163 research outputs found
Dynamics of Large-Scale Plastic Deformation and the Necking Instability in Amorphous Solids
We use the shear transformation zone (STZ) theory of dynamic plasticity to
study the necking instability in a two-dimensional strip of amorphous solid.
Our Eulerian description of large-scale deformation allows us to follow the
instability far into the nonlinear regime. We find a strong rate dependence;
the higher the applied strain rate, the further the strip extends before the
onset of instability. The material hardens outside the necking region, but the
description of plastic flow within the neck is distinctly different from that
of conventional time-independent theories of plasticity.Comment: 4 pages, 3 figures (eps), revtex4, added references, changed and
added content, resubmitted to PR
Atomistic modeling of amorphous silicon carbide: An approximate first-principles study in constrained solution space
Localized basis ab initio molecular dynamics simulation within the density
functional framework has been used to generate realistic configurations of
amorphous silicon carbide (a-SiC). Our approach consists of constructing a set
of smart initial configurations that conform essential geometrical and
structural aspects of the materials obtained from experimental data, which is
subsequently driven via first-principles force-field to obtain the best
solution in a reduced solution space. A combination of a priori information
(primarily structural and topological) along with the ab-initio optimization of
the total energy makes it possible to model large system size (1000 atoms)
without compromising the quantum mechanical accuracy of the force-field to
describe the complex bonding chemistry of Si and C. The structural, electronic
and the vibrational properties of the models have been studied and compared to
existing theoretical models and available data from experiments. We demonstrate
that the approach is capable of producing large, realistic configurations of
a-SiC from first-principles simulation that display excellent structural and
electronic properties of a-SiC. Our study reveals the presence of predominant
short-range order in the material originating from heteronuclear Si-C bonds
with coordination defect concentration as small as 5% and the chemical disorder
parameter of about 8%.Comment: 16 pages, 7 figure
Larval dispersal in a changing ocean with an emphasis on upwelling regions
Dispersal of benthic species in the sea is mediated primarily through small, vulnerable larvae that must survive minutes to months as members of the plankton community while being transported by strong, dynamic currents. As climate change alters ocean conditions, the dispersal of these larvae will be affected, with pervasive ecological and evolutionary consequences. We review the impacts of oceanic changes on larval transport, physiology, and behavior. We then discuss the implications for population connectivity and recruitment and evaluate life history strategies that will affect susceptibility to the effects of climate change on their dispersal patterns, with implications for understanding selective regimes in a future ocean. We find that physical oceanographic changes will impact dispersal by transporting larvae in different directions or inhibiting their movements while changing environmental factors, such as temperature, pH, salinity, oxygen, ultraviolet radiation, and turbidity, will affect the survival of larvae and alter their behavior. Reduced dispersal distance may make local adaptation more likely in well-connected populations with high genetic variation while reduced dispersal success will lower recruitment with implications for fishery stocks. Increased dispersal may spur adaptation by increasing genetic diversity among previously disconnected populations as well as increasing the likelihood of range expansions. We hypothesize that species with planktotrophic (feeding), calcifying, or weakly swimming larvae with specialized adult habitats will be most affected by climate change. We also propose that the adaptive value of retentive larval behaviors may decrease where transport trajectories follow changing climate envelopes and increase where transport trajectories drive larvae toward increasingly unsuitable conditions. Our holistic framework, combined with knowledge of regional ocean conditions and larval traits, can be used to produce powerful predictions of expected impacts on larval dispersal as well as the consequences for connectivity, range expansion, or recruitment. Based on our findings, we recommend that future studies take a holistic view of dispersal incorporating biological and oceanographic impacts of climate change rather than solely focusing on oceanography or physiology. Genetic and paleontological techniques can be used to examine evolutionary impacts of altered dispersal in a future ocean, while museum collections and expedition records can inform modern-day range shifts
Fluctuating "Pulled" Fronts: the Origin and the Effects of a Finite Particle Cutoff
Recently it has been shown that when an equation that allows so-called pulled
fronts in the mean-field limit is modelled with a stochastic model with a
finite number of particles per correlation volume, the convergence to the
speed for is extremely slow -- going only as .
In this paper, we study the front propagation in a simple stochastic lattice
model. A detailed analysis of the microscopic picture of the front dynamics
shows that for the description of the far tip of the front, one has to abandon
the idea of a uniformly translating front solution. The lattice and finite
particle effects lead to a ``stop-and-go'' type dynamics at the far tip of the
front, while the average front behind it ``crosses over'' to a uniformly
translating solution. In this formulation, the effect of stochasticity on the
asymptotic front speed is coded in the probability distribution of the times
required for the advancement of the ``foremost bin''. We derive expressions of
these probability distributions by matching the solution of the far tip with
the uniformly translating solution behind. This matching includes various
correlation effects in a mean-field type approximation. Our results for the
probability distributions compare well to the results of stochastic numerical
simulations. This approach also allows us to deal with much smaller values of
than it is required to have the asymptotics to be valid.Comment: 26 pages, 11 figures, to appear in Phys. rev.
