Science.gov

Sample records for adaptive natural density

  1. Adaptive density estimator for galaxy surveys

    NASA Astrophysics Data System (ADS)

    Saar, Enn

    2016-10-01

    Galaxy number or luminosity density serves as a basis for many structure classification algorithms. Several methods are used to estimate this density. Among them kernel methods have probably the best statistical properties and allow also to estimate the local sample errors of the estimate. We introduce a kernel density estimator with an adaptive data-driven anisotropic kernel, describe its properties and demonstrate the wealth of additional information it gives us about the local properties of the galaxy distribution.

  2. Natural pedagogy as evolutionary adaptation

    PubMed Central

    Csibra, Gergely; Gergely, György

    2011-01-01

    We propose that the cognitive mechanisms that enable the transmission of cultural knowledge by communication between individuals constitute a system of ‘natural pedagogy’ in humans, and represent an evolutionary adaptation along the hominin lineage. We discuss three kinds of arguments that support this hypothesis. First, natural pedagogy is likely to be human-specific: while social learning and communication are both widespread in non-human animals, we know of no example of social learning by communication in any other species apart from humans. Second, natural pedagogy is universal: despite the huge variability in child-rearing practices, all human cultures rely on communication to transmit to novices a variety of different types of cultural knowledge, including information about artefact kinds, conventional behaviours, arbitrary referential symbols, cognitively opaque skills and know-how embedded in means-end actions. Third, the data available on early hominin technological culture are more compatible with the assumption that natural pedagogy was an independently selected adaptive cognitive system than considering it as a by-product of some other human-specific adaptation, such as language. By providing a qualitatively new type of social learning mechanism, natural pedagogy is not only the product but also one of the sources of the rich cultural heritage of our species. PMID:21357237

  3. Electron density measurements for plasma adaptive optics

    NASA Astrophysics Data System (ADS)

    Neiswander, Brian W.

    Over the past 40 years, there has been growing interest in both laser communications and directed energy weapons that operate from moving aircraft. As a laser beam propagates from an aircraft in flight, it passes through boundary layers, turbulence, and shear layers in the near-region of the aircraft. These fluid instabilities cause strong density gradients which adversely affect the transmission of laser energy to a target. Adaptive optics provides corrective measures for this problem but current technology cannot respond quickly enough to be useful for high speed flight conditions. This research investigated the use of plasma as a medium for adaptive optics for aero-optics applications. When a laser beam passes through plasma, its phase is shifted proportionally to the electron density and gas heating within the plasma. As a result, plasma can be utilized as a dynamically controllable optical medium. Experiments were carried out using a cylindrical dielectric barrier discharge plasma chamber which generated a sub-atmospheric pressure, low-temperature plasma. An electrostatic model of this design was developed and revealed an important design constraint relating to the geometry of the chamber. Optical diagnostic techniques were used to characterize the plasma discharge. Single-wavelength interferometric experiments were performed and demonstrated up to 1.5 microns of optical path difference (OPD) in a 633 nm laser beam. Dual-wavelength interferometry was used to obtain time-resolved profiles of the plasma electron density and gas heating inside the plasma chamber. Furthermore, a new multi-wavelength infrared diagnostic technique was developed and proof-of-concept simulations were conducted to demonstrate the system's capabilities.

  4. Effect of adaptation and pulp density on bioleaching of mine waste using indigenous acidophilic bacteria

    NASA Astrophysics Data System (ADS)

    Cho, K.; Kim, B.; Lee, D.; Choi, N.; Park, C.

    2011-12-01

    Adaptation to environment is a natural phenomena that takes place in many animals, plants and microorganisms. These adapted organisms achieve stronger applicability than unadapted organisms after habitation in a specific environment for a long time. In the biohydrometallurgical industry, adaptation to special environment conditions by selective culturing is the most popular method for improving bioleaching activity of strains-although that is time consuming. This study investigated the influence of the bioleaching efficiency of mine waste under batch experimental conditions (adaptation and pulp density) using the indigenous acidophilic bacteria collected from acid mine drainage in Go-seong and Yeon-hwa, Korea. We conducted the batch experiments at the influences of parameters, such as the adaptation of bacteria and pulp density of the mine waste. In the adaptation case, the value of pH in 1'st adaptation bacteria sample exhibited lower than in 2'nd adaptation bacteria sample. And the content of both Cu and Zn at 1'st adaptation bacteria sample appeared lower than at 2'nd adaptation bacteria sample. In the SEM analysis, the rod-shaped bacteria with 1μm in length were observed on the filter paper (pore size - 0.45μm). The results of pulp density experiments revealed that the content of both Cu and Zn increased with increasing pulp density, since the increment of pulp density resulted in the enhancement of bioleaching capacity.

  5. Adaptive governance, ecosystem management, and natural capital

    PubMed Central

    Schultz, Lisen; Folke, Carl; Österblom, Henrik; Olsson, Per

    2015-01-01

    To gain insights into the effects of adaptive governance on natural capital, we compare three well-studied initiatives; a landscape in Southern Sweden, the Great Barrier Reef in Australia, and fisheries in the Southern Ocean. We assess changes in natural capital and ecosystem services related to these social–ecological governance approaches to ecosystem management and investigate their capacity to respond to change and new challenges. The adaptive governance initiatives are compared with other efforts aimed at conservation and sustainable use of natural capital: Natura 2000 in Europe, lobster fisheries in the Gulf of Maine, North America, and fisheries in Europe. In contrast to these efforts, we found that the adaptive governance cases developed capacity to perform ecosystem management, manage multiple ecosystem services, and monitor, communicate, and respond to ecosystem-wide changes at landscape and seascape levels with visible effects on natural capital. They enabled actors to collaborate across diverse interests, sectors, and institutional arrangements and detect opportunities and problems as they developed while nurturing adaptive capacity to deal with them. They all spanned local to international levels of decision making, thus representing multilevel governance systems for managing natural capital. As with any governance system, internal changes and external drivers of global impacts and demands will continue to challenge the long-term success of such initiatives. PMID:26082542

  6. Adaptive governance, ecosystem management, and natural capital.

    PubMed

    Schultz, Lisen; Folke, Carl; Österblom, Henrik; Olsson, Per

    2015-06-16

    To gain insights into the effects of adaptive governance on natural capital, we compare three well-studied initiatives; a landscape in Southern Sweden, the Great Barrier Reef in Australia, and fisheries in the Southern Ocean. We assess changes in natural capital and ecosystem services related to these social-ecological governance approaches to ecosystem management and investigate their capacity to respond to change and new challenges. The adaptive governance initiatives are compared with other efforts aimed at conservation and sustainable use of natural capital: Natura 2000 in Europe, lobster fisheries in the Gulf of Maine, North America, and fisheries in Europe. In contrast to these efforts, we found that the adaptive governance cases developed capacity to perform ecosystem management, manage multiple ecosystem services, and monitor, communicate, and respond to ecosystem-wide changes at landscape and seascape levels with visible effects on natural capital. They enabled actors to collaborate across diverse interests, sectors, and institutional arrangements and detect opportunities and problems as they developed while nurturing adaptive capacity to deal with them. They all spanned local to international levels of decision making, thus representing multilevel governance systems for managing natural capital. As with any governance system, internal changes and external drivers of global impacts and demands will continue to challenge the long-term success of such initiatives. PMID:26082542

  7. Adaptive governance, ecosystem management, and natural capital.

    PubMed

    Schultz, Lisen; Folke, Carl; Österblom, Henrik; Olsson, Per

    2015-06-16

    To gain insights into the effects of adaptive governance on natural capital, we compare three well-studied initiatives; a landscape in Southern Sweden, the Great Barrier Reef in Australia, and fisheries in the Southern Ocean. We assess changes in natural capital and ecosystem services related to these social-ecological governance approaches to ecosystem management and investigate their capacity to respond to change and new challenges. The adaptive governance initiatives are compared with other efforts aimed at conservation and sustainable use of natural capital: Natura 2000 in Europe, lobster fisheries in the Gulf of Maine, North America, and fisheries in Europe. In contrast to these efforts, we found that the adaptive governance cases developed capacity to perform ecosystem management, manage multiple ecosystem services, and monitor, communicate, and respond to ecosystem-wide changes at landscape and seascape levels with visible effects on natural capital. They enabled actors to collaborate across diverse interests, sectors, and institutional arrangements and detect opportunities and problems as they developed while nurturing adaptive capacity to deal with them. They all spanned local to international levels of decision making, thus representing multilevel governance systems for managing natural capital. As with any governance system, internal changes and external drivers of global impacts and demands will continue to challenge the long-term success of such initiatives.

  8. Expression and purification of soluble and stable ectodomain of natural killer cell receptor LLT1 through high-density transfection of suspension adapted HEK293S GnTI(-) cells.

    PubMed

    Bláha, Jan; Pachl, Petr; Novák, Petr; Vaněk, Ondřej

    2015-05-01

    Lectin-like transcript 1 (LLT1, gene clec2d) was identified to be a ligand for the single human NKR-P1 receptor present on NK and NK-T lymphocytes. Naturally, LLT1 is expressed on the surface of NK cells, stimulating IFN-γ production, and is up-regulated upon activation of other immune cells, e.g. TLR-stimulated dendritic cells and B cells or T cell receptor-activated T cells. While in normal tissues LLT1:NKR-P1 interaction (representing an alternative "missing-self" recognition system) play an immunomodulatory role in regulation of crosstalk between NK and antigen presenting cells, LLT1 is upregulated in glioblastoma cells, one of the most lethal tumors, where it acts as a mediator of immune escape of glioma cells. Here we report transient expression and characterization of soluble His176Cys mutant of LLT1 ectodomain in an eukaryotic expression system of human suspension-adapted HEK293S GnTI(-) cell line with uniform N-glycans. The His176Cys mutation is critical for C-type lectin-like domain stability, leading to the reconstruction of third canonical disulfide bridge in LLT1, as shown by mass spectrometry. Purified soluble LLT1 is homogeneous, deglycosylatable and forms a non-covalent homodimer whose dimerization is not dependent on presence of its N-glycans. As a part of production of soluble LLT1, we have adapted HEK293S GnTI(-) cell line to growth in suspension in media facilitating transient transfection and optimized novel high cell density transfection protocol, greatly enhancing protein yields. This transfection protocol is generally applicable for protein production within this cell line, especially for protein crystallography. PMID:25623399

  9. Climate adaptation strategy for natural resources released

    NASA Astrophysics Data System (ADS)

    Showstack, Randy

    2013-04-01

    The National Fish, Wildlife, and Plants Climate Adaptation Strategy, released on 26 March by the Obama administration, calls for a series of measures to help public and private decision makers better address the effects of climate change on living natural resources. The measures include conserving habitat to support healthy fish, wildlife, and plant populations and ecosystem functions; managing species and habitats to protect ecosystem functions and provide sustainable commercial, subsistence, recreational, and cultural use; increasing knowledge and information about effects on and responses of fish, wildlife, and plants; and reducing nonclimate stressors to help fish, wildlife, plants, and ecosystems adapt.

  10. Adaptive density partitioning technique in the auxiliary plane wave method

    NASA Astrophysics Data System (ADS)

    Kurashige, Yuki; Nakajima, Takahito; Hirao, Kimihiko

    2006-01-01

    We have developed the adaptive density partitioning technique (ADPT) in the auxiliary plane wave method, in which a part of the density is expanded to plane waves, for the fast evaluation of Coulomb matrix. Our partitioning is based on the error estimations and allows us to control the accuracy and efficiency. Moreover, we can drastically reduce the core Gaussian products that are left in Gaussian representation (its analytical integrals is the bottleneck in this method). For the taxol molecule with 6-31G** basis, the core Gaussian products accounted only for 5% in submicrohartree error.

  11. Bayesian inference with an adaptive proposal density for GARCH models

    NASA Astrophysics Data System (ADS)

    Takaishi, Tetsuya

    2010-04-01

    We perform the Bayesian inference of a GARCH model by the Metropolis-Hastings algorithm with an adaptive proposal density. The adaptive proposal density is assumed to be the Student's t-distribution and the distribution parameters are evaluated by using the data sampled during the simulation. We apply the method for the QGARCH model which is one of asymmetric GARCH models and make empirical studies for Nikkei 225, DAX and Hang indexes. We find that autocorrelation times from our method are very small, thus the method is very efficient for generating uncorrelated Monte Carlo data. The results from the QGARCH model show that all the three indexes show the leverage effect, i.e. the volatility is high after negative observations.

  12. Adaptive management of natural resources-framework and issues

    USGS Publications Warehouse

    Williams, B.K.

    2011-01-01

    Adaptive management, an approach for simultaneously managing and learning about natural resources, has been around for several decades. Interest in adaptive decision making has grown steadily over that time, and by now many in natural resources conservation claim that adaptive management is the approach they use in meeting their resource management responsibilities. Yet there remains considerable ambiguity about what adaptive management actually is, and how it is to be implemented by practitioners. The objective of this paper is to present a framework and conditions for adaptive decision making, and discuss some important challenges in its application. Adaptive management is described as a two-phase process of deliberative and iterative phases, which are implemented sequentially over the timeframe of an application. Key elements, processes, and issues in adaptive decision making are highlighted in terms of this framework. Special emphasis is given to the question of geographic scale, the difficulties presented by non-stationarity, and organizational challenges in implementing adaptive management. ?? 2010.

  13. Heterozygote advantage as a natural consequence of adaptation in diploids

    PubMed Central

    Sellis, Diamantis; Callahan, Benjamin J.; Petrov, Dmitri A.; Messer, Philipp W.

    2011-01-01

    Molecular adaptation is typically assumed to proceed by sequential fixation of beneficial mutations. In diploids, this picture presupposes that for most adaptive mutations, the homozygotes have a higher fitness than the heterozygotes. Here, we show that contrary to this expectation, a substantial proportion of adaptive mutations should display heterozygote advantage. This feature of adaptation in diploids emerges naturally from the primary importance of the fitness of heterozygotes for the invasion of new adaptive mutations. We formalize this result in the framework of Fisher's influential geometric model of adaptation. We find that in diploids, adaptation should often proceed through a succession of short-lived balanced states that maintain substantially higher levels of phenotypic and fitness variation in the population compared with classic adaptive walks. In fast-changing environments, this variation produces a diversity advantage that allows diploids to remain better adapted compared with haploids despite the disadvantage associated with the presence of unfit homozygotes. The short-lived balanced states arising during adaptive walks should be mostly invisible to current scans for long-term balancing selection. Instead, they should leave signatures of incomplete selective sweeps, which do appear to be common in many species. Our results also raise the possibility that balancing selection, as a natural consequence of frequent adaptation, might play a more prominent role among the forces maintaining genetic variation than is commonly recognized. PMID:22143780

  14. High-Density Lipoproteins: Nature's Multifunctional Nanoparticles.

    PubMed

    Kuai, Rui; Li, Dan; Chen, Y Eugene; Moon, James J; Schwendeman, Anna

    2016-03-22

    High-density lipoproteins (HDL) are endogenous nanoparticles involved in the transport and metabolism of cholesterol, phospholipids, and triglycerides. HDL is well-known as the "good" cholesterol because it not only removes excess cholesterol from atherosclerotic plaques but also has anti-inflammatory and antioxidative properties, which protect the cardiovascular system. Circulating HDL also transports endogenous proteins, vitamins, hormones, and microRNA to various organs. Compared with other synthetic nanocarriers, such as liposomes, micelles, and inorganic and polymeric nanoparticles, HDL has unique features that allow them to deliver cargo to specific targets more efficiently. These attributes include their ultrasmall size (8-12 nm in diameter), high tolerability in humans (up to 8 g of protein per infusion), long circulating half-life (12-24 h), and intrinsic targeting properties to different recipient cells. Various recombinant ApoA proteins and ApoA mimetic peptides have been recently developed for the preparation of reconstituted HDL that exhibits properties similar to those of endogenous HDL and has a potential for industrial scale-up. In this review, we will summarize (a) clinical pharmacokinetics and safety of reconstituted HDL products, (b) comparison of HDL with inorganic and other organic nanoparticles, PMID:26889958

  15. Stereopsis is adaptive for the natural environment

    PubMed Central

    Sprague, William W.; Cooper, Emily A.; Tošić, Ivana; Banks, Martin S.

    2015-01-01

    Humans and many animals have forward-facing eyes providing different views of the environment. Precise depth estimates can be derived from the resulting binocular disparities, but determining which parts of the two retinal images correspond to one another is computationally challenging. To aid the computation, the visual system focuses the search on a small range of disparities. We asked whether the disparities encountered in the natural environment match that range. We did this by simultaneously measuring binocular eye position and three-dimensional scene geometry during natural tasks. The natural distribution of disparities is indeed matched to the smaller range of correspondence search. Furthermore, the distribution explains the perception of some ambiguous stereograms. Finally, disparity preferences of macaque cortical neurons are consistent with the natural distribution. PMID:26207262

  16. Evolution of behavior by density-dependent natural selection.

    PubMed

    Guo, P Z; Mueller, L D; Ayala, F J

    1991-12-01

    Theories of density-dependent natural selection predict that evolution should favor those genotypes with the highest per capita rates of population growth under the current density conditions. These theories are silent about the mechanisms that may give rise to these increases in density-dependent growth rates. We have observed the evolution of six populations of Drosophila melanogaster recently placed in crowded environments after nearly 200 generations at low-population density in the laboratory. After 25 generations in these crowded cultures all six populations showed the predicted increase in population growth rates at high-population density with the concomitant decrease in their growth rates at low densities. These changes in rates of population growth are accompanied by changes in the feeding and pupation behavior of the larvae: those populations that have evolved at high-population densities have higher feeding rates and are less likely to pupate on or near the food surface than populations maintained at low densities. These changes in behavior serve to increase the competitive ability of larvae for limited food and reduce mortality under crowded conditions during the pupal stage of development. A detailed understanding of the mechanisms by which populations evolve under density-dependent natural selection will provide a framework for understanding the nature of trade-offs in life history evolution.

  17. Evolution of behavior by density-dependent natural selection

    SciTech Connect

    Pingzhong Guo; Mueller, L.D.; Ayala, F.J. )

    1991-12-01

    Theories of density-dependent natural selection predict that evolution should favor those genotypes with the highest per capita rates of population growth under the current density conditions. These theories are silent about the mechanisms that may give rise to these increases in density-dependent growth rates. The authors have observed the evolution of six populations of Drosophila melanogaster recently placed in crowded environments after nearly 200 generations at low-population density in the laboratory. After 25 generations in these crowded cultures all six populations showed the predicted increase in population growth rates at high-population density with the concomitant decrease in their growth rates at low densities. These changes in rates of population growth are accompanied by changes in the feeding and pupation behavior of the larvae: those populations that have evolve at high-population densities have higher feeding rates and are less likely to pupate on or near the food surface than populations maintained at low densities. A detailed understanding of the mechanisms by which populations evolve under density-dependent natural selection will provide a framework for understanding that nature of trade-offs in life history evolution.

  18. Genomic mutation rates that neutralize adaptive evolution and natural selection.

    PubMed

    Gerrish, Philip J; Colato, Alexandre; Sniegowski, Paul D

    2013-08-01

    When mutation rates are low, natural selection remains effective, and increasing the mutation rate can give rise to an increase in adaptation rate. When mutation rates are high to begin with, however, increasing the mutation rate may have a detrimental effect because of the overwhelming presence of deleterious mutations. Indeed, if mutation rates are high enough: (i) adaptive evolution may be neutralized, resulting in a zero (or negative) adaptation rate despite the continued availability of adaptive and/or compensatory mutations, or (ii) natural selection may be neutralized, because the fitness of lineages bearing adaptive and/or compensatory mutations--whether established or newly arising--is eroded by excessive mutation, causing such lineages to decline in frequency. We apply these two criteria to a standard model of asexual adaptive evolution and derive mathematical expressions--some new, some old in new guise--delineating the mutation rates under which either adaptive evolution or natural selection is neutralized. The expressions are simple and require no a priori knowledge of organism- and/or environment-specific parameters. Our discussion connects these results to each other and to previous theory, showing convergence or equivalence of the different results in most cases.

  19. Genomic mutation rates that neutralize adaptive evolution and natural selection.

    PubMed

    Gerrish, Philip J; Colato, Alexandre; Sniegowski, Paul D

    2013-08-01

    When mutation rates are low, natural selection remains effective, and increasing the mutation rate can give rise to an increase in adaptation rate. When mutation rates are high to begin with, however, increasing the mutation rate may have a detrimental effect because of the overwhelming presence of deleterious mutations. Indeed, if mutation rates are high enough: (i) adaptive evolution may be neutralized, resulting in a zero (or negative) adaptation rate despite the continued availability of adaptive and/or compensatory mutations, or (ii) natural selection may be neutralized, because the fitness of lineages bearing adaptive and/or compensatory mutations--whether established or newly arising--is eroded by excessive mutation, causing such lineages to decline in frequency. We apply these two criteria to a standard model of asexual adaptive evolution and derive mathematical expressions--some new, some old in new guise--delineating the mutation rates under which either adaptive evolution or natural selection is neutralized. The expressions are simple and require no a priori knowledge of organism- and/or environment-specific parameters. Our discussion connects these results to each other and to previous theory, showing convergence or equivalence of the different results in most cases. PMID:23720539

  20. Adapting natural resource management to climate change: The South Central Oregon and Northern Rockies Adaptation Partnerships

    NASA Astrophysics Data System (ADS)

    Halofsky, J.; Peterson, D. L.

    2015-12-01

    Concrete ways to adapt to climate change are needed to help natural resource managers take the first steps to incorporate climate change into management and take advantage of opportunities to balance the negative effects of climate change. We recently initiated two science-management climate change adaptation partnerships, one with three national forests and one national park in south central Oregon, and the other with 16 national forests, three national parks and other stakeholders in the northern Rockies region. Goals of both partnerships were to: (1) synthesize published information and data to assess the exposure, sensitivity, and adaptive capacity of key resource areas, including water use, infrastructure, fisheries, and vegetation and disturbance; (2) develop science-based adaptation strategies and tactics that will help to mitigate the negative effects of climate change and assist the transition of biological systems and management to a warmer climate; (3) ensure adaptation strategies and tactics are incorporated into relevant planning documents; and (4) foster an enduring partnership to facilitate ongoing dialogue and activities related to climate change in the partnerships regions. After an initial vulnerability assessment by agency and university scientists and local resource specialists, adaptation strategies and tactics were developed in a series of scientist-manager workshops. The final vulnerability assessments and adaptation actions are incorporated in technical reports. The partnerships produced concrete adaptation options for national forest and other natural resource managers and illustrated the utility of place-based vulnerability assessments and scientist-manager workshops in adapting to climate change.

  1. Maize canopy architecture and adaptation to high plant density in long term selection programs

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Grain yield since the 1930s has increased more than five-fold in large part due to improvements in adaptation to high plant density. Changes to plant architecture that associated with improved light interception have made a major contribution to improved adaptation to high plant density. Improved ...

  2. Non-adaptive plasticity potentiates rapid adaptive evolution of gene expression in nature.

    PubMed

    Ghalambor, Cameron K; Hoke, Kim L; Ruell, Emily W; Fischer, Eva K; Reznick, David N; Hughes, Kimberly A

    2015-09-17

    Phenotypic plasticity is the capacity for an individual genotype to produce different phenotypes in response to environmental variation. Most traits are plastic, but the degree to which plasticity is adaptive or non-adaptive depends on whether environmentally induced phenotypes are closer or further away from the local optimum. Existing theories make conflicting predictions about whether plasticity constrains or facilitates adaptive evolution. Debate persists because few empirical studies have tested the relationship between initial plasticity and subsequent adaptive evolution in natural populations. Here we show that the direction of plasticity in gene expression is generally opposite to the direction of adaptive evolution. We experimentally transplanted Trinidadian guppies (Poecilia reticulata) adapted to living with cichlid predators to cichlid-free streams, and tested for evolutionary divergence in brain gene expression patterns after three to four generations. We find 135 transcripts that evolved parallel changes in expression within the replicated introduction populations. These changes are in the same direction exhibited in a native cichlid-free population, suggesting rapid adaptive evolution. We find 89% of these transcripts exhibited non-adaptive plastic changes in expression when the source population was reared in the absence of predators, as they are in the opposite direction to the evolved changes. By contrast, the remaining transcripts exhibiting adaptive plasticity show reduced population divergence. Furthermore, the most plastic transcripts in the source population evolved reduced plasticity in the introduction populations, suggesting strong selection against non-adaptive plasticity. These results support models predicting that adaptive plasticity constrains evolution, whereas non-adaptive plasticity potentiates evolution by increasing the strength of directional selection. The role of non-adaptive plasticity in evolution has received relatively

  3. Adaptation to stimulus contrast and correlations during natural visual stimulation

    PubMed Central

    Lesica, Nicholas A.; Jin, Jianzhong; Weng, Chong; Yeh, Chun-I; Butts, Daniel A.; Stanley, Garrett B.; Alonso, Jose-Manuel

    2008-01-01

    Summary In this study, we characterize the adaptation of neurons in the cat lateral geniculate nucleus to changes in stimulus contrast and correlations. By comparing responses to high and low contrast natural scene movie and white noise stimuli, we show that an increase in contrast or correlations results in receptive fields with faster temporal dynamics and stronger antagonistic surrounds, as well as decreases in gain and selectivity. We also observe contrast- and correlation-induced changes in the reliability and sparseness of neural responses. We find that reliability is determined primarily by processing in the receptive field (the effective contrast of the stimulus), while sparseness is determined by the interactions between several functional properties. These results reveal a number of novel adaptive phenomena and suggest that adaptation to stimulus contrast and correlations may play an important role in visual coding in a dynamic natural environment. PMID:17678859

  4. Density calculation and concentration scale conversions for natural waters

    NASA Astrophysics Data System (ADS)

    Monnin, Christophe

    1994-12-01

    A program is presented that calculates the density of a natural water from its composition. It is based on the recent modeling of the volumetric properties of natural waters at 25°C and 1 bar to high concentrations using Pitzer's equations. The required input is the concentrations of the major solutes of natural waters, that is Na, K, Ca, Mg, Cl, SO 4, HCO 3, and CO 3, expressed in any of the most widely used scales: molinity (grams or moles per kg of solution), molality (moles per kg of water), or molarity (moles or grams per liter). The output consists of the density of the solution, the partial molal volumes of the solutes, and a table in which the input concentrations are converted into all the scales as cited plus the solute mole fractions. The error in t he calculated seawater density is 0.00002 g/cm 3, but it increases to about 0.0004 g/cm 3 for dense brines. The program then is used to calculate the consequences of the approximation that natural waters behave as pure sodium chloride solutions, both for the computed density and for the concentration conversions.

  5. Visual Space: Adaptation to Texture Density Reduces Perceived Object Size.

    PubMed

    Kingdom, Frederick A A

    2016-07-25

    A recent study shows that visual adaptation to dense textures, while causing an increase in the perceived sparseness of a subsequently viewed less-dense texture, paradoxically reduces the perceived size of an object, revealing a dissociation between the internal spatial representations of textures and objects.

  6. Adapting molar data (without density) for molal models

    NASA Astrophysics Data System (ADS)

    Marion, Giles M.

    2007-06-01

    Theoretical geochemical models for electrolyte solutions based on classical thermodynamic principles rely largely upon molal concentrations as input because molality (wt/wt) is independent of temperature and pressure. On the other hand, there are countless studies in the literature where concentrations are expressed as molarity (wt/vol) because these units are more easily measured. To convert from molarity to molality requires an estimate of solution density. Unfortunately, in many, if not most, cases where molarity is the concentration of choice, solution densities are not measured. For concentrated brines such as seawater or even more dense brines, the difference between molarity and molality is significant. Without knowledge of density, these brinish, molar-based studies are closed to theoretical electrolyte solution models. The objective of this paper is to present an algorithm that can accurately calculate the density of molar-based solutions, and, as a consequence, molality. The algorithm consist of molar inputs into a molal-based model that can calculate density (FREZCHEM). The algorithm uses an iterative process for calculating absolute salinity (SA), density (ρ), and the conversion factor (CF) for molarity to molality. Three cases were examined ranging in density from 1.023 to 1.203 kg(soln.)/l. In all three cases, the SA, ρ, and CF values converged to within 1ppm by nine iterations. In all three cases, the calculated densities agreed with experimental measurements to within ±0.1%. This algorithm opens a large literature based on molar concentrations to exploration with theoretical models based on molal concentrations and classical thermodynamic principles.

  7. Application of adaptive cluster sampling to low-density populations of freshwater mussels

    USGS Publications Warehouse

    Smith, D.R.; Villella, R.F.; Lemarie, D.P.

    2003-01-01

    Freshwater mussels appear to be promising candidates for adaptive cluster sampling because they are benthic macroinvertebrates that cluster spatially and are frequently found at low densities. We applied adaptive cluster sampling to estimate density of freshwater mussels at 24 sites along the Cacapon River, WV, where a preliminary timed search indicated that mussels were present at low density. Adaptive cluster sampling increased yield of individual mussels and detection of uncommon species; however, it did not improve precision of density estimates. Because finding uncommon species, collecting individuals of those species, and estimating their densities are important conservation activities, additional research is warranted on application of adaptive cluster sampling to freshwater mussels. However, at this time we do not recommend routine application of adaptive cluster sampling to freshwater mussel populations. The ultimate, and currently unanswered, question is how to tell when adaptive cluster sampling should be used, i.e., when is a population sufficiently rare and clustered for adaptive cluster sampling to be efficient and practical? A cost-effective procedure needs to be developed to identify biological populations for which adaptive cluster sampling is appropriate.

  8. Guiding climate change adaptation within vulnerable natural resource management systems.

    PubMed

    Bardsley, Douglas K; Sweeney, Susan M

    2010-05-01

    Climate change has the potential to compromise the sustainability of natural resources in Mediterranean climatic systems, such that short-term reactive responses will increasingly be insufficient to ensure effective management. There is a simultaneous need for both the clear articulation of the vulnerabilities of specific management systems to climate risk, and the development of appropriate short- and long-term strategic planning responses that anticipate environmental change or allow for sustainable adaptive management in response to trends in resource condition. Governments are developing climate change adaptation policy frameworks, but without the recognition of the importance of responding strategically, regional stakeholders will struggle to manage future climate risk. In a partnership between the South Australian Government, the Adelaide and Mt Lofty Ranges Natural Resource Management Board and the regional community, a range of available research approaches to support regional climate change adaptation decision-making, were applied and critically examined, including: scenario modelling; applied and participatory Geographical Information Systems modelling; environmental risk analysis; and participatory action learning. As managers apply ideas for adaptation within their own biophysical and socio-cultural contexts, there would be both successes and failures, but a learning orientation to societal change will enable improvements over time. A base-line target for regional responses to climate change is the ownership of the issue by stakeholders, which leads to an acceptance that effective actions to adapt are now both possible and vitally important. Beyond such baseline knowledge, the research suggests that there is a range of tools from the social and physical sciences available to guide adaptation decision-making.

