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The production of large progeny numbers affected by high mutation rates is a ubiquitous strategy of viruses, as it promotes quick adaptation and survival to changing environments. However, this situation often ushers in an arms race between the virus and the host cells. In this paper we investigate in depth a model for the dynamics of a phenotypically heterogeneous population of viruses whose propagation is limited to two-dimensional geometries, and where host cells are able to develop defenses against infection. Our analytical and numerical analyses are developed in close connection to directed percolation models. In fact, we show that making the space explicit in the model, which in turn amounts to reducing viral mobility and hindering the infective ability of the virus, connects our work with similar dynamical models that lie in the universality class of directed percolation. In addition, we use the fact that our model is a multicomponent generalization of the Domany-Kinzel probabilistic cellular automaton to employ several techniques developed in the past in that context, such as the two-site approximation to the extinction transition line. Our aim is to better understand propagation of viral infections with mobility restrictions, e.g., in crops or in plant leaves, in order to inspire new strategies for effective viral control.

Background: The evolutionary origin of cooperation among unrelated individuals remains a key unsolved issue across several disciplines. Prominent among the several mechanisms proposed to explain how cooperation can emerge is the existence of a population structure that determines the interactions among individuals. Many models have explored analytically and by simulation the effects of such a structure, particularly in the framework of the Prisoner's Dilemma, but the results of these models largely depend on details such as the type of spatial structure or the evolutionary dynamics. Therefore, experimental work suitably designed to address this question is needed to probe these issues., Methods and Findings: We have designed an experiment to test the emergence of cooperation when humans play Prisoner's Dilemma on a network whose size is comparable to that of simulations. We find that the cooperation level declines to an asymptotic state with low but nonzero cooperation. Regarding players' behavior, we observe that the population is heterogeneous, consisting of a high percentage of defectors, a smaller one of cooperators, and a large group that shares features of the conditional cooperators of public goods games. We propose an agent-based model based on the coexistence of these different strategies that is in good agreement with all the experimental observations., Conclusions: In our large experimental setup, cooperation was not promoted by the existence of a lattice beyond a residual level (around 20%) typical of public goods experiments. Our findings also indicate that both heterogeneity and a "moody" conditional cooperation strategy, in which the probability of cooperating also depends on the player's previous action, are required to understand the outcome of the experiment. These results could impact the way game theory on graphs is used to model human interactions in structured groups.

A phylogeographic analysis is carried out for the widely distributed European littoral prawn Palaemon elegans in order to test for potential genetic differentiation and geographic structure. Mitochondrial sequences were obtained from 283 specimens from the northeastern Atlantic, the Baltic, Mediterranean, Black and Caspian Seas. Our study revealed a surprisingly complex population structure. Three main haplogroups can be separated: one from the Atlantic (Type I) and two from the Mediterranean (Types II and III). While the Mediterranean types occur in sympatry, a clear phylogeographic break was observed along the Almería-Oran Front separating Type I and giving evidence for a genetic isolation of Atlantic and Mediterranean populations. Type III represents the most distinct haplogroup with high levels of nucleotide divergence, indicating the occurrence of a cryptic species with a Messinian origin. The colonization of the southeastern Baltic Sea is most likely due to human introduction., (2010. Published by Elsevier Inc.)

Equations describing the evolution of particles, solitons, or localized structures, driven by a zero-average, periodic, external force, and invariant under time reversal and a half-period time shift, exhibit a ratchet current when the driving force breaks these symmetries. The biharmonic force f(t)=1 cos(qomegat+phi1)+2 cospomegat+phi2) does it for almost any choice of vphi1 and phi2, provided p and q are two coprime integers such that p+q is odd. It has been widely observed, in experiments in semiconductors, in Josephson junctions, photonic crystals, etc., as well as in simulations, that the ratchet current induced by this force has the shape v proportional, variant1p2q cos(pphi1-qphi2+theta0) for small amplitudes, where theta0 depends on the damping ( theta0=pi/2 if there is no damping, and theta0=0 for overdamped systems). We rigorously prove that this precise shape can be obtained solely from the broken symmetries of the system and is independent of the details of the equation describing the system.

