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Simulation models that describe autonomous individual organisms (individual based models, IBM) or agents (agent-based models, ABM) have become a widely used tool, not only in ecology, but also in many other disciplines dealing with complex systems made up of autonomous entities. However, there is no standard protocol for describing such simulation models, which can make them difficult to understand and to duplicate. This paper presents a proposed standard protocol, ODD, for describing IBMs and ABMs, developed and tested by 28 modellers who cover a wide range of fields within ecology. This protocol consists of three blocks (Overview, Design concepts, and Details), which are subdivided into seven elements: Purpose, State variables and scales, Process overview and scheduling, Design concepts, Initialization, Input, and Submodels. We explain which aspects of a model should be described in each element, and we present an example to illustrate the protocol in use. In addition, 19 examples are available in an Online Appendix. We consider ODD as a first step for establishing a more detailed common format of the description of IBMs and ABMs. Once initiated, the protocol will hopefully evolve as it becomes used by a sufficiently large proportion of modellers. (c) 2006 Elsevier B.V. All rights reserved.
In this study we present iterative regularization methods using rational approximations, in particular, Pade approximants, which work well for ill-posed problems. We prove that the (k,j)-Pade method is a convergent and order optimal iterative regularization method in using the discrepancy principle of Morozov. Furthermore, we present a hybrid Pade method, compare it with other well-known methods and found that it is faster than the Landweber method. It is worth mentioning that this study is a completion of the paper [A. Kirsche, C. Bockmann, Rational approximations for ill-conditioned equation systems, Appl. Math. Comput. 171 (2005) 385-397] where this method was treated to solve ill-conditioned equation systems. (c) 2006 Elsevier Inc. All rights reserved.
Three methods for the determination of the surface tension of liquids based on force measurements namely, the vertical plate method of Wilhelmy, the frame method of Lenard and the ring method of du Nouy are compared and studied in respect of a common principle of correction. It is shown that these three most important force-based methods allow the determination of the surface tension under static conditions. The force components of the corresponding liquid column below the measuring wire obtained for the straight part of the withdrawal curve up to the transition in its curved part provides exact surface tension values. The experimentally accessible value of the force component describes the physical background of the measured value correction contrary to the approximate equations obtained by mathematical way. Usually the determination of surface tension of liquids is based merely at the vertical plate method on exact equations thermodynamically derived whereas in the case of the frame and ring methods correction factors in approximate equations are used. At usual application of the force-based methods under the non-static condition of the withdrawal of a liquid column, the force maximum measured at withdrawal of the measuring object (plate, frame, or ring) is the basis for the determination of surface tension. In these cases, the measured surface tension values are compensated by correction equations for the frame and ring methods which are based on an correction factor and correction tables empirically obtained. The surface tension values obtained in this usual way agree with those obtained by using the force component of the corresponding liquid column below the measuring wire for the straight part of the withdrawal curve up to the transition in its curved part. Problems arising at the force measurements with increasing thickness of the measuring wires inside and outside the rings are discussed.
A 741-cm-long laminated sediment core, covering the last 10,800 years was collected from Lake Zigetang, central Tibetan Plateau (90.9 degrees E, 32.0 degrees N, 4560m a.s.l.), and analysed palynologically at 69 horizons. Biome reconstruction suggests a dominance of temperate steppe vegetation (mainly Artemisia and Poaceae) on the central Tibetan Plateau during the first half of the Holocene (10.8-4.4 cal. ka BP), while alpine steppes with desert elements (mainly Cyperaceae, Poaceae, Chenopodiaceae, and characteristic high-alpine herb families) tend to dominate the second half (4.4-0 cal. ka BP). The Artemisia/Cyperaceae ratio-a semi-quantitative measure for summer temperature-indicates a general cooling trend throughout the Holocene. Dense temperate steppe vegetation and maximum desert plant withdrawal, however, indicate that a suitable balance of wet and warm conditions for optimum vegetation growth likely occurred during the middle Holocene (7.3-4.4 cal. ka BP). Severe Early Holocene cold events have been reconstructed for 8.7-8.3 and similar to 7.4 cal. ka BP. (c) 2006 Elsevier Ltd and INQUA. All rights reserved.
A time-staggered semi-Lagrangian discretization of the rotating shallow-water equations is proposed and analysed. Application of regularization to the geopotential field used in the momentum equations leads to an unconditionally stable scheme. The analysis, together with a fully nonlinear example application, suggests that this approach is a promising, efficient, and accurate alternative to traditional schemes.