  9. Guiding Climate Change Adaptation Within Vulnerable Natural Resource Management Systems

    NASA Astrophysics Data System (ADS)

    Bardsley, Douglas K.; Sweeney, Susan M.

    2010-05-01

    Climate change has the potential to compromise the sustainability of natural resources in Mediterranean climatic systems, such that short-term reactive responses will increasingly be insufficient to ensure effective management. There is a simultaneous need for both the clear articulation of the vulnerabilities of specific management systems to climate risk, and the development of appropriate short- and long-term strategic planning responses that anticipate environmental change or allow for sustainable adaptive management in response to trends in resource condition. Governments are developing climate change adaptation policy frameworks, but without the recognition of the importance of responding strategically, regional stakeholders will struggle to manage future climate risk. In a partnership between the South Australian Government, the Adelaide and Mt Lofty Ranges Natural Resource Management Board and the regional community, a range of available research approaches to support regional climate change adaptation decision-making, were applied and critically examined, including: scenario modelling; applied and participatory Geographical Information Systems modelling; environmental risk analysis; and participatory action learning. As managers apply ideas for adaptation within their own biophysical and socio-cultural contexts, there would be both successes and failures, but a learning orientation to societal change will enable improvements over time. A base-line target for regional responses to climate change is the ownership of the issue by stakeholders, which leads to an acceptance that effective actions to adapt are now both possible and vitally important. Beyond such baseline knowledge, the research suggests that there is a range of tools from the social and physical sciences available to guide adaptation decision-making.

  10. Visuomotor Control of Human Adaptive Locomotion: Understanding the Anticipatory Nature

    PubMed Central

    Higuchi, Takahiro

    2013-01-01

    To maintain balance during locomotion, the central nervous system (CNS) accommodates changes in the constraints of spatial environment (e.g., existence of an obstacle or changes in the surface properties). Locomotion while modifying the basic movement patterns in response to such constraints is referred to as adaptive locomotion. The most powerful means of ensuring balance during adaptive locomotion is to visually perceive the environmental properties at a distance and modify the movement patterns in an anticipatory manner to avoid perturbation altogether. For this reason, visuomotor control of adaptive locomotion is characterized, at least in part, by its anticipatory nature. The purpose of the present article is to review the relevant studies which revealed the anticipatory nature of the visuomotor control of adaptive locomotion. The anticipatory locomotor adjustments for stationary and changeable environment, as well as the spatio-temporal patterns of gaze behavior to support the anticipatory locomotor adjustments are described. Such description will clearly show that anticipatory locomotor adjustments are initiated when an object of interest (e.g., a goal or obstacle) still exists in far space. This review also show that, as a prerequisite of anticipatory locomotor adjustments, environmental properties are accurately perceived from a distance in relation to individual’s action capabilities. PMID:23720647

  11. Adaptive improved natural gradient algorithm for blind source separation.

    PubMed

    Liu, Jian-Qiang; Feng, Da-Zheng; Zhang, Wei-Wei

    2009-03-01

    We propose an adaptive improved natural gradient algorithm for blind separation of independent sources. First, inspired by the well-known backpropagation algorithm, we incorporate a momentum term into the natural gradient learning process to accelerate the convergence rate and improve the stability. Then an estimation function for the adaptation of the separation model is obtained to adaptively control a step-size parameter and a momentum factor. The proposed natural gradient algorithm with variable step-size parameter and variable momentum factor is therefore particularly well suited to blind source separation in a time-varying environment, such as an abruptly changing mixing matrix or signal power. The expected improvement in the convergence speed, stability, and tracking ability of the proposed algorithm is demonstrated by extensive simulation results in both time-invariant and time-varying environments. The ability of the proposed algorithm to separate extremely weak or badly scaled sources is also verified. In addition, simulation results show that the proposed algorithm is suitable for separating mixtures of many sources (e.g., the number of sources is 10) in the complete case.

  12. Natural frequency identification of smart washer by using adaptive observer

    NASA Astrophysics Data System (ADS)

    Ito, Hitoshi; Okugawa, Masayuki

    2014-04-01

    Bolted joints are used in many machines/structures and some of them have been loosened during long time use, and unluckily these bolt loosening may cause a great accident of machines/structures system. These bolted joint, especially in important places, are main object of maintenance inspection. Maintenance inspection with human- involvement is desired to be improved owing to time-consuming, labor-intensive and high-cost. By remote and full automation monitoring of the bolt loosening, constantly monitoring of bolted joint is achieved. In order to detect loosening of bolted joints without human-involvement, applying a structural health monitoring technique and smart structures/materials concept is the key objective. In this study, a new method of bolt loosening detection by adopting a smart washer has been proposed, and the basic detection principle was discussed with numerical analysis about frequency equation of the system, was confirmed experimentally. The smart washer used in this study is in cantilever type with piezoelectric material, which adds the washer the self-sensing and actuation function. The principle used to detect the loosening of the bolts is a method of a bolt loosening detection noted that the natural frequency of a smart washer system is decreasing by the change of the bolt tightening axial tension. The feature of this proposed method is achieving to identify the natural frequency at current condition on demand by adopting the self-sensing and actuation function and system identification algorithm for varying the natural frequency depending the bolt tightening axial tension. A novel bolt loosening detection method by adopting adaptive observer is proposed in this paper. The numerical simulations are performed to verify the possibility of the adaptive observer-based loosening detection. Improvement of the detection accuracy for a bolt loosening is confirmed by adopting initial parameter and variable adaptive gain by numerical simulation.

  13. Accelerating adaptation of natural resource management to address climate change.

    PubMed

    Cross, Molly S; McCarthy, Patrick D; Garfin, Gregg; Gori, David; Enquist, Carolyn A F

    2013-02-01

    Natural resource managers are seeking tools to help them address current and future effects of climate change. We present a model for collaborative planning aimed at identifying ways to adapt management actions to address the effects of climate change in landscapes that cross public and private jurisdictional boundaries. The Southwest Climate Change Initiative (SWCCI) piloted the Adaptation for Conservation Targets (ACT) planning approach at workshops in 4 southwestern U.S. landscapes. This planning approach successfully increased participants' self-reported capacity to address climate change by providing them with a better understanding of potential effects and guiding the identification of solutions. The workshops fostered cross-jurisdictional and multidisciplinary dialogue on climate change through active participation of scientists and managers in assessing climate change effects, discussing the implications of those effects for determining management goals and activities, and cultivating opportunities for regional coordination on adaptation of management plans. Facilitated application of the ACT framework advanced group discussions beyond assessing effects to devising options to mitigate the effects of climate change on specific species, ecological functions, and ecosystems. Participants addressed uncertainty about future conditions by considering more than one climate-change scenario. They outlined opportunities and identified next steps for implementing several actions, and local partnerships have begun implementing actions and conducting additional planning. Continued investment in adaptation of management plans and actions to address the effects of climate change in the southwestern United States and extension of the approaches used in this project to additional landscapes are needed if biological diversity and ecosystem services are to be maintained in a rapidly changing world.

  14. Density-dependent adaptive resistance allows swimming bacteria to colonize an antibiotic gradient.

    PubMed

    Hol, Felix J H; Hubert, Bert; Dekker, Cees; Keymer, Juan E

    2016-01-01

    During antibiotic treatment, antibiotic concentration gradients develop. Little is know regarding the effects of antibiotic gradients on populations of nonresistant bacteria. Using a microfluidic device, we show that high-density motile Escherichia coli populations composed of nonresistant bacteria can, unexpectedly, colonize environments where a lethal concentration of the antibiotic kanamycin is present. Colonizing bacteria establish an adaptively resistant population, which remains viable for over 24 h while exposed to the antibiotic. Quantitative analysis of multiple colonization events shows that collectively swimming bacteria need to exceed a critical population density in order to successfully colonize the antibiotic landscape. After colonization, bacteria are not dormant but show both growth and swimming motility under antibiotic stress. Our results highlight the importance of motility and population density in facilitating adaptive resistance, and indicate that adaptive resistance may be a first step to the emergence of genetically encoded resistance in landscapes of antibiotic gradients.

  15. A density-based adaptive quantum mechanical/molecular mechanical method.

    PubMed

    Waller, Mark P; Kumbhar, Sadhana; Yang, Jack

    2014-10-20

    We present a density-based adaptive quantum mechanical/molecular mechanical (DBA-QM/MM) method, whereby molecules can switch layers from the QM to the MM region and vice versa. The adaptive partitioning of the molecular system ensures that the layer assignment can change during the optimization procedure, that is, on the fly. The switch from a QM molecule to a MM molecule is determined if there is an absence of noncovalent interactions to any atom of the QM core region. The presence/absence of noncovalent interactions is determined by analysis of the reduced density gradient. Therefore, the location of the QM/MM boundary is based on physical arguments, and this neatly removes some empiricism inherent in previous adaptive QM/MM partitioning schemes. The DBA-QM/MM method is validated by using a water-in-water setup and an explicitly solvated L-alanyl-L-alanine dipeptide. PMID:24954803

  16. A density-based adaptive quantum mechanical/molecular mechanical method.

    PubMed

    Waller, Mark P; Kumbhar, Sadhana; Yang, Jack

    2014-10-20

    We present a density-based adaptive quantum mechanical/molecular mechanical (DBA-QM/MM) method, whereby molecules can switch layers from the QM to the MM region and vice versa. The adaptive partitioning of the molecular system ensures that the layer assignment can change during the optimization procedure, that is, on the fly. The switch from a QM molecule to a MM molecule is determined if there is an absence of noncovalent interactions to any atom of the QM core region. The presence/absence of noncovalent interactions is determined by analysis of the reduced density gradient. Therefore, the location of the QM/MM boundary is based on physical arguments, and this neatly removes some empiricism inherent in previous adaptive QM/MM partitioning schemes. The DBA-QM/MM method is validated by using a water-in-water setup and an explicitly solvated L-alanyl-L-alanine dipeptide.

  17. Spatial aggregation across ephemeral resource patches in insect communities: an adaptive response to natural enemies?

    PubMed

    Rohlfs, Marko; Hoffmeister, Thomas S

    2004-08-01

    Although an increase in competition is a common cost associated with intraspecific crowding, spatial aggregation across food-limited resource patches is a widespread phenomenon in many insect communities. Because intraspecific aggregation of competing insect larvae across, e.show $132#g. fruits, dung, mushrooms etc., is an important means by which many species can coexist (aggregation model of species coexistence), there is a strong need to explore the mechanisms that contribute to the maintenance of this kind of spatial resource exploitation. In the present study, by using Drosophila-parasitoid interactions as a model system, we tested the hypothesis whether intraspecific aggregation reflects an adaptive response to natural enemies. Most of the studies that have hitherto been carried out on Drosophila-parasitoid interactions used an almost two-dimensional artificial host environment, where host larvae could not escape from parasitoid attacks, and have demonstrated positive density-dependent parasitism risk. To test whether these studies captured the essence of such interactions, we used natural breeding substrates (decaying fruits). In a first step, we analysed the parasitism risk of Drosophila larvae on a three-dimensional substrate in natural fly communities in the field, and found that the risk of parasitism decreased with increasing host larval density (inverse density dependence). In a second step, we analysed the parasitism risk of Drosophila subobscura larvae on three breeding substrate types exposed to the larval parasitoids Asobara tabida and Leptopilina heterotoma. We found direct density-dependent parasitism on decaying sloes, inverse density dependence on plums, and a hump-shaped relationship between fly larval density and parasitism risk on crab apples. On crab apples and plums, fly larvae benefited from a density-dependent refuge against the parasitoids. While the proportion of larvae feeding within the fruit tissues increased with larval density

  18. A Newton method with adaptive finite elements for solving phase-change problems with natural convection

    NASA Astrophysics Data System (ADS)

    Danaila, Ionut; Moglan, Raluca; Hecht, Frédéric; Le Masson, Stéphane

    2014-10-01

    We present a new numerical system using finite elements with mesh adaptivity for the simulation of solid-liquid phase change systems. In the liquid phase, the natural convection flow is simulated by solving the incompressible Navier-Stokes equations with Boussinesq approximation. A variable viscosity model allows the velocity to progressively vanish in the solid phase, through an intermediate mushy region. The phase change is modeled by introducing an implicit enthalpy source term in the heat equation. The final system of equations describing the liquid-solid system by a single domain approach is solved using a Newton iterative algorithm. The space discretization is based on a P2-P1 Taylor-Hood finite elements and mesh adaptivity by metric control is used to accurately track the solid-liquid interface or the density inversion interface for water flows. The numerical method is validated against classical benchmarks that progressively add strong non-linearities in the system of equations: natural convection of air, natural convection of water, melting of a phase-change material and water freezing. Very good agreement with experimental data is obtained for each test case, proving the capability of the method to deal with both melting and solidification problems with convection. The presented numerical method is easy to implement using FreeFem++ software using a syntax close to the mathematical formulation.

  19. Spin-adapted density matrix renormalization group algorithms for quantum chemistry

    NASA Astrophysics Data System (ADS)

    Sharma, Sandeep; Chan, Garnet Kin-Lic

    2012-03-01

    We extend the spin-adapted density matrix renormalization group (DMRG) algorithm of McCulloch and Gulacsi [Europhys. Lett. 57, 852 (2002)], 10.1209/epl/i2002-00393-0 to quantum chemical Hamiltonians. This involves using a quasi-density matrix, to ensure that the renormalized DMRG states are eigenfunctions of hat{S}^2, and the Wigner-Eckart theorem, to reduce overall storage and computational costs. We argue that the spin-adapted DMRG algorithm is most advantageous for low spin states. Consequently, we also implement a singlet-embedding strategy due to Tatsuaki [Phys. Rev. E 61, 3199 (2000)], 10.1103/PhysRevE.61.3199 where we target high spin states as a component of a larger fictitious singlet system. Finally, we present an efficient algorithm to calculate one- and two-body reduced density matrices from the spin-adapted wavefunctions. We evaluate our developments with benchmark calculations on transition metal system active space models. These include the Fe2S2, [Fe2S2(SCH3)4]2-, and Cr2 systems. In the case of Fe2S2, the spin-ladder spacing is on the microHartree scale, and here we show that we can target such very closely spaced states. In [Fe2S2(SCH3)4]2-, we calculate particle and spin correlation functions, to examine the role of sulfur bridging orbitals in the electronic structure. In Cr2 we demonstrate that spin-adaptation with the Wigner-Eckart theorem and using singlet embedding can yield up to an order of magnitude increase in computational efficiency. Overall, these calculations demonstrate the potential of using spin-adaptation to extend the range of DMRG calculations in complex transition metal problems.

  20. Technical Factors Influencing Cone Packing Density Estimates in Adaptive Optics Flood Illuminated Retinal Images

    PubMed Central

    Lombardo, Marco; Serrao, Sebastiano; Lombardo, Giuseppe

    2014-01-01

    Purpose To investigate the influence of various technical factors on the variation of cone packing density estimates in adaptive optics flood illuminated retinal images. Methods Adaptive optics images of the photoreceptor mosaic were obtained in fifteen healthy subjects. The cone density and Voronoi diagrams were assessed in sampling windows of 320×320 µm, 160×160 µm and 64×64 µm at 1.5 degree temporal and superior eccentricity from the preferred locus of fixation (PRL). The technical factors that have been analyzed included the sampling window size, the corrected retinal magnification factor (RMFcorr), the conversion from radial to linear distance from the PRL, the displacement between the PRL and foveal center and the manual checking of cone identification algorithm. Bland-Altman analysis was used to assess the agreement between cone density estimated within the different sampling window conditions. Results The cone density declined with decreasing sampling area and data between areas of different size showed low agreement. A high agreement was found between sampling areas of the same size when comparing density calculated with or without using individual RMFcorr. The agreement between cone density measured at radial and linear distances from the PRL and between data referred to the PRL or the foveal center was moderate. The percentage of Voronoi tiles with hexagonal packing arrangement was comparable between sampling areas of different size. The boundary effect, presence of any retinal vessels, and the manual selection of cones missed by the automated identification algorithm were identified as the factors influencing variation of cone packing arrangements in Voronoi diagrams. Conclusions The sampling window size is the main technical factor that influences variation of cone density. Clear identification of each cone in the image and the use of a large buffer zone are necessary to minimize factors influencing variation of Voronoi diagrams of the cone

  1. Locally adapted social parasite affects density, social structure, and life history of its ant hosts.

    PubMed

    Foitzik, Susanne; Achenbach, Alexandra; Brandt, Miriam

    2009-05-01

    Selection and adaptation are important processes in the coevolution between parasites and their hosts. The slave-making ant Protomognathus americanus, an obligate ant social parasite, has previously been shown to evolve morphological, behavioral, and chemical adaptations in the coevolutionary arms race with its Temnothorax hosts. Yet empirical studies have given variable results on the strength of the selection pressure this parasite exerts on its host populations. In this study, we directly investigated the pressure exerted by P. americanus and the reactions of the main host species, T. longispinosus, in two ant communities by manipulating parasite density in the field over several years. In addition, a cross-fostering design with the exchange of parasites between host populations allowed us to investigate local adaptation of parasite or host. We demonstrate a severe impact of the social parasite on the two host populations in West Virginia and New York, but also variation in host reactions between sites, as expected by the geographic mosaic theory of coevolution. Host density decreased at the West Virginia site with the presence of local slave-makers, whereas at the ecologically favorable New York site, density was unaffected. Nevertheless, social organization, colony size, and investment patterns of these host colonies at this site changed in response to our parasite manipulation. The release of P. americanus colonies led to a reduction in the number of resident queens and workers, an increase in intranest relatedness, and lower productivity, but also a higher investment in reproductives. In West Virginia, colony demography did not change, but raiding activity by New York slave-makers caused different investment patterns of host colonies. In addition, the cross-fostering element revealed local adaptation of the parasite P. americanus: slave-making colonies fared better in their sympatric host population, as they contained more slave-making ant workers and slaves

  2. Accelerating Adaptation of Natural Resource Management to Address Climate Change

    PubMed Central

    Cross, Molly S; McCarthy, Patrick D; Garfin, Gregg; Gori, David; Enquist, Carolyn AF

    2013-01-01

    Abstract Natural resource managers are seeking tools to help them address current and future effects of climate change. We present a model for collaborative planning aimed at identifying ways to adapt management actions to address the effects of climate change in landscapes that cross public and private jurisdictional boundaries. The Southwest Climate Change Initiative (SWCCI) piloted the Adaptation for Conservation Targets (ACT) planning approach at workshops in 4 southwestern U.S. landscapes. This planning approach successfully increased participants’ self-reported capacity to address climate change by providing them with a better understanding of potential effects and guiding the identification of solutions. The workshops fostered cross-jurisdictional and multidisciplinary dialogue on climate change through active participation of scientists and managers in assessing climate change effects, discussing the implications of those effects for determining management goals and activities, and cultivating opportunities for regional coordination on adaptation of management plans. Facilitated application of the ACT framework advanced group discussions beyond assessing effects to devising options to mitigate the effects of climate change on specific species, ecological functions, and ecosystems. Participants addressed uncertainty about future conditions by considering more than one climate-change scenario. They outlined opportunities and identified next steps for implementing several actions, and local partnerships have begun implementing actions and conducting additional planning. Continued investment in adaptation of management plans and actions to address the effects of climate change in the southwestern United States and extension of the approaches used in this project to additional landscapes are needed if biological diversity and ecosystem services are to be maintained in a rapidly changing world. Acelerando la Adaptación del Manejo de Recursos Naturales para

  3. Accelerating Adaptation of Natural Resource Management to Address Climate Change

    PubMed Central

    Cross, Molly S; McCarthy, Patrick D; Garfin, Gregg; Gori, David; Enquist, Carolyn AF

    2013-01-01

    Abstract Natural resource managers are seeking tools to help them address current and future effects of climate change. We present a model for collaborative planning aimed at identifying ways to adapt management actions to address the effects of climate change in landscapes that cross public and private jurisdictional boundaries. The Southwest Climate Change Initiative (SWCCI) piloted the Adaptation for Conservation Targets (ACT) planning approach at workshops in 4 southwestern U.S. landscapes. This planning approach successfully increased participants’ self-reported capacity to address climate change by providing them with a better understanding of potential effects and guiding the identification of solutions. The workshops fostered cross-jurisdictional and multidisciplinary dialogue on climate change through active participation of scientists and managers in assessing climate change effects, discussing the implications of those effects for determining management goals and activities, and cultivating opportunities for regional coordination on adaptation of management plans. Facilitated application of the ACT framework advanced group discussions beyond assessing effects to devising options to mitigate the effects of climate change on specific species, ecological functions, and ecosystems. Participants addressed uncertainty about future conditions by considering more than one climate-change scenario. They outlined opportunities and identified next steps for implementing several actions, and local partnerships have begun implementing actions and conducting additional planning. Continued investment in adaptation of management plans and actions to address the effects of climate change in the southwestern United States and extension of the approaches used in this project to additional landscapes are needed if biological diversity and ecosystem services are to be maintained in a rapidly changing world. Acelerando la Adaptación del Manejo de Recursos Naturales para

  4. Natural diversity and adaptation in plant secondary metabolism.

    PubMed

    Kroymann, Juergen

    2011-06-01

    Technological advances in metabolomics, transcriptomics and genomics have facilitated the detection of genes that contribute to diversification in plant secondary metabolism. Statistical tools from molecular population genetics may help in evaluating whether the corresponding genes or genomic regions carry a signature of selection and answering the question of whether novel compounds are 'adaptive'. Gene duplication fuels diversification in plant secondary metabolism and the evolutionary mechanism for adaptation may follow a path of neofunctionalization subsequent to gene duplication, or gene duplication may occur subsequent to--and resolve--an adaptive conflict present in a single ancestral gene sequence.

  5. Mapping the dimensionality, density and topology of data: the growing adaptive neural gas.

    PubMed

    Cselényi, Zsolt

    2005-05-01

    Self-organized maps are commonly applied for tasks of cluster analysis, vector quantization or interpolation. The artificial neural network model introduced in this paper is a hybrid model of the growing neural gas model introduced by Fritzke (Fritzke, in Advances in Neural Information Processing Systems 7, MIT Press, Cambridge MA, 1995) and the adaptive resolution clustering modification for self-organized maps proposed by Firenze (Firenze et al., in International Conference on Artificial Neural Networks, Springer-Verlag, London, 1994). The hybrid model is capable of mapping the distribution, dimensionality and topology of the input data. It has a local performance measure that enables the network to terminate growing in areas of the input space that is mapped by units reaching a performance goal. Therefore the network can accurately map clusters of data appearing on different scales of density. The capabilities of the algorithm are tested using simulated datasets with similar spatial spread but different local density distributions, and a simulated multivariate MR dataset of an anatomical human brain phantom with mild multiple sclerosis lesions. These tests demonstrate the advantages of the model compared to the growing neural gas algorithm when adaptive mapping of areas with low sample density is desirable. PMID:15848269

  6. Metastability, Adaptability and Memory in Charge Density Waves. I. Resetting Property

    NASA Astrophysics Data System (ADS)

    Ito, Hiroyuki

    1989-06-01

    We give a possible interpretation of the adaptation of the charge density waves (CDW) to the pulse fields, which is observed to be accompanied with the memory of the width of the applied pulses (Ido step memory effect). When the identical pulse fields are repeatedly applied, successive state transitions are induced among metastable states. By the numerical simulations with the use of the Fukuyama-Lee-Rice model, we have found that only the state can be a fixed point in the transitions where the sliding motion under the pulse field satisfies a certain condition. Selecting the adequate state for a fixed point, the system adapts itself to the applied pulse width so that the current response has a common regularity regardless of the pulse width.

  7. An Efficient Adaptive Weighted Switching Median Filter for Removing High Density Impulse Noise

    NASA Astrophysics Data System (ADS)

    Nair, Madhu S.; Ameera Mol, P. M.

    2014-09-01

    Restoration of images corrupted by impulse noise is a very active research area in image processing. In this paper, an Efficient Adaptive Weighted Switching Median filter for restoration of images that are corrupted by high density impulse noise is proposed. The filtering is performed as a two phase process—a detection phase followed by a filtering phase. In the proposed method, noise detection is done by HEIND algorithm proposed by Duan et al. The filtering algorithm is then applied to the pixels which are detected as noisy by the detection algorithm. All uncorrupted pixels in the image are left unchanged. The filtering window size is chosen adaptively depending on the local noise distribution around each corrupted pixels. Noisy pixels are replaced by a weighted median value of uncorrupted pixels in the filtering window. The weight value assigned to each uncorrupted pixels depends on its closeness to the central pixel.

  8. Novel multiresolution mammographic density segmentation using pseudo 3D features and adaptive cluster merging

    NASA Astrophysics Data System (ADS)

    He, Wenda; Juette, Arne; Denton, Erica R. E.; Zwiggelaar, Reyer

    2015-03-01

    Breast cancer is the most frequently diagnosed cancer in women. Early detection, precise identification of women at risk, and application of appropriate disease prevention measures are by far the most effective ways to overcome the disease. Successful mammographic density segmentation is a key aspect in deriving correct tissue composition, ensuring an accurate mammographic risk assessment. However, mammographic densities have not yet been fully incorporated with non-image based risk prediction models, (e.g. the Gail and the Tyrer-Cuzick model), because of unreliable segmentation consistency and accuracy. This paper presents a novel multiresolution mammographic density segmentation, a concept of stack representation is proposed, and 3D texture features were extracted by adapting techniques based on classic 2D first-order statistics. An unsupervised clustering technique was employed to achieve mammographic segmentation, in which two improvements were made; 1) consistent segmentation by incorporating an optimal centroids initialisation step, and 2) significantly reduced the number of missegmentation by using an adaptive cluster merging technique. A set of full field digital mammograms was used in the evaluation. Visual assessment indicated substantial improvement on segmented anatomical structures and tissue specific areas, especially in low mammographic density categories. The developed method demonstrated an ability to improve the quality of mammographic segmentation via clustering, and results indicated an improvement of 26% in segmented image with good quality when compared with the standard clustering approach. This in turn can be found useful in early breast cancer detection, risk-stratified screening, and aiding radiologists in the process of decision making prior to surgery and/or treatment.

  9. Promoting Positive Adaptation in Adult Survivors of Natural Disasters

    ERIC Educational Resources Information Center

    Warchal, Judith R.; Graham, Louise B.

    2011-01-01

    This article integrates the guidelines of American Red Cross and the "Psychological First Aid: Field Operations Guide" (Brymer et al., 2006) with adult development theories to demonstrate the promotion of adaptive functioning in adults after a disaster. Case examples and recommendations for counselors working in disaster situations are included.

  10. Specificity and timescales of cortical adaptation as inferences about natural movie statistics

    PubMed Central

    Snow, Michoel; Coen-Cagli, Ruben; Schwartz, Odelia

    2016-01-01

    Adaptation is a phenomenological umbrella term under which a variety of temporal contextual effects are grouped. Previous models have shown that some aspects of visual adaptation reflect optimal processing of dynamic visual inputs, suggesting that adaptation should be tuned to the properties of natural visual inputs. However, the link between natural dynamic inputs and adaptation is poorly understood. Here, we extend a previously developed Bayesian modeling framework for spatial contextual effects to the temporal domain. The model learns temporal statistical regularities of natural movies and links these statistics to adaptation in primary visual cortex via divisive normalization, a ubiquitous neural computation. In particular, the model divisively normalizes the present visual input by the past visual inputs only to the degree that these are inferred to be statistically dependent. We show that this flexible form of normalization reproduces classical findings on how brief adaptation affects neuronal selectivity. Furthermore, prior knowledge acquired by the Bayesian model from natural movies can be modified by prolonged exposure to novel visual stimuli. We show that this updating can explain classical results on contrast adaptation. We also simulate the recent finding that adaptation maintains population homeostasis, namely, a balanced level of activity across a population of neurons with different orientation preferences. Consistent with previous disparate observations, our work further clarifies the influence of stimulus-specific and neuronal-specific normalization signals in adaptation. PMID:27699416

  11. Ecological mechanisms of evolution by natural selection: causal processes generating density-and-frequency dependent fitness.

    PubMed

    Nakajima, T

    1998-02-21

    The current theory of natural selection explains that adaptive evolution occurs because genotypes with greater survival or reproductive tendencies, due to their particular biological properties, tend to increase in frequency over the lesser ones in a common environment; therefore, the former will eventually replace the latter. In nature, such a selection process most often occurs in a local population which is nested in a community involving local ecological dynamics which are not clearly articulated in the explanatory scheme of the theory. This paper seeks to explicate such an ecological process giving rise to the evolution of a local population with a particular focus on dynamic effects of an increase in the number of invasive, new types on the fate of old ones. Arguments using the ecological-mechanistic model, representing negative interactions among alternative types of organisms, suggest major ecological mechanisms by which the new replace the old; a selective increase in the number of one type leads to a decrease in the equilibrial abundance of a limiting resource, an increase in the density of conspecifics, and/or an increase in the density of predators, which would in turn lower the per capita reproductive rate, or raise the morality rate of another and make it extinct. Thus, replacement due to selection is associated with such dynamic shifts in equilibria occurring in a local community. The analysis of three (a resource, a prey and a predator) and four species (those plus a top predator) models suggests that evolutionary processes cannot be predicted without reference to the web structure of the community, that some fitness components causing a selective increase in a particular type can have, in some cases, nothing to do with factors causing selective decreases in alternatives, and that evolution of some traits can occur without resource competition.