Evolutionary game dynamics is one of the most fruitful frameworks for studying evolution in different disciplines, from Biology to Economics. Within this context, the approach of choice for many researchers is the so-called replicator equation, that describes mathematically the idea that those individuals performing better have more offspring and thus their frequency in the population grows. While very many interesting results have been obtained with this equation in the three decades elapsed since it was first proposed, it is important to realize the limits of its applicability. One particularly relevant issue in this respect is that of non-mean-field effects, that may arise from temporal fluctuations or from spatial correlations, both neglected in the replicator equation. This review discusses these temporal and spatial effects focusing on the non-trivial modifications they induce when compared to the outcome of replicator dynamics. Alongside this question, the hypothesis of linearity and its relation to the choice of the rule for strategy update is also analyzed. The discussion is presented in terms of the emergence of cooperation, as one of the current key problems in Biology and in other disciplines.

We introduce a toy model of ecosystem assembly for which we are able to map out all assembly pathways generated by external invasions. The model allows us to display the whole phase space in the form of an assembly graph whose nodes are communities of species and whose directed links are transitions between them induced by invasions. We characterize the process as a finite Markov chain and prove that it exhibits a unique set of recurrent states (the end state of the process), which is therefore resistant to invasions. This also shows that the end state is independent of the assembly history. The model shares all features with standard assembly models reported in the literature, with the advantage that all observables can be computed in an exact manner.

Spatial structure is known to have an impact on the evolution of cooperation, and so it has been intensively studied during recent years. Previous work has shown the relevance of some features, such as the synchronicity of the updating, the clustering of the network, or the influence of the update rule. This has been done, however, for concrete settings with particular games, networks, and update rules, with the consequence that some contradictions have arisen and a general understanding of these topics is missing in the broader context of the space of 2x2 games. To address this issue, we have performed a systematic and exhaustive simulation in the different degrees of freedom of the problem. In some cases, we generalize previous knowledge to the broader context of our study and explain the apparent contradictions. In other cases, however, our conclusions refute what seems to be established opinions in the field, as for example the robustness of the effect of spatial structure against changes in the update rule, or offer new insights into the subject, e.g., the relation between the intensity of selection and the asymmetry between the effects on games with mixed equilibria.

Using Monte Carlo simulation and fundamental measure theory we study the phase diagram of a two-dimensional lattice gas model with a nearest neighbor hard core exclusion and a next-to-nearest neighbor finite repulsive interaction. The model presents two competing ranges of interaction and, in common with many experimental systems, exhibits a low density solid phase, which melts back to the fluid phase upon compression. The theoretical approach is found to provide a qualitatively correct picture of the phase diagram of our model system.

We test the performance of a recently proposed fundamental measure density functional of aligned hard cylinders by calculating the phase diagram of a monodisperse fluid of these particles. We consider all possible liquid-crystalline symmetries, namely, nematic, smectic, and columnar, as well as the crystalline phase. For this purpose we introduce a Gaussian parametrization of the density profile and use it to numerically minimize the functional. We also determine, from the analytic expression for the structure factor of the uniform fluid, the bifurcation points from the nematic to the smectic and columnar phases. The equation of state, as obtained from functional minimization, is compared to the available Monte Carlo simulation. The agreement is very good, nearly perfect in the description of the inhomogeneous phases. The columnar phase is found to be metastable with respect to the smectic or crystal phases, its free energy though being very close to that of the stable phases. This result justifies the observation of a window of stability of the columnar phase in some simulations, which disappears as the size of the system increases. The only important deviation between theory and simulations shows up in the location of the nematic-smectic transition. This is the common drawback of any fundamental measure functional of describing the uniform phase just with the accuracy of scaled particle theory.

