On an interacting particle system modeling an epidemic

We consider an interacting particle system onZ ^dto model an epidemic. Each site ofZ ^dcan be in either one of three states: empty, healthy or infected. Healthy and infected individuals give birth at different rates to healthy individuals on empty sites. Healthy individuals get infected by infected individuals. Infected and healthy individuals die at different rates. We prove that in dimension 1 and with nearest-neighbor interactions the epidemic may persist forever if and only if the rate at which infected individuals give birth to healthy individuals is high enough. This is in sharp contrast with models analysed by Andjel and Schinazi (1994) and Sato et al. (1994) where infected individuals do not give birth. We also show that some results in the latter reference can be obtained easily and rigorously using probabilistic coupling to the contact process.     

Apparent facilitation of an invasive mealybug by an invasive ant

Summary In the southeast United States, the invasive ant Solenopsis invicta is known to derive important carbohydrate (honeydew) resources from mealybugs utilizing grasses. Most important appears to be an invasive mealybug, Antonina graminis. We studied whether this mealybug and a similar native species also benefit from association with S. invicta. We found that mealybug occurrence increases significantly with increasing proximity to S. invicta mounds, suggesting that mealybugs benefit as well. Mutual benefits derived by S. invicta and A. graminis are consistent with a hypothesis proposing that associations among invasive species can be important in their success at introduced locations.     

Carbon as an indicator of Daphnia condition in an alpine lake

Carbon–length relationships can be used to indicate the condition of daphnids in natural situations. We examined the Daphnia galeata population of an alpine lake (Oberer, Arosasee, Switzerland), where most individuals display diel vertical migration behaviour (DVM). Normally, migrating daphnids face a trade-off between `predator safe areas' in the hypolimnion and `food rich areas' with high predation risk. However, in alpine lakes, with chlorophyll a and POC maxima typically in deeper layers and weak temperature gradients, migrating species are confronted less with this trade-off. We investigated the seasonal changes in carbon content of D. galeata in different depth strata in relation to environmental parameters of the lake. The carbon content of D. galeata was high in spring, but declined considerably in summer and increased slightly in autumn. The low values indicate that D. galeata are food limited for much of the year. The slopes of the regression lines between carbon content and body length varied seasonally, but were not significantly different among depths on a given date. In summer, D. galeata individuals residing in the deep layers during the day had a significantly higher carbon content than individuals in the surface layers. During the rest of the year, the carbon content of individuals was similar among all depth strata. We conclude that migrating D. galeata and individuals remaining in deep layer had better body conditions compared to non-migrating D. galeata in this alpine lake during summer, when migration amplitudes were highest.     

Plastic bet-hedging in an amphicarpic annual: an integrated strategy under variable conditions

Amphicarpy is a form of diversified bet-hedging expressed mostly in annual plants, where two types of offspring are produced with two distinct ecological roles: long-range aerial dispersers and highly competitive subterranean, sedentary fruit. Emex spinosa is a semi-arid, amphicarpic annual, inhabiting habitats with different levels of environmental variation. We tested the hypothesis that, in E. spinosa, bet-hedging may be “fine-tuned” by plasticity in the phenotype ratio (aerial/subterranean fruit mass) as a function of environmental conditions. We conducted a greenhouse experiment, manipulating nutrient availability and intraspecific density, to determine the pattern of ratio shifts. In order to determine whether the integrated strategy is an adaptation to variable habitats, a similar common garden experiment was conducted, comparing two natural populations differing in environmental variability. The offspring ratio shifted in response to both nutrient availability and plant density. In pots containing single plants the ratio increased steeply with nutrient availability, while in pots containing eight plants a more moderate increase occurred. These shifts were the result of plasticity in allocation to both achene types, as well as ontogenetic effects on aerial achene production. The degree of response increased with the heterogeneity of the habitat of origin. We found evidence for an adaptive integrated strategy, with bet-hedging “fine-tuned” by phenotypic plasticity. Strenuous conditions tended to shift the offspring ratio towards securing subterranean reproductive success, while favorable conditions resulted in a shift towards dispersible achenes. The authors Asaf Sadeh and Hagai Guterman contributed equally to this study.     