  12. Density of muscle spindles in prosimian shoulder muscles reflects locomotor adaptation.

    PubMed

    Higurashi, Yasuo; Taniguchi, Yuki; Kumakura, Hiroo

    2006-01-01

    We examined the correlation between the density of muscle spindles in shoulder muscles and the locomotor mode in three species of prosimian primates: the slow loris (Nycticebus coucang), Garnett's galago (Otolemur garnettii), and the ring-tailed lemur (Lemur catta). The shoulder muscles (supraspinatus, infraspinatus, teres major, teres minor, and subscapularis) were embedded in celloidin and cut into transverse serial thin sections (40 microm); then, every tenth section was stained using the Azan staining technique. The relative muscle weights and the density of the muscle spindles were determined. The slow loris muscles were heavier and had sparser muscle spindles, as compared to Garnett's galago. These features suggest that the shoulder muscles of the slow loris are more adapted to generating propulsive force and stabilizing the shoulder joint during locomotion and play a less controlling role in forelimb movements. In contrast, Garnett's galago possessed smaller shoulder muscles with denser spindles that are suitable for the control of more rapid locomotor movements. The mean relative weight and the mean spindle density in the shoulder muscles of the ring-tailed lemur were between those of the other primates, suggesting that the spindle density is not simply a consequence of taxonomic status. PMID:17361082

  13. Density of muscle spindles in prosimian shoulder muscles reflects locomotor adaptation.

    PubMed

    Higurashi, Yasuo; Taniguchi, Yuki; Kumakura, Hiroo

    2006-01-01

    We examined the correlation between the density of muscle spindles in shoulder muscles and the locomotor mode in three species of prosimian primates: the slow loris (Nycticebus coucang), Garnett's galago (Otolemur garnettii), and the ring-tailed lemur (Lemur catta). The shoulder muscles (supraspinatus, infraspinatus, teres major, teres minor, and subscapularis) were embedded in celloidin and cut into transverse serial thin sections (40 microm); then, every tenth section was stained using the Azan staining technique. The relative muscle weights and the density of the muscle spindles were determined. The slow loris muscles were heavier and had sparser muscle spindles, as compared to Garnett's galago. These features suggest that the shoulder muscles of the slow loris are more adapted to generating propulsive force and stabilizing the shoulder joint during locomotion and play a less controlling role in forelimb movements. In contrast, Garnett's galago possessed smaller shoulder muscles with denser spindles that are suitable for the control of more rapid locomotor movements. The mean relative weight and the mean spindle density in the shoulder muscles of the ring-tailed lemur were between those of the other primates, suggesting that the spindle density is not simply a consequence of taxonomic status.

  14. Adaptive inference for distinguishing credible from incredible patterns in nature

    USGS Publications Warehouse

    Holling, Crawford S.; Allen, C.R.

    2002-01-01

    Strong inference is a powerful and rapid tool that can be used to identify and explain patterns in molecular biology, cell biology, and physiology. It is effective where causes are single and separable and where discrimination between pairwise alternative hypotheses can be determined experimentally by a simple yes or no answer. But causes in ecological systems are multiple and overlapping and are not entirely separable. Frequently, competing hypotheses cannot be distinguished by a single unambiguous test, but only by a suite of tests of different kinds, that produce a body of evidence to support one line of argument and not others. We call this process "adaptive inference". Instead of pitting each member of a pair of hypotheses against each other, adaptive inference relies on the exuberant invention of multiple, competing hypotheses, after which carefully structured comparative data are used to explore the logical consequences of each. Herein we present an example that demonstrates the attributes of adaptive inference that have developed out of a 30-year study of the resilience of ecosystems.

  15. Communicating for Climate Change Adaptation: Lessons from a Case Study with Nature-Based Tour Operators

    NASA Astrophysics Data System (ADS)

    Timm, K.; Sparrow, E. B.; Pettit, E. C.; Trainor, S. F.; Taylor, K.

    2014-12-01

    Increasing temperatures are projected to have a positive effect on the length of Alaska's tourism season, but the natural attractions that tourism relies on, such as glaciers, wildlife, fish, or other natural resources, may change. In order to continue to derive benefits from these resources, nature-based tour operators may have to adapt to these changes, and communication is an essential, but poorly understood, component of the climate change adaptation process. The goal of this study was to determine how to provide useful climate change information to nature-based tour operators by answering the following questions: 1. What environmental changes do nature-based tour operators perceive? 2. How are nature-based tour operators responding to climate and environmental change? 3. What climate change information do nature-based tour operators need? To answer these questions, twenty-four nature-based tour operators representing 20 different small and medium sized businesses in Juneau, Alaska were interviewed. The results show that many of Juneau's nature-based tour operators are observing, responding to, and in some cases, actively planning for further changes in the environment. The types of responses tended to vary depending on the participants' certainty in climate change and the perceived risks to their organization. Using these two factors, this study proposes a framework to classify climate change responses for the purpose of generating meaningful information and communication processes that promote adaptation and build adaptive capacity. During the course of the study, several other valuable lessons were learned about communicating about adaptation. The results of this study demonstrate that science communication research has an important place in the practice of promoting and fostering climate change adaptation. While the focus of this study was tour operators, the lessons learned may be valuable to other organizations striving to engage unique groups in climate

  16. Density-dependent compensatory growth in brown trout (Salmo trutta) in nature.

    PubMed

    Sundström, L Fredrik; Kaspersson, Rasmus; Näslund, Joacim; Johnsson, Jörgen I

    2013-01-01

    Density-dependence is a major ecological mechanism that is known to limit individual growth. To examine if compensatory growth (unusually rapid growth following a period of imposed slow growth) in nature is density-dependent, one-year-old brown trout (Salmo trutta L.) were first starved in the laboratory, and then released back into their natural stream, either at natural or at experimentally increased population density. The experimental trout were captured three times over a one-year period. We found no differences in growth, within the first month after release (May-June), between the starved fish and the control group (i.e. no evidence of compensation). During the summer however (July-September), the starved fish grew more than the control group (i.e. compensation), and the starved fish released into the stream at a higher density, grew less than those released at a natural density, both in terms of weight and length (i.e. density-dependent compensation). Over the winter (October-April), there were no effects of either starvation or density on weight and length growth. After the winter, starved fish released at either density had caught up with control fish in body size, but recapture rates (proxy for survival) did not indicate any costs of compensation. Our results suggest that compensatory growth in nature can be density-dependent. Thus, this is the first study to demonstrate the presence of ecological restrictions on the compensatory growth response in free-ranging animals.

  17. Variational nature of the frozen density energy in density-based energy decomposition analysis and its application to torsional potentials

    NASA Astrophysics Data System (ADS)

    Wu, Qin

    2014-06-01

    The density-based energy decomposition analysis (DEDA) is the first of its kind to calculate the frozen density energy variationally. Defined with the constrained search formulation of density functional theory, the frozen density energy is optimized in practice using the Wu-Yang (WY) method for constrained minimizations. This variational nature of the frozen density energy, a possible reason behind some novel findings of DEDA, will be fully investigated in this work. In particular, we systematically study the dual basis set dependence in WY: the potential basis set used to expand the Lagrangian multiplier function and the regular orbital basis set. We explain how the convergence progresses differently on these basis sets and how an apparent basis-set independence is achieved. We then explore a new development of DEDA in frozen energy calculations of the ethane molecule, focusing on the internal rotation around the carbon-carbon bond and the energy differences between staggered and eclipsed conformations. We argue that the frozen density energy change at fixed bond lengths and bond angles is purely steric effects. Our results show that the frozen density energy profile follows closely that of the total energy when the dihedral angle is the only varying geometry parameter. We can further analyze the contributions from electrostatics and Pauli repulsions. These results lead to a meaningful DEDA of the torsional potential in ethane.

  18. Changing Minds with the Story of Adaptation: Strategies for Teaching Young Children about Natural Selection

    ERIC Educational Resources Information Center

    Emmons, Natalie; Smith, Hayley; Kelemen, Deborah

    2016-01-01

    Research Findings: Educational guidelines recommend a delayed, piecemeal approach to instruction on adaptation by natural selection. This approach is questionable given suggestions that older students' pervasive misunderstandings about adaptation are rooted in cognitive biases that develop early. In response to this, Kelemen et al. (2014) recently…

  19. Aftereffects for Face Attributes with Different Natural Variability: Children Are More Adaptable than Adolescents

    ERIC Educational Resources Information Center

    Hills, Peter J.; Holland, Andrew M.; Lewis, Michael B.

    2010-01-01

    Adults can be adapted to a particular facial distortion in which both eyes are shifted symmetrically (Robbins, R., McKone, E., & Edwards, M. (2007). "Aftereffects for face attributes with different natural variability: Adapter position effects and neural models." "Journal of Experimental Psychology: Human Perception and Performance, 33," 570-592),…

  20. Constraints on the evolution of adaptive plasticity: costs of plasticity to density are expressed in segregating progenies.

    PubMed

    Dechaine, Jennifer M; Johnston, Jill A; Brock, Marcus T; Weinig, Cynthia

    2007-01-01

    Phenotypic plasticity, the ability of a genotype to express different phenotypes across environments, is an adaptive strategy expected to evolve in heterogeneous environments. One widely held hypothesis is that the evolutionary benefits of plasticity are reduced by its costs, but when compared with the number of traits tested, the evidence for costs is limited. Selection gradients were calculated for traits and trait plasticities to test for costs of plasticity to density in a field study using recombinant inbred lines (RILs) of Brassica rapa. Significant costs of putatively adaptive plasticity were found in three out of six measured traits. For one trait, petiole length, a cost of plasticity was detected in both environments tested; such global costs are expected to more strongly constrain the evolution of plasticity than local costs expressed in a single environment. These results, in combination with evidence from studies in segregating progenies of Arabidopsis thaliana, suggest that the potential for genetic costs of plasticity exists in natural populations. Detection of costs in previous studies may have been limited because historical selection has purged genotypes with costly plasticity, and experimental conditions often lack environmental stresses.

  1. On the adaptive nature of annexin-A1.

    PubMed

    D'Acquisto, Fulvio

    2009-08-01

    Studies over the last decade have provided us with a wealth of evidence showing that Annexin-1 is a homeostatic endogenous anti-inflammatory mediator of the innate immune system. However, as in Robert Louis Stevenson's novel 'The Strange Case of Dr Jekyll and Mr Hyde', recent investigations on the role of this protein in the adaptive immune response have revealed a previous unknown 'dark side' as positive modulator of T cell activation. This review will be focusing on these recent findings providing further evidences for the promising therapeutic potential of drugs targeting Annexin-1. PMID:19481503

  2. Herbaceous plant species invading natural areas tend to have stronger adaptive root foraging than other naturalized species

    PubMed Central

    Keser, Lidewij H.; Visser, Eric J. W.; Dawson, Wayne; Song, Yao-Bin; Yu, Fei-Hai; Fischer, Markus; Dong, Ming; van Kleunen, Mark

    2015-01-01

    Although plastic root-foraging responses are thought to be adaptive, as they may optimize nutrient capture of plants, this has rarely been tested. We investigated whether nutrient-foraging responses are adaptive, and whether they pre-adapt alien species to become natural-area invaders. We grew 12 pairs of congeneric species (i.e., 24 species) native to Europe in heterogeneous and homogeneous nutrient environments, and compared their foraging responses and performance. One species in each pair is a USA natural-area invader, and the other one is not. Within species, individuals with strong foraging responses, measured as plasticity in root diameter and specific root length, had a higher biomass. Among species, the ones with strong foraging responses, measured as plasticity in root length and root biomass, had a higher biomass. Our results therefore suggest that root foraging is an adaptive trait. Invasive species showed significantly stronger root-foraging responses than non-invasive species when measured as root diameter. Biomass accumulation was decreased in the heterogeneous vs. the homogeneous environment. In aboveground, but not belowground and total biomass, this decrease was smaller in invasive than in non-invasive species. Our results show that strong plastic root-foraging responses are adaptive, and suggest that it might aid in pre-adapting species to becoming natural-area invaders. PMID:25964790

  3. Herbaceous plant species invading natural areas tend to have stronger adaptive root foraging than other naturalized species.

    PubMed

    Keser, Lidewij H; Visser, Eric J W; Dawson, Wayne; Song, Yao-Bin; Yu, Fei-Hai; Fischer, Markus; Dong, Ming; van Kleunen, Mark

    2015-01-01

    Although plastic root-foraging responses are thought to be adaptive, as they may optimize nutrient capture of plants, this has rarely been tested. We investigated whether nutrient-foraging responses are adaptive, and whether they pre-adapt alien species to become natural-area invaders. We grew 12 pairs of congeneric species (i.e., 24 species) native to Europe in heterogeneous and homogeneous nutrient environments, and compared their foraging responses and performance. One species in each pair is a USA natural-area invader, and the other one is not. Within species, individuals with strong foraging responses, measured as plasticity in root diameter and specific root length, had a higher biomass. Among species, the ones with strong foraging responses, measured as plasticity in root length and root biomass, had a higher biomass. Our results therefore suggest that root foraging is an adaptive trait. Invasive species showed significantly stronger root-foraging responses than non-invasive species when measured as root diameter. Biomass accumulation was decreased in the heterogeneous vs. the homogeneous environment. In aboveground, but not belowground and total biomass, this decrease was smaller in invasive than in non-invasive species. Our results show that strong plastic root-foraging responses are adaptive, and suggest that it might aid in pre-adapting species to becoming natural-area invaders.

  4. Some guidelines for helping natural resources adapt to climate change

    USGS Publications Warehouse

    Baron, Jill S.; Julius, Susan Herrod; West, Jordan M.; Joyce, Linda A.; Blate, Geoffrey; Peterson, Charles H.; Palmer, Margaret; Keller, Brian D.; Kareiva, Peter; Scott, J. Michael; Griffith, Brad

    2008-01-01

    The changes occurring in mountain regions are an epitome of climate change. The dramatic shrinkage of major glaciers over the past century – and especially in the last 30 years – is one of several iconic images that have come to symbolize climate change. Climate creates the context for ecosystems, and climate variables strongly influence the structure, composition, and processes that characterize distinct ecosystems. Climate change, therefore, is having direct and indirect effects on species attributes, ecological interactions, and ecosystem processes. Because changes in the climate system will continue regardless of emissions mitigation, management strategies to enhance the resilience of ecosystems will become increasingly important. It is essential that management responses to climate change proceed using the best available science despite uncertainties associated with the future path of climate change, the response of ecosystems to climate effects, and the effects of management. Given these uncertainties, management adaptation will require flexibility to reflect our growing understanding of climate change impacts and management effectiveness.

  5. Alkyl ammonium cation stabilized biocidal polyiodides with adaptable high density and low pressure.

    PubMed

    He, Chunlin; Parrish, Damon A; Shreeve, Jean'ne M

    2014-05-26

    The effective application of biocidal species requires building the active moiety into a molecular back bone that can be delivered and decomposed on demand under conditions of low pressure and prolonged high-temperature detonation. The goal is to destroy storage facilities and their contents while utilizing the biocidal products arising from the released energy to destroy any remaining harmful airborne agents. Decomposition of carefully selected iodine-rich compounds can produce large amounts of the very active biocides, hydroiodic acid (HI) and iodine (I2). Polyiodide anions, namely, I3(-), I5(-), which are excellent sources of such biocides, can be stabilized through interactions with large, symmetric cations, such as alkyl ammonium salts. We have designed and synthesized suitable compounds of adaptable high density up to 3.33 g cm(-3) that are low-pressure polyiodides with various alkyl ammonium cations, deliverable iodine contents of which range between 58.0-90.9%.

  6. Density Relaxation in Time-Dependent Density Functional Theory: Combining Relaxed Density Natural Orbitals and Multireference Perturbation Theories for an Improved Description of Excited States.

    PubMed

    Ronca, Enrico; Angeli, Celestino; Belpassi, Leonardo; De Angelis, Filippo; Tarantelli, Francesco; Pastore, Mariachiara

    2014-09-01

    Making use of the recently developed excited state charge displacement analysis [E. Ronca et al., J. Chem. Phys. 140, 054110 (2014)], suited to quantitatively characterize the charge fluxes coming along an electronic excitation, we investigate the role of the density relaxation effects in the overall description of electronically excited states of different nature, namely, valence, ionic, and charge transfer (CT), considering a large set of prototypical small and medium-sized molecular systems. By comparing the response densities provided by time-dependent density functional theory (TDDFT) and the corresponding relaxed densities obtained by applying the Z-vector postlinear-response approach [N. C. Handy and H. F. Schaefer, J. Chem. Phys. 81, 5031 (1984)] with those obtained by highly correlated state-of-the-art wave function calculations, we show that the inclusion of the relaxation effects is imperative to get an accurate description of the considered excited states. We also examine what happens at the quality of the response function when an increasing amount of Hartree-Fock (HF) exchange is included in the functional, showing that the usually improved excitation energies in the case of CT states are not always the consequence of an improved description of their overall properties. Remarkably, we find that the relaxation of the response densities is always able to reproduce, independently of the extent of HF exchange in the functional, the benchmark wave function densities. Finally, we propose a novel and computationally convenient strategy, based on the use of the natural orbitals derived from the relaxed TDDFT density to build zero-order wave function for multireference perturbation theory calculations. For a significant set of different excited states, the proposed approach provided accurate excitation energies, comparable to those obtained by computationally demanding ab initio calculations.

  7. Higher-order adaptive finite-element methods for Kohn–Sham density functional theory

    SciTech Connect

    Motamarri, P.; Nowak, M.R.; Leiter, K.; Knap, J.; Gavini, V.

    2013-11-15

    We present an efficient computational approach to perform real-space electronic structure calculations using an adaptive higher-order finite-element discretization of Kohn–Sham density-functional theory (DFT). To this end, we develop an a priori mesh-adaption technique to construct a close to optimal finite-element discretization of the problem. We further propose an efficient solution strategy for solving the discrete eigenvalue problem by using spectral finite-elements in conjunction with Gauss–Lobatto quadrature, and a Chebyshev acceleration technique for computing the occupied eigenspace. The proposed approach has been observed to provide a staggering 100–200-fold computational advantage over the solution of a generalized eigenvalue problem. Using the proposed solution procedure, we investigate the computational efficiency afforded by higher-order finite-element discretizations of the Kohn–Sham DFT problem. Our studies suggest that staggering computational savings—of the order of 1000-fold—relative to linear finite-elements can be realized, for both all-electron and local pseudopotential calculations, by using higher-order finite-element discretizations. On all the benchmark systems studied, we observe diminishing returns in computational savings beyond the sixth-order for accuracies commensurate with chemical accuracy, suggesting that the hexic spectral-element may be an optimal choice for the finite-element discretization of the Kohn–Sham DFT problem. A comparative study of the computational efficiency of the proposed higher-order finite-element discretizations suggests that the performance of finite-element basis is competing with the plane-wave discretization for non-periodic local pseudopotential calculations, and compares to the Gaussian basis for all-electron calculations to within an order of magnitude. Further, we demonstrate the capability of the proposed approach to compute the electronic structure of a metallic system containing 1688

  8. Stress response in Pectobacterium atrosepticum SCRI1043 under starvation conditions: adaptive reactions at a low population density.

    PubMed

    Petrova, Olga; Gorshkov, Vladimir; Daminova, Amina; Ageeva, Marina; Moleleki, Lucy N; Gogolev, Yuri

    2014-01-01

    The adaptive reactions of plant pathogenic bacterium Pectobacterium atrosepticum SCRI1043 under starvation conditions were studied. The main emphasis was given to the peculiarities of stress responses depending on the bacterial population densities. When bacteria were subjected to starvation at high population densities (10(7)-10(9) CFU ml(-1)), their adaptive reactions conformed to the conventional conception of bacterial adaptation related to autolysis of part of the population, specific modification of cell ultrastructure, activation of expression of stress responsive genes and acquiring cross protection against other stress factors. In contrast, at low initial population densities (10(3)-10(5) CFU ml(-1)), as described in our recent work, the cell density increased due to multiple cell division despite the absence of exogenous growth substrate. Here we present data that demonstrate that such unconventional behavior is part of a stress response, which provides increased stress tolerance while retaining virulence. Cell morphology and gene expression in high- and low-cell-density starving Pba cultures were compared. Our investigation demonstrates the existence of alternative adaptive strategies enabling pathogenic bacteria to cope with a variety of stress factors, including starvation, especially necessary when residing outside of their host.

  9. A Time-Critical Adaptive Approach for Visualizing Natural Scenes on Different Devices

    PubMed Central

    Dong, Tianyang; Liu, Siyuan; Xia, Jiajia; Fan, Jing; Zhang, Ling

    2015-01-01

    To automatically adapt to various hardware and software environments on different devices, this paper presents a time-critical adaptive approach for visualizing natural scenes. In this method, a simplified expression of a tree model is used for different devices. The best rendering scheme is intelligently selected to generate a particular scene by estimating the rendering time of trees based on their visual importance. Therefore, this approach can ensure the reality of natural scenes while maintaining a constant frame rate for their interactive display. To verify its effectiveness and flexibility, this method is applied in different devices, such as a desktop computer, laptop, iPad and smart phone. Applications show that the method proposed in this paper can not only adapt to devices with different computing abilities and system resources very well but can also achieve rather good visual realism and a constant frame rate for natural scenes. PMID:25723177

  10. Adaptive release of natural enemies in a pest-natural enemy system with pesticide resistance.

    PubMed

    Liang, Juhua; Tang, Sanyi; Cheke, Robert A; Wu, Jianhong

    2013-11-01

    Integrated pest management options such as combining chemical and biological control are optimal for combating pesticide resistance, but pose questions if a pest is to be controlled to extinction. These questions include (i) what is the relationship between the evolution of pesticide resistance and the number of natural enemies released? (ii) How does the cumulative number of natural enemies dying affect the number of natural enemies to be released? To address these questions, we developed two novel pest-natural enemy interaction models incorporating the evolution of pesticide resistance. We investigated the number of natural enemies to be released when threshold conditions for the extinction of the pest population in two different control tactics are reached. Our results show that the number of natural enemies to be released to ensure pest eradication in the presence of increasing pesticide resistance can be determined analytically and depends on the cumulative number of dead natural enemies before the next scheduled release time.

  11. Density dynamics of diverse Spiroplasma strains naturally infecting different species of Drosophila

    PubMed Central

    Haselkorn, Tamara S; Watts, Thomas D; Markow, Therese A

    2013-01-01

    Facultative heritable bacterial endosymbionts can have dramatic effects on their hosts, ranging from mutualistic to parasitic. Within-host bacterial endosymbiont density plays a critical role in maintenance of a symbiotic relationship, as it can affect levels of vertical transmission and expression of phenotypic effects, both of which influence the infection prevalence in host populations. Species of genus Drosophila are infected with Spiroplasma, whose characterized phenotypic effects range from that of a male-killing reproductive parasite to beneficial defensive endosymbiont. For many strains of Spiroplasma infecting at least 17 species of Drosophila, however, the phenotypic effects are obscure. The infection prevalence of these Spiroplasma vary within and among Drosophila species, and little is known about the within-host density dynamics of these diverse strains. To characterize the patterns of Spiroplasma density variation among Drosophila we used quantitative PCR to assess bacterial titer at various life stages of three species of Drosophila naturally-infected with two different types of Spiroplasma. For naturally infected Drosophila species we found that non-male-killing infections had consistently lower densities than the male-killing infection. The patterns of Spiroplasma titer change during aging varied among Drosophila species infected with different Spiroplasma strains. Bacterial density varied within and among populations of Drosophila, with individuals from the population with the highest prevalence of infection having the highest density. This density variation underscores the complex interaction of Spiroplasma strain and host genetic background in determining endosymbiont density. PMID:23846301

  12. Action adaptation during natural unfolding social scenes influences action recognition and inferences made about actor beliefs.

    PubMed

    Keefe, Bruce D; Wincenciak, Joanna; Jellema, Tjeerd; Ward, James W; Barraclough, Nick E

    2016-07-01

    When observing another individual's actions, we can both recognize their actions and infer their beliefs concerning the physical and social environment. The extent to which visual adaptation influences action recognition and conceptually later stages of processing involved in deriving the belief state of the actor remains unknown. To explore this we used virtual reality (life-size photorealistic actors presented in stereoscopic three dimensions) to see how visual adaptation influences the perception of individuals in naturally unfolding social scenes at increasingly higher levels of action understanding. We presented scenes in which one actor picked up boxes (of varying number and weight), after which a second actor picked up a single box. Adaptation to the first actor's behavior systematically changed perception of the second actor. Aftereffects increased with the duration of the first actor's behavior, declined exponentially over time, and were independent of view direction. Inferences about the second actor's expectation of box weight were also distorted by adaptation to the first actor. Distortions in action recognition and actor expectations did not, however, extend across different actions, indicating that adaptation is not acting at an action-independent abstract level but rather at an action-dependent level. We conclude that although adaptation influences more complex inferences about belief states of individuals, this is likely to be a result of adaptation at an earlier action recognition stage rather than adaptation operating at a higher, more abstract level in mentalizing or simulation systems. PMID:27472496

  13. Insights on Coral Adaptation from Polyp and Colony Morphology, Skeletal Density Banding and Carbonate Depositional Facies

    NASA Astrophysics Data System (ADS)

    Oehlert, A. M.; Hill, C. A.; Piggot, A. M.; Fouke, B. W.

    2008-12-01

    As one of the core reservoirs of primary production in the world's oceans, tropical coral reefs support a complex ecosystem that directly impacts over ninety percent of marine organisms at some point in their life cycle. Corals themselves are highly complex organisms and exhibit a range of growth forms that range from branching to massive, foliaceous, columnar, encrusting, free living and laminar coralla. Fierce competition over scarce resources available to each individual coral species creates niche specialization. Throughout the Phanerozic geological record, this has driven speciation events and created distinct skeletal growth morphologies that have differential abilities in feeding strategy. In turn, this has presumably led to the development of niche specialization that can be quantitatively measured through hierarchical morphological differences from the micrometer to the meter scale. Porter (1976) observed significant differences in skeletal morphology between Caribbean coral species that reflects an adaptive geometry based on feeding strategy. Within the Montastraea species complex there are four major morphologies; columnar, bouldering, irregular mounding, and skirted. Each morphotype can be found forming high abundance along the bathymetric gradient of coral reefs that grow along the leeward coast of Curacao, Netherlands Antilles. We have undertaken a study to determine the relative relationships amongst coral morphology, skeletal density and feeding strategy by comparing the morphometric measurements of individual polyps as well as the entire colony along spatial and bathymetric gradients. Polyp diameter, mouth size, interpolyp area, and interpolyp distance were measured from high-resolution images taken on a stereoscope, and evaluated with AxioVision image analysis software. These high-resolution optical analyses have also revealed new observations regarding folded tissue structures of the outer margin of polyps in the Montastrea complex. Skeletal

  14. Adaptive landscapes and density-dependent selection in declining salmonid populations: going beyond numerical responses to human disturbance

    PubMed Central

    Einum, Sigurd; Robertsen, Grethe; Fleming, Ian A

    2008-01-01

    Theory suggests an important role for population density in shaping adaptive landscapes through density-dependent selection. Here, we identify five methodological approaches for studying such selection, review the existing empirical evidence for it, and ask whether current declines in abundance can be expected to trigger evolutionary responses in salmonid fishes. Across taxa we find substantial amounts of evidence for population density influencing the location of adaptive peaks for a range of traits, and, in the presence of frequency dependence, changing the shape of selection (stabilizing versus disruptive). For salmonids, biological and theoretical considerations suggest that the optimal value of a number of traits associated with juvenile competitive ability (e.g. egg size, timing of emergence from nests, dominance ability), may depend on population density. For adults, more direct experimental and comparative evidence suggest that secondary sexual traits can be subject to density-dependent selection. There is also evidence that density affects the frequency-dependent selection likely responsible for the expression of alternative male reproductive phenotypes in salmon. Less is known however about the role of density in maintaining genetic variation among juveniles. Further efforts are required to elucidate the indirect evolutionary effects of declining population abundances, both in salmonids and in other anthropogenically challenged organisms. PMID:25567629

  15. Does density influence relative growth performance of farm, wild and F1 hybrid Atlantic salmon in semi-natural and hatchery common garden conditions?

    PubMed

    Harvey, Alison C; Juleff, Gareth; Carvalho, Gary R; Taylor, Martin I; Solberg, Monica F; Creer, Simon; Dyrhovden, Lise; Matre, Ivar-Helge; Glover, Kevin A

    2016-07-01

    The conditions encountered by Atlantic salmon, Salmo salar L., in aquaculture are markedly different from the natural environment. Typically, farmed salmon experience much higher densities than wild individuals, and may therefore have adapted to living in high densities. Previous studies have demonstrated that farmed salmon typically outgrow wild salmon by large ratios in the hatchery, but these differences are much less pronounced in the wild. Such divergence in growth may be explained partly by the offspring of wild salmon experiencing higher stress and thus lower growth when compared under high-density farming conditions. Here, growth of farmed, wild and F1 hybrid salmon was studied at contrasting densities within a hatchery and semi-natural environment. Farmed salmon significantly outgrew hybrid and wild salmon in all treatments. Importantly, however, the reaction norms were similar across treatments for all groups. Thus, this study was unable to find evidence that the offspring of farmed salmon have adapted more readily to higher fish densities than wild salmon as a result of domestication. It is suggested that the substantially higher growth rate of farmed salmon observed in the hatchery compared with wild individuals may not solely be caused by differences in their ability to grow in high-density hatchery scenarios. PMID:27493772

  16. Does density influence relative growth performance of farm, wild and F1 hybrid Atlantic salmon in semi-natural and hatchery common garden conditions?

    PubMed

    Harvey, Alison C; Juleff, Gareth; Carvalho, Gary R; Taylor, Martin I; Solberg, Monica F; Creer, Simon; Dyrhovden, Lise; Matre, Ivar-Helge; Glover, Kevin A

    2016-07-01

    The conditions encountered by Atlantic salmon, Salmo salar L., in aquaculture are markedly different from the natural environment. Typically, farmed salmon experience much higher densities than wild individuals, and may therefore have adapted to living in high densities. Previous studies have demonstrated that farmed salmon typically outgrow wild salmon by large ratios in the hatchery, but these differences are much less pronounced in the wild. Such divergence in growth may be explained partly by the offspring of wild salmon experiencing higher stress and thus lower growth when compared under high-density farming conditions. Here, growth of farmed, wild and F1 hybrid salmon was studied at contrasting densities within a hatchery and semi-natural environment. Farmed salmon significantly outgrew hybrid and wild salmon in all treatments. Importantly, however, the reaction norms were similar across treatments for all groups. Thus, this study was unable to find evidence that the offspring of farmed salmon have adapted more readily to higher fish densities than wild salmon as a result of domestication. It is suggested that the substantially higher growth rate of farmed salmon observed in the hatchery compared with wild individuals may not solely be caused by differences in their ability to grow in high-density hatchery scenarios.

