Searcharxiv⌕ Search

arXiv subjects

E. Hernandez-Garcia

Publications and source records attributed to E. Hernandez-Garcia.

At least 19 recordsLinked to original sources

Morphological routes to extinction: A mechanistic assessment of habitat loss

Habitat loss driven by climate and anthropogenic pressures alters patch morphology, with critical consequences for population persistence. Geometric and mechanistic metrics are commonly used to quantify degradation, yet their respective limitations remain poorly understood. Here, we address this gap using a reaction-diffusion framework for population growth and dispersal in a viable patch embedded in a hostile environment. We compare geometric descriptors of patch shape with a mechanistic metric derived from population growth near the extinction threshold. Along degradation trajectories, we find that geometric metrics systematically overestimate persistence, suggesting moderate and decelerating impacts, whereas mechanistic indicators reveal rapid, accelerating approaches to extinction. These results highlight fundamental limitations of geometric approaches and underscore the need for mechanistic assessments when evaluating biodiversity loss in complex landscapes.

q-bio.PE↗

Minimal mechanisms for vegetation patterns in semiarid regions

The minimal ecological requirements for formation of regular vegetation patterns in semiarid systems have been recently questioned. Against the general belief that a combination of facilitative and competitive interactions is necessary, recent theoretical studies suggest that, under broad conditions, nonlocal competition among plants alone may induce patterns. In this paper, we review results along this line, presenting a series of models that yield spatial patterns when finite-range competition is the only driving force. A preliminary derivation of this type of model from a more detailed one that considers water-biomass dynamics is also presented. Keywords: Vegetation patterns, nonlocal interactions

q-bio.PE↗

Competitive Brownian and Levy walkers

Population dynamics of individuals undergoing birth and death and diffusing by short or long ranged twodimensional spatial excursions (Gaussian jumps or Lévy flights) is studied. Competitive interactions are considered in a global case, in which birth and death rates are influenced by all individuals in the system, and in a nonlocal but finite-range case in which interaction affects individuals in a neighborhood (we also address the noninteracting case). In the global case one single or few-cluster configurations are achieved with the spatial distribution of the bugs tied to the type of diffusion. In the Lévy case long tails appear for some properties characterizing the shape and dynamics of clusters. Under non-local finite-range interactions periodic patterns appear with periodicity set by the interaction range. This length acts as a cut-off limiting the influence of the long Lévy jumps, so that spatial configurations under the two types of diffusion become more similar. By dividing initially everyone into different families and following their descent it is possible to show that mixing of families and their competition is greatly influenced by the spatial dynamics.

cond-mat.stat-mech↗

Spatial clustering of interacting bugs: Levy flights versus Gaussian jumps

A biological competition model where the individuals of the same species perform a two-dimensional Markovian continuous-time random walk and undergo reproduction and death is studied. The competition is introduced through the assumption that the reproduction rate depends on the crowding in the neighborhood. The spatial dynamics corresponds either to normal diffusion characterized by Gaussian jumps or to superdiffusion characterized by Lévy flights. It is observed that in both cases periodic patterns occur for appropriate parameters of the model, indicating that the general macroscopic collective behavior of the system is more strongly influenced by the competition for the resources than by the type of spatial dynamics. However, some differences arise that are discussed.

physics.bio-ph↗

Diffusing opinions in bounded confidence processes

We study the effects of diffusing opinions on the Deffuant et al. model for continuous opinion dynamics. Individuals are given the opportunity to change their opinion, with a given probability, to a randomly selected opinion inside an interval centered around the present opinion. We show that diffusion induces an order-disorder transition. In the disordered state the opinion distribution tends to be uniform, while for the ordered state a set of well defined opinion clusters are formed, although with some opinion spread inside them. If the diffusion jumps are not large, clusters coalesce, so that weak diffusion favors opinion consensus. A master equation for the process described above is presented. We find that the master equation and the Monte-Carlo simulations do not always agree due to finite-size induced fluctuations. Using a linear stability analysis we can derive approximate conditions for the transition between opinion clusters and the disordered state. The linear stability analysis is compared with Monte Carlo simulations. Novel interesting phenomena are analyzed.

physics.soc-ph↗

Preface "Nonlinear processes in oceanic and atmospheric flows"

Nonlinear phenomena are essential ingredients in many oceanic and atmospheric processes, and successful understanding of them benefits from multidisciplinary collaboration between oceanographers, meteorologists, physicists and mathematicians. The present Special Issue on ``Nonlinear Processes in Oceanic and Atmospheric Flows'' contains selected contributions from attendants to the workshop which, in the above spirit, was held in Castro Urdiales, Spain, in July 2008. Here we summarize the Special Issue contributions, which include papers on the characterization of ocean transport in the Lagrangian and in the Eulerian frameworks, generation and variability of jets and waves, interactions of fluid flow with plankton dynamics or heavy drops, scaling in meteorological fields, and statistical properties of El Niño Southern Oscillation.

physics.ao-ph↗

Surface mixing and biological activity in the four Eastern Boundary Upwelling Systems