Between reasoning
(2006)
In two experiments we investigated three-term reasoning with spatial relational assertions using the preposition between as compared to projective prepositions (such as to the left of). For each kind of assertion we distinguish the referent expression (i.e., the grammatical subject) from the relatum expression (i.e., the internal argument of the preposition; e.g., [The hedgehog](referent)_(expression) is to the left of [the frog](relatum)_(expression); [the snake](referent)_(expression) is between [the donkey and the deer](relatum)_(expression)). Previous research has shown that integrating premises with projective prepositions is easier (a) when the relatum expression of the second premise denotes an element already given by the first premise (relatum = given), and (b) when the term denoting a given element precedes the term denoting a new element (given - new). Experiment 1 extended this finding to second premises with the preposition between. In Experiment 2, between figured in the first premise. In this case, participants built an initial preferred model already from the first premise, although such a premise is indeterminate with respect to the array that it describes. Since there is no need left for integrating the second premise, this premise is instead used to verify the initial model and to modify it when necessary. A further investigation of conclusion evaluation times showed that conclusions were evaluated faster when they first mentioned the element that was included most recently into the mental model of the premises. The use of premises with between permitted the separation of recency of model inclusion from recency of appearance of an element in a premise.
Introduction to special issue: Dynamics of seismicity patterns and earthquake triggering - Preface
(2006)
The velocity distribution function of granular gases in the homogeneous cooling state as well as some heated granular gases decays for large velocities as f proportional to exp(-const x nu). That is, its high-energy tail is overpopulated as compared with the Maxwell distribution. At the present time, there is no theory to describe the influence of the tail on the kinetic characteristics of granular gases. We develop an approach to quantify the overpopulated tail and analyze its impact on granular gas properties, in particular on the cooling coefficient. We observe and explain anomalously slow relaxation of the velocity distribution function to its steady state.
Fractional crystallization of peraluminous F- and H(2)O-rich granite magmas progressively enriches the remaining melt with volatiles. We show that, at saturation, the melt may separate into two immiscible conjugate melt fractions, one of the fractions shows increasing peraluminosity and the other increasing peralkalinity. These melt fractions also fractionate the incompatible elements to significantly different degrees. Coexisting melt fractions have differing chemical and physical properties and, due to their high density and viscosity contrasts, they will tend to separate readily from each other. Once separated, each melt fraction evolves independently in response to changing T/P/X conditions and further immiscibility events may occur, each generating its own conjugate pair of melt fractions. The strongly peralkaline melt fractions in particular are very reactive and commonly react until equilibrium is attained. Consequently, the peralkaline melt fraction is commonly preserved only in the isolated melt and mineral inclusions. We demonstrate that the differences between melt fractions that can be seen most clearly in differing melt inclusion compositions are also visible in the composition of the resulting ore-forming and accessory minerals, and are visible on scales from a few micrometers to hundreds of meters.
Questions of identity and provenance of minerals that are parts of masterpieces in museums have become increasingly important in mineralogical and historical studies. Detailed investigations of valuable and unique objects require on-site, nondestructive and noninvasive methods because touching or removing them may cause irreparable damage. A mobile Raman-microprobe has been used to meet these demands for truly in situ mineralogical studies of the large collection of minerals and rocks of the Prussian kings in the Grotto Hall (Grottensaal) of the New Palace (Neues Palais), Park Sanssouci in Potsdam. Minerals on the walls of the Grotto Hall were analyzed to identify them and thereby to complete the data bank of the collection. Fluid and solid inclusions in the interior of a large quartz crystal have been studied to provide evidence of the provenance of the crystal. The fluid inclusions contain aqueous saline solutions, whereas the solid inclusions are needles of anhydrite with a length of about 1.5 mm. The quartz probably originated from an area in the eastern Alps, from the surroundings of Bad Gastein, Austria. This is the first on-site and in situ study of inclusions below the surface of a mineral with a mobile Raman-microprobe outside a laboratory.
This paper discusses translocation features of the 20S proteasome in order to explain typical proteasome length distributions. We assume that the protein transport depends significantly on the fragment length with some optimal length which is transported most efficiently. By means of a simple one-channel model, we show that this hypothesis can explain both the one- and the three-peak length distributions found in experiments. A possible mechanism of such translocation is provided by so-called fluctuation-driven transport.