  17. Does density influence relative growth performance of farm, wild and F1 hybrid Atlantic salmon in semi-natural and hatchery common garden conditions?

    PubMed Central

    Juleff, Gareth; Carvalho, Gary R.; Taylor, Martin I.; Creer, Simon; Dyrhovden, Lise; Matre, Ivar-Helge; Glover, Kevin A.

    2016-01-01

    The conditions encountered by Atlantic salmon, Salmo salar L., in aquaculture are markedly different from the natural environment. Typically, farmed salmon experience much higher densities than wild individuals, and may therefore have adapted to living in high densities. Previous studies have demonstrated that farmed salmon typically outgrow wild salmon by large ratios in the hatchery, but these differences are much less pronounced in the wild. Such divergence in growth may be explained partly by the offspring of wild salmon experiencing higher stress and thus lower growth when compared under high-density farming conditions. Here, growth of farmed, wild and F1 hybrid salmon was studied at contrasting densities within a hatchery and semi-natural environment. Farmed salmon significantly outgrew hybrid and wild salmon in all treatments. Importantly, however, the reaction norms were similar across treatments for all groups. Thus, this study was unable to find evidence that the offspring of farmed salmon have adapted more readily to higher fish densities than wild salmon as a result of domestication. It is suggested that the substantially higher growth rate of farmed salmon observed in the hatchery compared with wild individuals may not solely be caused by differences in their ability to grow in high-density hatchery scenarios. PMID:27493772

  18. Assessment of Different Sampling Methods for Measuring and Representing Macular Cone Density Using Flood-Illuminated Adaptive Optics

    PubMed Central

    Feng, Shu; Gale, Michael J.; Fay, Jonathan D.; Faridi, Ambar; Titus, Hope E.; Garg, Anupam K.; Michaels, Keith V.; Erker, Laura R.; Peters, Dawn; Smith, Travis B.; Pennesi, Mark E.

    2015-01-01

    Purpose To describe a standardized flood-illuminated adaptive optics (AO) imaging protocol suitable for the clinical setting and to assess sampling methods for measuring cone density. Methods Cone density was calculated following three measurement protocols: 50 × 50-μm sampling window values every 0.5° along the horizontal and vertical meridians (fixed-interval method), the mean density of expanding 0.5°-wide arcuate areas in the nasal, temporal, superior, and inferior quadrants (arcuate mean method), and the peak cone density of a 50 × 50-μm sampling window within expanding arcuate areas near the meridian (peak density method). Repeated imaging was performed in nine subjects to determine intersession repeatability of cone density. Results Cone density montages could be created for 67 of the 74 subjects. Image quality was determined to be adequate for automated cone counting for 35 (52%) of the 67 subjects. We found that cone density varied with different sampling methods and regions tested. In the nasal and temporal quadrants, peak density most closely resembled histological data, whereas the arcuate mean and fixed-interval methods tended to underestimate the density compared with histological data. However, in the inferior and superior quadrants, arcuate mean and fixed-interval methods most closely matched histological data, whereas the peak density method overestimated cone density compared with histological data. Intersession repeatability testing showed that repeatability was greatest when sampling by arcuate mean and lowest when sampling by fixed interval. Conclusions We show that different methods of sampling can significantly affect cone density measurements. Therefore, care must be taken when interpreting cone density results, even in a normal population. PMID:26325414

  19. The Nature and Control of Postural Adaptations of Boys with and without Developmental Coordination Disorder

    ERIC Educational Resources Information Center

    Przysucha, Eryk P.; Taylor, M. Jane; Weber, Douglas

    2008-01-01

    This study compared the nature of postural adaptations and control tendencies, between 7 (n = 9) and 11-year-old boys (n = 10) with Developmental Coordination Disorder (DCD) and age-matched, younger (n = 10) and older (n = 9) peers in a leaning task. Examination of anterior-posterior, medio-lateral, maximum and mean area of sway, and path length…

  20. Plants adapted to warmer climate do not outperform regional plants during a natural heat wave.

    PubMed

    Bucharova, Anna; Durka, Walter; Hermann, Julia-Maria; Hölzel, Norbert; Michalski, Stefan; Kollmann, Johannes; Bossdorf, Oliver

    2016-06-01

    With ongoing climate change, many plant species may not be able to adapt rapidly enough, and some conservation experts are therefore considering to translocate warm-adapted ecotypes to mitigate effects of climate warming. Although this strategy, called assisted migration, is intuitively plausible, most of the support comes from models, whereas experimental evidence is so far scarce. Here we present data on multiple ecotypes of six grassland species, which we grew in four common gardens in Germany during a natural heat wave, with temperatures 1.4-2.0°C higher than the long-term means. In each garden we compared the performance of regional ecotypes with plants from a locality with long-term summer temperatures similar to what the plants experienced during the summer heat wave. We found no difference in performance between regional and warm-adapted plants in four of the six species. In two species, regional ecotypes even outperformed warm-adapted plants, despite elevated temperatures, which suggests that translocating warm-adapted ecotypes may not only lack the desired effect of increased performance but may even have negative consequences. Even if adaptation to climate plays a role, other factors involved in local adaptation, such as biotic interactions, may override it. Based on our results, we cannot advocate assisted migration as a universal tool to enhance the performance of local plant populations and communities during climate change. PMID:27516871

  1. Can the experimental evolution programme help us elucidate the genetic basis of adaptation in nature?

    PubMed

    Bailey, Susan F; Bataillon, Thomas

    2016-01-01

    There have been a variety of approaches taken to try to characterize and identify the genetic basis of adaptation in nature, spanning theoretical models, experimental evolution studies and direct tests of natural populations. Theoretical models can provide formalized and detailed hypotheses regarding evolutionary processes and patterns, from which experimental evolution studies can then provide important proofs of concepts and characterize what is biologically reasonable. Genetic and genomic data from natural populations then allow for the identification of the particular factors that have and continue to play an important role in shaping adaptive evolution in the natural world. Further to this, experimental evolution studies allow for tests of theories that may be difficult or impossible to test in natural populations for logistical and methodological reasons and can even generate new insights, suggesting further refinement of existing theories. However, as experimental evolution studies often take place in a very particular set of controlled conditions--that is simple environments, a small range of usually asexual species, relatively short timescales--the question remains as to how applicable these experimental results are to natural populations. In this review, we discuss important insights coming from experimental evolution, focusing on four key topics tied to the evolutionary genetics of adaptation, and within those topics, we discuss the extent to which the experimental work compliments and informs natural population studies. We finish by making suggestions for future work in particular a need for natural population genomic time series data, as well as the necessity for studies that combine both experimental evolution and natural population approaches.

  2. New applications for Coriolis flow and density measurement in the natural gas industry

    SciTech Connect

    Valentine, J.; Keilty, M.

    1995-11-01

    Simultaneous, highly accurate measurement of mass, density and temperature makes the Coriolis instrumentation ideal technology for a wide variety of natural gas applications. This paper describes the technology, discusses the benefits of using Coriolis instrumentation, and describes several applications related to the oil and gas production industries utilizing the Coriolis meter.

  3. Patch size and isolation predict plant species density in a naturally fragmented forest.

    PubMed

    Munguía-Rosas, Miguel A; Montiel, Salvador

    2014-01-01

    Studies of the effects of patch size and isolation on plant species density have yielded contrasting results. However, much of the available evidence comes from relatively recent anthropogenic forest fragments which have not reached equilibrium between extinction and immigration. This is a critical issue because the theory clearly states that only when equilibrium has been reached can the number of species be accurately predicted by habitat size and isolation. Therefore, species density could be better predicted by patch size and isolation in an ecosystem that has been fragmented for a very long time. We tested whether patch area, isolation and other spatial variables explain variation among forest patches in plant species density in an ecosystem where the forest has been naturally fragmented for long periods of time on a geological scale. Our main predictions were that plant species density will be positively correlated with patch size, and negatively correlated with isolation (distance to the nearest patch, connectivity, and distance to the continuous forest). We surveyed the vascular flora (except lianas and epiphytes) of 19 forest patches using five belt transects (50×4 m each) per patch (area sampled per patch = 0.1 ha). As predicted, plant species density was positively associated (logarithmically) with patch size and negatively associated (linearly) with patch isolation (distance to the nearest patch). Other spatial variables such as patch elevation and perimeter, did not explain among-patch variability in plant species density. The power of patch area and isolation as predictors of plant species density was moderate (together they explain 43% of the variation), however, a larger sample size may improve the explanatory power of these variables. Patch size and isolation may be suitable predictors of long-term plant species density in terrestrial ecosystems that are naturally and anthropogenically fragmented.

  4. Patch Size and Isolation Predict Plant Species Density in a Naturally Fragmented Forest

    PubMed Central

    Munguía-Rosas, Miguel A.; Montiel, Salvador

    2014-01-01

    Studies of the effects of patch size and isolation on plant species density have yielded contrasting results. However, much of the available evidence comes from relatively recent anthropogenic forest fragments which have not reached equilibrium between extinction and immigration. This is a critical issue because the theory clearly states that only when equilibrium has been reached can the number of species be accurately predicted by habitat size and isolation. Therefore, species density could be better predicted by patch size and isolation in an ecosystem that has been fragmented for a very long time. We tested whether patch area, isolation and other spatial variables explain variation among forest patches in plant species density in an ecosystem where the forest has been naturally fragmented for long periods of time on a geological scale. Our main predictions were that plant species density will be positively correlated with patch size, and negatively correlated with isolation (distance to the nearest patch, connectivity, and distance to the continuous forest). We surveyed the vascular flora (except lianas and epiphytes) of 19 forest patches using five belt transects (50×4 m each) per patch (area sampled per patch = 0.1 ha). As predicted, plant species density was positively associated (logarithmically) with patch size and negatively associated (linearly) with patch isolation (distance to the nearest patch). Other spatial variables such as patch elevation and perimeter, did not explain among-patch variability in plant species density. The power of patch area and isolation as predictors of plant species density was moderate (together they explain 43% of the variation), however, a larger sample size may improve the explanatory power of these variables. Patch size and isolation may be suitable predictors of long-term plant species density in terrestrial ecosystems that are naturally and anthropogenically fragmented. PMID:25347818

  5. The interaction of sexually and naturally selected traits in the adaptive radiations of cichlid fishes.

    PubMed

    Salzburger, Walter

    2009-01-01

    The question of how genetic variation translates into organismal diversity has puzzled biologists for decades. Despite recent advances in evolutionary and developmental genetics, the mechanisms that underlie adaptation, diversification and evolutionary innovation remain largely unknown. The exceptionally diverse species flocks of cichlid fishes are textbook examples of adaptive radiation and explosive speciation and emerge as powerful model systems to study the genetic basis of animal diversification. East Africa's hundreds of endemic cichlid species are akin to a natural mutagenesis screen and differ greatly not only in ecologically relevant (hence naturally selected) characters such as mouth morphology and body shape, but also in sexually selected traits such as coloration. One of the most fascinating aspects of cichlid evolution is the frequent occurrence of evolutionary parallelisms, which has led to the question whether selection alone is sufficient to produce these parallel morphologies, or whether a developmental or genetic bias has influenced the direction of diversification. Here, I review fitness-relevant traits that could be responsible for the cichlids' evolutionary success and assess whether these were shaped by sexual or natural selection. I then focus on the interaction and the relative importance of sexual vs. natural selection in cichlid evolution. Finally, I discuss what is currently known about the genes underlying the morphogenesis of adaptively relevant traits and highlight the importance of the forthcoming cichlid genomes in the quest of the genetic basis of diversification in this group. PMID:18992003

  6. The interaction of sexually and naturally selected traits in the adaptive radiations of cichlid fishes.

    PubMed

    Salzburger, Walter

    2009-01-01

    The question of how genetic variation translates into organismal diversity has puzzled biologists for decades. Despite recent advances in evolutionary and developmental genetics, the mechanisms that underlie adaptation, diversification and evolutionary innovation remain largely unknown. The exceptionally diverse species flocks of cichlid fishes are textbook examples of adaptive radiation and explosive speciation and emerge as powerful model systems to study the genetic basis of animal diversification. East Africa's hundreds of endemic cichlid species are akin to a natural mutagenesis screen and differ greatly not only in ecologically relevant (hence naturally selected) characters such as mouth morphology and body shape, but also in sexually selected traits such as coloration. One of the most fascinating aspects of cichlid evolution is the frequent occurrence of evolutionary parallelisms, which has led to the question whether selection alone is sufficient to produce these parallel morphologies, or whether a developmental or genetic bias has influenced the direction of diversification. Here, I review fitness-relevant traits that could be responsible for the cichlids' evolutionary success and assess whether these were shaped by sexual or natural selection. I then focus on the interaction and the relative importance of sexual vs. natural selection in cichlid evolution. Finally, I discuss what is currently known about the genes underlying the morphogenesis of adaptively relevant traits and highlight the importance of the forthcoming cichlid genomes in the quest of the genetic basis of diversification in this group.

  7. Stomatal density and metabolic determinants mediate salt stress adaptation and water use efficiency in basil (Ocimum basilicum L.).

    PubMed

    Barbieri, Giancarlo; Vallone, Simona; Orsini, Francesco; Paradiso, Roberta; De Pascale, Stefania; Negre-Zakharov, Florence; Maggio, Albino

    2012-11-15

    Increasing salinity tolerance and water-use efficiency in crop plants are two major challenges that agriculture must face in the next decades. Many physiological mechanisms and molecular components mediating crop response to environmental stresses have been identified. However, the functional inter-links between stress adaptation responses have not been completely understood. Using two basil cultivars (Napoletano and Genovese) with contrasting ability to respond to salt stress, here we demonstrate that reduced stomatal density, high ascorbate level and polyphenol oxidase (PPO) activity coordinately contribute to improve basil adaptation and water use efficiency (WUE) in saline environment. The constitutively reduced stomatal density was associated with a "delayed" accumulation of stress molecules (and growth inhibiting signals) such as abscisic acid (ABA) and proline, in the more tolerant Genovese. Leaf volatile profiling also revealed cultivar-specific patterns, which may suggest a role for the volatile phenylpropanoid eugenol and monoterpenes in conferring stress tolerance via antioxidant and signalling functions.

  8. Stomatal density and metabolic determinants mediate salt stress adaptation and water use efficiency in basil (Ocimum basilicum L.).

    PubMed

    Barbieri, Giancarlo; Vallone, Simona; Orsini, Francesco; Paradiso, Roberta; De Pascale, Stefania; Negre-Zakharov, Florence; Maggio, Albino

    2012-11-15

    Increasing salinity tolerance and water-use efficiency in crop plants are two major challenges that agriculture must face in the next decades. Many physiological mechanisms and molecular components mediating crop response to environmental stresses have been identified. However, the functional inter-links between stress adaptation responses have not been completely understood. Using two basil cultivars (Napoletano and Genovese) with contrasting ability to respond to salt stress, here we demonstrate that reduced stomatal density, high ascorbate level and polyphenol oxidase (PPO) activity coordinately contribute to improve basil adaptation and water use efficiency (WUE) in saline environment. The constitutively reduced stomatal density was associated with a "delayed" accumulation of stress molecules (and growth inhibiting signals) such as abscisic acid (ABA) and proline, in the more tolerant Genovese. Leaf volatile profiling also revealed cultivar-specific patterns, which may suggest a role for the volatile phenylpropanoid eugenol and monoterpenes in conferring stress tolerance via antioxidant and signalling functions. PMID:22840325

  9. Automated extraction of natural drainage density patterns for the conterminous United States through high performance computing

    USGS Publications Warehouse

    Stanislawski, Larry V.; Falgout, Jeff T.; Buttenfield, Barbara P.

    2015-01-01

    Hydrographic networks form an important data foundation for cartographic base mapping and for hydrologic analysis. Drainage density patterns for these networks can be derived to characterize local landscape, bedrock and climate conditions, and further inform hydrologic and geomorphological analysis by indicating areas where too few headwater channels have been extracted. But natural drainage density patterns are not consistently available in existing hydrographic data for the United States because compilation and capture criteria historically varied, along with climate, during the period of data collection over the various terrain types throughout the country. This paper demonstrates an automated workflow that is being tested in a high-performance computing environment by the U.S. Geological Survey (USGS) to map natural drainage density patterns at the 1:24,000-scale (24K) for the conterminous United States. Hydrographic network drainage patterns may be extracted from elevation data to guide corrections for existing hydrographic network data. The paper describes three stages in this workflow including data pre-processing, natural channel extraction, and generation of drainage density patterns from extracted channels. The workflow is concurrently implemented by executing procedures on multiple subbasin watersheds within the U.S. National Hydrography Dataset (NHD). Pre-processing defines parameters that are needed for the extraction process. Extraction proceeds in standard fashion: filling sinks, developing flow direction and weighted flow accumulation rasters. Drainage channels with assigned Strahler stream order are extracted within a subbasin and simplified. Drainage density patterns are then estimated with 100-meter resolution and subsequently smoothed with a low-pass filter. The extraction process is found to be of better quality in higher slope terrains. Concurrent processing through the high performance computing environment is shown to facilitate and refine

  10. Complementary effect of natural and sexual selection against immigrants maintains differentiation between locally adapted fish

    NASA Astrophysics Data System (ADS)

    Plath, Martin; Riesch, Rüdiger; Oranth, Alexandra; Dzienko, Justina; Karau, Nora; Schießl, Angela; Stadler, Stefan; Wigh, Adriana; Zimmer, Claudia; Arias-Rodriguez, Lenin; Schlupp, Ingo; Tobler, Michael

    2010-08-01

    Adaptation to ecologically heterogeneous environments can drive speciation. But what mechanisms maintain reproductive isolation among locally adapted populations? Using poeciliid fishes in a system with naturally occurring toxic hydrogen sulfide, we show that (a) fish from non-sulfidic sites ( Poecilia mexicana) show high mortality (95 %) after 24 h when exposed to the toxicant, while locally adapted fish from sulfidic sites ( Poecilia sulphuraria) experience low mortality (13 %) when transferred to non-sulfidic water. (b) Mate choice tests revealed that P. mexicana females exhibit a preference for conspecific males in non-sulfidic water, but not in sulfidic water, whereas P. sulphuraria females never showed a preference. Increased costs of mate choice in sulfidic, hypoxic water, and the lack of selection for reinforcement due to the low survival of P. mexicana may explain the absence of a preference in P. sulphuraria females. Taken together, our study may be the first to demonstrate independent—but complementary—effects of natural and sexual selection against immigrants maintaining differentiation between locally adapted fish populations.

  11. Naturally occurring diversity helps to reveal genes of adaptive importance in legumes

    PubMed Central

    Gentzbittel, Laurent; Andersen, Stig U.; Ben, Cécile; Rickauer, Martina; Stougaard, Jens; Young, Nevin D.

    2015-01-01

    Environmental changes challenge plants and drive adaptation to new conditions, suggesting that natural biodiversity may be a source of adaptive alleles acting through phenotypic plasticity and/or micro-evolution. Crosses between accessions differing for a given trait have been the most common way to disentangle genetic and environmental components. Interestingly, such man-made crosses may combine alleles that never meet in nature. Another way to discover adaptive alleles, inspired by evolution, is to survey large ecotype collections and to use association genetics to identify loci of interest. Both of these two genetic approaches are based on the use of biodiversity and may eventually help us in identifying the genes that plants use to respond to challenges such as short-term stresses or those due to global climate change. In legumes, two wild species, Medicago truncatula and Lotus japonicus, plus the cultivated soybean (Glycine max) have been adopted as models for genomic studies. In this review, we will discuss the resources, limitations and future plans for a systematic use of biodiversity resources in model legumes to pinpoint genes of adaptive importance in legumes, and their application in breeding. PMID:25954294

  12. Incorporating Natural Capital into Climate Adaptation Planning: Exploring the Role of Habitat in Increasing Coastal Resilience

    NASA Astrophysics Data System (ADS)

    Wedding, L.; Hartge, E. H.; Guannel, G.; Melius, M.; Reiter, S. M.; Ruckelshaus, M.; Guerry, A.; Caldwell, M.

    2014-12-01

    To support decision-makers in their efforts to manage coastal resources in a changing climate the Natural Capital Project and the Center for Ocean Solutions are engaging in, informing, and helping to shape climate adaptation planning at various scales throughout coastal California. Our team is building collaborations with regional planners and local scientific and legal experts to inform local climate adaptation decisions that might minimize the economic and social losses associated with rising seas and more damaging storms. Decision-makers are considering engineered solutions (e.g. seawalls), natural solutions (e.g. dune or marsh restoration), and combinations of the two. To inform decisions about what kinds of solutions might best work in specific locations, we are comparing alternate climate and adaptation scenarios. We will present results from our use of the InVEST ecosystem service models in Sonoma County, with an initial focus on protection from coastal hazards due to erosion and inundation. By strategically choosing adaptation alternatives, communities and agencies can work to protect people and property while also protecting or restoring dwindling critical habitat and the full suite of benefits those habitats provide to people.

  13. Adapting existing natural language processing resources for cardiovascular risk factors identification in clinical notes.

    PubMed

    Khalifa, Abdulrahman; Meystre, Stéphane

    2015-12-01

    The 2014 i2b2 natural language processing shared task focused on identifying cardiovascular risk factors such as high blood pressure, high cholesterol levels, obesity and smoking status among other factors found in health records of diabetic patients. In addition, the task involved detecting medications, and time information associated with the extracted data. This paper presents the development and evaluation of a natural language processing (NLP) application conceived for this i2b2 shared task. For increased efficiency, the application main components were adapted from two existing NLP tools implemented in the Apache UIMA framework: Textractor (for dictionary-based lookup) and cTAKES (for preprocessing and smoking status detection). The application achieved a final (micro-averaged) F1-measure of 87.5% on the final evaluation test set. Our attempt was mostly based on existing tools adapted with minimal changes and allowed for satisfying performance with limited development efforts.

  14. Evolution of competitive ability in Drosophila by density-dependent natural selection.

    PubMed

    Mueller, L D

    1988-06-01

    The theory of density-dependent natural selection predicts that populations kept at extreme densities should evolve different competitive abilities for limited resources. These predictions have been tested with laboratory populations of Drosophila melanogaster. Six independent populations were maintained in two environments, called r and K, for 128 generations. In the r environment, population sizes were small and resources for larvae and adults were abundant. In contrast the populations in the K environment were large and crowded, and resources, such as food and space, were in short supply. The relative competitive ability for food has been estimated for each population. Populations from the K environment consume food at a rate that is 58% greater than the average rate for the r population. The differentiation of competitive abilities in these populations is due to natural selection and is consistent with predictions from the theory of evolutionary ecology.

  15. Adaptation in human somatosensory cortex as a model of sensory memory construction: a study using high-density EEG.

    PubMed

    Bradley, Claire; Joyce, Niamh; Garcia-Larrea, Luis

    2016-01-01

    Adaptation in sensory cortices has been seen as a mechanism allowing the creation of transient memory representations. Here we tested the adapting properties of early responses in human somatosensory areas SI and SII by analysing somatosensory-evoked potentials over the very first repetitions of a stimulus. SI and SII generators were identified by well-defined scalp potentials and source localisation from high-density 128-channel EEG. Earliest responses (~20 ms) from area 3b in the depth of the post-central gyrus did not show significant adaptation to stimuli repeated at 300 ms intervals. In contrast, responses around 45 ms from the crown of the gyrus (areas 1 and 2) rapidly lessened to a plateau and abated at the 20th stimulation, and activities from SII in the parietal operculum at ~100 ms displayed strong adaptation with a steady amplitude decrease from the first repetition. Although responses in both SI (1-2) and SII areas showed adapting properties and hence sensory memory capacities, evidence of sensory mismatch detection has been demonstrated only for responses reflecting SII activation. This may index the passage from an early form of sensory storage in SI to more operational memory codes in SII, allowing the prediction of forthcoming input and the triggering of a specific signal when such input differs from the previous sequence. This is consistent with a model whereby the length of temporal receptive windows increases with progression in the cortical hierarchy, in parallel with the complexity and abstraction of neural representations.

  16. Study of Interpolated Timing Recovery Phase-Locked Loop with Linearly Constrained Adaptive Prefilter for Higher-Density Optical Disc

    NASA Astrophysics Data System (ADS)

    Kajiwara, Yoshiyuki; Shiraishi, Junya; Kobayashi, Shoei; Yamagami, Tamotsu

    2009-03-01

    A digital phase-locked loop (PLL) with a linearly constrained adaptive filter (LCAF) has been studied for higher-linear-density optical discs. LCAF has been implemented before an interpolated timing recovery (ITR) PLL unit in order to improve the quality of phase error calculation by using an adaptively equalized partial response (PR) signal. Coefficient update of an asynchronous sampled adaptive FIR filter with a least-mean-square (LMS) algorithm has been constrained by a projection matrix in order to suppress the phase shift of the tap coefficients of the adaptive filter. We have developed projection matrices that are suitable for Blu-ray disc (BD) drive systems by numerical simulation. Results have shown the properties of the projection matrices. Then, we have designed the read channel system of the ITR PLL with an LCAF model on the FPGA board for experiments. Results have shown that the LCAF improves the tilt margins of 30 gigabytes (GB) recordable BD (BD-R) and 33 GB BD read-only memory (BD-ROM) with a sufficient LMS adaptation stability.

  17. Is an adaptation of Siri's formula for the calculation of body fat percentage from body density in the elderly necessary?

    PubMed

    Deurenberg, P; Weststrate, J A; van der Kooy, K

    1989-08-01

    Using data from the literature on changes in the mineral content, muscle mass and the amount of water in the body during aging, the age-related changes in the chemical composition of the fat-free mass have been calculated. In men the decrease in minerals (bone loss) during aging equals the decrease in protein and water (muscle) in the fat-free mass. As a consequence the chemical composition of the fat-free mass is hardly affected by aging in men. In women, however, the loss of minerals during aging is considerably higher than the decrease in protein and water in the fat-free mass. As a consequence the change in the chemical composition of the fat-free mass in females is remarkable, and therefore in females, the density (kg/l) of the fat-free mass decreases with age. Consequently the body fat percentage calculated from body density with Siri's equation overestimates the real body fat percentage by 2-3 per cent, depending on age. Based on the calculated chemical composition of the fat-free mass at several ages, and its calculated theoretical density, Siri's equation has been adapted. In females but not in men the adapted formulas give a more valid estimate of the body fat percentage calculated from body density compared to Siri's formula.

  18. Contemporary evolution during invasion: evidence for differentiation, natural selection, and local adaptation.

    PubMed

    Colautti, Robert I; Lau, Jennifer A

    2015-05-01

    Biological invasions are 'natural' experiments that can improve our understanding of contemporary evolution. We evaluate evidence for population differentiation, natural selection and adaptive evolution of invading plants and animals at two nested spatial scales: (i) among introduced populations (ii) between native and introduced genotypes. Evolution during invasion is frequently inferred, but rarely confirmed as adaptive. In common garden studies, quantitative trait differentiation is only marginally lower (~3.5%) among introduced relative to native populations, despite genetic bottlenecks and shorter timescales (i.e. millennia vs. decades). However, differentiation between genotypes from the native vs. introduced range is less clear and confounded by nonrandom geographic sampling; simulations suggest this causes a high false-positive discovery rate (>50%) in geographically structured populations. Selection differentials (¦s¦) are stronger in introduced than in native species, although selection gradients (¦β¦) are not, consistent with introduced species experiencing weaker genetic constraints. This could facilitate rapid adaptation, but evidence is limited. For example, rapid phenotypic evolution often manifests as geographical clines, but simulations demonstrate that nonadaptive trait clines can evolve frequently during colonization (~two-thirds of simulations). Additionally, QST-FST studies may often misrepresent the strength and form of natural selection acting during invasion. Instead, classic approaches in evolutionary ecology (e.g. selection analysis, reciprocal transplant, artificial selection) are necessary to determine the frequency of adaptive evolution during invasion and its influence on establishment, spread and impact of invasive species. These studies are rare but crucial for managing biological invasions in the context of global change. PMID:25891044

  19. Contemporary evolution during invasion: evidence for differentiation, natural selection, and local adaptation.

    PubMed

    Colautti, Robert I; Lau, Jennifer A

    2015-05-01

    Biological invasions are 'natural' experiments that can improve our understanding of contemporary evolution. We evaluate evidence for population differentiation, natural selection and adaptive evolution of invading plants and animals at two nested spatial scales: (i) among introduced populations (ii) between native and introduced genotypes. Evolution during invasion is frequently inferred, but rarely confirmed as adaptive. In common garden studies, quantitative trait differentiation is only marginally lower (~3.5%) among introduced relative to native populations, despite genetic bottlenecks and shorter timescales (i.e. millennia vs. decades). However, differentiation between genotypes from the native vs. introduced range is less clear and confounded by nonrandom geographic sampling; simulations suggest this causes a high false-positive discovery rate (>50%) in geographically structured populations. Selection differentials (¦s¦) are stronger in introduced than in native species, although selection gradients (¦β¦) are not, consistent with introduced species experiencing weaker genetic constraints. This could facilitate rapid adaptation, but evidence is limited. For example, rapid phenotypic evolution often manifests as geographical clines, but simulations demonstrate that nonadaptive trait clines can evolve frequently during colonization (~two-thirds of simulations). Additionally, QST-FST studies may often misrepresent the strength and form of natural selection acting during invasion. Instead, classic approaches in evolutionary ecology (e.g. selection analysis, reciprocal transplant, artificial selection) are necessary to determine the frequency of adaptive evolution during invasion and its influence on establishment, spread and impact of invasive species. These studies are rare but crucial for managing biological invasions in the context of global change.

  20. Adaptive tolerance to a pathogenic fungus drives major histocompatibility complex evolution in natural amphibian populations

    PubMed Central

    Savage, Anna E.; Zamudio, Kelly R.