Eastern Boundary Upwelling Systems (EBUS) are characterized by a high productivity of plankton associated with large commercial fisheries, thus playing key biological and socio-economical roles. The aim of this work is to make a comparative study of these four upwelling systems focussing on their surface stirring, using the Finite Size Lyapunov Exponents (FSLEs), and their biological activity, based on satellite data. First, the spatial distribution of horizontal mixing is analysed from time averages and from probability density functions of FSLEs. Then we studied the temporal variability of surface stirring focussing on the annual and seasonal cycle. There is a global negative correlation between surface horizontal mixing and chlorophyll standing stocks over the four areas. To try to better understand this inverse relationship, we consider the vertical dimension by looking at the Ekman-transport and vertical velocities. We suggest the possibility of a changing response of the phytoplankton to sub/mesoscale turbulence, from a negative effect in the very productive coastal areas to a positive one in the open ocean.

physics.ao-ph↗

Top marine predators track Lagrangian coherent structures

Meso- and submesoscales (fronts, eddies, filaments) in surface ocean flow have a crucial influence on marine ecosystems. Their dynamics partly control the foraging behaviour and the displacement of marine top predators (tuna, birds, turtles, and cetaceans). In this work we focus on the role of submesoscale structures in the Mozambique Channel on the distribution of a marine predator, the Great Frigatebird. Using a newly developed dynamical concept, namely the Finite-Size Lyapunov Exponent (FSLE), we have identified Lagrangian coherent structures (LCSs) present in the surface flow in the Channel over a 2-month observation period (August and September 2003). By comparing seabirds' satellite positions with LCSs locations, we demonstrate that frigatebirds track precisely these structures in the Mozambique Channel, providing the first evidence that a top predator is able to track these FSLE ridges to locate food patches. After comparing bird positions during long and short trips, and different parts of these trips, we propose several hypotheses to understand how frigatebirds can follow these LCSs. The birds might use visual and/or olfactory cues and/or atmospheric current changes over the structures to move along these biological corridors. The birds being often associated to tuna schools around foraging areas, a thorough comprehension of their foraging behaviour and movement during the breeding season is crucial not only to seabirds' ecology but also to an appropriate ecosystemic approach of fisheries in the Channel.

q-bio.PE↗

Modeling approach to regime shifts of primary production in shallow coastal ecosystems

Pristine coastal shallow systems are usually dominated by extensive meadows of seagrass species, which are assumed to take advantage of nutrient supply from sediment. An increasing nutrient input is thought to favour phytoplankton, epiphytic microalgae, as well as opportunistic ephemeral macroalgae that coexist with seagrasses. The primary cause of shifts and succession in the macrophyte community is the increase of nutrient load to water; however temperature plays also an important role. A competition model between rooted seagrass (Zostera marina), macroalgae (Ulva sp), and phytoplankton has been developed to analyse the succession of primary producer communities in these systems. Successions of dominance states, with different resilience characteristics, are found when modifying the input of nutrients and the seasonal temperature and light intensity forcing.

q-bio.PE↗

Comparison between Eulerian diagnostics and finite-size Lyapunov exponents computed from altimetry in the Algerian basin

Transport and mixing properties of surface currents can be detected from altimetric data by both Eulerian and Lagrangian diagnostics. In contrast with Eulerian diagnostics, Lagrangian tools like the local Lyapunov exponents have the advantage of exploiting both spatial and temporal variability of the velocity field and are in principle able to unveil subgrid filaments generated by chaotic stirring. However, one may wonder whether this theoretical advantage is of practical interest in real-data, mesoscale and submesoscale analysis, because of the uncertainties and resolution of altimetric products, and the non-passive nature of biogeochemical tracers. Here we compare the ability of standard Eulerian diagnostics and the finite-size Lyapunov exponent in detecting instantaneaous and climatological transport and mixing properties. By comparing with sea-surface temperature patterns, we find that the two diagnostics provide similar results for slowly evolving eddies like the first Alboran gyre. However, the Lyapunov exponent is also able to predict the (sub-)mesoscale filamentary process occuring along the Algerian current and above the Balearic Abyssal Plain. Such filaments are also observed, with some mismatch, in sea-surface temperature patterns. Climatologies of Lyapunov exponents do not show any compact relation with other Eulerian diagnostics, unveiling a different structure even at the basin scale. We conclude that filamentation dynamics can be detected by reprocessing available altimetric data with Lagrangian tools, giving insight into (sub-)mesoscale stirring processes relevant to tracer observations and complementing traditional Eulerian diagnostics.