Being young in a changing world: how temperature and salinity changes interactively modify the performance of larval stages of the barnacle Amphibalanus improvisus
The fate of key species, such as the barnacle Amphibalanus improvisus, in the course of global change is of particular interest since any change in their abundance and/or performance may entail community-wide effects. In the fluctuating Western Baltic, species typically experience a broad range of environmental conditions, which may preselect them to better cope with climate change. In this study, we examined the sensitivity of two crucial ontogenetic phases (naupliar, cypris) of the barnacle toward a range of temperature (12, 20, and 28°C) and salinity (5, 15, and 30 psu) combinations. Under all salinity treatments, nauplii developed faster at intermediate and high temperatures. Cyprid metamorphosis success, in contrast, was interactively impacted by temperature and salinity. Survival of nauplii decreased with increasing salinity under all temperature treatments. Highest settlement rates occurred at the intermediate temperature and salinity combination, i.e., 20°C and 15 psu. Settlement success of “naive” cyprids, i.e., when nauplii were raised in the absence of stress (20°C/15 psu), was less impacted by stressful temperature/salinity combinations than that of cyprids with a stress history. Here, settlement success was highest at 30 psu particularly at low and high temperatures. Surprisingly, larval survival was not highest under the conditions typical for the Kiel Fjord at the season of peak settlement (20°C/15 psu). The proportion of nauplii that ultimately transformed to attached juveniles was, however, highest under these “home” conditions. Overall, only particularly stressful combinations of temperature and salinity substantially reduced larval performance and development. Given more time for adaptation, the relatively smooth climate shifts predicted will probably not dramatically affect this species
Ecological Invasion, Roughened Fronts, and a Competitor's Extreme Advance: Integrating Stochastic Spatial-Growth Models
Both community ecology and conservation biology seek further understanding of
factors governing the advance of an invasive species. We model biological
invasion as an individual-based, stochastic process on a two-dimensional
landscape. An ecologically superior invader and a resident species compete for
space preemptively. Our general model includes the basic contact process and a
variant of the Eden model as special cases. We employ the concept of a
"roughened" front to quantify effects of discreteness and stochasticity on
invasion; we emphasize the probability distribution of the front-runner's
relative position. That is, we analyze the location of the most advanced
invader as the extreme deviation about the front's mean position. We find that
a class of models with different assumptions about neighborhood interactions
exhibit universal characteristics. That is, key features of the invasion
dynamics span a class of models, independently of locally detailed demographic
rules. Our results integrate theories of invasive spatial growth and generate
novel hypotheses linking habitat or landscape size (length of the invading
front) to invasion velocity, and to the relative position of the most advanced
invader.Comment: The original publication is available at
www.springerlink.com/content/8528v8563r7u2742
Assessment of the influence of confounding factors (weight, salinity) on the response of biomarkers in the estuarine polychaete Nereis diversicolor
Transcriptome Analysis and SNP Development Can Resolve Population Differentiation of Streblospio benedicti, a Developmentally Dimorphic Marine Annelid
Next-generation sequencing technology is now frequently being used to develop genomic tools for non-model organisms, which are generally important for advancing studies of evolutionary ecology. One such species, the marine annelid Streblospio benedicti, is an ideal system to study the evolutionary consequences of larval life history mode because the species displays a rare offspring dimorphism termed poecilogony, where females can produce either many small offspring or a few large ones. To further develop S. benedicti as a model system for studies of life history evolution, we apply 454 sequencing to characterize the transcriptome for embryos, larvae, and juveniles of this species, for which no genomic resources are currently available. Here we performed a de novo alignment of 336,715 reads generated by a quarter GS-FLX (Roche 454) run, which produced 7,222 contigs. We developed a novel approach for evaluating the site frequency spectrum across the transcriptome to identify potential signatures of selection. We also developed 84 novel single nucleotide polymorphism (SNP) markers for this species that are used to distinguish coastal populations of S. benedicti. We validated the SNPs by genotyping individuals of different developmental modes using the BeadXPress Golden Gate assay (Illumina). This allowed us to evaluate markers that may be associated with life-history mode
Ocean acidification and temperature rise: effects on calcification during early development of the cuttlefish Sepia officinalis
This study investigated the effects of seawater pH (i.e., 8.10, 7.85 and 7.60) and temperature (16 and 19 °C) on (a) the abiotic conditions in the fluid surrounding the embryo (viz. the perivitelline fluid), (b) growth, development and (c) cuttlebone calcification of embryonic and juvenile stages of the cephalopod Sepia officinalis. Egg swelling increased in response to acidification or warming, leading to an increase in egg surface while the interactive effects suggested a limited plasticity of the swelling modulation. Embryos experienced elevated pCO2 conditions in the perivitelline fluid (>3-fold higher pCO2 than that of ambient seawater), rendering the medium under-saturated even under ambient conditions. The growth of both embryos and juveniles was unaffected by pH, whereas 45Ca incorporation in cuttlebone increased significantly with decreasing pH at both temperatures. This phenomenon of hypercalcification is limited to only a number of animals but does not guarantee functional performance and calls for better mechanistic understanding of calcification processes
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