    2016-01-01

    Amphibians have been affected globally by the disease chytridiomycosis, caused by the fungus Batrachochytrium dendrobatidis (Bd), and we are just now beginning to understand how immunogenetic variability contributes to disease susceptibility. Lineages of an expressed major histocompatibility complex (MHC) class II locus involved in acquired immunity are associated with chytridiomycosis susceptibility in controlled laboratory challenge assays. Here, we extend these findings to natural populations that vary both in exposure and response to Bd. We find that MHC alleles and supertypes associated with Bd survival in the field show a molecular signal of positive selection, while those associated with susceptibility do not, supporting the hypothesis that heritable Bd tolerance is rapidly evolving. We compare MHC supertypes to neutral loci to demonstrate where selection versus demography is shaping MHC variability. One population with Bd tolerance in nature shows a significant signal of directional selection for the same allele (allele Q) that was significantly associated with survival in an earlier laboratory study. Our findings indicate that selective pressure for Bd survival drives rapid immunogenetic adaptation in some natural populations, despite differences in environment and demography. Our field-based analysis of immunogenetic variation confirms that natural amphibian populations have the evolutionary potential to adapt to chytridiomycosis. PMID:27009220

  1. Was Wright right? The canonical genetic code is an empirical example of an adaptive peak in nature; deviant genetic codes evolved using adaptive bridges.

    PubMed

    Seaborg, David M

    2010-08-01

    The canonical genetic code is on a sub-optimal adaptive peak with respect to its ability to minimize errors, and is close to, but not quite, optimal. This is demonstrated by the near-total adjacency of synonymous codons, the similarity of adjacent codons, and comparisons of frequency of amino acid usage with number of codons in the code for each amino acid. As a rare empirical example of an adaptive peak in nature, it shows adaptive peaks are real, not merely theoretical. The evolution of deviant genetic codes illustrates how populations move from a lower to a higher adaptive peak. This is done by the use of "adaptive bridges," neutral pathways that cross over maladaptive valleys by virtue of masking of the phenotypic expression of some maladaptive aspects in the genotype. This appears to be the general mechanism by which populations travel from one adaptive peak to another. There are multiple routes a population can follow to cross from one adaptive peak to another. These routes vary in the probability that they will be used, and this probability is determined by the number and nature of the mutations that happen along each of the routes. A modification of the depiction of adaptive landscapes showing genetic distances and probabilities of travel along their multiple possible routes would throw light on this important concept.

  2. Adaptive nest clustering and density-dependent nest survival in dabbling ducks

    USGS Publications Warehouse

    Ringelman, Kevin M.; Eadie, John M.; Ackerman, Joshua T.

    2014-01-01

    Density-dependent population regulation is observed in many taxa, and understanding the mechanisms that generate density dependence is especially important for the conservation of heavily-managed species. In one such system, North American waterfowl, density dependence is often observed at continental scales, and nest predation has long been implicated as a key factor driving this pattern. However, despite extensive research on this topic, it remains unclear if and how nest density influences predation rates. Part of this confusion may have arisen because previous studies have studied density-dependent predation at relatively large spatial and temporal scales. Because the spatial distribution of nests changes throughout the season, which potentially influences predator behavior, nest survival may vary through time at relatively small spatial scales. As such, density-dependent nest predation might be more detectable at a spatially- and temporally-refined scale and this may provide new insights into nest site selection and predator foraging behavior. Here, we used three years of data on nest survival of two species of waterfowl, mallards and gadwall, to more fully explore the relationship between local nest clustering and nest survival. Throughout the season, we found that the distribution of nests was consistently clustered at small spatial scales (˜50–400 m), especially for mallard nests, and that this pattern was robust to yearly variation in nest density and the intensity of predation. We demonstrated further that local nest clustering had positive fitness consequences – nests with closer nearest neighbors were more likely to be successful, a result that is counter to the general assumption that nest predation rates increase with nest density.

  3. Natural variation in abiotic stress responsive gene expression and local adaptation to climate in Arabidopsis thaliana.

    PubMed

    Lasky, Jesse R; Des Marais, David L; Lowry, David B; Povolotskaya, Inna; McKay, John K; Richards, James H; Keitt, Timothy H; Juenger, Thomas E

    2014-09-01

    Gene expression varies widely in natural populations, yet the proximate and ultimate causes of this variation are poorly known. Understanding how variation in gene expression affects abiotic stress tolerance, fitness, and adaptation is central to the field of evolutionary genetics. We tested the hypothesis that genes with natural genetic variation in their expression responses to abiotic stress are likely to be involved in local adaptation to climate in Arabidopsis thaliana. Specifically, we compared genes with consistent expression responses to environmental stress (expression stress responsive, "eSR") to genes with genetically variable responses to abiotic stress (expression genotype-by-environment interaction, "eGEI"). We found that on average genes that exhibited eGEI in response to drought or cold had greater polymorphism in promoter regions and stronger associations with climate than those of eSR genes or genomic controls. We also found that transcription factor binding sites known to respond to environmental stressors, especially abscisic acid responsive elements, showed significantly higher polymorphism in drought eGEI genes in comparison to eSR genes. By contrast, eSR genes tended to exhibit relatively greater pairwise haplotype sharing, lower promoter diversity, and fewer nonsynonymous polymorphisms, suggesting purifying selection or selective sweeps. Our results indicate that cis-regulatory evolution and genetic variation in stress responsive gene expression may be important mechanisms of local adaptation to climatic selective gradients.

  4. Natural Variation in Abiotic Stress Responsive Gene Expression and Local Adaptation to Climate in Arabidopsis thaliana

    PubMed Central

    Lasky, Jesse R.; Des Marais, David L.; Lowry, David B.; Povolotskaya, Inna; McKay, John K.; Richards, James H.; Keitt, Timothy H.; Juenger, Thomas E.

    2014-01-01

    Gene expression varies widely in natural populations, yet the proximate and ultimate causes of this variation are poorly known. Understanding how variation in gene expression affects abiotic stress tolerance, fitness, and adaptation is central to the field of evolutionary genetics. We tested the hypothesis that genes with natural genetic variation in their expression responses to abiotic stress are likely to be involved in local adaptation to climate in Arabidopsis thaliana. Specifically, we compared genes with consistent expression responses to environmental stress (expression stress responsive, “eSR”) to genes with genetically variable responses to abiotic stress (expression genotype-by-environment interaction, “eGEI”). We found that on average genes that exhibited eGEI in response to drought or cold had greater polymorphism in promoter regions and stronger associations with climate than those of eSR genes or genomic controls. We also found that transcription factor binding sites known to respond to environmental stressors, especially abscisic acid responsive elements, showed significantly higher polymorphism in drought eGEI genes in comparison to eSR genes. By contrast, eSR genes tended to exhibit relatively greater pairwise haplotype sharing, lower promoter diversity, and fewer nonsynonymous polymorphisms, suggesting purifying selection or selective sweeps. Our results indicate that cis-regulatory evolution and genetic variation in stress responsive gene expression may be important mechanisms of local adaptation to climatic selective gradients. PMID:24850899

  5. Testing Local Adaptation in a Natural Great Tit-Malaria System: An Experimental Approach

    PubMed Central

    Jenkins, Tania; Delhaye, Jessica; Christe, Philippe

    2015-01-01

    Finding out whether Plasmodium spp. are coevolving with their vertebrate hosts is of both theoretical and applied interest and can influence our understanding of the effects and dynamics of malaria infection. In this study, we tested for local adaptation as a signature of coevolution between malaria blood parasites, Plasmodium spp. and its host, the great tit, Parus major. We conducted a reciprocal transplant experiment of birds in the field, where we exposed birds from two populations to Plasmodium parasites. This experimental set-up also provided a unique opportunity to study the natural history of malaria infection in the wild and to assess the effects of primary malaria infection on juvenile birds. We present three main findings: i) there was no support for local adaptation; ii) there was a male-biased infection rate; iii) infection occurred towards the end of the summer and differed between sites. There were also site-specific effects of malaria infection on the hosts. Taken together, we present one of the few experimental studies of parasite-host local adaptation in a natural malaria system, and our results shed light on the effects of avian malaria infection in the wild. PMID:26555892

  6. Adaptation potential of naturally ventilated barns to high temperature extremes: The OptiBarn project

    NASA Astrophysics Data System (ADS)

    Menz, Christoph

    2016-04-01

    Climate change interferes with various aspects of the socio-economic system. One important aspect is its influence on animal husbandry, especially dairy faming. Dairy cows are usually kept in naturally ventilated barns (NVBs) which are particular vulnerable to extreme events due to their low adaptation capabilities. An effective adaptation to high outdoor temperatures for example, is only possible under certain wind and humidity conditions. High temperature extremes are expected to increase in number and strength under climate change. To assess the impact of this change on NVBs and dairy cows also the changes in wind and humidity needs to be considered. Hence we need to consider the multivariate structure of future temperature extremes. The OptiBarn project aims to develop sustainable adaptation strategies for dairy housings under climate change for Europe, by considering the multivariate structure of high temperature extremes. In a first step we identify various multivariate high temperature extremes for three core regions in Europe. With respect to dairy cows in NVBs we will focus on the wind and humidity field during high temperature events. In a second step we will use the CORDEX-EUR-11 ensemble to evaluate the capability of the RCMs to model such events and assess their future change potential. By transferring the outdoor conditions to indoor climate and animal wellbeing the results of this assessment can be used to develop technical, architectural and animal specific adaptation strategies for high temperature extremes.

  7. The elusive nature of adaptive mitochondrial DNA evolution of an arctic lineage prone to frequent introgression.

    PubMed

    Melo-Ferreira, José; Vilela, Joana; Fonseca, Miguel M; da Fonseca, Rute R; Boursot, Pierre; Alves, Paulo C

    2014-04-01

    Mitochondria play a fundamental role in cellular metabolism, being responsible for most of the energy production of the cell in the oxidative phosphorylation (OXPHOS) pathway. Mitochondrial DNA (mtDNA) encodes for key components of this process, but its direct role in adaptation remains far from understood. Hares (Lepus spp.) are privileged models to study the impact of natural selection on mitogenomic evolution because 1) species are adapted to contrasting environments, including arctic, with different metabolic pressures, and 2) mtDNA introgression from arctic into temperate species is widespread. Here, we analyzed the sequences of 11 complete mitogenomes (ten newly obtained) of hares of temperate and arctic origins (including two of arctic origin introgressed into temperate species). The analysis of patterns of codon substitutions along the reconstructed phylogeny showed evidence for positive selection in several codons in genes of the OXPHOS complexes, most notably affecting the arctic lineage. However, using theoretical models, no predictable effect of these differences was found on the structure and physicochemical properties of the encoded proteins, suggesting that the focus of selection may lie on complex interactions with nuclear encoded peptides. Also, a cloverleaf structure was detected in the control region only from the arctic mtDNA lineage, which may influence mtDNA replication and transcription. These results suggest that adaptation impacted the evolution of hare mtDNA and may have influenced the occurrence and consequences of the many reported cases of massive mtDNA introgression. However, the origin of adaptation remains elusive.

  8. Ocean Turbulence V: Mesoscale Modeling in Level Coordinates. The Effect of Random Nature of Density

    NASA Technical Reports Server (NTRS)

    Canuto, V. M.; Dubovikov, M. S.

    1998-01-01

    The main result of this paper is the derivation of a new expression for the tracer subgrid term in level coordinates S(l) to be employed in O-GCM. The novel feature is the proper account of the random nature of the density field which strongly affects the transformation from isopycnal to level coordinates of the variables of interest, velocity and tracer fields, their correlation functions and ultimately the subgrid terms. In deriving our result we made use of measured properties of vertical ocean turbulence. The major new results are: 1) the new subgrid expression is different from that of the heuristic GM model, 2) u++(tracer)=1/2u+(thickness), where u++ and u+ are the tracer and thickness bolus velocities. In previous models, u++ = u+, 2) the subgrid for a tracer tau is not the same as that for the density rho even when one accounts for the obvious absence of a diffusion term in the latter. The difference stems from a new treatment of the stochastic nature of the density, 3) the mesoscale diffusivity enters both locally and non-locally, as the integral over all z's from the bottom of the ocean to the level z.

  9. Comparative analysis of oxytocin receptor density in the nucleus accumbens: an adaptation for female and male alloparental care?

    PubMed

    Olazábal, Daniel E

    2014-01-01

    Parental behavior is commonly displayed by progenitors. However, other individuals, genetically related (e.g. siblings, aunts, uncles) or not with the newborns, also display parental behavior (commonly called alloparental, or adoptive behavior). I hypothesize that species that live in family or social groups where other non-reproductive members (males and females) take care of infants, have brain adaptations to promote or facilitate that behavioral response. The present work revises the evidence supporting the hypothesis that high density of oxytocin receptors (OXTR) in the nucleus accumbens (NA) is one of those adaptations. All species known to have high NA OXTR show not only female, but also male alloparental care. Therefore, I predict that high NA OXTR could be present in all species in which juvenile and adult male alloparental behavior have been observed. Strategies to test this and other alternative working hypothesis and its predictions are presented. PMID:25446893

  10. On the Nature of Variations in Density and Composition within TATB-based Plastic Bonded Explosives

    SciTech Connect

    Kinney, J H; Willey, T M; Overturf, G

    2006-06-27

    Initiation of insensitive high explosives is affected by porosity in the 100 nm to micron size range. It is also recognized that as-pressed plastic bonded explosives (PBX) are heterogeneous in composition and density at much coarser length scale (10 microns-100 microns). However, variations in density and composition of these explosives have been poorly characterized. Here, we characterize the natural variations in composition and density of TATB-based PBX LX-17 with synchrotron radiation tomography and ultra small angle x-ray scattering. Large scale variations in composition occur as a result of binder enrichment at the prill particle boundaries. The pore fraction is twice as high in the prill particle as in the boundary. The pore distribution is bimodal, with small pores of 50-100 nm in radius and a broader distribution of pores in the 0.5-1.5 micron size range. The higher pore density within the prill particle is attributed to contact asperities between the crystallites that might inhibit complete consolidation and binder infiltration.

  11. Adaptation of Spirogyra insignis (Chlorophyta) to an extreme natural environment (sulphureous waters) through preselective mutations.

    PubMed

    Flores-Moya, Antonio; Costas, Eduardo; Bañares-España, Elena; García-Villada, Libertad; Altamirano, María; López-Rodas, Victoria

    2005-05-01

    Adaptation of Spirogyra insignis (Chlorophyceae) to growth and survival in an extreme natural environment (sulphureous waters from La Hedionda Spa, S. Spain) was analysed by using an experimental model. Photosynthesis and growth of the alga were inhibited when it was cultured in La Hedionda Spa waters (LHW), but after further incubation for several weeks, the culture survived due to the growth of a variant that was resistant to LHW. A Luria-Delbruck fluctuation analysis was carried out to distinguish between resistant filaments arising from rare spontaneous mutations and resistant filaments arising from other mechanisms of adaptation. It was demonstrated that the resistant filaments arose randomly by rare spontaneous mutations before the addition of LHW (preselective mutations). The rate of spontaneous mutation from sensitivity to resistance was 2.7 x 10(-7) mutants per cell division. Since LHW(resistant) mutants have a diminished growth rate, they are maintained in nonsulphureous natural waters as the result of a balance between new resistants arising from spontaneous mutation and resistants eliminated by natural selection. Thus, recurrence of rare spontaneous preselective mutations ensures the survival of the alga in sulphureous waters.

  12. Adapt

    NASA Astrophysics Data System (ADS)

    Bargatze, L. F.

    2015-12-01

    Active Data Archive Product Tracking (ADAPT) is a collection of software routines that permits one to generate XML metadata files to describe and register data products in support of the NASA Heliophysics Virtual Observatory VxO effort. ADAPT is also a philosophy. The ADAPT concept is to use any and all available metadata associated with scientific data to produce XML metadata descriptions in a consistent, uniform, and organized fashion to provide blanket access to the full complement of data stored on a targeted data server. In this poster, we present an application of ADAPT to describe all of the data products that are stored by using the Common Data File (CDF) format served out by the CDAWEB and SPDF data servers hosted at the NASA Goddard Space Flight Center. These data servers are the primary repositories for NASA Heliophysics data. For this purpose, the ADAPT routines have been used to generate data resource descriptions by using an XML schema named Space Physics Archive, Search, and Extract (SPASE). SPASE is the designated standard for documenting Heliophysics data products, as adopted by the Heliophysics Data and Model Consortium. The set of SPASE XML resource descriptions produced by ADAPT includes high-level descriptions of numerical data products, display data products, or catalogs and also includes low-level "Granule" descriptions. A SPASE Granule is effectively a universal access metadata resource; a Granule associates an individual data file (e.g. a CDF file) with a "parent" high-level data resource description, assigns a resource identifier to the file, and lists the corresponding assess URL(s). The CDAWEB and SPDF file systems were queried to provide the input required by the ADAPT software to create an initial set of SPASE metadata resource descriptions. Then, the CDAWEB and SPDF data repositories were queried subsequently on a nightly basis and the CDF file lists were checked for any changes such as the occurrence of new, modified, or deleted

  13. A progressive data compression scheme based upon adaptive transform coding: Mixture block coding of natural images

    NASA Technical Reports Server (NTRS)

    Rost, Martin C.; Sayood, Khalid

    1991-01-01

    A method for efficiently coding natural images using a vector-quantized variable-blocksized transform source coder is presented. The method, mixture block coding (MBC), incorporates variable-rate coding by using a mixture of discrete cosine transform (DCT) source coders. Which coders are selected to code any given image region is made through a threshold driven distortion criterion. In this paper, MBC is used in two different applications. The base method is concerned with single-pass low-rate image data compression. The second is a natural extension of the base method which allows for low-rate progressive transmission (PT). Since the base method adapts easily to progressive coding, it offers the aesthetic advantage of progressive coding without incorporating extensive channel overhead. Image compression rates of approximately 0.5 bit/pel are demonstrated for both monochrome and color images.

  14. What Has Natural Variation Taught Us about Plant Development, Physiology, and Adaptation?

    PubMed Central

    Alonso-Blanco, Carlos; Aarts, Mark G.M.; Bentsink, Leonie; Keurentjes, Joost J.B.; Reymond, Matthieu; Vreugdenhil, Dick; Koornneef, Maarten

    2009-01-01

    Nearly 100 genes and functional polymorphisms underlying natural variation in plant development and physiology have been identified. In crop plants, these include genes involved in domestication traits, such as those related to plant architecture, fruit and seed structure and morphology, as well as yield and quality traits improved by subsequent crop breeding. In wild plants, comparable traits have been dissected mainly in Arabidopsis thaliana. In this review, we discuss the major contributions of the analysis of natural variation to our understanding of plant development and physiology, focusing in particular on the timing of germination and flowering, plant growth and morphology, primary metabolism, and mineral accumulation. Overall, functional polymorphisms appear in all types of genes and gene regions, and they may have multiple mutational causes. However, understanding this diversity in relation to adaptation and environmental variation is a challenge for which tools are now available. PMID:19574434

  15. Amoeboid migration mode adaption in quasi-3D spatial density gradients of varying lattice geometry

    NASA Astrophysics Data System (ADS)

    Gorelashvili, Mari; Emmert, Martin; Hodeck, Kai F.; Heinrich, Doris

    2014-07-01

    Cell migration processes are controlled by sensitive interaction with external cues such as topographic structures of the cell’s environment. Here, we present systematically controlled assays to investigate the specific effects of spatial density and local geometry of topographic structure on amoeboid migration of Dictyostelium discoideum cells. This is realized by well-controlled fabrication of quasi-3D pillar fields exhibiting a systematic variation of inter-pillar distance and pillar lattice geometry. By time-resolved local mean-squared displacement analysis of amoeboid migration, we can extract motility parameters in order to elucidate the details of amoeboid migration mechanisms and consolidate them in a two-state contact-controlled motility model, distinguishing directed and random phases. Specifically, we find that directed pillar-to-pillar runs are found preferably in high pillar density regions, and cells in directed motion states sense pillars as attractive topographic stimuli. In contrast, cell motion in random probing states is inhibited by high pillar density, where pillars act as obstacles for cell motion. In a gradient spatial density, these mechanisms lead to topographic guidance of cells, with a general trend towards a regime of inter-pillar spacing close to the cell diameter. In locally anisotropic pillar environments, cell migration is often found to be damped due to competing attraction by different pillars in close proximity and due to lack of other potential stimuli in the vicinity of the cell. Further, we demonstrate topographic cell guidance reflecting the lattice geometry of the quasi-3D environment by distinct preferences in migration direction. Our findings allow to specifically control amoeboid cell migration by purely topographic effects and thus, to induce active cell guidance. These tools hold prospects for medical applications like improved wound treatment, or invasion assays for immune cells.

  16. Adapting Semantic Natural Language Processing Technology to Address Information Overload in Influenza Epidemic Management

    PubMed Central

    Keselman, Alla; Rosemblat, Graciela; Kilicoglu, Halil; Fiszman, Marcelo; Jin, Honglan; Shin, Dongwook; Rindflesch, Thomas C.

    2013-01-01

    Explosion of disaster health information results in information overload among response professionals. The objective of this project was to determine the feasibility of applying semantic natural language processing (NLP) technology to addressing this overload. The project characterizes concepts and relationships commonly used in disaster health-related documents on influenza pandemics, as the basis for adapting an existing semantic summarizer to the domain. Methods include human review and semantic NLP analysis of a set of relevant documents. This is followed by a pilot-test in which two information specialists use the adapted application for a realistic information seeking task. According to the results, the ontology of influenza epidemics management can be described via a manageable number of semantic relationships that involve concepts from a limited number of semantic types. Test users demonstrate several ways to engage with the application to obtain useful information. This suggests that existing semantic NLP algorithms can be adapted to support information summarization and visualization in influenza epidemics and other disaster health areas. However, additional research is needed in the areas of terminology development (as many relevant relationships and terms are not part of existing standardized vocabularies), NLP, and user interface design. PMID:24311971

  17. U.S. natural resources and climate change: concepts and approaches for management adaptation.

    PubMed

    West, Jordan M; Julius, Susan H; Kareiva, Peter; Enquist, Carolyn; Lawler, Joshua J; Petersen, Brian; Johnson, Ayana E; Shaw, M Rebecca

    2009-12-01

    Public lands and waters in the United States traditionally have been managed using frameworks and objectives that were established under an implicit assumption of stable climatic conditions. However, projected climatic changes render this assumption invalid. Here, we summarize general principles for management adaptations that have emerged from a major literature review. These general principles cover many topics including: (1) how to assess climate impacts to ecosystem processes that are key to management goals; (2) using management practices to support ecosystem resilience; (3) converting barriers that may inhibit management responses into opportunities for successful implementation; and (4) promoting flexible decision making that takes into account challenges of scale and thresholds. To date, the literature on management adaptations to climate change has mostly focused on strategies for bolstering the resilience of ecosystems to persist in their current states. Yet in the longer term, it is anticipated that climate change will push certain ecosystems and species beyond their capacity to recover. When managing to support resilience becomes infeasible, adaptation may require more than simply changing management practices--it may require changing management goals and managing transitions to new ecosystem states. After transitions have occurred, management will again support resilience--this time for a new ecosystem state. Thus, successful management of natural resources in the context of climate change will require recognition on the part of managers and decisions makers of the need to cycle between "managing for resilience" and "managing for change."

  18. Adaptive Transgenerational Plasticity in Plants: Case Studies, Mechanisms, and Implications for Natural Populations

    PubMed Central

    Herman, Jacob J.; Sultan, Sonia E.

    2011-01-01

    Plants respond to environmental conditions not only by plastic changes to their own development and physiology, but also by altering the phenotypes expressed by their offspring. This transgenerational plasticity was initially considered to entail only negative effects of stressful parental environments, such as production of smaller seeds by resource- or temperature-stressed parent plants, and was therefore viewed as environmental noise. Recent evolutionary ecology studies have shown that in some cases, these inherited environmental effects can include specific growth adjustments that are functionally adaptive to the parental conditions that induced them, which can range from contrasting states of controlled laboratory environments to the complex habitat variation encountered by natural plant populations. Preliminary findings suggest that adaptive transgenerational effects can be transmitted by means of diverse mechanisms including changes to seed provisioning and biochemistry, and epigenetic modifications such as DNA methylation that can persist across multiple generations. These non-genetically inherited adaptations can influence the ecological breadth and evolutionary dynamics of plant taxa and promote the spread of invasive plants. Interdisciplinary studies that join mechanistic and evolutionary ecology approaches will be an important source of future insights. PMID:22639624

  19. Curcumin-releasing mechanically adaptive intracortical implants improve the proximal neuronal density and blood-brain barrier stability.

    PubMed

    Potter, Kelsey A; Jorfi, Mehdi; Householder, Kyle T; Foster, E Johan; Weder, Christoph; Capadona, Jeffrey R

    2014-05-01

    The cellular and molecular mechanisms by which neuroinflammatory pathways respond to and propagate the reactive tissue response to intracortical microelectrodes remain active areas of research. We previously demonstrated that both the mechanical mismatch between rigid implants and the much softer brain tissue, as well as oxidative stress, contribute to the neurodegenerative reactive tissue response to intracortical implants. In this study, we utilize physiologically responsive, mechanically adaptive polymer implants based on poly(vinyl alcohol) (PVA), with the capability to also locally administer the antioxidant curcumin. The goal of this study is to investigate if the combination of two independently effective mechanisms - softening of the implant and antioxidant release - leads to synergistic effects in vivo. Over the first 4weeks of the implantation, curcumin-releasing, mechanically adaptive implants were associated with higher neuron survival and a more stable blood-brain barrier at the implant-tissue interface than the neat PVA controls. 12weeks post-implantation, the benefits of the curcumin release were lost, and both sets of compliant materials (with and without curcumin) had no statistically significant differences in neuronal density distribution profiles. Overall, however, the curcumin-releasing softening polymer implants cause minimal implant-mediated neuroinflammation, and embody the new concept of localized drug delivery from mechanically adaptive intracortical implants.

  20. Social and natural sciences differ in their research strategies, adapted to work for different knowledge landscapes.

    PubMed

    Jaffe, Klaus

    2014-01-01

    Do different fields of knowledge require different research strategies? A numerical model exploring different virtual knowledge landscapes, revealed two diverging optimal search strategies. Trend following is maximized when the popularity of new discoveries determine the number of individuals researching it. This strategy works best when many researchers explore few large areas of knowledge. In contrast, individuals or small groups of researchers are better in discovering small bits of information in dispersed knowledge landscapes. Bibliometric data of scientific publications showed a continuous bipolar distribution of these strategies, ranging from natural sciences, with highly cited publications in journals containing a large number of articles, to the social sciences, with rarely cited publications in many journals containing a small number of articles. The natural sciences seem to adapt their research strategies to landscapes with large concentrated knowledge clusters, whereas social sciences seem to have adapted to search in landscapes with many small isolated knowledge clusters. Similar bipolar distributions were obtained when comparing levels of insularity estimated by indicators of international collaboration and levels of country-self citations: researchers in academic areas with many journals such as social sciences, arts and humanities, were the most isolated, and that was true in different regions of the world. The work shows that quantitative measures estimating differences between academic disciplines improve our understanding of different research strategies, eventually helping interdisciplinary research and may be also help improve science policies worldwide.

  1. Social and Natural Sciences Differ in Their Research Strategies, Adapted to Work for Different Knowledge Landscapes

    PubMed Central

    Jaffe, Klaus

    2014-01-01

    Do different fields of knowledge require different research strategies? A numerical model exploring different virtual knowledge landscapes, revealed two diverging optimal search strategies. Trend following is maximized when the popularity of new discoveries determine the number of individuals researching it. This strategy works best when many researchers explore few large areas of knowledge. In contrast, individuals or small groups of researchers are better in discovering small bits of information in dispersed knowledge landscapes. Bibliometric data of scientific publications showed a continuous bipolar distribution of these strategies, ranging from natural sciences, with highly cited publications in journals containing a large number of articles, to the social sciences, with rarely cited publications in many journals containing a small number of articles. The natural sciences seem to adapt their research strategies to landscapes with large concentrated knowledge clusters, whereas social sciences seem to have adapted to search in landscapes with many small isolated knowledge clusters. Similar bipolar distributions were obtained when comparing levels of insularity estimated by indicators of international collaboration and levels of country-self citations: researchers in academic areas with many journals such as social sciences, arts and humanities, were the most isolated, and that was true in different regions of the world. The work shows that quantitative measures estimating differences between academic disciplines improve our understanding of different research strategies, eventually helping interdisciplinary research and may be also help improve science policies worldwide. PMID:25426723

  2. An Empirical Analysis of Farm Adaptation Response to Water Security Using a Natural Policy Experiment

    NASA Astrophysics Data System (ADS)

    Brady, M.

    2014-12-01

    The capacity of farm-level adaptation to mitigate the impacts of climate change in arid regions dominated by irrigated agriculture fed by snowpack is a critical challenge for developing accurate integrated engineering-economic modeling tools. Economic optimization models provide a valuable benchmark for the theoretical limit of adaptation given a set of clear objectives, conditions, and constraints. However, a major limitation to specifying tractable and accurate models is the large number of potential adaptation strategies that can be taken. There is a need for more empirical research that reveals preferred adaptation strategies in a way that identifies causal relationships. This research seeks to add to the empirical literature on adaptation by exploiting what in the econometric literature is called a "natural experiment" where a policy has isapplied to one group but not another in a way that is random relative to the variables of interest so as to reduce problems of bias in coefficient estimates caused by unobserved heterogeneity. The region of study is the Yakima Basin in Washington State which is a highly diverse region in terms of crop and irrigation technology. This creates significant complication for modeling adaptation since farmers have a wide array of choices including changing cropping patterns and irrigation technologies. Other strategies including water trading and deficit irrigation. Two irrigation districts in the Yakima Basin, Roza and Sunnyside, are adjacent to each other and are nearly identical in growing conditions. The difference is that Roza is severely curtailed during droughts while Sunnyside is not. With the availability of detailed field level data on cropping patterns, irrigation technologies, and land ownership this presents an opportunity to identify the effect of water security risk on farm-level decision making. Preliminary results show that after controlling for other features, a field in Roza is 5% more likely to have an efficient

  3. Evolutionary adaptations for the temporal processing of natural sounds by the anuran peripheral auditory system.

    PubMed

    Schrode, Katrina M; Bee, Mark A

    2015-03-01

    Sensory systems function most efficiently when processing natural stimuli, such as vocalizations, and it is thought that this reflects evolutionary adaptation. Among the best-described examples of evolutionary adaptation in the auditory system are the frequent matches between spectral tuning in both the peripheral and central auditory systems of anurans (frogs and toads) and the frequency spectra of conspecific calls. Tuning to the temporal properties of conspecific calls is less well established, and in anurans has so far been documented only in the central auditory system. Using auditory-evoked potentials, we asked whether there are species-specific or sex-specific adaptations of the auditory systems of gray treefrogs (Hyla chrysoscelis) and green treefrogs (H. cinerea) to the temporal modulations present in conspecific calls. Modulation rate transfer functions (MRTFs) constructed from auditory steady-state responses revealed that each species was more sensitive than the other to the modulation rates typical of conspecific advertisement calls. In addition, auditory brainstem responses (ABRs) to paired clicks indicated relatively better temporal resolution in green treefrogs, which could represent an adaptation to the faster modulation rates present in the calls of this species. MRTFs and recovery of ABRs to paired clicks were generally similar between the sexes, and we found no evidence that males were more sensitive than females to the temporal modulation patterns characteristic of the aggressive calls used in male-male competition. Together, our results suggest that efficient processing of the temporal properties of behaviorally relevant sounds begins at potentially very early stages of the anuran auditory system that include the periphery.