We obtain a fundamental-measure density functional for mixtures of parallel hard cylinders. For this purpose we first generalize to multicomponent mixtures the fundamental-measure functional proposed by Tarazona and Rosenfeld for a one-component hard disk fluid, through a method alternative to the cavity formalism of those authors. We show the equivalence of both methods when applied to two-dimensional fluids. The density functional so obtained reduces to the exact density functional for one-dimensional mixtures of hard rods when applied to one-dimensional profiles. In a second step, we apply an idea put forward some time ago by two of us, based again on a dimensional reduction of the system, and derive a density functional for mixtures of parallel hard cylinders. We explore some features of this functional by determining the fluid-fluid demixing spinodals for a binary mixture of cylinders with the same volume, and by calculating the direct correlation functions.

One of the most direct human mechanisms of promoting cooperation is rewarding it. We study the effect of sharing a reward among cooperators in the most stringent form of social dilemma, namely the prisoner's dilemma (PD). Specifically, for a group of players that collect payoffs by playing a pairwise PD game with their partners, we consider an external entity that distributes a fixed reward equally among all cooperators. Thus, individuals confront a new dilemma: on the one hand, they may be inclined to choose the shared reward despite the possibility of being exploited by defectors; on the other hand, if too many players do that, cooperators will obtain a poor reward and defectors will outperform them. By appropriately tuning the amount to be shared a vast variety of scenarios arises, including the traditional ones in the study of cooperation as well as more complex situations where unexpected behavior can occur. We provide a complete classification of the equilibria of the n-player game as well as of its evolutionary dynamics.

We study the problem of the emergence of cooperation in the spatial Prisoner's Dilemma. The pioneering work by Nowak and May [1992. Evolutionary games and spatial chaos. Nature 415, 424-426] showed that large initial populations of cooperators can survive and sustain cooperation in a square lattice with imitate-the-best evolutionary dynamics. We revisit this problem in a cost-benefit formulation suitable for a number of biological applications. We show that if a fixed-amount reward is established for cooperators to share, a single cooperator can invade a population of defectors and form structures that are resilient to re-invasion even if the reward mechanism is turned off. We discuss analytically the case of the invasion by a single cooperator and present agent-based simulations for small initial fractions of cooperators. Large cooperation levels, in the sustainability range, are found. In the conclusions we discuss possible applications of this model as well as its connections with other mechanisms proposed to promote the emergence of cooperation.

In this article we obtain a fundamental measure functional for the model of aligned hard hexagons in the plane. Our aim is not just to provide a functional for an admittedly academic model, but to investigate the structure of fundamental measure theory. A model of aligned hard hexagons has similarities with the hard disk model. Both share "lost cases," i.e. admit configurations of three particles in which there is pairwise overlap but not triple overlap. These configurations are known to be problematic for fundamental measure functionals, which are not able to capture their contribution correctly. This failure lies in the inability of these functionals to yield a correct low density limit of the third order direct correlation function. Here we derive the functional by projecting aligned hard cubes on the plane x+y+z=0 . The correct dimensional crossover behavior of these functionals permits us to follow this strategy. The functional of aligned hard cubes, however, does not have lost cases, so neither had the resulting functional for aligned hard hexagons. The latter exhibits, in fact, a peculiar structure as compared to the one for hard disks. It depends on a uniparametric family of weighted densities through an additional term not appearing in the functional for hard disks. Apart from studying the freezing of this system, we discuss the implications of the functional structure for further developments of fundamental measure theory.

Evolutionary game theory has traditionally assumed that all individuals in a population interact with each other between reproduction events. We show that eliminating this restriction by explicitly considering the time scales of interaction and selection leads to dramatic changes in the outcome of evolution. Examples include the selection of the inefficient strategy in the Harmony and Stag-Hunt games, and the disappearance of the coexistence state in the Snowdrift game. Our results hold for any population size and in more general situations with additional factors influencing fitness.