A cysteine mutant of a monomeric human Cu, Zn-SOD (Glycine 61, Serine 142) has been immobilized directly on gold electrodes using the thiol groups introduced. The electrochemical behavior of the surface confined protein was studied in mixtures of aqueous buffer and DMSO up to an organic solvent content of 60%. The formal potential was found to be rather independent of the DMSO content. However, half peak width increased and the redoxactive amount clearly decreased with raising DMSO content. In addition, the kinetics of the heterogeneous electron transfer became slower; but still a quasireversible electrochemical conversion of the mutant SOD was feasible. Thus, the electrodes were applied for sensorial superoxide detection. At a potential of +220 mV vs. Ag/AgCl advantage was taken of the partial oxidation reaction of the enzyme. A defined superoxide signal was obtained in solutions up to 40% DMSO. The sensitivity of the mutant electrodes decreased linearly with the organic solvent content in solution but was still higher compared to conventional cyt.c based sensors. At DMSO concentrations higher than 40% no sensor response was detected.
Archival X-ray spectra of the four prominent single, non-magnetic O stars zeta Pup, zeta Ori, xi Per and zeta Oph, obtained in high resolution with Chandra HETGS/MEG have been studied. The resolved X-ray emission line profiles provide information about the shocked, hot gas which emits the X-radiation, and about the bulk of comparably cool stellar wind material which partly absorbs this radiation. In this paper, we synthesize X-ray line profiles with a model of a clumpy stellar wind. We find that the geometrical shape of the wind inhomogeneities is important: better agreement with the observations can be achieved with radially compressed clumps than with spherical clumps. The parameters of the model, i.e. chemical abundances, stellar radius, mass-loss rate and terminal wind velocity, are taken from existing analyses of UV and optical spectra of the programme stars. On this basis, we also calculate the continuum-absorption coefficient of the cool-wind material, using the Potsdam Wolf-Rayet (POWR) model atmosphere code. The radial location of X-ray emitting gas is restricted from analysing the FIR line ratios of helium-like ions. The only remaining free parameter of our model is the typical distance between the clumps; here, we assume that at any point in the wind there is one clump passing by per one dynamical time-scale of the wind. The total emission in a model line is scaled to the observation. There is a good agreement between synthetic and observed line profiles. We conclude that the X-ray emission line profiles in O stars can be explained by hot plasma embedded in a cool wind which is highly clumped in the form of radially compressed shell fragments.
Cave animals are widely recognised as model organisms to study regressive evolutionary processes like the reduction of eyes. In this paper, we report on the regressive evolution of species discrimination in the cave molly, Poecilia mexicana, which, unlike other cave fishes, still has functional eyes. This allowed us to examine the response to both visual and non-visual cues involved in species discrimination. When surface-dwelling females were given a chance to associate with either a conspecific or a swordtail (Xiphophorus hellerii) female, they strongly preferred the conspecific female both when multiple cues and when solely visual cues were available to the female. No association preference was observed when only non-visual cues were provided. In contrast, cave-dwelling females showed no preference under all testing conditions, suggesting that species recognition mechanisms have been reduced. We discuss the role of species discrimination in relation to habitat differences.
Context. Very massive stars pass through the Wolf-Rayet (WR) stage before they finally explode. Details of their evolution have not yet been safely established, and their physics are not well understood. Their spectral analysis requires adequate model atmospheres, which have been developed step by step during the past decades and account in their recent version for line blanketing by the millions of lines from iron and iron-group elements. However, only very few WN stars have been re-analyzed by means of line-blanketed models yet. Aims. The quantitative spectral analysis of a large sample of Galactic WN stars with the most advanced generation of model atmospheres should provide an empirical basis for various studies about the origin, evolution, and physics of the Wolf-Rayet stars and their powerful winds. Methods. We analyze a large sample of Galactic WN stars by means of the Potsdam Wolf-Rayet (PoWR) model atmospheres, which account for iron line blanketing and clumping. The results are compared with a synthetic population, generated from the Geneva tracks for massive star evolution. Results. We obtain a homogeneous set of stellar and atmospheric parameters for the GalacticWN stars, partly revising earlier results. Conclusions. Comparing the results of our spectral analyses of the Galactic WN stars with the predictions of the Geneva evolutionary calculations, we conclude that there is rough qualitative agreement. However, the quantitative discrepancies are still severe, and there is no preference for the tracks that account for the effects of rotation. It seems that the evolution of massive stars is still not satisfactorily understood.