  4. Evolutionary adaptations for the temporal processing of natural sounds by the anuran peripheral auditory system

    PubMed Central

    Schrode, Katrina M.; Bee, Mark A.

    2015-01-01

    ABSTRACT Sensory systems function most efficiently when processing natural stimuli, such as vocalizations, and it is thought that this reflects evolutionary adaptation. Among the best-described examples of evolutionary adaptation in the auditory system are the frequent matches between spectral tuning in both the peripheral and central auditory systems of anurans (frogs and toads) and the frequency spectra of conspecific calls. Tuning to the temporal properties of conspecific calls is less well established, and in anurans has so far been documented only in the central auditory system. Using auditory-evoked potentials, we asked whether there are species-specific or sex-specific adaptations of the auditory systems of gray treefrogs (Hyla chrysoscelis) and green treefrogs (H. cinerea) to the temporal modulations present in conspecific calls. Modulation rate transfer functions (MRTFs) constructed from auditory steady-state responses revealed that each species was more sensitive than the other to the modulation rates typical of conspecific advertisement calls. In addition, auditory brainstem responses (ABRs) to paired clicks indicated relatively better temporal resolution in green treefrogs, which could represent an adaptation to the faster modulation rates present in the calls of this species. MRTFs and recovery of ABRs to paired clicks were generally similar between the sexes, and we found no evidence that males were more sensitive than females to the temporal modulation patterns characteristic of the aggressive calls used in male–male competition. Together, our results suggest that efficient processing of the temporal properties of behaviorally relevant sounds begins at potentially very early stages of the anuran auditory system that include the periphery. PMID:25617467

  5. Generating relevant climate adaptation science tools in concert with local natural resource agencies

    NASA Astrophysics Data System (ADS)

    Micheli, L.; Flint, L. E.; Veloz, S.; Heller, N. E.

    2015-12-01

    To create a framework for adapting to climate change, decision makers operating at the urban-wildland interface need to define climate vulnerabilities in the context of site-specific opportunities and constraints relative to water supply, land use suitability, wildfire risks, ecosystem services and quality of life. Pepperwood's TBC3.org is crafting customized climate vulnerability assessments with selected water and natural resource agencies of California's Sonoma, Marin, Napa and Mendocino counties under the auspices of Climate Ready North Bay, a public-private partnership funded by the California Coastal Conservancy. Working directly with managers from the very start of the process to define resource-specific information needs, we are developing high-resolution, spatially-explicit data products to help local governments and agency staff implement informed and effective climate adaptation strategies. Key preliminary findings for the region using the USGS' Basin Characterization Model (at a 270 m spatial resolution) include a unidirectional trend, independent of greater or lesser precipitation, towards increasing climatic water deficits across model scenarios. Therefore a key message is that managers will be facing an increasingly arid environment. Companion models translate the impacts of shifting climate and hydrology on vegetation composition and fire risks. The combination of drought stress on water supplies and native vegetation with an approximate doubling of fire risks may demand new approaches to watershed planning. Working with agencies we are exploring how to build capacity for protection and enhancement of key watershed functions with a focus on groundwater recharge, facilitating greater drought tolerance in forest and rangeland systems, and considering more aggressive approaches to management of fuel loads. Lessons learned about effective engagement include the need for extended in-depth dialog, translation of key climate adaptation questions into

  6. Higher-order adaptive finite-element methods for orbital-free density functional theory

    SciTech Connect

    Motamarri, Phani; Iyer, Mrinal; Knap, Jaroslaw; Gavini, Vikram

    2012-08-15

    In the present work, we study various numerical aspects of higher-order finite-element discretizations of the non-linear saddle-point formulation of orbital-free density-functional theory. We first investigate the robustness of viable solution schemes by analyzing the solvability conditions of the discrete problem. We find that a staggered solution procedure where the potential fields are computed consistently for every trial electron-density is a robust solution procedure for higher-order finite-element discretizations. We next study the convergence properties of higher-order finite-element discretizations of orbital-free density functional theory by considering benchmark problems that include calculations involving both pseudopotential as well as Coulomb singular potential fields. Our numerical studies suggest close to optimal rates of convergence on all benchmark problems for various orders of finite-element approximations considered in the present study. We finally investigate the computational efficiency afforded by various higher-order finite-element discretizations, which constitutes the main aspect of the present work, by measuring the CPU time for the solution of discrete equations on benchmark problems that include large Aluminum clusters. In these studies, we use mesh coarse-graining rates that are derived from error estimates and an a priori knowledge of the asymptotic solution of the far-field electronic fields. Our studies reveal a significant 100-1000 fold computational savings afforded by the use of higher-order finite-element discretization, alongside providing the desired chemical accuracy. We consider this study as a step towards developing a robust and computationally efficient discretization of electronic structure calculations using the finite-element basis.

  7. The neural dynamics of somatosensory processing and adaptation across childhood: a high-density electrical mapping study.

    PubMed

    Uppal, Neha; Foxe, John J; Butler, John S; Acluche, Frantzy; Molholm, Sophie

    2016-03-01

    Young children are often hyperreactive to somatosensory inputs hardly noticed by adults, as exemplified by irritation to seams or labels in clothing. The neurodevelopmental mechanisms underlying changes in sensory reactivity are not well understood. Based on the idea that neurodevelopmental changes in somatosensory processing and/or changes in sensory adaptation might underlie developmental differences in somatosensory reactivity, high-density electroencephalography was used to examine how the nervous system responds and adapts to repeated vibrotactile stimulation over childhood. Participants aged 6-18 yr old were presented with 50-ms vibrotactile stimuli to the right wrist over the median nerve at 5 blocked interstimulus intervals (ranging from ∼7 to ∼1 stimulus per second). Somatosensory evoked potentials (SEPs) revealed three major phases of activation within the first 200 ms, with scalp topographies suggestive of neural generators in contralateral somatosensory cortex. Although overall SEPs were highly similar for younger, middle, and older age groups (6.1-9.8, 10.0-12.9, and 13.0-17.8 yr old), there were significant age-related amplitude differences in initial and later phases of the SEP. In contrast, robust adaptation effects for fast vs. slow presentation rates were observed that did not differ as a function of age. A greater amplitude response in the later portion of the SEP was observed for the youngest group and may be related to developmental changes in responsivity to somatosensory stimuli. These data suggest the protracted development of the somatosensory system over childhood, whereas adaptation, as assayed in this study, is largely in place by ∼7 yr of age. PMID:26763781

  8. Naturalization of plant populations: the role of cultivation and population size and density.

    PubMed

    Minton, Mark S; Mack, Richard N

    2010-10-01

    Field experimentation is required to assess the effects of environmental stochasticity on small immigrant plant populations-a widely understood but largely unexplored aspect of predicting any species' likelihood of naturalization and potential invasion. Cultivation can mitigate this stochasticity, although the outcome for a population under cultivation nevertheless varies enormously from extinction to persistence. Using factorial experiments, we investigated the effects of population size, density, and cultivation (irrigation) on the fate of founder populations for four alien species with different life history characteristics (Echinochloa frumentacea, Fagopyrum esculentum, Helianthus annuus, and Trifolium incarnatum) in eastern Washington, USA. The fate of founder populations was highly variable within and among the 3 years of experimentation and illustrates the often precarious environment encountered by plant immigrants. Larger founder populations produced more seeds (P < 0.001); the role of founder population size, however, differed among years. Irrigation resulted in higher percent survival (P < 0.001) and correspondingly larger net reproductive rate (R(0); P < 0.001). But the minimum level of irrigation for establishment, R(0) > 1, differed among years and species. Sowing density did not affect the likelihood of establishment for any species. Our results underscore the importance of environmental stochasticity in determining the fate of founder populations and the potential of cultivation and large population size in countering the long odds against naturalization. Any implementation of often proposed post-immigration field trials to assess the risk of an alien species becoming naturalized, a requisite step toward invasion, will need to assess different sizes of founder populations and the extent and character of cultivation (intentional or unintentional) that the immigrants might receive.

  9. Natural hazards and climate change in Dhaka: future trends, social adaptation and informal dynamics

    NASA Astrophysics Data System (ADS)

    Thiele-Eich, I.; Aßheuer, T.; Simmer, C.; Braun, B.

    2009-04-01

    Similar to many megacities in the world, Dhaka is regularly threatened by natural hazards. Risks associated with floods and cyclones in particular are expected to increase in the years to come because of global climate change and rapid urbanization. Greater Dhaka is expected to grow from 13.5 million inhabitants in 2007 to 22 million inhabitants by 2025. The vast majority of this growth will take place in informal settlements. Due to the setting of Greater Dhaka in a deltaic plain, the sprawl of slums is primarily taking place in wetlands, swamps and other flood-prone areas. Slum dwellers and informal businesses are vulnerable, but have somehow learned to cope with seasonal floods and developed specific adaptation strategies. An increase of precipitation extremes and tropical cyclones, however, would put considerable stress on the adaptability of the social and economic system. DhakaHazard, a joint research project of the Department of Meteorology at the University of Bonn and the Department of Geography at the University of Cologne, takes up these issues in an interdisciplinary approach. The project, which begun in November 2008, aims to achieve two main objectives: To link analyses of informal social and economic adaptation strategies to models on future climate change and weather extremes. To estimate more accurately the future frequency and magnitude of weather extremes and floods which are crucial for the future adaptability of informal systems. To fulfill these objectives, scientists at the Meteorological Institute are studying the evolution of natural hazards in Bangladesh, while researchers at the Department of Geography are undertaking the task of assessing these hazards from a social point of view. More specifically, the meteorologists are identifying global and regional weather conditions resulting in flooding of the Greater Dhaka region, while possible variations in flood-inducing weather patterns are analyzed by evaluating their frequency and magnitude

  10. Non-iterative adaptive time-stepping scheme with temporal truncation error control for simulating variable-density flow

    NASA Astrophysics Data System (ADS)

    Hirthe, Eugenia M.; Graf, Thomas

    2012-12-01

    The automatic non-iterative second-order time-stepping scheme based on the temporal truncation error proposed by Kavetski et al. [Kavetski D, Binning P, Sloan SW. Non-iterative time-stepping schemes with adaptive truncation error control for the solution of Richards equation. Water Resour Res 2002;38(10):1211, http://dx.doi.org/10.1029/2001WR000720.] is implemented into the code of the HydroGeoSphere model. This time-stepping scheme is applied for the first time to the low-Rayleigh-number thermal Elder problem of free convection in porous media [van Reeuwijk M, Mathias SA, Simmons CT, Ward JD. Insights from a pseudospectral approach to the Elder problem. Water Resour Res 2009;45:W04416, http://dx.doi.org/10.1029/2008WR007421.], and to the solutal [Shikaze SG, Sudicky EA, Schwartz FW. Density-dependent solute transport in discretely-fractured geological media: is prediction possible? J Contam Hydrol 1998;34:273-91] problem of free convection in fractured-porous media. Numerical simulations demonstrate that the proposed scheme efficiently limits the temporal truncation error to a user-defined tolerance by controlling the time-step size. The non-iterative second-order time-stepping scheme can be applied to (i) thermal and solutal variable-density flow problems, (ii) linear and non-linear density functions, and (iii) problems including porous and fractured-porous media.

  11. Sampling-variance effects on detecting density dependence from temporal trends in natural populations

    USGS Publications Warehouse

    Shenk, T.M.; White, Gary C.; Burnham, K.P.

    1998-01-01

    Monte Carlo simulations were conducted to evaluate robustness of four tests to detect density dependence, from series of population abundances, to the addition of sampling variance. Population abundances were generated from random walk, stochastic exponential growth, and density-dependent population models. Population abundance estimates were generated with sampling variances distributed as lognormal and constant coefficients of variation (cv) from 0.00 to 1.00. In general, when data were generated under a random walk, Type I error rates increased rapidly for Bulmer's R, Pollard et al.'s, and Dennis and Taper's tests with increasing magnitude of sampling variance for n > 5 yr and all values of process variation. Bulmer's R* test maintained a constant 5% Type I error rate for n > 5 yr and all magnitudes of sampling variance in the population abundance estimates. When abundances were generated from two stochastic exponential growth models (R = 0.05 and R = 0.10), Type I errors again increased with increasing sampling variance; magnitude of Type I error rates were higher for the slower growing population. Therefore, sampling error inflated Type I error rates, invalidating the tests, for all except Bulmer's R* test. Comparable simulations for abundance estimates generated from a density-dependent growth rate model were conducted to estimate power of the tests. Type II error rates were influenced by the relationship of initial population size to carrying capacity (K), length of time series, as well as sampling error. Given the inflated Type I error rates for all but Bulmer, s R*, power was overestimated for the remaining tests, resulting in density: dependence being detected more often than it existed. Population abundances of natural populations are almost exclusively estimated rather than censused, assuring sampling error. Therefore, because these tests have been shown to be either invalid when only sampling variance occurs in the population abundances (Bulmer's R

  12. High-fidelity pulse density modulation in neuromorphic electric circuits utilizing natural heterogeneity

    NASA Astrophysics Data System (ADS)

    Utagawa, Akira; Asai, Tetsuya; Amemiya, Yoshihito

    Hospedales et al. have recently proposed a neural network model of the “vestibulo-ocular reflex” (VOR) in which a common input was given to multiple nonidentical spiking neurons that were exposed to uncorrelated temporal noise, and the output was represented by the sum of these neurons. Although the function of the VOR network is equivalent to pulse density modulation, the neurons' non-uniformity and temporal noises given to the neurons were shown to improve the output spike's fidelity to the analog input. In this paper, we propose a CMOS analog circuit for implementing the VOR network that exploits the non-uniformity of real MOS devices. Through extensive laboratory experiments using discrete MOS devices, we show that the output's fidelity to the input pulses is clearly improved by using multiple neuron circuits, in which the non-uniformity is naturally embedded into the devices.

  13. Double trouble at high density: cross-level test of resource-related adaptive plasticity and crowding-related fitness.

    PubMed

    Gergs, André; Preuss, Thomas G; Palmqvist, Annemette

    2014-01-01

    Population size is often regulated by negative feedback between population density and individual fitness. At high population densities, animals run into double trouble: they might concurrently suffer from overexploitation of resources and also from negative interference among individuals regardless of resource availability, referred to as crowding. Animals are able to adapt to resource shortages by exhibiting a repertoire of life history and physiological plasticities. In addition to resource-related plasticity, crowding might lead to reduced fitness, with consequences for individual life history. We explored how different mechanisms behind resource-related plasticity and crowding-related fitness act independently or together, using the water flea Daphnia magna as a case study. For testing hypotheses related to mechanisms of plasticity and crowding stress across different biological levels, we used an individual-based population model that is based on dynamic energy budget theory. Each of the hypotheses, represented by a sub-model, is based on specific assumptions on how the uptake and allocation of energy are altered under conditions of resource shortage or crowding. For cross-level testing of different hypotheses, we explored how well the sub-models fit individual level data and also how well they predict population dynamics under different conditions of resource availability. Only operating resource-related and crowding-related hypotheses together enabled accurate model predictions of D. magna population dynamics and size structure. Whereas this study showed that various mechanisms might play a role in the negative feedback between population density and individual life history, it also indicated that different density levels might instigate the onset of the different mechanisms. This study provides an example of how the integration of dynamic energy budget theory and individual-based modelling can facilitate the exploration of mechanisms behind the regulation

  14. Adaptive divergence in body size overrides the effects of plasticity across natural habitats in the brown trout

    PubMed Central

    Rogell, Björn; Dannewitz, Johan; Palm, Stefan; Dahl, Jonas; Petersson, Erik; Laurila, Anssi

    2013-01-01

    The evolution of life-history traits is characterized by trade-offs between different selection pressures, as well as plasticity across environmental conditions. Yet, studies on local adaptation are often performed under artificial conditions, leaving two issues unexplored: (i) how consistent are laboratory inferred local adaptations under natural conditions and (ii) how much phenotypic variation is attributed to phenotypic plasticity and to adaptive evolution, respectively, across environmental conditions? We reared fish from six locally adapted (domesticated and wild) populations of anadromous brown trout (Salmo trutta) in one semi-natural and three natural streams and recorded a key life-history trait (body size at the end of first growth season). We found that population-specific reaction norms were close to parallel across different streams and QST was similar – and larger than FST – within all streams, indicating a consistency of local adaptation in body size across natural environments. The amount of variation explained by population origin exceeded the variation across stream environments, indicating that genetic effects derived from adaptive processes have a stronger effect on phenotypic variation than plasticity induced by environmental conditions. These results suggest that plasticity does not “swamp” the phenotypic variation, and that selection may thus be efficient in generating genetic change. PMID:23919140

  15. Development of an adaptive online fuzzy arbitrator for forecasting short-term natural gas usage

    NASA Astrophysics Data System (ADS)

    Lukas, Richard James, Jr.

    2001-07-01

    The focus of the work is on the development and utilization of a self-assembling Fuzzy logic controller for the purpose of improving short term natural gas load forecasts generated by artificial neural networks (ANN) and linear regression (LR) models. The approach is to form a matrix of dynamic post processors (DPP), composed of ARMAX models, which use load estimates generated by ANNs and LRs as inputs. The problem is to then determine the performance of each DPP under different operating conditions, and to generate a final load estimate using a Fuzzy logic controller. The contributions of this research are as follows. First, as part of a residuals analysis, prefiltering and nonlinear transforms are explored for the purpose of increasing the correlation of environmental input factors with gas load, while decreasing multicollinearity. This has the effect of reducing the covariance of model parameters and increasing forecast confidence. The result of this analysis will be used to develop ARMAX models to postfilter the ANN and LR forecast model estimates. The gas operating regions will be characterized by an adaptive clustering algorithm that will partition operating conditions into distinct patterns with unique consumption characteristics. Finally, an adaptive online Fuzzy controller identifies the characteristics of each DPP under different operating conditions, and generates a weighted average of the DPP estimators to produce the final gas load estimate.

  16. Challenges to managing forests for carbon sequestration, bioenergy production, and natural adaptation (Invited)

    NASA Astrophysics Data System (ADS)

    Law, B. E.

    2010-12-01

    Managing forests for increasing carbon sequestration and bioenergy product is often cited as a way to mitigate greenhouse gas emissions, although the consequences to ecosystems are often unclear or overlooked. Forest carbon sequestration could be maintained or increased by avoided deforestation and forest degradation, afforestation and reforestation. There is much interest in bioenergy production by thinning existing forests and land-use conversion to plantations. Regional analysis in the western U.S. shows that thinning to prevent fire emissions or to provide stock for bioenergy from existing forests results in a decrease in forest carbon stocks and net biome production (NBP) and increased emissions. A separate DGVM model analysis predicts declines in water availability to some forests, leading to large increases in forest area burned and severity by the end of the 21st century with climate change, and suggests those forests could be thinned to reduce competition for water and minimize impacts. Land-use conversion and broad-scale repeated thinning ignores the potential consequences to habitat, species migration (natural adaptation), and other ecosystem services. To facilitate adaptation of forests to climate change, there is a need sustaining genetic and species diversity through forest preservation and landscape connectivity for migration of plant and animal species. Improved high-resolution regional analysis is needed to include these effects on potential future distribution of species in addition to carbon, water and nutrient cycling in the face of climate change.

  17. Synchronous changes in coral chromatophore tissue density and skeletal banding as an adaptive response to environmental change

    NASA Astrophysics Data System (ADS)

    Ardisana, R. N.; Miller, C. A.; Sivaguru, M.; Fouke, B. W.

    2013-12-01

    Corals are a key reservoir of biodiversity in coastal, shallow water tropical marine environments, and density banding in their aragonite skeletons is used as a sensitive record of paleoclimate. Therefore, the cellular response of corals to environmental change and its expression in skeletal structure is of significant importance. Chromatophores, pigment-bearing cells within the ectoderm of hermatypic corals, serve to both enhance the photosynthetic activity of zooxanthellae symbionts, as well as protect the coral animal from harmful UV radiation. Yet connections have not previously been drawn between chromatophore tissue density and the development of skeletal density bands. A histological analysis of the coral Montastrea faveolata has therefore been conducted across a bathymetric gradient of 1-20 m on the southern Caribbean island of Curaçao. A combination of field and laboratory photography, serial block face imaging (SBFI), two-photon laser scanning microscopy (TPLSM), and 3D image analysis has been applied to test whether M. faveolata adapts to increasing water depth and decreasing photosynthetically active radiation by shifting toward a more heterotrophic lifestyle (decreasing zooxanthellae tissue density, increasing mucocyte tissue density, and decreasing chromatophores density). This study is among the first to collect and evaluate histological data in the spatial context of an entire unprocessed coral polyp. TPLSM was used to optically thin section unprocessed tissue biopsies with quantitative image analysis to yield a nanometer-scale three-dimensional map of the quantity and distribution of the symbionts (zooxanthellae) and a host fluorescent pigments (chromatophores), which is thought to have photoprotective properties, within the context of an entire coral polyp. Preliminary results have offered new insight regarding the three-dimensional distribution and abundance of chromatophores and have identified: (1) M. faveolata tissue collected from 8M SWD do

  18. Exploring the Interaction Natures in Plutonyl (VI) Complexes with Topological Analyses of Electron Density

    PubMed Central

    Du, Jiguang; Sun, Xiyuan; Jiang, Gang

    2016-01-01

    The interaction natures between Pu and different ligands in several plutonyl (VI) complexes are investigated by performing topological analyses of electron density. The geometrical structures in both gaseous and aqueous phases are obtained with B3LYP functional, and are generally in agreement with available theoretical and experimental results when combined with all-electron segmented all-electron relativistic contracted (SARC) basis set. The Pu–Oyl bond orders show significant linear dependence on bond length and the charge of oxygen atoms in plutonyl moiety. The closed-shell interactions were identified for Pu-Ligand bonds in most complexes with quantum theory of atoms in molecules (QTAIM) analyses. Meanwhile, we found that some Pu–Ligand bonds, like Pu–OH−, show weak covalent. The interactive nature of Pu–ligand bonds were revealed based on the interaction quantum atom (IQA) energy decomposition approach, and our results indicate that all Pu–Ligand interactions is dominated by the electrostatic attraction interaction as expected. Meanwhile it is also important to note that the quantum mechanical exchange-correlation contributions can not be ignored. By means of the non-covalent interaction (NCI) approach it has been found that some weak and repulsion interactions existed in plutonyl(VI) complexes, which can not be distinguished by QTAIM, can be successfully identified. PMID:27077844

  19. Wolbachia gonadal density in female and male Drosophila vary with laboratory adaptation and respond differently to physiological and environmental challenges.

    PubMed

    Correa, Claudia C; Ballard, J William O

    2012-11-01

    In symbiotic associations such as those between Wolbachia and insects, the within-host symbiont density plays an important role in the maintenance of the infection in natural populations, as it relates to transmission fidelity and pathogenicity of the symbiont. Within-host density is speculated to be the result of complex interactions between the bacterial genotype, the host genotype and the environment, which may account for the substantial variation in Wolbachia titres among wild collected individuals compared to laboratory lines. Using quantitative PCR, we screened the Wolbachia gonadal density of individuals from 50 isofemale Drosophila simulans lines raised in standard conditions for at least two generations after collection from the wild. Although these newly collected lines displayed significant variation of ovarian Wolbachia titres, such variation was lost by F(19). Assaying these flies at different ages and under different environmental conditions indicated that symbiont titres in female gonads were not affected by the conditions tested. However, Wolbachia density in male gonads was consistently affected by these treatments in a line-specific way. We propose that the differences in Wolbachia densities among ovaries of F(4) flies are the consequence of large differences in the field-collected females caused by the variable environment, and carried over for at least four generations. In addition, we provide evidence of sex-specific dynamics of Wolbachia in gonads of females and males. In combination, our results support the view of sex-specific Wolbachia evolutionary interactions for males and females, which has been predicted by theory and observed experimentally.

  20. Large-scale symmetry-adapted perturbation theory computations via density fitting and Laplace transformation techniques: investigating the fundamental forces of DNA-intercalator interactions.

    PubMed

    Hohenstein, Edward G; Parrish, Robert M; Sherrill, C David; Turney, Justin M; Schaefer, Henry F

    2011-11-01

    Symmetry-adapted perturbation theory (SAPT) provides a means of probing the fundamental nature of intermolecular interactions. Low-orders of SAPT (here, SAPT0) are especially attractive since they provide qualitative (sometimes quantitative) results while remaining tractable for large systems. The application of density fitting and Laplace transformation techniques to SAPT0 can significantly reduce the expense associated with these computations and make even larger systems accessible. We present new factorizations of the SAPT0 equations with density-fitted two-electron integrals and the first application of Laplace transformations of energy denominators to SAPT. The improved scalability of the DF-SAPT0 implementation allows it to be applied to systems with more than 200 atoms and 2800 basis functions. The Laplace-transformed energy denominators are compared to analogous partial Cholesky decompositions of the energy denominator tensor. Application of our new DF-SAPT0 program to the intercalation of DNA by proflavine has allowed us to determine the nature of the proflavine-DNA interaction. Overall, the proflavine-DNA interaction contains important contributions from both electrostatics and dispersion. The energetics of the intercalator interaction are are dominated by the stacking interactions (two-thirds of the total), but contain important contributions from the intercalator-backbone interactions. It is hypothesized that the geometry of the complex will be determined by the interactions of the intercalator with the backbone, because by shifting toward one side of the backbone, the intercalator can form two long hydrogen-bonding type interactions. The long-range interactions between the intercalator and the next-nearest base pairs appear to be negligible, justifying the use of truncated DNA models in computational studies of intercalation interaction energies.

  1. Stochastic effects in adaptive reconstruction of body damage: implied the creativity of natural selection

    PubMed Central

    Xiao, Bo; Cui, Li-Qiang; Chen, Tian-Ming; Lian, Bin

    2015-01-01

    After an injury occurs, mechanical/biochemical loads on muscles influence the composition and structure of recovering muscles; this effect likely occurs in other tissues, cells and biological molecules as well owing to the similarity, interassociation and interaction among biochemical reactions and molecules. The ‘damage and reconstruction’ model provides an explanation for how an ideal cytoarchitecture is created by reducing components not suitable for bearing loads; in this model, adaptive changes are induced by promoting the stochasticity of biochemical reactions. Biochemical and mechanical loads can direct the stochasticity of biochemical reactions, which can in turn induce cellular changes. Thus, mechanical and biochemical loads, under natural selection pressure, modify the direction of cell- and tissue-level changes and guide the formation of new structures and traits, thereby influencing microevolution. In summary, the ‘damage and reconstruction’ model accounts for the role of natural selection in the formation of new organisms, helps explain punctuated equilibrium, and illustrates how macroevolution arises from microevolution. PMID:26153081

  2. Effects of prepartum stocking density on innate and adaptive leukocyte responses and serum and hair cortisol concentrations.

    PubMed

    Silva, P R B; Lobeck-Luchterhand, K M; Cerri, R L A; Haines, D M; Ballou, M A; Endres, M I; Chebel, R C

    2016-01-01

    Objectives were to evaluate the effects of prepartum stocking density on innate and adaptive leukocyte responses, serum cortisol and haptoglobin concentrations and hair cortisol concentration of Jersey cows. The cows (254 ± 3d of gestation) were balanced for parity (nulliparous vs. parous) and previous lactation projected 305-d mature equivalent milk yield and assigned to one of two treatments: 80SD=80% stocking density (38 animals/48 headlocks) and 100SD=100% stocking density (48 animals/48 headlocks). Pens (n=4) were identical in size and design and each pen received each treatment a total of 2 times (4 replicates; 80SD: n=338; 100SD: n=418). A sub-group of cows (n=48/treatment per parity) was randomly selected on week 1 of each replicate from which blood was sampled weekly from d -14 to 14 (d 0=calving) to determine polymorphonuclear leukocyte (PMNL) phagocytosis, oxidative burst, and expression of CD18 and L-selectin, and hemogram. The same sub-group of cows was treated with chicken egg ovalbumin on d -21, -7, and 7 and had blood sampled weekly from d -21 to 21 for determination of serum IgG anti-ovalbumin concentration. Blood was sampled weekly from d -21 to 21 to determine glucose, cortisol, and haptoglobin concentrations in serum. Hair samples collected at enrollment and within 24h of calving were analyzed for cortisol concentration. The percentage of leukocytes classified as granulocyte and the granulocyte to the lymphocyte ratio were not affected by treatment. Treatment did not affect the percentage of PMNL positive for phagocytosis and oxidative burst or the intensity of phagocytosis and oxidative burst. Similarly, treatment did not affect the percentage of PMNL expressing CD18 and L-selectin or the intensity of expression of CD18 and L-selectin. Concentration of IgG anti-ovalbumin was not affected by treatment. Serum concentrations of haptoglobin and cortisol were not affected by treatment. Similarly, hair cortisol concentration at calving was not

  3. Estimated uncertainty of calculated liquefied natural gas density from a comparison of NBS and Gaz de France densimeter test facilities

    SciTech Connect

    Siegwarth, J.D.; LaBrecque, J.F.; Roncier, M.; Philippe, R.; Saint-Just, J.

    1982-12-16

    Liquefied natural gas (LNG) densities can be measured directly but are usually determined indirectly in custody transfer measurement by using a density correlation based on temperature and composition measurements. An LNG densimeter test facility at the National Bureau of Standards uses an absolute densimeter based on the Archimedes principle, while a test facility at Gaz de France uses a correlation method based on measurement of composition and density. A comparison between these two test facilities using a portable version of the absolute densimeter provides an experimental estimate of the uncertainty of the indirect method of density measurement for the first time, on a large (32 L) sample. The two test facilities agree for pure methane to within about 0.02%. For the LNG-like mixtures consisting of methane, ethane, propane, and nitrogen with the methane concentrations always higher than 86%, the calculated density is within 0.25% of the directly measured density 95% of the time.

