SearcharxivSearch

arXiv subjects

Matteo Adorisio

Publications and source records attributed to Matteo Adorisio.

4 recordsLinked to original sources

Chemotaxis emerges as the optimal solution to cooperative search games

Cooperative search games are collective tasks where all agents share the same goal of reaching a target in the shortest time while limiting energy expenditure and avoiding collisions. Here we show that the equations that characterize the optimal strategy are identical to a long-known phenomenological model of chemotaxis, the directed motion of microorganisms guided by chemical cues. Within this analogy, the substance to which searchers respond acts as the memory over which agents share information about the environment. The actions of writing, erasing and forgetting are equivalent to production, consumption and degradation of chemoattractant. The rates at which these biochemical processes take place are tightly related to the parameters that characterize the decision-making problem, such as learning rate, costs for time, control, collisions and their trade-offs, as well as the attitude of agents toward risk. We establish a dictionary that maps notions from decision-making theory to biophysical observables in chemotaxis, and vice versa. Our results offer a fundamental explanation of why search algorithms that mimic microbial chemotaxis can be very effective and suggest how to optimize their performance.

physics.bio-ph

From Conformational Spread to Allosteric and Cooperative models of E. coli flagellar motor

Escherichia coli swims using flagella activated by rotary motors. The direction of rotation of the motors is indirectly regulated by the binding of a single messenger protein. The conformational spread model has been shown to accurately describe the equilibrium properties as well as the dynamics of the flagellar motor. In this paper we study this model from an analytic point of view. By exploiting the separation of timescales observed in experiments, we show how to reduce the conformational spread model to a coarse-grained, cooperative binding model. We show that this simplified model reproduces very well the dynamics of the motor switch.

q-bio.QM

The geometry of coexistence in large ecosystems

The role of species interactions in controlling the interplay between the stability of an ecosystem and its biodiversity is still not well understood. The ability of ecological communities to recover after a small perturbation of the species abundances (local asymptotic stability) has been well studied, whereas the likelihood of a community to persist when the interactions are altered (structural stability) has received much less attention. Our goal is to understand the effects of diversity, interaction strenghts and ecological network structure on the volume of parameter space leading to feasible equilibria, i.e., ones in which all populations have positive abundances. We develop a geometrical framework to study the range of conditions necessary for feasible coexistence in both mutualistic and consumer-resource systems. Using analytical and numerical methods, we show that feasibility is determined by just a handful of quantities describing the interactions, yielding a nontrivial complexity-feasibility relationship. Analyzing more than 100 empirical networks, we show that the range of coexistence conditions in mutualistic systems can be analytically predicted by means of a null model of random interactions, whereas food webs are characterized by smaller coexistence domains than those expected by chance. Finally, we characterize the geometric shape of the feasibility domain, thereby identifying the direction of perturbations that are more likely to cause extinctions. Interestingly, the structure of mutualistic interactions leads to very heterogeneous responses to perturbations, making those systems more fragile than expected by chance.

q-bio.PE

Spatial maximum entropy modeling from presence/absence tropical forest data

Understanding the assembly of ecosystems to estimate the number of species at different spatial scales is a challenging problem. Until now, maximum entropy approaches have lacked the important feature of considering space in an explicit manner. We propose a spatially explicit maximum entropy model suitable to describe spatial patterns such as the species area relationship and the endemic area relationship. Starting from the minimal information extracted from presence/absence data, we compare the behavior of two models considering the occurrence or lack thereof of each species and information on spatial correlations. Our approach uses the information at shorter spatial scales to infer the spatial organization at larger ones. We also hypothesize a possible ecological interpretation of the effective interaction we use to characterize spatial clustering.

q-bio.PE