Great apes are the closest living relatives of humans. Physiological similarities between great apes and humans provide clues to identify which biological features in humans are primitive or derived from great apes. Vitamin A (VA) and carotenoid metabolism have been only partially studied in great apes, and comparisons between great apes and humans are not available. We aimed to investigate VA and carotenoid intake and plasma concentrations in great apes living in captivity, and to compare them to healthy humans. Dietary intakes of humans (n = 20) and, among the great apes, chimpanzees (n = 15) and orangutans (n = 5) were calculated. Plasma retinol (ROH), retinol-binding protein (RBP), retinyl esters, and major carotenoids were analyzed. The great ape diet was higher in VA than in humans, due to high intake of provitamin A carotenoids. Plasma ROH concentrations in great apes were similar to those in humans, but retinyl esters were higher in great apes than in humans. Differences in plasma carotenoid concentrations were observed between great apes and humans. Lutein was the main carotenoid in great apes, while P-carotene was the main carotenoid for humans. RBP concentrations did not differ between great apes and humans. The molar ratio of ROH to RBP was close to 1.0 in both great apes and humans. In conclusion, great apes show homeostatic ROH regulation, with high but physiological retinyl esters circulating in plasma. Furthermore, great apes show great selectivity in their plasmatic carotenoid concentration, which is not explained by dietary intake.
Lago Laja is a late Quaternary volcanic‐dammed lake located near the drainage divide of the south central Andes. Field observations, lake reflection seismic profiles, bathymetry, and remote sensing data reveal an active fault system that runs parallel to the volcanic arc along the axis of the Main Cordillera, the Lago Laja fault system (LLFS). Normal faults of this extensional system cut late Pleistocene volcanics, <7.1 ka still water lacustrine sediments, 6.3 ka pyroclastic deposits, and Holocene alluvial fans. We divide the LLFS in three segments on the basis of fault geometry, width, and slip magnitude. The underwater faults of the central segment in the lake's deepest part have the maximum Holocene vertical slip rate of >2.7 mm/yr. Since 7.1 ka, the LLFS accounts for ∼0.7% of arc‐normal extension at an average minimum rate of 1.2 mm/yr and strain rate of ∼10−14 s−1. Seismites and surface ruptures evidence M>6 paleoearthquakes. The Main Cordillera at ∼37°S is a large‐scale pop‐up structure uplifted by thrusting along its foothills. In this light, we interpret extension in the axial and highest part of the Andes as incipient synorogenic gravitational collapse in response to uplift and crustal thickening. Thermal weakening due to elevated heat flow and postglacial lithospheric rebound and unbending have probably contributed to the arc‐limited collapse and Holocene acceleration of deformation rates. The lack of significant strike‐slip offsets along the LLFS as well as along both foothills‐thrust systems at 37°S contrasts with the intra‐arc dextral fault zone south of 38°S. Regional structural data indicates that north of 38°S, diffusely distributed strain reflects low partitioning of oblique subduction, while to the south deformation is localized in a discrete strike‐slip fault zone along the volcanic arc, reflecting a higher degree of partitioning. We relate this strain partitioning gradient to favorable fault orientations in the fore arc north of the Arauco Peninsula, a major seismotectonic boundary.
The influence of branched poly(ethyleneimine) on the phase behavior of the system sodium dodecylsulfate/toluene-pentanol (1:1)/water has been studied. The isotropic microemulsions still exist when water is replaced with aqueous solutions of PEI (up to 30% in weight), but their stability is significantly influenced. From a polymer concentration of 20 wt%, the polymer enhances the solubilization of water in oil, changes the sign of the spontaneous curvature of the surfactant film, and induces an inversion of the microemulsion type from water-in-oil (L-2) to oil-in-water (L-1), by the formation of a bicontinuous channel. Further investigations show that the addition of polymer in the L-2 phase changes the droplet-droplet interactions as the conductivity drops and the percolation disappears. In the bicontinuous channel, higher viscosities can be detected, as well as a weak percolation followed by a steep increase of the conductivity, which can be related to evident structural changes in the system. DSC measurements allow then to follow the changes of the water properties in the system, from interfacial-water in the L-2 phase to free-water in the sponge-like phase. Finally, all the measurements performed permit to characterize the structural transitions in the system and to understand the role of the added polymer.