  4. The Adaptation of the Moth Pheromone Receptor Neuron to its Natural Stimulus

    NASA Astrophysics Data System (ADS)

    Kostal, Lubomir; Lansky, Petr; Rospars, Jean-Pierre

    2008-07-01

    We analyze the first phase of information transduction in the model of the olfactory receptor neuron of the male moth Antheraea polyphemus. We predict such stimulus characteristics that enable the system to perform optimally, i.e., to transfer as much information as possible. Few a priori constraints on the nature of stimulus and stimulus-to-signal transduction are assumed. The results are given in terms of stimulus distributions and intermittency factors which makes direct comparison with experimental data possible. Optimal stimulus is approximatelly described by exponential or log-normal probability density function which is in agreement with experiment and the predicted intermittency factors fall within the lowest range of observed values. The results are discussed with respect to electroantennogram measurements and behavioral observations.

  5. The Adaptive Significance of Natural Genetic Variation in the DNA Damage Response of Drosophila melanogaster

    PubMed Central

    Svetec, Nicolas; Cridland, Julie M.; Zhao, Li; Begun, David J.

    2016-01-01

    Despite decades of work, our understanding of the distribution of fitness effects of segregating genetic variants in natural populations remains largely incomplete. One form of selection that can maintain genetic variation is spatially varying selection, such as that leading to latitudinal clines. While the introduction of population genomic approaches to understanding spatially varying selection has generated much excitement, little successful effort has been devoted to moving beyond genome scans for selection to experimental analysis of the relevant biology and the development of experimentally motivated hypotheses regarding the agents of selection; it remains an interesting question as to whether the vast majority of population genomic work will lead to satisfying biological insights. Here, motivated by population genomic results, we investigate how spatially varying selection in the genetic model system, Drosophila melanogaster, has led to genetic differences between populations in several components of the DNA damage response. UVB incidence, which is negatively correlated with latitude, is an important agent of DNA damage. We show that sensitivity of early embryos to UVB exposure is strongly correlated with latitude such that low latitude populations show much lower sensitivity to UVB. We then show that lines with lower embryo UVB sensitivity also exhibit increased capacity for repair of damaged sperm DNA by the oocyte. A comparison of the early embryo transcriptome in high and low latitude embryos provides evidence that one mechanism of adaptive DNA repair differences between populations is the greater abundance of DNA repair transcripts in the eggs of low latitude females. Finally, we use population genomic comparisons of high and low latitude samples to reveal evidence that multiple components of the DNA damage response and both coding and non-coding variation likely contribute to adaptive differences in DNA repair between populations. PMID:26950216

  6. The Adaptive Significance of Natural Genetic Variation in the DNA Damage Response of Drosophila melanogaster.

    PubMed

    Svetec, Nicolas; Cridland, Julie M; Zhao, Li; Begun, David J

    2016-03-01

    Despite decades of work, our understanding of the distribution of fitness effects of segregating genetic variants in natural populations remains largely incomplete. One form of selection that can maintain genetic variation is spatially varying selection, such as that leading to latitudinal clines. While the introduction of population genomic approaches to understanding spatially varying selection has generated much excitement, little successful effort has been devoted to moving beyond genome scans for selection to experimental analysis of the relevant biology and the development of experimentally motivated hypotheses regarding the agents of selection; it remains an interesting question as to whether the vast majority of population genomic work will lead to satisfying biological insights. Here, motivated by population genomic results, we investigate how spatially varying selection in the genetic model system, Drosophila melanogaster, has led to genetic differences between populations in several components of the DNA damage response. UVB incidence, which is negatively correlated with latitude, is an important agent of DNA damage. We show that sensitivity of early embryos to UVB exposure is strongly correlated with latitude such that low latitude populations show much lower sensitivity to UVB. We then show that lines with lower embryo UVB sensitivity also exhibit increased capacity for repair of damaged sperm DNA by the oocyte. A comparison of the early embryo transcriptome in high and low latitude embryos provides evidence that one mechanism of adaptive DNA repair differences between populations is the greater abundance of DNA repair transcripts in the eggs of low latitude females. Finally, we use population genomic comparisons of high and low latitude samples to reveal evidence that multiple components of the DNA damage response and both coding and non-coding variation likely contribute to adaptive differences in DNA repair between populations. PMID:26950216

  7. Evaluating natural flood management measures using an ecosystem based adaptation framework: a meta-analysis

    NASA Astrophysics Data System (ADS)

    Iacob, Oana; Rowan, John; Brown, Iain; Ellis, Chris

    2014-05-01

    Climate change is projected to alter river flows and the magnitude/frequency characteristics of floods and droughts. As a result flood risk is expected to increase with environmental, social and economic impacts. Traditionally flood risk management has been heavily relying on engineering measures, however with climate change their capacity to provide protection is expected to decrease. Ecosystem-based adaptation highlights the interdependence of human and natural systems, and the potential to buffer the impacts of climate change by maintaining functioning ecosystems that continue to provide multiple societal benefits. Natural flood management measures have the potential to provide a greater adaptive capacity to negate the impacts of climate change and provide ancillary benefits. To understand the impacts of different NFM measures on ecosystem services a meta-analysis was undertaken. Twenty five studies from across the world were pulled together to assess their effectiveness on reducing the flood risk but also on other ecosystems services as defined by the UK National Ecosystem Assessment, which distinguishes between provisioning, regulating, cultural and supporting services. Four categories of NFM measures were considered: (i) afforestation measures, (ii) drainage and blocking the drains, (iii) wetland restoration and (iv) combined measures. Woodland expansion measures provide significant benefits for flood protection more pronounced for low magnitude events, but also for other services such as carbon sequestration and water quality. These measures however will come at a cost for livestock and crop provisioning services as a result of land use changes. Drainage operations and blocking the drains have mixed impacts on carbon sequestration and water quality depending on soil type, landscape settings and local characteristics. Wetland and floodplain restoration measures have generally a few disbenefits and provide improvements for regulating and supporting services

  8. Underground Adaptation to a Hostile Environment: Acute Myeloid Leukemia vs. Natural Killer Cells

    PubMed Central

    Dulphy, Nicolas; Chrétien, Anne-Sophie; Khaznadar, Zena; Fauriat, Cyril; Nanbakhsh, Arash; Caignard, Anne; Chouaib, Salem; Olive, Daniel; Toubert, Antoine

    2016-01-01

    Acute myeloid leukemia (AML) is a heterogeneous group of malignancies which incidence increases with age. The disease affects the differentiation of hematopoietic stem or precursor cells in the bone marrow and can be related to abnormal cytogenetic and/or specific mutational patterns. AML blasts can be sensitive to natural killer (NK) cell antitumor response. However, NK cells are frequently defective in AML patients leading to tumor escape. NK cell defects affect not only the expression of the activating NK receptors, including the natural cytotoxicity receptors, the NK group 2, member D, and the DNAX accessory molecule-1, but also cytotoxicity and IFN-γ release. Such perturbations in NK cell physiology could be related to the adaptation of the AML to the immune pressure and more generally to patient’s clinical features. Various mechanisms are potentially involved in the inhibition of NK-cell functions in AML, including defects in the normal lymphopoiesis, reduced expression of activating receptors through cell-to-cell contacts, and production of immunosuppressive soluble agents by leukemic blasts. Therefore, the continuous cross-talk between AML and NK cells participates to the leukemia immune escape and eventually to patient’s relapse. Methods to restore or stimulate NK cells seem to be attractive strategies to treat patients once the complete remission is achieved. Moreover, our capacity in stimulating the NK cell functions could lead to the development of preemptive strategies to eliminate leukemia-initiating cells before the emergence of the disease in elderly individuals presenting preleukemic mutations in hematopoietic stem cells. PMID:27014273

  9. Local adaptation of a bacterium is as important as its presence in structuring a natural microbial community

    PubMed Central

    Gómez, Pedro; Paterson, Steve; De Meester, Luc; Liu, Xuan; Lenzi, Luca; Sharma, M. D.; McElroy, Kerensa; Buckling, Angus

    2016-01-01

    Local adaptation of a species can affect community composition, yet the importance of local adaptation compared with species presence per se is unknown. Here we determine how a compost bacterial community exposed to elevated temperature changes over 2 months as a result of the presence of a focal bacterium, Pseudomonas fluorescens SBW25, that had been pre-adapted or not to the compost for 48 days. The effect of local adaptation on community composition is as great as the effect of species presence per se, with these results robust to the presence of an additional strong selection pressure: an SBW25-specific virus. These findings suggest that evolution occurring over ecological time scales can be a key driver of the structure of natural microbial communities, particularly in situations where some species have an evolutionary head start following large perturbations, such as exposure to antibiotics or crop planting and harvesting. PMID:27501868

  10. Integrated approaches to natural resources management in practice: the catalyzing role of National Adaptation Programmes for Action.

    PubMed

    Stucki, Virpi; Smith, Mark

    2011-06-01

    The relationship of forests in water quantity and quality has been debated during the past years. At the same time, focus on climate change has increased interest in ecosystem restoration as a means for adaptation. Climate change might become one of the key drivers pushing integrated approaches for natural resources management into practice. The National Adaptation Programme of Action (NAPA) is an initiative agreed under the UN Framework Convention on Climate Change. An analysis was done to find out how widely ecosystem restoration and integrated approaches have been incorporated into NAPA priority adaptation projects. The data show that that the NAPAs can be seen as potentially important channel for operationalizing various integrated concepts. Key challenge is to implement the NAPA projects. The amount needed to implement the NAPA projects aiming at ecosystem restoration using integrated approaches presents only 0.7% of the money pledged in Copenhagen for climate change adaptation.

  11. Local adaptation of a bacterium is as important as its presence in structuring a natural microbial community.

    PubMed

    Gómez, Pedro; Paterson, Steve; De Meester, Luc; Liu, Xuan; Lenzi, Luca; Sharma, M D; McElroy, Kerensa; Buckling, Angus

    2016-01-01

    Local adaptation of a species can affect community composition, yet the importance of local adaptation compared with species presence per se is unknown. Here we determine how a compost bacterial community exposed to elevated temperature changes over 2 months as a result of the presence of a focal bacterium, Pseudomonas fluorescens SBW25, that had been pre-adapted or not to the compost for 48 days. The effect of local adaptation on community composition is as great as the effect of species presence per se, with these results robust to the presence of an additional strong selection pressure: an SBW25-specific virus. These findings suggest that evolution occurring over ecological time scales can be a key driver of the structure of natural microbial communities, particularly in situations where some species have an evolutionary head start following large perturbations, such as exposure to antibiotics or crop planting and harvesting. PMID:27501868

  12. Natural history of β-cell adaptation and failure in type 2 diabetes

    PubMed Central

    Alejandro, Emilyn U.; Gregg, Brigid; Blandino-Rosano, Manuel; Cras-Méneur, Corentin; Bernal-Mizrachi, Ernesto

    2014-01-01

    Type 2 diabetes mellitus (T2D) is a complex disease characterized by β-cell failure in the setting of insulin resistance. The current evidence suggests that genetic predisposition, and environmental factors can impair the capacity of the β-cells to respond to insulin resistance and ultimately lead to their failure. However, genetic studies have demonstrated that known variants account for less than 10% of the overall estimated T2D risk, suggesting that additional unidentified factors contribute to susceptibility of this disease. In this review, we will discuss the different stages that contribute to the development of β-cell failure in T2D. We divide the natural history of this process in three major stages: susceptibility, β-cell adaptation and β-cell failure and provide an overview of the molecular mechanisms involved. Further research into mechanisms will reveal key modulators of β-cell failure and thus identify possible novel therapeutic targets and potential interventions to protect against β-cell failure. PMID:25542976

  13. An adaptive multiple-input multiple-output analog-to-digital converter for high density neuroprosthetic electrode arrays.

    PubMed

    Chakrabartty, Shantanu; Gore, Amit; Oweiss, Karim G

    2006-01-01

    On chip signal compression is one of the key technologies driving development of energy efficient biotelemetry devices. In this paper, we describe a novel architecture for analog-to-digital (A/D) conversion that combines sigma delta conversion with the spatial data compression in a single module. The architecture called multiple-input multiple-output (MIMO) sigma-delta is based on a min-max gradient descent optimization of a regularized cost function that naturally leads to an A/D formulation. Experimental results with simulated and recorded multichannel data demonstrate the effectiveness of the proposed architecture to eliminate cross-channel redundancy in high density microelectrode data, thus superceding the performance of parallel independent data converters in terms of its energy efficiency.

  14. The role of antioxidant enzymes in adaptive responses to sheath blight infestation under different fertilization rates and hill densities.

    PubMed

    Wu, Wei; Wan, Xuejie; Shah, Farooq; Fahad, Shah; Huang, Jianliang

    2014-01-01

    Sheath blight of rice, caused by Rhizoctonia solani, is one of the most devastating rice diseases worldwide. No rice cultivar has been found to be completely resistant to this fungus. Identifying antioxidant enzymes activities (activity of superoxide dismutase (SOD), peroxidase (POD), and catalase (CAT)) and malondialdehyde content (MDA) responding to sheath blight infestation is imperative to understand the defensive mechanism systems of rice. In the present study, two inoculation methods (toothpick and agar block method) were tested in double-season rice. Toothpick method had greater lesion length than agar block method in late season. A higher MDA content was found under toothpick method compared with agar block method, which led to greater POD and SOD activities. Dense planting caused higher lesion length resulting in a higher MDA content, which also subsequently stimulated higher POD and SOD activity. Sheath blight severity was significantly related to the activity of antioxidant enzyme during both seasons. The present study implies that rice plants possess a system of antioxidant protective enzymes which helps them in adaptation to sheath blight infection stresses. Several agronomic practices, such as rational use of fertilizers and optimum planting density, involved in regulating antioxidant protective enzyme systems can be regarded as promising strategy to suppress the sheath blight development.

  15. Computational Design of Non-natural Sugar Alcohols to Increase Thermal Storage Density: Beyond Existing Organic Phase Change Materials.

    PubMed

    Inagaki, Taichi; Ishida, Toyokazu

    2016-09-14

    Thermal storage, a technology that enables us to control thermal energy, makes it possible to reuse a huge amount of waste heat, and materials with the ability to treat larger thermal energy are in high demand for energy-saving societies. Sugar alcohols are now one promising candidate for phase change materials (PCMs) because of their large thermal storage density. In this study, we computationally design experimentally unknown non-natural sugar alcohols and predict their thermal storage density as a basic step toward the development of new high performance PCMs. The non-natural sugar alcohol molecules are constructed in silico in accordance with the previously suggested molecular design guidelines: linear elongation of a carbon backbone, separated distribution of OH groups, and even numbers of carbon atoms. Their crystal structures are then predicted using the random search method and first-principles calculations. Our molecular simulation results clearly demonstrate that the non-natural sugar alcohols have potential ability to have thermal storage density up to ∼450-500 kJ/kg, which is significantly larger than the maximum thermal storage density of the present known organic PCMs (∼350 kJ/kg). This computational study suggests that, even in the case of H-bonded molecular crystals where the electrostatic energy contributes mainly to thermal storage density, the molecular distortion and van der Waals energies are also important factors to increase thermal storage density. In addition, the comparison between the three eight-carbon non-natural sugar alcohol isomers indicates that the selection of preferable isomers is also essential for large thermal storage density. PMID:27505107

  16. Computational Design of Non-natural Sugar Alcohols to Increase Thermal Storage Density: Beyond Existing Organic Phase Change Materials.

    PubMed

    Inagaki, Taichi; Ishida, Toyokazu

    2016-09-14

    Thermal storage, a technology that enables us to control thermal energy, makes it possible to reuse a huge amount of waste heat, and materials with the ability to treat larger thermal energy are in high demand for energy-saving societies. Sugar alcohols are now one promising candidate for phase change materials (PCMs) because of their large thermal storage density. In this study, we computationally design experimentally unknown non-natural sugar alcohols and predict their thermal storage density as a basic step toward the development of new high performance PCMs. The non-natural sugar alcohol molecules are constructed in silico in accordance with the previously suggested molecular design guidelines: linear elongation of a carbon backbone, separated distribution of OH groups, and even numbers of carbon atoms. Their crystal structures are then predicted using the random search method and first-principles calculations. Our molecular simulation results clearly demonstrate that the non-natural sugar alcohols have potential ability to have thermal storage density up to ∼450-500 kJ/kg, which is significantly larger than the maximum thermal storage density of the present known organic PCMs (∼350 kJ/kg). This computational study suggests that, even in the case of H-bonded molecular crystals where the electrostatic energy contributes mainly to thermal storage density, the molecular distortion and van der Waals energies are also important factors to increase thermal storage density. In addition, the comparison between the three eight-carbon non-natural sugar alcohol isomers indicates that the selection of preferable isomers is also essential for large thermal storage density.

  17. Smaller = Denser, and the Brain Knows It: Natural Statistics of Object Density Shape Weight Expectations

    PubMed Central

    Peters, Megan A. K.; Balzer, Jonathan; Shams, Ladan

    2015-01-01

    If one nondescript object’s volume is twice that of another, is it necessarily twice as heavy? As larger objects are typically heavier than smaller ones, one might assume humans use such heuristics in preparing to lift novel objects if other informative cues (e.g., material, previous lifts) are unavailable. However, it is also known that humans are sensitive to statistical properties of our environments, and that such sensitivity can bias perception. Here we asked whether statistical regularities in properties of liftable, everyday objects would bias human observers’ predictions about objects’ weight relationships. We developed state-of-the-art computer vision techniques to precisely measure the volume of everyday objects, and also measured their weight. We discovered that for liftable man-made objects, “twice as large” doesn’t mean “twice as heavy”: Smaller objects are typically denser, following a power function of volume. Interestingly, this “smaller is denser” relationship does not hold for natural or unliftable objects, suggesting some ideal density range for objects designed to be lifted. We then asked human observers to predict weight relationships between novel objects without lifting them; crucially, these weight predictions quantitatively match typical weight relationships shown by similarly-sized objects in everyday environments. These results indicate that the human brain represents the statistics of everyday objects and that this representation can be quantitatively abstracted and applied to novel objects. Finally, that the brain possesses and can use precise knowledge of the nonlinear association between size and weight carries important implications for implementation of forward models of motor control in artificial systems. PMID:25768977

  18. Improving performance of natural language processing part-of-speech tagging on clinical narratives through domain adaptation

    PubMed Central

    Ferraro, Jeffrey P; Daumé, Hal; DuVall, Scott L; Chapman, Wendy W; Harkema, Henk; Haug, Peter J

    2013-01-01

    Objective Natural language processing (NLP) tasks are commonly decomposed into subtasks, chained together to form processing pipelines. The residual error produced in these subtasks propagates, adversely affecting the end objectives. Limited availability of annotated clinical data remains a barrier to reaching state-of-the-art operating characteristics using statistically based NLP tools in the clinical domain. Here we explore the unique linguistic constructions of clinical texts and demonstrate the loss in operating characteristics when out-of-the-box part-of-speech (POS) tagging tools are applied to the clinical domain. We test a domain adaptation approach integrating a novel lexical-generation probability rule used in a transformation-based learner to boost POS performance on clinical narratives. Methods Two target corpora from independent healthcare institutions were constructed from high frequency clinical narratives. Four leading POS taggers with their out-of-the-box models trained from general English and biomedical abstracts were evaluated against these clinical corpora. A high performing domain adaptation method, Easy Adapt, was compared to our newly proposed method ClinAdapt. Results The evaluated POS taggers drop in accuracy by 8.5–15% when tested on clinical narratives. The highest performing tagger reports an accuracy of 88.6%. Domain adaptation with Easy Adapt reports accuracies of 88.3–91.0% on clinical texts. ClinAdapt reports 93.2–93.9%. Conclusions ClinAdapt successfully boosts POS tagging performance through domain adaptation requiring a modest amount of annotated clinical data. Improving the performance of critical NLP subtasks is expected to reduce pipeline error propagation leading to better overall results on complex processing tasks. PMID:23486109

  19. Adaptive Value of Phenological Traits in Stressful Environments: Predictions Based on Seed Production and Laboratory Natural Selection

    PubMed Central

    Glorieux, Cédric; Cuguen, Joel; Roux, Fabrice

    2012-01-01

    Phenological traits often show variation within and among natural populations of annual plants. Nevertheless, the adaptive value of post-anthesis traits is seldom tested. In this study, we estimated the adaptive values of pre- and post-anthesis traits in two stressful environments (water stress and interspecific competition), using the selfing annual species Arabidopsis thaliana. By estimating seed production and by performing laboratory natural selection (LNS), we assessed the strength and nature (directional, disruptive and stabilizing) of selection acting on phenological traits in A. thaliana under the two tested stress conditions, each with four intensities. Both the type of stress and its intensity affected the strength and nature of selection, as did genetic constraints among phenological traits. Under water stress, both experimental approaches demonstrated directional selection for a shorter life cycle, although bolting time imposes a genetic constraint on the length of the interval between bolting and anthesis. Under interspecific competition, results from the two experimental approaches showed discrepancies. Estimation of seed production predicted directional selection toward early pre-anthesis traits and long post-anthesis periods. In contrast, the LNS approach suggested neutrality for all phenological traits. This study opens questions on adaptation in complex natural environment where many selective pressures act simultaneously. PMID:22403624

  20. Density Affects the Nature of the Hexatic-Liquid Transition in Two-Dimensional Melting of Soft-Core Systems

    NASA Astrophysics Data System (ADS)

    Zu, Mengjie; Liu, Jun; Tong, Hua; Xu, Ning

    2016-08-01

    We find that both continuous and discontinuous hexatic-liquid transitions can happen in the melting of two-dimensional solids of soft-core disks. For three typical model systems, Hertzian, harmonic, and Gaussian-core models, we observe the same scenarios. These systems exhibit reentrant crystallization (melting) with a maximum melting temperature Tm happening at a crossover density ρm. The hexatic-liquid transition at a density smaller than ρm is discontinuous. Liquid and hexatic phases coexist in a density interval, which becomes narrower with increasing temperature and tends to vanish approximately at Tm. Above ρm, the transition is continuous, in agreement with the Kosterlitz-Thouless-Halperin-Nelson-Young theory. For these soft-core systems, the nature of the hexatic-liquid transition depends on density (pressure), with the melting at ρm being a plausible transition point from discontinuous to continuous hexatic-liquid transition.

  1. Density Affects the Nature of the Hexatic-Liquid Transition in Two-Dimensional Melting of Soft-Core Systems.

    PubMed

    Zu, Mengjie; Liu, Jun; Tong, Hua; Xu, Ning

    2016-08-19

    We find that both continuous and discontinuous hexatic-liquid transitions can happen in the melting of two-dimensional solids of soft-core disks. For three typical model systems, Hertzian, harmonic, and Gaussian-core models, we observe the same scenarios. These systems exhibit reentrant crystallization (melting) with a maximum melting temperature T_{m} happening at a crossover density ρ_{m}. The hexatic-liquid transition at a density smaller than ρ_{m} is discontinuous. Liquid and hexatic phases coexist in a density interval, which becomes narrower with increasing temperature and tends to vanish approximately at T_{m}. Above ρ_{m}, the transition is continuous, in agreement with the Kosterlitz-Thouless-Halperin-Nelson-Young theory. For these soft-core systems, the nature of the hexatic-liquid transition depends on density (pressure), with the melting at ρ_{m} being a plausible transition point from discontinuous to continuous hexatic-liquid transition.

  2. Density Affects the Nature of the Hexatic-Liquid Transition in Two-Dimensional Melting of Soft-Core Systems.

    PubMed

    Zu, Mengjie; Liu, Jun; Tong, Hua; Xu, Ning

    2016-08-19

    We find that both continuous and discontinuous hexatic-liquid transitions can happen in the melting of two-dimensional solids of soft-core disks. For three typical model systems, Hertzian, harmonic, and Gaussian-core models, we observe the same scenarios. These systems exhibit reentrant crystallization (melting) with a maximum melting temperature T_{m} happening at a crossover density ρ_{m}. The hexatic-liquid transition at a density smaller than ρ_{m} is discontinuous. Liquid and hexatic phases coexist in a density interval, which becomes narrower with increasing temperature and tends to vanish approximately at T_{m}. Above ρ_{m}, the transition is continuous, in agreement with the Kosterlitz-Thouless-Halperin-Nelson-Young theory. For these soft-core systems, the nature of the hexatic-liquid transition depends on density (pressure), with the melting at ρ_{m} being a plausible transition point from discontinuous to continuous hexatic-liquid transition. PMID:27588868

  3. The effect of density ratio on the near field of a naturally occurring oscillating jet

    NASA Astrophysics Data System (ADS)

    England, Grant; Kalt, Peter A. M.; Nathan, Graham J.; Kelso, Richard M.

    2010-01-01

    The triangular oscillating jet nozzle generates a triangular jet partially confined within an axi-symmetric chamber to produce a large scale flow oscillation that has application in thermal processes. Particle image velocimetry and oscillation frequency measurements were conducted to investigate the influence of the jet fluid to ambient fluid density ratio on the resulting oscillating flow. The investigation was conducted with a jet momentum flux of 0.06 kg m s-2 ( Re = 7.3-47.2 × 103) and density ratios ranging from 0.2 to 5.0. The initial spread and decay of the emerging jet was found to depend upon the density ratio but in a more complex way than does an unconfined jet. Both the spread and decay are strongly influenced by the instantaneous angle of jet deflection, with greater deflection leading to increased spreading and decay of the jet. Decreasing the density ratio below unity results in a rapid decrease in the deflection angle, while increasing the density ratio above unity results in an increase in the deflection angle, albeit with less sensitivity. The frequency of oscillation was also shown to depend on the density ratio with an increase in the density ratio causing a decrease in the dominant oscillation frequency.

  4. Evaluation of single and two-stage adaptive sampling designs for estimation of density and abundance of freshwater mussels in a large river

    USGS Publications Warehouse

    Smith, D.R.; Rogala, J.T.; Gray, B.R.; Zigler, S.J.; Newton, T.J.

    2011-01-01

    Reliable estimates of abundance are needed to assess consequences of proposed habitat restoration and enhancement projects on freshwater mussels in the Upper Mississippi River (UMR). Although there is general guidance on sampling techniques for population assessment of freshwater mussels, the actual performance of sampling designs can depend critically on the population density and spatial distribution at the project site. To evaluate various sampling designs, we simulated sampling of populations, which varied in density and degree of spatial clustering. Because of logistics and costs of large river sampling and spatial clustering of freshwater mussels, we focused on adaptive and non-adaptive versions of single and two-stage sampling. The candidate designs performed similarly in terms of precision (CV) and probability of species detection for fixed sample size. Both CV and species detection were determined largely by density, spatial distribution and sample size. However, designs did differ in the rate that occupied quadrats were encountered. Occupied units had a higher probability of selection using adaptive designs than conventional designs. We used two measures of cost: sample size (i.e. number of quadrats) and distance travelled between the quadrats. Adaptive and two-stage designs tended to reduce distance between sampling units, and thus performed better when distance travelled was considered. Based on the comparisons, we provide general recommendations on the sampling designs for the freshwater mussels in the UMR, and presumably other large rivers.

  5. Water Reserves Program. An adaptation strategy to prevent imbalance of water in nature

    NASA Astrophysics Data System (ADS)

    Salinas-Rodriguez, S. A.; López Pérez, M.; Barrios Ordóñez, J.; Wickel, B.; Villón Bracamonte, R. A.

    2013-12-01

    allocated, and where the flow regime is then protected before over-allocation takes place. The strategy has been to identify and protect basins with an availability of water that is close to their natural flow regime and that also have a high conservation value (based on prior national conservation priority definitions such as protected areas, and biodiversity conservation gap analyses) in order to implement legal restrictions on water resource development. With such protection, these systems will be best positioned to adjust and respond to water shortages, and regime shifts. To date, 189 basins around the country were identified as potential water reserves. The next step will be the nomination of these water reserves to be integrated in the National Water Reserves Program. This program forms the core of the official Mexican government adaptation strategy towards climate prepared water management, which recognizes that water reserves are the buffer society needs to face uncertainty, imbalance of the man-made, global changes, and thus to reduce water scarcity risk. The development of activities that alter the natural flow regime such as dams and levees are closely examined, and would potentially be restricted.

  6. Testing for the Gaussian nature of cosmological density perturbations through the three-point temperature correlation function

    NASA Technical Reports Server (NTRS)

    Luo, Xiaochun; Schramm, David N.

    1993-01-01

    One of the crucial aspects of density perturbations that are produced by the standard inflation scenario is that they are Gaussian where seeds produced by topological defects tend to be non-Gaussian. The three-point correlation function of the temperature anisotropy of the cosmic microwave background radiation (CBR) provides a sensitive test of this aspect of the primordial density field. In this paper, this function is calculated in the general context of various allowed non-Gaussian models. It is shown that the Cosmic Background Explorer and the forthcoming South Pole and balloon CBR anisotropy data may be able to provide a crucial test of the Gaussian nature of the perturbations.

  7. Effect of electrode density on cycle performance and irreversible capacity loss for natural graphite anode in lithium ion batteries

    SciTech Connect

    Shim, Joongpyo; Striebel, Kathryn A.

    2002-12-02

    The effect of electrode thickness and density for unpressed and pressed natural graphite electrodes were studied using electrochemical characterization. Pressing the graphite electrode decreases the reversible capacity and the irreversible capacity loss during formation. As electrode density increased, the capacity retention at high rate increased until 0.9g/cm{sup 3}, and then decreased. The cycle performances of the pressed graphite electrodes were more stable than the unpressed one. Pressing graphite electrode affected on its electrochemical characterization such as irreversible capacity loss, high rate cycling and cycle performance.

  8. Low complexity Reed-Solomon-based low-density parity-check design for software defined optical transmission system based on adaptive puncturing decoding algorithm

    NASA Astrophysics Data System (ADS)

    Pan, Xiaolong; Liu, Bo; Zheng, Jianglong; Tian, Qinghua

    2016-08-01

    We propose and demonstrate a low complexity Reed-Solomon-based low-density parity-check (RS-LDPC) code with adaptive puncturing decoding algorithm for elastic optical transmission system. Partial received codes and the relevant column in parity-check matrix can be punctured to reduce the calculation complexity by adaptive parity-check matrix during decoding process. The results show that the complexity of the proposed decoding algorithm is reduced by 30% compared with the regular RS-LDPC system. The optimized code rate of the RS-LDPC code can be obtained after five times iteration.