Nash equilibria for an evolutionary language game

We study an evolutionary language game that describes how signals become associated with meaning. In our context, a language, L, is described by two matrices: the P matrix contains the probabilities that for a speaker certain objects are associated with certain signals, while the Q matrix contains the probabilities that for a listener certain signals are associated with certain objects. We define the payoff in our evolutionary language game as the total amount of information exchanged between two individuals. We give a formal classification of all languages, L(P, Q), describing the conditions for Nash equilibria and evolutionarily stable strategies (ESS). We describe an algorithm for generating all languages that are Nash equilibria. Finally, we show that starting from any random language, there exists an evolutionary trajectory using selection and neutral drift that ends up with a strategy that is a strict Nash equilibrium (or very close to a strict Nash equilibrium). Received: 1 March 2000 / Published online: 3 August 2000     

Analysis of an excitable dendritic spine with an activity-dependent stem conductance

 Dendritic spines are the major target for excitatory synaptic inputs in the vertebrate brain. They are tiny evaginations of the dendritic surface consisting of a bulbous head and a tenuous stem. Spines are considered to be an important locus for plastic changes underlying memory and learning processes. The findings that synaptic morphology may be activity-dependent and that spine head membrane may be endowed with voltage-dependent (excitable) channels is the motivation for this study. We first explore the dynamics, when an excitable, yet morphologically fixed spine receives a constant current input. Two parameter Andronov–Hopf bifurcation diagrams are constructed showing stability boundaries between oscillations and steady-states. We show how these boundaries can change as a function of both the spine stem conductance and the conductance load of the attached dendrite. Building on this reference case an idealized model for an activity-dependent spine is formulated and analyzed. Specifically we examine the possibility that the spine stem resistance, the tunable “synaptic weight” parameter identified by Rall and Rinzel, is activity-dependent. In the model the spine stem conductance depends (slowly) on the local electrical interactions between the spine head and the dendritic cable; parameter regimes are found for bursting, steady states, continuous spiking, and more complex oscillatory behavior. We find that conductance load of the dendrite strongly influences the burst pattern as well as other dynamics. When the spine head membrane potential exhibits relaxation oscillations a simple model is formulated that captures the dynamical features of the full model. Received: 10 January 1997/Revised version: 25 March 1997     

Segmentally iterated expression of an engrailed-class gene in the embryo of an australian onychophoran

 We have identified an engrailed-class (en-class) gene and determined the distribution pattern of its protein during embryogenesis in a member of the Onychophora. The results of this work add to our understanding of the evolution of development and in addition, they contribute information toward clarifying the phylogenetic position of this group. We observe transient expression in a portion of each developing segment. By the time limbs have formed, segmental expression of en-class protein is restricted to the mesoderm. This pattern shares important spatio-temporal characteristics with those of Annelida and Arthropoda, both of which have members that express en-class genes segmentally in mesoderm and ectoderm. Received: 30 January 1997 / Accepted: 17 July 1997     

Multiple imputation in the presence of an incomplete binary variable created from an underlying continuous variable

Multiple imputation (MI) is used to handle missing at random (MAR) data. Despite warnings from statisticians, continuous variables are often recoded into binary variables. With MI it is important that the imputation and analysis models are compatible; variables should be imputed in the same form they appear in the analysis model. With an encoded binary variable more accurate imputations may be obtained by imputing the underlying continuous variable. We conducted a simulation study to explore how best to impute a binary variable that was created from an underlying continuous variable. We generated a completely observed continuous outcome associated with an incomplete binary covariate that is a categorized version of an underlying continuous covariate, and an auxiliary variable associated with the underlying continuous covariate. We simulated data with several sample sizes, and set 25% and 50% of data in the covariate to MAR dependent on the outcome and the auxiliary variable. We compared the performance of five different imputation methods: (a) Imputation of the binary variable using logistic regression; (b) imputation of the continuous variable using linear regression, then categorizing into the binary variable; (c, d) imputation of both the continuous and binary variables using fully conditional specification (FCS) and multivariate normal imputation; (e) substantive-model compatible (SMC) FCS. Bias and standard errors were large when the continuous variable only was imputed. The other methods performed adequately. Imputation of both the binary and continuous variables using FCS often encountered mathematical difficulties. We recommend the SMC-FCS method as it performed best in our simulation studies.     

Fatal attack on an infant by an adult female tonkean macaque

We describe a fatal attack on a 10-month-old female infant by an adult female Tonkean macaque (Macaca tonkeana)in a semi-free-ranging group. During an intense conflict involving many group members, an adult female, the second most dominant in the group, attacked the infant of a lower-ranking female. The attacker remained near the victim for approximately 20 min, grabbing and biting it repeatedly, until the mother retrieved the infant. She died 2 days later. An autopsy revealed no lethal injury;the main cause of death was starvation or dehydration or both. We discuss social conditions under which a fatal attack by an adult female might occur.     