nlin.CD↗

Plankton blooms in vortices: The role of biological and hydrodynamic time scales

We study the interplay of hydrodynamic mesoscale structures and the growth of plankton in the wake of an island, and its interaction with a coastal upwelling. Our focus is on a mechanism for the emergence of localized plankton blooms in vortices. Using a coupled system of a kinematic flow mimicking the mesoscale structures behind the island and a simple three component model for the marine ecosystem, we show that the long residence times of nutrients and plankton in the vicinity of the island and the confinement of plankton within vortices are key factors for the appearance of localized plankton blooms

nlin.CD↗

Biological activity in the wake of an island close to a coastal upwelling

Hydrodynamic forcing plays an important role in shaping the dynamics of marine organisms, in particular of plankton. In this work we study the planktonic biological activity in the wake of an island which is close to an upwelling region. Our research is based on numerical analysis of a kinematic flow mimicking the hydrodynamics in the wake, coupled to a three-component plankton model. Depending on model parameters different phenomena are described: a) The lack of transport of nutrients and plankton across the wake, so that the influence of upwelling on primary production on the other side of the wake is blocked. b) For sufficiently high vorticity, the role of the wake in facilitating this transport and leading to an enhancement of primary production. Finally c) we show that under certain conditions the interplay between wake structures and biological growth leads to plankton blooms inside mesoscale hydrodynamic vortices that act as incubators of primary production.

nlin.CD↗

Crystallization and melting of bacteria colonies and Brownian Bugs

Motivated by the existence of remarkably ordered cluster arrays of bacteria colonies growing in Petri dishes and related problems, we study the spontaneous emergence of clustering and patterns in a simple nonequilibrium system: the individual-based interacting Brownian bug model. We map this discrete model into a continuous Langevin equation which is the starting point for our extensive numerical analyses. For the two-dimensional case we report on the spontaneous generation of localized clusters of activity as well as a melting/freezing transition from a disordered or isotropic phase to an ordered one characterized by hexagonal patterns. We study in detail the analogies and differences with the well-established Kosterlitz-Thouless-Halperin-Nelson-Young theory of equilibrium melting, as well as with another competing theory. For that, we study translational and orientational correlations and perform a careful defect analysis. We find a non standard one-stage, defect-mediated, transition whose nature is only partially elucidated.

cond-mat.stat-mech↗

Evolutionary and Ecological Trees and Networks

Evolutionary relationships between species are usually represented in phylogenies, i.e. evolutionary trees, which are a type of networks. The terminal nodes of these trees represent species, which are made of individuals and populations among which gene flow occurs. This flow can also be represented as a network. In this paper we briefly show some properties of these complex networks of evolutionary and ecological relationships. First, we characterize large scale evolutionary relationships in the Tree of Life by a degree distribution. Second, we represent genetic relationships between individuals of a Mediterranean marine plant, Posidonia oceanica, in terms of a Minimum Spanning Tree. Finally, relationships among plant shoots inside populations are represented as networks of genetic similarity.

q-bio.PE↗

Clone size distributions in networks of genetic similarity

We build networks of genetic similarity in which the nodes are organisms sampled from biological populations. The procedure is illustrated by constructing networks from genetic data of a marine clonal plant. An important feature in the networks is the presence of clone subgraphs, i.e. sets of organisms with identical genotype forming clones. As a first step to understand the dynamics that has shaped these networks, we point up a relationship between a particular degree distribution and the clone size distribution in the populations. We construct a dynamical model for the population dynamics, focussing on the dynamics of the clones, and solve it for the required distributions. Scale free and exponentially decaying forms are obtained depending on parameter values, the first type being obtained when clonal growth is the dominant process. Average distributions are dominated by the power law behavior presented by the fastest replicating populations.

q-bio.PE↗

Polarisation Patterns and Vectorial Defects in Type II Optical Parametric Oscillators

Previous studies of lasers and nonlinear resonators have revealed that the polarisation degree of freedom allows for the formation of polarisation patterns and novel localized structures, such as vectorial defects. Type II optical parametric oscillators are characterised by the fact that the down-converted beams are emitted in orthogonal polarisations. In this paper we show the results of the study of pattern and defect formation and dynamics in a Type II degenerate optical parametric oscillator for which the pump field is not resonated in the cavity. We find that traveling waves are the predominant solutions and that the defects are vectorial dislocations which appear at the boundaries of the regions where traveling waves of different phase or wave-vector orientation are formed. A dislocation is defined by two topological charges, one associated with the phase and another with the wave-vector orientation. We also show how to stabilize a single defect in a realistic experimental situation. The effects of phase mismatch of nonlinear interaction are finally considered.

physics.optics↗

Dynamics of Defects in the Vector Complex Ginzburg-Landau Equation

Coupled Ginzburg-Landau equations appear in a variety of contexts involving instabilities in oscillatory media. When the relevant unstable mode is of vectorial character (a common situation in nonlinear optics), the pair of coupled equations has special symmetries and can be written as a vector complex Ginzburg-Landau equation. Dynamical properties of localized structures of topological character in this vector-field case are considered. Creation and annihilation processes of different kinds of vector defects are described, and some of them interpreted in theoretical terms. A transition between different regimes of spatiotemporal dynamics is described.

nlin.PS↗

Boundary effects in extended dynamical systems

In the framework of spatially extended dynamical systems, we present three examples in which the presence of walls lead to dynamic behavior qualitatively different from the one obtained in an infinite domain or under periodic boundary conditions. For a nonlinear reaction-diffusion model we obtain boundary-induced spatially chaotic configurations. Nontrivial average patterns arising from boundaries are shown to appear in spatiotemporally chaotic states of the Kuramoto-Sivashinsky model. Finally, walls organize novel states in simulations of the complex Ginzburg-Landau equation.

nlin.CD↗