We derive from first principles (without resorting to the replica trick) a density-functional theory for fluids in quenched disordered matrices (QA-DFT). We show that the disorder-averaged free energy of the fluid is a functional of the average density profile of the fluid as well as the pair correlation of the fluid and matrix particles. For practical reasons it is preferable to use another functional: the disorder-averaged free energy plus the fluid-matrix interaction energy, which, for fixed fluid-matrix interaction potential, is a functional only of the average density profile of the fluid. When the matrix is created as a quenched configuration of another fluid, the functional can be regarded as depending on the density profile of the matrix fluid as well. In this situation, the replica Ornstein-Zernike equations which do not contain the blocking parts of the correlations can be obtained as functional identities in this formalism, provided the second derivative of this functional is interpreted as the connected part of the direct correlation function. The blocking correlations are totally absent from QA-DFT, but nevertheless the thermodynamics can be entirely obtained from the functional. We apply the formalism to obtain the exact functional for an ideal fluid in an arbitrary matrix, and discuss possible approximations for nonideal fluids.

We consider a binary mixture of colloid and polymer particles with positions on a simple cubic lattice. Colloids exclude both colloids and polymers from nearest neighbor sites. Polymers are treated as effective particles that are mutually noninteracting, but exclude colloids from neighboring sites; this is a discrete version of the (continuum) Asakura-Oosawa-Vrij model. Two alternative density functionals are proposed and compared in detail. The first is based on multioccupancy in the zero-dimensional limit of the bare model, analogous to the corresponding continuum theory that reproduces the bulk fluid free energy of free volume theory. The second is based on mapping the polymers onto a multicomponent mixture of polymer clusters that are shown to behave as hard cores; the corresponding property of the extended model in strong confinement permits direct treatment with lattice fundamental measure theory. Both theories predict the same topology for the phase diagram with a continuous fluid-fcc freezing transition at low polymer fugacity and, upon crossing a tricritical point, a first-order freezing transition for high polymer fugacities with rapidly broadening density jump.

The fact that humans cooperate with non-kin in large groups, or with people they will never meet again, is a long-standing evolutionary puzzle. Altruism, the capacity to perform costly acts that confer benefits on others, is at the core of cooperative behavior. Behavioral experiments show that humans have a predisposition to cooperate with others and to punish non-cooperators at personal cost (so-called strong reciprocity) which, according to standard evolutionary game theory arguments, cannot arise from selection acting on individuals. This has led to the suggestion of group and cultural selection as the only mechanisms that can explain the evolutionary origin of human altruism. We introduce an agent-based model inspired on the Ultimatum Game, that allows us to go beyond the limitations of standard evolutionary game theory and show that individual selection can indeed give rise to strong reciprocity. Our results are consistent with the existence of neural correlates of fairness and in good agreement with observations on humans and monkeys.

At the present time minimally invasive surgery is present in all the standards of quality of a surgical service. Laparoscopic surgery, the basis of this minimally invasive surgery, is revolutionizing the teaching and handling of many surgical pathologies. In the urological sphere, although with a delay of 5 years with respect to neighbouring countries, laparoscopy has become established as a prevalent technique in many processes of the urinary-genital apparatus. At present it is the chosen technique for the surgical treatment of the suprarenal, and it is rapidly becoming established in different pathologies such as renal tumours, prostate tumours, staging in neoplastic diseases of the testicles, benign surgical pathology and in reconstructive surgery. Since 1995, the Urology Service at the Hospital de Navarra has been a pioneer in the employment of this type of technique, and, since 1998, it has been a pioneer of so-called advanced laparoscopic surgery, in which it is a national reference point in some of the procedures, such as laparoscopic adrenalectomy. At present, all of the laparoscopic procedures are incorporated in the service, with a learning curve that has been surpassed. All of this has made it possible to improve patient care, to obtain a reduction in postoperative pain and in length of hospital stay, and a rapid return to labour activity with oncological results that can be equivalent on those of open surgery.

We put forward a general procedure to obtain an approximate free-energy density functional for any hard-core lattice gas, regardless of the shape of the particles, the underlying lattice, or the dimension of the system. The procedure is conceptually very simple and recovers effortlessly previous results for some particular systems. Also, the obtained density functionals belong to the class of fundamental measure functionals and, therefore, are always consistent through dimensional reduction. We discuss possible extensions of this method to account for attractive lattice models.

