environmental Studies
Agriculture is a complex social-ecological system with numerous interactions and feedbacks between policies, markets, farm management, landscapes, and ecosystems. Because of these interconnections, policy changes, societal trends, and environmental crises can have widespread knock-on effects that threaten the stability of the entire system. Agent-based models have become a valuable tool used for [...]
Persefone.jl: Modelling Biodiversity in Dynamic Agricultural Landscapes
Published: 2025-08-31
Subjects: Agriculture, Behavior and Ethology, Biodiversity, Population Biology
Agricultural landscapes are highly dynamic, constantly changing in space and time due to the effects of farm management and environmental factors. To forecast the effects of changes in agricultural systems on biodiversity, we need to understand these landscape dynamics and how they impact different species. Here, we present Persefone.jl, an open-source process-based model of agricultural [...]
Predictive Evolutionary Genomics: Principles, Validation, and Practice
Published: 2025-08-11
Subjects: Agriculture, Biodiversity, Ecology and Evolutionary Biology, Evolution, Genomics, Life Sciences, Plant Sciences, Population Biology
Contemporary evolution occurs on observable timescales, enabling prospective evolutionary forecasting with quantitative frameworks rather than only retrospective inference. We propose a unified probabilistic framework that integrates three approaches linked to detectability windows through time. Trait-based models use multivariate quantitative-genetic equations to project correlated phenotypic [...]
Illegal cattle trade brings New World Screwworm to wildlife and continues to destroy protected areas in Mesoamerica
Published: 2025-07-30
Subjects: Agriculture, Animal Diseases, Animal Sciences, Biodiversity, Entomology, Life Sciences, Other Ecology and Evolutionary Biology, Parasitic Diseases, Parasitology, Public Health, Veterinary Preventive Medicine, Epidemiology, and Public Health
The New World Screwworm (Cochliomyia hominivorax; “screwworm”) is a parasitic fly historically endemic to the Americas. Females lay eggs in open wounds of warm-blooded animals, including humans. The emerging larvae feed on the host’s living tissue, often resulting in severe damage and potentially death. After five decades of coordinated efforts, the screwworm was successfully eradicated from [...]
Cover crops influence aboveground and belowground invertebrates in farmlands
Published: 2025-07-24
Subjects: Agriculture, Biodiversity, Life Sciences
1. Maintaining vegetation diversity through cover crops could counteract the decreasing soil carbon and biodiversity in intensive monoculture farming, but its impacts on fauna have rarely been quantified. 2. To investigate how cover crops influence the abundance and trophic structure of invertebrates, or inorganic N (proxy of soil functioning), barley (Hordeum vulgare) was grown with up to eight [...]
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 [...]
Proximity to natural habitat is not consistently associated with pollination services in tropical smallholder farms: A systematic review and meta-analysis
Published: 2025-05-13
Subjects: Agriculture, Biodiversity, Ecology and Evolutionary Biology, Entomology
Proximity to natural habitat is known to enhance pollination services in large-scale agriculture, but it remains unclear whether this holds in tropical smallholder farms. These systems are embedded in ecologically complex landscapes, central to global food security, and depend heavily on biodiversity-derived ecosystem services. We conducted a systematic review and meta-analysis of 35 studies [...]
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 [...]
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 [...]
Indirect effects dominate ecosystem service losses in response to agricultural intensification
Published: 2025-03-05
Subjects: Agriculture, Biodiversity, Ecology and Evolutionary Biology, Life Sciences
Feeding a growing human population while preventing biodiversity loss is a major challenge. Land conversion impacts multiple ecosystem services (ESs), including food production and biodiversity-dependent services; yet, the role of indirect effects on ESs within this context, such as parasitoids boosting crop yield by controlling herbivores, remains poorly understood. Using species-network data [...]
Agroecological farming promotes yield and biodiversity but may require subsidy to be profitable
Published: 2025-03-04
Subjects: Agriculture, Biodiversity, Ecology and Evolutionary Biology, Entomology, Life Sciences, Other Ecology and Evolutionary Biology
1. Intensive arable agriculture uses agrochemicals to replace ecosystem services (e.g. pest control and soil health) while simultaneously degrading others (e.g. pollination). Agroecological farming aims to reduce this reliance. Whether these practices maintain yields at a scale relevant to farm business viability is unclear. 2. In a 4-year replicated study across 17 English farms we assessed [...]