Is Diurodrilus an annelid?

Interstitial marine meiofaunal worms of the genus Diurodrilus have always been considered part of Annelida, either as basal or derived, though generally with reference to Dinophilidae. New evidence shows that Diurodrilus has a unique anatomy, and lacks key annelid features, possibly even segmentation. We assessed the systematic position of Diurodrilus among other protostome animals via light microscopy, confocal laser scanning microscopy, and transmission electron microscopy studies of anatomy, focusing on musculature, the nervous system, as well as molecular sequence data. We show that there is little morphological or molecular evidence to support a relationship with Dinophilidae or any other annelids. Diurodrilus has some similarities to Micrognathozoa, though the latter shows complex jaws. On the basis of the configuration of the nervous system and the cuticle we regard Diurodrilus to belong to Spiralia, possibly close to Annelida; however, until further evidence is acquired it should be regarded as incertae sedis in this large animal clade. J. Morphol., 2008. © 2008 Wiley‐Liss, Inc.     

Growth-induced buckling of an epithelial layer

We use a proof-of-concept experiment and two mathematical models to explore growth-induced tissue buckling, as may occur in colorectal crypt formation. Our experiment reveals how growth of a cultured epithelial monolayer on a thin flexible substrate can cause out-of-plane substrate deflections. We describe this system theoretically using a ‘bilayer’ model in which a growing cell layer adheres to a thin compressible elastic beam. We compare this with the ‘supported-monolayer’ model due to Edwards and Chapman (Bull Math Biol 69:1927–1942, 2007) for an incompressible expanding beam (representing crypt epithelium), which incorporates viscoelastic tethering to underlying stroma. We show that the bilayer model can exhibit buckling via parametric growth (in which the system passes through a sequence of equilibrium states, parameterised by the total beam length); in this case, non-uniformities in cell growth and variations in cell–substrate adhesion are predicted to have minimal effect on the shape of resulting buckled states. The supported-monolayer model reveals how competition between lateral supports and stromal adhesion influences the wavelength of buckled states (in parametric growth), and how non-equilibrium relaxation of tethering forces influences post-buckled shapes. This model also predicts that non-uniformities in growth patterns have a much weaker influence on buckled shapes than non-uniformities in material properties. Together, the experiment and models support the concept of patterning by growth-induced buckling and suggest that targeted softening of a growing cell layer provides greater control in shaping tissues than non-uniform growth.     

Density-dependent intraguild predation of an aphid parasitoid

A growing body of research has examined the effect of shared resource density on intraguild predation (IGP) over relatively short time frames. Most of this work has led to the conclusion that when the shared resource density is high, the strength of IGP should be lower, due to prey dilution. However, experiments addressing this topic have been done using micro- or mesocosms that excluded the possibility of intraguild predator aggregation. We examined the effect of shared resource density on IGP of an aphid parasitoid in an open field setting where the effects of prey dilution and predator aggregation could occur simultaneously. We brought potted soybean plants with 2, 20, or 200 soybean aphids (Aphis glycines) and 20 pupae (‘mummies’) of the soybean aphid parasitoid Binodoxys communis into soybean fields in Minnesota, USA. We monitored predator aggregation onto the potted plants, predation of parasitoid mummies, and successful adult emergence of B. communis. We found that predator aggregation was higher at the higher aphid densities on our experimental plants and that this coincided with lower adult emergence of B. communis, indicating that even if a prey dilution effect occurred in our study, it was overcome by short-term predator aggregation. Our results suggest that the effect of shared resource density on IGP may be more nuanced in a field setting than in microcosms due to predator aggregation.     

Excitability of an age-structured plankton ecosystem

 We adapt a simple two-component model of a plankton ecosystem to account for the life spans of individual predatory organisms. We investigate the system’s short-term dynamics, in particular its excitability, and its long-term dynamics, and show how both can be highly sensitive to initial conditions. We discover that this effect is enhanced by imposing age structure on the system. Received: 21 June 1996 / Revised version: 19 October 1998     

Diffusion driven instability in an inhomogeneous domain

Diffusion driven instability in reaction-diffusion systems has been proposed as a mechanism for pattern formation in numerous embryological and ecological contexts. However, the possible effects of environmental inhomogeneities has received relatively little attention. We consider a general two species reaction-diffusion model in one space dimension, with one diffusion coefficient a step function of the spatial coordinate. We derive the dispersion relation and the solution of the linearized system. We apply our results to Turing-type models for both embryogenesis and predator-prey interactions. In the former case we derive conditions for pattern to be isolated in one part of the domain, and in the latter we introduce the concept of “environmental instability”. Our results suggest that environmental inhomogeneity could be an important regulator of biological pattern formation.     