Inside living cells are complex mixtures of thousands of components. It is hopeless to try to characterize all the individual interactions in these mixtures. Thus, we develop a statistical approach to approximating them, and examine the conditions under which the mixtures phase separate. The approach approximates the matrix of second-virial coefficients of the mixture by a random matrix, and determines the stability of the mixture from the spectrum of such random matrices.

To speak about fundamental measure theory obliges us to mention dimensional crossover. This feature, inherent to the systems themselves, was incorporated in the theory almost from the beginning. Although at first it was thought to be a consistency check for the theory, it rapidly became its fundamental pillar, thus becoming the only density functional theory which possesses such a property. It is straightforward that dimensional crossover connects, for instance, the parallel hard cube system (three dimensional) with that of squares (two dimensional) and rods (one dimensional). We show here that there are many more connections which can be established in this way. Through them we deduce from the functional for parallel hard (hyper)cubes in the simple (hyper)cubic lattice the corresponding functionals for the nearest-neighbor exclusion lattice gases in the square, triangular, simple cubic, face-centered-cubic, and body-centered-cubic lattices. As an application, the bulk phase diagram for all these systems is obtained.

Acetonides 1, easily obtained from simple terpenes, react with bispyridine iodonium (I) tetrafluoroborate (Ipy(2)BF(4)) and tetrafluoroboric acid in the presence of nucleophiles to give the corresponding adducts 2 with complete regio and diastereofacial control. Acetonides 1 containing a properly located phenyl or benzyloxy group easily undergo iodocyclization to furnish compounds 3 and 4.

We study the one-dimensional sine-Gordon model as a prototype of roughening phenomena. In spite of the fact that it has been recently proven that this model cannot have any phase transition [J. A. Cuesta and A. Sánchez, J. Phys. A 35, 2373 (2002)], Langevin as well as Monte Carlo simulations strongly suggest the existence of a finite temperature separating a flat from a rough phase. We explain this result by means of the transfer operator formalism and show as a consequence that sine-Gordon lattices of any practically achievable size will exhibit this apparent phase transition at unexpectedly large temperatures.

The phase diagram of a polydisperse mixture of uniaxial rodlike and platelike hard parallelepipeds is determined for aspect ratios kappa=5 and 15. All particles have equal volume, and polydispersity is introduced in a highly symmetric way. The corresponding binary mixture is known to have a biaxial phase for kappa=15, but to be unstable against demixing into two uniaxial nematics for kappa=5. The phase diagram for kappa=15 is qualitatively similar to that of the binary mixture, regardless of the amount of polydispersity, while for kappa=5 a sufficient amount of polydispersity stabilizes the biaxial phase. This provides clues for designing an experiment to observe this long searched biaxial phase.

The conjecture that when an additive hard-core mixture phase separates when one of the phases is spatially ordered, well supported by considerable evidence, is in contradiction with some simulations of a binary mixture of hard cubes on cubic lattices. By extending Rosenfeld's fundamental measure theory to lattice models we show that the phase behavior of this mixture is far more complex than simulations show, exhibiting regions of stability of several smectic, columnar, and solid phases, but no fluid-fluid demixing. A comparison with the simulations show that they are, in fact, compatible with a fluid-columnar demixing transition, thus bringing this model into the same demixing scheme as the rest of additive hard-core mixtures.

Ideal bosons and a classical system of monomers that aggregate forming noninteracting ring polymers are known to have the same partition function. So, the ring polymers have a phase transition, the analogue of Bose-Einstein condensation of bosons. At this phase transition macroscopic polymers are formed. The link between these systems is made via Feynman's path integrals: these integrals are the same for the trajectories of the bosons in imaginary time and for the configurations of the polymers. We show that a transition of this general form occurs within a whole class of aggregating systems. Examples are the lamellae formation in suspensions of disclike micelles or the emulsification failure observed in water-oil-surfactant emulsions. As with bosons, the transition occurs even when aggregates do not interact. The lambda-transition in 4He is believed to be Bose-Einstein condensation modified by interatomic interactions. We suggest that interaggregate interactions too only modify the transition we have found.

