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Register a new userModeling cooperation and competition in biological communities
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The far-reaching consequences of ecological interactions in the dynamics of biological communities remain an intriguing subject. For decades, competition has been a cornerstone in ecological processes, but mounting evidence shows that cooperation does also contribute to the structure of biological communities. Here, we propose a simple deterministic model for the study of the effects of facilitation and competition in the dynamics of such systems. The simultaneous inclusion of both effects produces rich dynamics and captures the context-dependence observed in the formation of ecological communities. The approach reproduces relevant aspects of primary and secondary plant succession, the effect invasive species, and the survival of rare species. The model also takes into account the role of the ecological priority effect and stress the crucial role of facilitation in conservation efforts and species coexistence.
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Empirical observations show that ecological communities can have a huge number of coexisting species, also with few or limited number of resources. These ecosystems are characterized by multiple type of interactions, in particular displaying cooperative behaviors. However, standard modeling of population dynamics based on Lotka-Volterra type of equations predicts that ecosystem stability should decrease as the number of species in the community increases and that cooperative systems are less stable than communities with only competitive and/or exploitative interactions. Here we propose a stochastic model of population dynamics, which includes exploitative interactions as well as cooperative interactions induced by cross-feeding. The model is exactly solved and we obtain results for relevant macro-ecological patterns, such as species abundance distributions and correlation functions. In the large system size limit, any number of species can coexist for a very general class of interaction networks and stability increases as the number of species grows. For pure mutualistic/commensalistic interactions we determine the topological properties of the network that guarantee species coexistence. We also show that the stationary state is globally stable and that inferring species interactions through species abundance correlation analysis may be misleading. Our theoretical approach thus show that appropriate models of cooperation naturally leads to a solution of the long-standing question about complexity-stability paradox and on how highly biodiverse communities can coexist.
We perform individual-based Monte Carlo simulations in a community consisting of two predator species competing for a single prey species, with the purpose of studying biodiversity stabilization in this simple model system. Predators are characterized with predation efficiency and death rates, to which Darwinian evolutionary adaptation is introduced. Competition for limited prey abundance drives the populations optimization with respect to predation efficiency and death rates. We study the influence of various ecological elements on the final state, finding that both indirect competition and evolutionary adaptation are insufficient to yield a stable ecosystem. However, stable three-species coexistence is observed when direct interaction between the two predator species is implemented.
Quantitative predictions about the processes that promote species coexistence are a subject of active research in ecology. In particular, competitive interactions are known to shape and maintain ecological communities, and situations where some species out-compete or dominate over some others are key to describe natural ecosystems. Here we develop ecological theory using a stochastic, synthetic framework for plant community assembly that leads to predictions amenable to empirical testing. We propose two stochastic continuous-time Markov models that incorporate competitive dominance through a hierarchy of species heights. The first model, which is spatially implicit, predicts both the expected number of species that survive and the conditions under which heights are clustered in realized model communities. The second one allows spatially-explicit interactions of individuals and alternative mechanisms that can help shorter plants overcome height-driven competition, and it demonstrates that clustering patterns remain not only locally but also across increasing spatial scales. Moreover, although plants are actually height-clustered in the spatially-explicit model, it allows for plant species abundances not necessarily skewed to taller plants.
We first review traditional approaches to memory storage and formation, drawing on the literature of quantitative neuroscience as well as statistical physics. These have generally focused on the fast dynamics of neurons; however, there is now an increasing emphasis on the slow dynamics of synapses, whose weight changes are held to be responsible for memory storage. An important first step in this direction was taken in the context of Fusis cascade model, where complex synaptic architectures were invoked, in particular, to store long-term memories. No explicit synaptic dynamics were, however, invoked in that work. These were recently incorporated theoretically using the techniques used in agent-based modelling, and subsequently, models of competing and cooperating synapses were formulated. It was found that the key to the storage of long-term memories lay in the competitive dynamics of synapses. In this review, we focus on models of synaptic competition and cooperation, and look at the outstanding challenges that remain.
In computer science, we can theoretically neatly separate transmission and processing of information, hardware and software, and programs and their inputs. This is much more intricate in biology, Nevertheless, I argue that Shannons concept of information is useful in biology, although its application is not as straightforward as many people think. In fact, the recently developed theory of information decomposition can shed much light on the complementarity between coding and regulatory, or internal and environmental information. The key challenge that we formulate in this contribution is to understand how genetic information and external factors combine to create an organism, and conversely, how the genome has learned in the course of evolution how to harness the environment, and analogously, how coding, regulation and spatial organization interact in cellular processes.
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