Individual energetics scale up to community coexistence: Movement, metabolism and biodiversity dynamics in fragmented landscapes

Unraveling the intricate mechanisms that govern community coexistence remains a daunting challenge, particularly amidst ongoing environmental change. To understand the response of individual animals to environmental change, physiology and individual metabolism are often studied. However, this perspective is currently largely lacking in community ecology. We argue that the integration of individual metabolism into community theory can offer new insights into coexistence. We present the first individual-based metabolic community model for a terrestrial mammal community to simulate energy dynamics and home range behavior in different environments. Using this model, we investigate how ecologically similar species coexist and maintain their energy balance under food competition. Only if individuals of different species are able to balance their incoming and outgoing energy over the long-term will they be able to coexist. After thoroughly testing and validating the model against real-world pa..., In this study, we developed a novel dynamic individual-based metabolic simulation model for a mammal community. The model is based on allometric relationships and movement in home ranges, allowing for a variety of species. The model was thoroughly tested and validated using real-world patterns from the literature. An extensive model development description is available in the format of a TRACE document with the publication. We used the model to simulate scenarios of different habitat fragmentation and species presence (single species or community) and analyzed the resulting data., , # Individual energetics scale up to community coexistence: Movement, metabolism and biodiversity dynamics in fragmented landscapes [https://doi.org/10.5061/dryad.4qrfj6qjf](https://doi.org/10.5061/dryad.4qrfj6qjf) We here provide the model code for our individual-based metabolic community model along with the resulting data for the simulated experiments and the code for producing the manuscript figures ## Description of the data and file structure For a detailed description of the functioning of the simulation model, please refer to our TRACE document included with the publication. The model is provided as a Netlogo program (mibcom_paper.nlogo) and a Python program (mibcom_mesa.py). We used the model to first simulate the population of different species (characterized by their body mass, defined by \"specs-included\") alone in landscapes of differently fragmented habitats, and finally we simulated the community of species together in differently fragmented habitats (fragmentation defi...阐明调控群落共存的复杂机制仍是一项极具挑战性的难题，尤其是在环境变化持续发生的背景下。为理解单个动物对环境变化的响应，学界通常会研究生理学与个体代谢，但目前群落生态学领域在这一视角上仍存在显著缺失。我们认为，将个体代谢整合进群落理论可为群落共存研究提供全新视角。本文首次提出针对陆地哺乳动物群落的基于个体的代谢群落模型，用以模拟不同环境下的能量动态与家域（home range）行为。借助该模型，我们探究了生态相似物种如何在食物竞争条件下共存并维持能量平衡——只有当不同物种的个体能够长期实现能量收支平衡时，它们才能实现共存。在基于真实世界数据对模型进行全面测试与验证后，本研究开发了一款全新的面向哺乳动物群落的基于个体的代谢模拟模型。 该模型基于异速生长关系（allometric relationships）与家域运动规律，可适配多类物种。我们已通过文献中的真实世界观测模式对模型进行了全面测试与验证。模型的详细开发说明以配套发表论文的TRACE文档形式提供。我们利用该模型模拟了不同栖息地破碎化与物种组成（单一物种或群落）的场景，并对生成的实验数据进行了分析。 # 个体能量代谢尺度上推至群落共存：破碎化景观中的运动、代谢与生物多样性动态 [https://doi.org/10.5061/dryad.4qrfj6qjf](https://doi.org/10.5061/dryad.4qrfj6qjf) 本文在此提供本研究基于个体的代谢群落模型的代码、模拟实验生成的配套数据，以及用于绘制论文图表的代码。 ## 数据与文件结构说明 若需了解模拟模型的详细运行机制，请参阅随发表论文一同提供的TRACE文档。本模型以Netlogo程序（mibcom_paper.nlogo）与Python程序（mibcom_mesa.py）两种形式提供。我们首先利用该模型，在不同栖息地破碎化程度的景观中单独模拟各物种（以体重表征物种特征，通过"specs-included"字段定义）的种群动态，最终又在相同的破碎化景观中共同模拟多个物种组成的群落（破碎化定义……）。