Grapsoid crabs are best known from the marine intertidal and supratidal. However, some species also inhabit shallow subtidal and freshwater habitats. In the tropics and subtropics, their distribution even includes mountain streams and tree tops. At present, the Grapsoidea consists of the families Grapsidae, Gecarcinidae, and Mictyridae, the first being subdivided into four subfamilies (Grapsinae, Plagusiinae, Sesarminae, and Varuninae). To help resolve phylogenetic relationships among these highly adaptive crabs, portions of the mitochondrial genome corresponding to the 16S rRNA gene were sequenced for all grapsoid genera occurring in America. The resulting phylogeny confirms most of the present grapsid subfamilies but suggests reclassification of some of the genera and recognition of new taxonomic units. The two American gecarcinid genera might not represent a sister group to the Grapsidae but rather appear to have evolved within the latter. Colonization of inland habitats evolved in several lineages of the grapsoids, resulting in various forms of nonmarine life and different degrees of independence from the sea., (Copyright 2000 Academic Press.)

The initial effects of the toxic waste spill in April 1998 at the Aznalcóllar mine (SW Spain) on the nektonic community of the Guadalquivir Estuary were examined at three sampling sites using univariate and multivariate techniques. Since studied communities showed a considerable seasonal trend, only seasonally homogenous periods were compared to analyse effects of the spill: May-August 1997 (before spill) and May-August 1998 (after spill). Results of both techniques (two-way nested ANOVA and ANOSIM tests, P > 0.05) indicated that there was no significant difference between the nektonic community of the estuary before and after the spill (monthly number of species, abundance, biomass and similarity among samples). Conversely, an unusually high density was observed at the outer sampling site immediately after the spill for species typical of more stagnant estuarine habitats. This feature seems to indicate that the fauna in the estuarine area through which the untreated water penetrated into the main course may have been disturbed. Results also suggest that this initial sudden input of fresh water to the estuary could have enhanced the effects of an increased river flow (a drop in the salinity). Nevertheless, longer temporal series of data, especially for permanent estuarine inhabitants, are recommended before conclusions can be drawn on the effects of the toxic waste spill on estuarine communities.

The development and systematic use of microserological techniques have allowed to identify the etiology of a higher number of respiratory diseases, that could hardly have been considered some years ago and that now are known to play a more common role in clinical practice than usually thought. In the present study, the clinical, radiological and epidemiological features of seven patients are reported; they were seen in our health center during a 16 month period and the diagnosis of Chlamydia psittaci pneumonia was made by serological studies. All patients were treated with erithromycin, with favorable clinical and radiological outcome. Psittacosis is a condition that should be considered as a cause of community acquired pneumonia even in the absence of suggestive epidemiological background.

104 patients with (UI) non-complicated urinary infection, diagnosed at the emergency department of a third level hospital, are presented. The median age (x +/- DE) was of 58.12 +/- 20, 48 years; 78 were female (73%) and 22 male. 81 had fever and/or micturitional syndrome, the rest of the patients were without symptoms. The most frequent germ was escherichia coli, which was isolated in 80 patients (84.6%) followed by proteus mirabilis in 9 patients (8.6%) and enterococo in 2 patients (1.9%), other differing germs were also isolated, one for each remaining case. The only active antibiotic "in vitro" for all the germs isolated was gentamicin; other showed varying resistance. The best effectivity "in vivo" was also obtained with gentamicin followed by cotrimoxazole, despite the resistance which was superior to cefalexin. There were no deaths reported during the ambulatory treatment. We concluded that non-complicated UI can be treated in an ambulatory regimen. The most effective antibiotic is gentamicin, cotrimoxazole being a valid alternative.