Conservation genetics of an endemic mountaintop salamander with an extremely limited range

Montane regions can promote allopatric speciation and harbor unique species with small ranges. The southern Appalachians are a biodiversity hotspot for salamanders, and several montane endemics occur in the region. Here, we present the first DNA sequence data for Plethodon sherando, a terrestrial salamander recently discovered in the Blue Ridge Mountains of Virginia. We sequenced two mitochondrial regions (cyt-b and CO1) from salamanders at reference sites near the center of P. sherando’s range and from two contact zones where P. sherando populations are replaced by Plethodon cinereus, the Northern Red-Backed salamander. We then used these sequence data to examine divergence and hybridization between the two taxa. We found P. sherando and P. cinereus morphotypes from contact zones to be reciprocally monophyletic and highly divergent (~17%). P. sherando exhibited very low sequence diversity (π = 0.0010) as compared to P. cinereus from the same locations (π = 0.0096). Salamander morphology in the contact zone was as distinct as morphology at reference sites, and discriminant function analysis based on morphology successfully classified 98% of salamanders to their mitochondrial lineage. Phylogenetic analysis of cyt-b sequences showed P. sherando to be sister to Plethodon serratus (the Southern Red-Backed salamander) rather than P. cinereus or any nearby mountaintop endemics. Our results suggest that P. sherando is a distinct lineage that is not subject to substantial introgression from P. cinereus and that may have a history of geographic isolation. Given its limited range (<80 km²), we believe P. sherando should merit a conservation status similar to that of other mountaintop salamanders in the region.     

Predicting Odor Pleasantness with an Electronic Nose

A primary goal for artificial nose (eNose) technology is to report perceptual qualities of novel odors. Currently, however, eNoses primarily detect and discriminate between odorants they previously “learned”. We tuned an eNose to human odor pleasantness estimates. We then used the eNose to predict the pleasantness of novel odorants, and tested these predictions in naïve subjects who had not participated in the tuning procedure. We found that our apparatus generated odorant pleasantness ratings with above 80% similarity to average human ratings, and with above 90% accuracy at discriminating between categorically pleasant or unpleasant odorants. Similar results were obtained in two cultures, native Israeli and native Ethiopian, without retuning of the apparatus. These findings suggest that unlike in vision and audition, in olfaction there is a systematic predictable link between stimulus structure and stimulus pleasantness. This goes in contrast to the popular notion that odorant pleasantness is completely subjective, and may provide a new method for odor screening and environmental monitoring, as well as a critical building block for digital transmission of smell.     

Differential response to frequency-dependent interactions: an experimental test using genotypes of an invasive grass

Positive feedbacks have been suggested as a means for non-indigenous species to successfully invade novel environments. Frequency-dependent feedbacks refer to a species performance being dependent on its local abundance in the population; however, frequency dependence is often described as a monolithic trait of a species rather than examining the variation in response for individual genotypes and fitness traits. Here, we investigate frequency-dependent outcomes for individual genotypes and fitness-related traits for the invasive grass Phalaris arundinacea. We tested for competition-mediated frequency dependence by establishing hexagonal arrays with the center target plant surrounded by either same, different or no genotype neighbors to determine how changing the small-scale frequency neighborhood-influenced invasion success. We used a Bayesian ANOVA approach which allowed us to easily accommodate our non-normal dataset and found that same neighbor plots had greater biomass production than different neighbor plots. Target plants also had greater stem height and aboveground biomass when surrounded by same genotype neighbors. A greenhouse experiment did not support the hypothesis that increased mycorrhizal associations were the cause of positive frequency dependence. We devised a frequency-dependent metric to quantify the extent of fitness-related differences for individual genotypes and found that individual genotypes showed a range of both positive and negative responses to different frequency treatments; however, only positive responses were statistically significant. The small-scale genotypic neighborhood had no effect for the fitness-related traits of leaf number, belowground biomass and total biomass. We demonstrate that individual invasive genotypes respond differently to changing frequency neighborhoods and that growth responses do not respond with the same direction and magnitude. A range of frequency-dependent responses may allow genotypes to invade a wide range of environments.     

Metabolic rates of a hypogean and an epigean species of copepod in an alluvial aquifer

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The influence of an invasive plant on denitrification in an urban wetland

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