  9. Conserved natural IgM antibodies mediate innate and adaptive immunity against the opportunistic fungus Pneumocystis murina.

    PubMed

    Rapaka, Rekha R; Ricks, David M; Alcorn, John F; Chen, Kong; Khader, Shabaana A; Zheng, Mingquan; Plevy, Scott; Bengtén, Eva; Kolls, Jay K

    2010-12-20

    Host defense against opportunistic fungi requires coordination between innate and adaptive immunity for resolution of infection. Antibodies generated in mice vaccinated with the fungus Pneumocystis prevent growth of Pneumocystis organisms within the lungs, but the mechanisms whereby antibodies enhance antifungal host defense are poorly defined. Nearly all species of fungi contain the conserved carbohydrates β-glucan and chitin within their cell walls, which may be targets of innate and adaptive immunity. In this study, we show that natural IgM antibodies targeting these fungal cell wall carbohydrates are conserved across many species, including fish and mammals. Natural antibodies bind fungal organisms and enhance host defense against Pneumocystis in early stages of infection. IgM antibodies influence recognition of fungal antigen by dendritic cells, increasing their migration to draining pulmonary lymph nodes. IgM antibodies are required for adaptive T helper type 2 (Th2) and Th17 cell differentiation and guide B cell isotype class-switch recombination during host defense against Pneumocystis. These experiments suggest a novel role for the IgM isotype in shaping the earliest steps in recognition and clearance of this fungus. We outline a mechanism whereby serum IgM, containing ancient specificities against conserved fungal antigens, bridges innate and adaptive immunity against fungal organisms.

  10. Estimating the density of honeybee colonies across their natural range to fill the gap in pollinator decline censuses.

    PubMed

    Jaffé, Rodolfo; Dietemann, Vincent; Allsopp, Mike H; Costa, Cecilia; Crewe, Robin M; Dall'olio, Raffaele; DE LA Rúa, Pilar; El-Niweiri, Mogbel A A; Fries, Ingemar; Kezic, Nikola; Meusel, Michael S; Paxton, Robert J; Shaibi, Taher; Stolle, Eckart; Moritz, Robin F A

    2010-04-01

    Although pollinator declines are a global biodiversity threat, the demography of the western honeybee (Apis mellifera) has not been considered by conservationists because it is biased by the activity of beekeepers. To fill this gap in pollinator decline censuses and to provide a broad picture of the current status of honeybees across their natural range, we used microsatellite genetic markers to estimate colony densities and genetic diversity at different locations in Europe, Africa, and central Asia that had different patterns of land use. Genetic diversity and colony densities were highest in South Africa and lowest in Northern Europe and were correlated with mean annual temperature. Confounding factors not related to climate, however, are also likely to influence genetic diversity and colony densities in honeybee populations. Land use showed a significantly negative influence over genetic diversity and the density of honeybee colonies over all sampling locations. In Europe honeybees sampled in nature reserves had genetic diversity and colony densities similar to those sampled in agricultural landscapes, which suggests that the former are not wild but may have come from managed hives. Other results also support this idea: putative wild bees were rare in our European samples, and the mean estimated density of honeybee colonies on the continent closely resembled the reported mean number of managed hives. Current densities of European honeybee populations are in the same range as those found in the adverse climatic conditions of the Kalahari and Saharan deserts, which suggests that beekeeping activities do not compensate for the loss of wild colonies. Our findings highlight the importance of reconsidering the conservation status of honeybees in Europe and of regarding beekeeping not only as a profitable business for producing honey, but also as an essential component of biodiversity conservation.

  11. A marching-walking hybrid induces step length adaptation and transfers to natural walking

    PubMed Central

    Long, Andrew W.; Finley, James M.

    2015-01-01

    Walking is highly adaptable to new demands and environments. We have previously studied adaptation of locomotor patterns via a split-belt treadmill, where subjects learn to walk with one foot moving faster than the other. Subjects learn to adapt their walking pattern by changing the location (spatial) and time (temporal) of foot placement. Here we asked whether we can induce adaptation of a specific walking pattern when one limb does not “walk” but instead marches in place (i.e., marching-walking hybrid). The marching leg's movement is limited during the stance phase, and thus certain sensory signals important for walking may be reduced. We hypothesized that this would produce a spatial-temporal strategy different from that of normal split-belt adaptation. Healthy subjects performed two experiments to determine whether they could adapt their spatial-temporal pattern of step lengths during the marching-walking hybrid and whether the learning transfers to over ground walking. Results showed that the hybrid group did adapt their step lengths, but the time course of adaptation and deadaption was slower than that for the split-belt group. We also observed that the hybrid group utilized a mostly spatial strategy whereas the split-belt group utilized both spatial and temporal strategies. Surprisingly, we found no significant difference between the hybrid and split-belt groups in over ground transfer. Moreover, the hybrid group retained more of the learned pattern when they returned to the treadmill. These findings suggest that physical rehabilitation with this marching-walking paradigm on conventional treadmills may produce changes in symmetry comparable to what is observed during split-belt training. PMID:25867742

  12. Maximizing the utility of monitoring to the adaptive management of natural resources

    USGS Publications Warehouse

    Kendall, William L.; Moore, Clinton T.; Gitzen, Robert A.; Cooper, Andrew B.; Millspaugh, Joshua J.; Licht, Daniel S.

    2012-01-01

    Data collection is an important step in any investigation about the structure or processes related to a natural system. In a purely scientific investigation (experiments, quasi-experiments, observational studies), data collection is part of the scientific method, preceded by the identification of hypotheses and the design of any manipulations of the system to test those hypotheses. Data collection and the manipulations that precede it are ideally designed to maximize the information that is derived from the study. That is, such investigations should be designed for maximum power to evaluate the relative validity of the hypotheses posed. When data collection is intended to inform the management of ecological systems, we call it monitoring. Note that our definition of monitoring encompasses a broader range of data-collection efforts than some alternative definitions – e.g. Chapter 3. The purpose of monitoring as we use the term can vary, from surveillance or “thumb on the pulse” monitoring (see Nichols and Williams 2006), intended to detect changes in a system due to any non-specified source (e.g. the North American Breeding Bird Survey), to very specific and targeted monitoring of the results of specific management actions (e.g. banding and aerial survey efforts related to North American waterfowl harvest management). Although a role of surveillance monitoring is to detect unanticipated changes in a system, the same result is possible from a collection of targeted monitoring programs distributed across the same spatial range (Box 4.1). In the face of limited budgets and many specific management questions, tying monitoring as closely as possible to management needs is warranted (Nichols and Williams 2006). Adaptive resource management (ARM; Walters 1986, Williams 1997, Kendall 2001, Moore and Conroy 2006, McCarthy and Possingham 2007, Conroy et al. 2008a) provides a context and specific purpose for monitoring: to evaluate decisions with respect to achievement

  13. Thermodynamic, energy efficiency, and power density analysis of reverse electrodialysis power generation with natural salinity gradients.

    PubMed

    Yip, Ngai Yin; Vermaas, David A; Nijmeijer, Kitty; Elimelech, Menachem

    2014-05-01

    Reverse electrodialysis (RED) can harness the Gibbs free energy of mixing when fresh river water flows into the sea for sustainable power generation. In this study, we carry out a thermodynamic and energy efficiency analysis of RED power generation, and assess the membrane power density. First, we present a reversible thermodynamic model for RED and verify that the theoretical maximum extractable work in a reversible RED process is identical to the Gibbs free energy of mixing. Work extraction in an irreversible process with maximized power density using a constant-resistance load is then examined to assess the energy conversion efficiency and power density. With equal volumes of seawater and river water, energy conversion efficiency of ∼ 33-44% can be obtained in RED, while the rest is lost through dissipation in the internal resistance of the ion-exchange membrane stack. We show that imperfections in the selectivity of typical ion exchange membranes (namely, co-ion transport, osmosis, and electro-osmosis) can detrimentally lower efficiency by up to 26%, with co-ion leakage being the dominant effect. Further inspection of the power density profile during RED revealed inherent ineffectiveness toward the end of the process. By judicious early discontinuation of the controlled mixing process, the overall power density performance can be considerably enhanced by up to 7-fold, without significant compromise to the energy efficiency. Additionally, membrane resistance was found to be an important factor in determining the power densities attainable. Lastly, the performance of an RED stack was examined for different membrane conductivities and intermembrane distances simulating high performance membranes and stack design. By thoughtful selection of the operating parameters, an efficiency of ∼ 37% and an overall gross power density of 3.5 W/m(2) represent the maximum performance that can potentially be achieved in a seawater-river water RED system with low

  14. Water Reserves Program. An adaptation strategy to balance water in nature

    NASA Astrophysics Data System (ADS)

    Lopez Perez, M.; Barrios, E.; Salinas-Rodriguez, S.; Wickel, B.; Villon, R. A.

    2013-05-01

    -allocation takes place. The strategy is to identify and protect basins with an availability of water that is close to their natural flow regime and that also have a high conservation value (based on prior national conservation priority definitions such as protected areas, and biodiversity conservation gap analyses) in order to implement legal restrictions on water resource development. With such protection, these systems will be best positioned to adjust and respond to water shortages, and regime shifts. To date, 189 basins around the country were identified as potential water reserves. The next step will be the nomination of these water reserves to be integrated in the National Water Reserves Program. This program forms the core of the official Mexican government adaptation strategy towards climate prepared water management, which recognizes that water reserves are the buffer society needs to face uncertainty, and reduce water scarcity risk. The development of activities that alter the natural flow regime such as dams and levees are closely examined, and would potentially be restricted.

  15. A Two-Sinker Densimeter for Accurate Measurements of the Density of Natural Gases at Standard Conditions

    NASA Astrophysics Data System (ADS)

    Richter, Markus; Kleinrahm, Reiner; Glos, Stefan; Wagner, Wolfgang; Span, Roland; Schley, Peter; Uhrig, Martin

    2010-05-01

    A special reference densimeter has been developed for accurate measurements of densities of natural gases and multicomponent gas mixtures at standard conditions of temperature and pressure ( T s = 273.15 K and p s = 0.101325 MPa). The densimeter covers the range from 0.7 kg · m-3 to 1.3 kg · m-3; the total measurement uncertainty in density is 0.020 % (95 % level of confidence). The measurement principle used is the two-sinker method, which is based on the Archimedes buoyancy principle. The certified calibration laboratory of E.ON Ruhrgas AG, Germany, uses this densimeter to verify the standard densities of certified calibration gases (binary and multicomponent gas mixtures). Moreover, the densimeter is used to determine the compositions of commercially available binary gas mixtures with a small uncertainty of (0.01-0.03) mol%.

  16. Phylogeny-based comparative methods question the adaptive nature of sporophytic specializations in mosses.

    PubMed

    Huttunen, Sanna; Olsson, Sanna; Buchbender, Volker; Enroth, Johannes; Hedenäs, Lars; Quandt, Dietmar

    2012-01-01

    Adaptive evolution has often been proposed to explain correlations between habitats and certain phenotypes. In mosses, a high frequency of species with specialized sporophytic traits in exposed or epiphytic habitats was, already 100 years ago, suggested as due to adaptation. We tested this hypothesis by contrasting phylogenetic and morphological data from two moss families, Neckeraceae and Lembophyllaceae, both of which show parallel shifts to a specialized morphology and to exposed epiphytic or epilithic habitats. Phylogeny-based tests for correlated evolution revealed that evolution of four sporophytic traits is correlated with a habitat shift. For three of them, evolutionary rates of dual character-state changes suggest that habitat shifts appear prior to changes in morphology. This suggests that they could have evolved as adaptations to new habitats. Regarding the fourth correlated trait the specialized morphology had already evolved before the habitat shift. In addition, several other specialized "epiphytic" traits show no correlation with a habitat shift. Besides adaptive diversification, other processes thus also affect the match between phenotype and environment. Several potential factors such as complex genetic and developmental pathways yielding the same phenotypes, differences in strength of selection, or constraints in phenotypic evolution may lead to an inability of phylogeny-based comparative methods to detect potential adaptations.

  17. Modelling rainfall interception by vegetation of variable density using an adapted analytical model. Part 2. Model validation for a tropical upland mixed cropping system

    NASA Astrophysics Data System (ADS)

    van Dijk, A. I. J. M.; Bruijnzeel, L. A.

    2001-07-01

    To improve the description of rainfall partitioning by a vegetation canopy that changes in time a number of adaptations to the revised analytical model for rainfall interception by sparse canopies [J. Hydrol., 170 (1995) 79] was proposed in the first of two papers. The current paper presents an application of this adapted analytical model to simulate throughfall, stemflow and interception as measured in a mixed agricultural cropping system involving cassava, maize and rice during two seasons of growth and serial harvesting in upland West Java, Indonesia. Measured interception losses were 18 and 8% during the two measuring periods, while stemflow fractions were estimated at 2 and 4%, respectively. The main reasons for these discrepancies were differences in vegetation density and composition, as well as differences in the exposure of the two sites used in the two respective years. Functions describing the development of the leaf area index of each of the component crops in time were developed. Leaf area index (ranging between 0.7 and 3.8) was related to canopy cover fraction (0.41-0.94). Using average values and time series of the respective parameters, interception losses were modelled using both the revised analytical model and the presently adapted version. The results indicate that the proposed model adaptations substantially improve the performance of the analytical model and provide a more solid base for parameterisation of the analytical model in vegetation of variable density.

  18. Adaptive Management

    EPA Science Inventory

    Adaptive management is an approach to natural resource management that emphasizes learning through management where knowledge is incomplete, and when, despite inherent uncertainty, managers and policymakers must act. Unlike a traditional trial and error approach, adaptive managem...

  19. Evidence for parallel adaptation to climate across the natural range of Arabidopsis thaliana

    PubMed Central

    Stearns, Frank W; Fenster, Charles B

    2013-01-01

    How organisms adapt to different climate habitats is a key question in evolutionary ecology and biological conservation. Species distributions are often determined by climate suitability. Consequently, the anthropogenic impact on earth's climate is of key concern to conservation efforts because of our relatively poor understanding of the ability of populations to track and evolve to climate change. Here, we investigate the ability of Arabidopsis thaliana to occupy climate space by quantifying the extent to which different climate regimes are accessible to different A. thaliana genotypes using publicly available data from a large-scale genotyping project and from a worldwide climate database. The genetic distance calculated from 149 single-nucleotide polymorphisms (SNPs) among 60 lineages of A. thaliana was compared to the corresponding climate distance among collection localities calculated from nine different climatic factors. A. thaliana was found to be highly labile when adapting to novel climate space, suggesting that populations may experience few constraints when adapting to changing climates. Our results also provide evidence of a parallel or convergent evolution on the molecular level supporting recent generalizations regarding the genetics of adaptation. PMID:23919166

  20. Local adaptation to temperature and precipitation in naturally fragmented populations of Cephalotaxus oliveri, an endangered conifer endemic to China

    PubMed Central

    Wang, Ting; Wang, Zhen; Xia, Fan; Su, Yingjuan

    2016-01-01

    Cephalotaxus oliveri is an endangered tertiary relict conifer endemic to China. The species survives in a wide range from west to east with heterogeneous climatic conditions. Precipitation and temperature are main restrictive factors for distribution of C. oliveri. In order to comprehend the mechanism of adaptive evolution to climate variation, we employed ISSR markers to detect adaptive evolution loci, to identify the association between variation in temperature and precipitation and adaptive loci, and to investigate the genetic structure for 22 C. oliveri natural populations. In total, 14 outlier loci were identified, of which five were associated with temperature and precipitation. Among outlier loci, linkage disequilibrium (LD) was high (42.86%), which also provided strong evidence for selection. In addition, C. oliveri possessed high genetic variation (93.31%) and population differentiation, which may provide raw material to evolution and accelerate local adaptation, respectively. Ecological niche modeling showed that global warming will cause a shift for populations of C. oliveri from south to north with a shrinkage of southern areas. Our results contribute to understand the potential response of conifers to climatic changes, and provide new insights for conifer resource management and conservation strategies. PMID:27113970

  1. Effects of hatchery fish density on emigration, growth, survival, and predation risk of natural steelhead parr in an experimental stream channel

    USGS Publications Warehouse

    Tatara, Christopher P.; Riley, Stephen C.; Berejikian, Barry A.

    2011-01-01

    Hatchery supplementation of steelhead Oncorhynchus mykiss raises concerns about the impacts on natural populations, including reduced growth and survival, displacement, and increased predation. The potential risks may be density dependent.We examined how hatchery stocking density and the opportunity to emigrate affect the responses of natural steelhead parr in an experimental stream channel and after 15 d found no density-dependent effects on growth, emigration, or survival at densities ranging from 1-6 hatchery parr/m2. The opportunity for steelhead parr to emigrate reduced predation by coastal cutthroat trout O. clarkii clarkii on both hatchery and natural steelhead parr. The cutthroat trout exhibited a type-I functional response (constant predation rate with increased prey density) for the hatchery and composite populations. In contrast, the predation rate on natural parr decreased as hatchery stocking density increased. Supplementation with hatchery parr at any experimental stocking density reduced the final natural parr density. This decline was explained by increased emigration fromthe supplemented groups. Natural parr had higher mean instantaneous growth rates than hatchery parr. The proportion of parr emigrating decreased as parr size increased over successive experimental trials. Smaller parr had lower survival and suffered higher predation. The final density of the composite population, a measure of supplementation effectiveness, increased with the hatchery steelhead stocking rate. Our results indicate that stocking larger hatchery parr (over 50 d postemergence) at densities within the carrying capacity would have low short-term impact on the growth, survival, and emigration of natural parr while increasing the density of the composite population; in addition, a stocking density greater than 3 fish/m2 might be a good starting point for the evaluation of parr stocking in natural streams.

  2. Natural Disasters and Adaptive Capacity. OECD Development Centre Working Paper No. 237

    ERIC Educational Resources Information Center

    Dayton-Johnson, Jeff

    2004-01-01

    Natural disasters (droughts, earthquakes, epidemics, floods, wind storms) damage wellbeing, both in their immediate and long-term aftermath, and because the insecurity of exposure to disasters is in itself harmful to risk-averse people. As such, mitigating and coping with the risk of natural disasters is a pressing issue for economic development.…

  3. Natural variation in a homolog of Antirrhinum CENTRORADIALIS contributed to spring growth habit and environmental adaptation in cultivated barley.

    PubMed

    Comadran, Jordi; Kilian, Benjamin; Russell, Joanne; Ramsay, Luke; Stein, Nils; Ganal, Martin; Shaw, Paul; Bayer, Micha; Thomas, William; Marshall, David; Hedley, Pete; Tondelli, Alessandro; Pecchioni, Nicola; Francia, Enrico; Korzun, Viktor; Walther, Alexander; Waugh, Robbie

    2012-12-01

    As early farming spread from the Fertile Crescent in the Near East around 10,000 years before the present, domesticated crops encountered considerable ecological and environmental change. Spring-sown crops that flowered without the need for an extended period of cold to promote flowering and day length-insensitive crops able to exploit the longer, cooler days of higher latitudes emerged and became established. To investigate the genetic consequences of adaptation to these new environments, we identified signatures of divergent selection in the highly differentiated modern-day spring and winter barleys. In one genetically divergent region, we identify a natural variant of the barley homolog of Antirrhinum CENTRORADIALIS (HvCEN) as a contributor to successful environmental adaptation. The distribution of HvCEN alleles in a large collection of wild and landrace accessions indicates that this involved selection and enrichment of preexisting genetic variants rather than the acquisition of mutations after domestication.

  4. Nekton density patterns and hurricane recovery in submerged aquatic vegetation, and along non-vegetated natural and created edge habitats

    USGS Publications Warehouse

    La Peyre, M.K.; Gordon, J.

    2012-01-01

    We compared nekton habitat value of submerged aquatic vegetation, flooded non-vegetated natural and man-made edge habitats in mesohaline interior marsh areas in southwest Louisiana using a 1-m 2 throw trap and 3-mm bag seine. When present, SAV habitats supported close to 4 times greater densities and higher species richness of nekton as compared to either natural or man-made edge habitats, which supported similar densities to one another. Three species of concern (bayou killifish, diamond killifish, chain pipefish) were targeted in the analysis, and two of the three were collected almost entirely in SAV habitat. During the course of the study, Hurricanes Ike and Gustav passed directly over the study sites in September 2008. Subsequent analyses indicated significant reductions in resident nekton density 1-mo post hurricanes, and only limited recovery 13-mo post-hurricane. Possible alteration of environmental characteristics such as scouring of SAV habitat, deposition of sediment over SAV, edge erosion and marsh loss, and extended high salinities may explain these lasting impacts. ?? 2011.

  5. Nekton density patterns and hurricane recovery in submerged aquatic vegetation, and along non-vegetated natural and created edge habitats

    NASA Astrophysics Data System (ADS)

    La Peyre, Megan K.; Gordon, John

    2012-02-01

    We compared nekton habitat value of submerged aquatic vegetation, flooded non-vegetated natural and man-made edge habitats in mesohaline interior marsh areas in southwest Louisiana using a 1-m 2 throw trap and 3-mm bag seine. When present, SAV habitats supported close to 4 times greater densities and higher species richness of nekton as compared to either natural or man-made edge habitats, which supported similar densities to one another. Three species of concern (bayou killifish, diamond killifish, chain pipefish) were targeted in the analysis, and two of the three were collected almost entirely in SAV habitat. During the course of the study, Hurricanes Ike and Gustav passed directly over the study sites in September 2008. Subsequent analyses indicated significant reductions in resident nekton density 1-mo post hurricanes, and only limited recovery 13-mo post-hurricane. Possible alteration of environmental characteristics such as scouring of SAV habitat, deposition of sediment over SAV, edge erosion and marsh loss, and extended high salinities may explain these lasting impacts.

  6. Animal Density and Track Counts: Understanding the Nature of Observations Based on Animal Movements

    PubMed Central

    Keeping, Derek; Pelletier, Rick

    2014-01-01

    Counting animals to estimate their population sizes is often essential for their management and conservation. Since practitioners frequently rely on indirect observations of animals, it is important to better understand the relationship between such indirect indices and animal abundance. The Formozov-Malyshev-Pereleshin (FMP) formula provides a theoretical foundation for understanding the relationship between animal track counts and the true density of species. Although this analytical method potentially has universal applicability wherever animals are readily detectable by their tracks, it has long been unique to Russia and remains widely underappreciated. In this paper, we provide a test of the FMP formula by isolating the influence of animal travel path tortuosity (i.e., convolutedness) on track counts. We employed simulations using virtual and empirical data, in addition to a field test comparing FMP estimates with independent estimates from line transect distance sampling. We verify that track counts (total intersections between animals and transects) are determined entirely by density and daily movement distances. Hence, the FMP estimator is theoretically robust against potential biases from specific shapes or patterns of animal movement paths if transects are randomly situated with respect to those movements (i.e., the transects do not influence animals’ movements). However, detectability (the detection probability of individual animals) is not determined simply by daily travel distance but also by tortuosity, so ensuring that all intersections with transects are counted regardless of the number of individual animals that made them becomes critical for an accurate density estimate. Additionally, although tortuosity has no bearing on mean track encounter rates, it does affect encounter rate variance and therefore estimate precision. We discuss how these fundamental principles made explicit by the FMP formula have widespread implications for methods of

  7. The nature and geochemical role of density convection in the East European evaporite basin

    NASA Astrophysics Data System (ADS)

    Popov, V. G.; Abdrakhmanov, R. F.; Puchkov, V. N.

    2015-09-01

    The role of the gravitation factor in the formation of the hydrostratisphere in the East European evaporate basin is considered. The features of Paleozoic sedimentation are characterized, as are the mechanism and litho-hydrogeochemical effects of the density concentration convection of mother brines of the Low-Permian salt-bearing basin to the underlying terrigenous-carbonate Paleozoic and Proterozoic layers. It is shown that the convection processes resulted in the formation of multicomponent calcium chloride brines prevailing in the sedimentary layer of the basis; they also caused the metasomatic dolomitization of limestones with growth of their filtration capacity.

  8. Wide field adaptive optics correction for the GMT using natural guide stars

    NASA Astrophysics Data System (ADS)

    van Dam, Marcos A.; Bouchez, Antonin H.; McLeod, Brian A.

    2014-07-01

    The conceptual design of the Giant Magellan Telescope has four wavefront sensors used to maintain the shape and alignment of the segmented primary and secondary mirrors. In this paper, we show that by reading the sensors at 200 Hz, we can also compensate for low altitude turbulence. As a result, there is a large improvement in image quality, even at visible wavelengths, over the entire science field of view of the telescope. A minimum-variance reconstructor is presented that takes slope measurements from four stars of arbitrary location and magnitude and produces the optimal adaptive secondary mirror commands. The performance of the adaptive optics system in this mode is simulated using YAO, an end-to-end simulation tool. We present the results of trade studies performed to optimize the science return of the telescope.

  9. Socio-ecological Typologies for Understanding Adaptive Capacity of a Region to Natural Disasters

    NASA Astrophysics Data System (ADS)

    Surendran Nair, S.; Preston, B. L.; King, A. W.; Mei, R.

    2015-12-01

    It is expected that the frequency and magnitude of extreme climatic events will increase in coming decades with an anticipated increase in losses from climate hazards. In the Gulf Coastal region of the United States, climate hazards/disasters are common including hurricanes, drought and flooding. However, the capacity to adapt to extreme climatic events varies across the region. This adaptive capacity is linked to the magnitude of the extreme event, exposed infrastructure, and the socio-economic conditions across the region. This study uses hierarchical clustering to quantitatively integrates regional socioeconomic and biophysical factors and develop socio-ecological typologies (SET). The biophysical factors include climatic and topographic variables, and the socio-economic variables include human capital, social capital and man-made resources (infrastructure) of the region. The types of the SET are independent variables in a statistical model of a regional variable of interest. The methodology was applied to US Gulf States to evaluate the social and biophysical determinants of the regional variation in social vulnerability and economic loss to climate hazards. The results show that the SET explains much of the regional variation in social vulnerability, effectively capturing its determinants. In addition, the SET also explains of the variability in economic loss to hazards across of the region. The approach can thus be used to prioritize adaptation strategies to reduce vulnerability and loss across the region.

  10. Guinea pig-adapted foot-and-mouth disease virus with altered receptor recognition can productively infect a natural host.

    PubMed

    Núñez, José I; Molina, Nicolas; Baranowski, Eric; Domingo, Esteban; Clark, Stuart; Burman, Alison; Berryman, Stephen; Jackson, Terry; Sobrino, Francisco

    2007-08-01

    We report that adaptation to infect the guinea pig did not modify the capacity of foot-and-mouth disease virus (FMDV) to kill suckling mice and to cause an acute and transmissible disease in the pig, an important natural host for this pathogen. Adaptive amino acid replacements (I(248)-->T in 2C, Q(44)-->R in 3A, and L(147)-->P in VP1), selected upon serial passages of a type C FMDV isolated from swine (biological clone C-S8c1) in the guinea pig, were maintained after virus multiplication in swine and suckling mice. However, the adaptive replacement L(147)-->P, next to the integrin-binding RGD motif at the GH loop in VP1, abolished growth of the virus in different established cell lines and modified its antigenicity. In contrast, primary bovine thyroid cell cultures could be productively infected by viruses with replacement L(147)-->P, and this infection was inhibited by antibodies to alphavbeta6 and by an FMDV-derived RGD-containing peptide, suggesting that integrin alphavbeta6 may be used as a receptor for these mutants in the animal (porcine, guinea pig, and suckling mice) host. Substitution T(248)-->N in 2C was not detectable in C-S8c1 but was present in a low proportion of the guinea pig-adapted virus. This substitution became rapidly dominant in the viral population after the reintroduction of the guinea pig-adapted virus into pigs. These observations illustrate how the appearance of minority variant viruses in an unnatural host can result in the dominance of these viruses on reinfection of the original host species. PMID:17522230

  11. Nature and Nurture of Early-Type Dwarf Galaxies in Low Density Environments

    NASA Astrophysics Data System (ADS)

    Grützbauch, R.; Annibali, F.; Rampazzo, R.; Bressan, A.; Zeilinger, W. W.

    We study stellar population parameters of a sample of 13 dwarf galaxies located in poor groups of galaxies using high resolution spectra observed with VIMOS at the ESO-VLT [Grützbauch et al., A&A 502, 473 (2009)]. LICK-indices were compared with Simple Stellar Population models to derive ages, metallicities and [α/Fe]-ratios. Comparing the dwarfs with a sample of giant ETGs residing in comparable environments we find that the dwarfs are on average younger, less metal-rich, and less enhanced in alpha-elements than giants. Age, Z, and [α/Fe] ratios are found to correlate both with velocity dispersion and with morphology. We also find possible evidence that low density environment (LDE) dwarfs experienced more prolonged star formation histories than Coma dwarfs, however, larger samples are needed to draw firm conclusions.

  12. Estimation of Vegetation Aerodynamic Roughness of Natural Regions Using Frontal Area Density Determined from Satellite Imagery

    NASA Technical Reports Server (NTRS)

    Jasinski, Michael F.; Crago, Richard

    1994-01-01

    Parameterizations of the frontal area index and canopy area index of natural or randomly distributed plants are developed, and applied to the estimation of local aerodynamic roughness using satellite imagery. The formulas are expressed in terms of the subpixel fractional vegetation cover and one non-dimensional geometric parameter that characterizes the plant's shape. Geometrically similar plants and Poisson distributed plant centers are assumed. An appropriate averaging technique to extend satellite pixel-scale estimates to larger scales is provided. ne parameterization is applied to the estimation of aerodynamic roughness using satellite imagery for a 2.3 sq km coniferous portion of the Landes Forest near Lubbon, France, during the 1986 HAPEX-Mobilhy Experiment. The canopy area index is estimated first for each pixel in the scene based on previous estimates of fractional cover obtained using Landsat Thematic Mapper imagery. Next, the results are incorporated into Raupach's (1992, 1994) analytical formulas for momentum roughness and zero-plane displacement height. The estimates compare reasonably well to reference values determined from measurements taken during the experiment and to published literature values. The approach offers the potential for estimating regionally variable, vegetation aerodynamic roughness lengths over natural regions using satellite imagery when there exists only limited knowledge of the vegetated surface.

  13. Irradiation-resistance conferred by superoxide dismutase: possible adaptive role of a natural polymorphism in Drosophila melanogaster

    SciTech Connect

    Peng, T.X.; Moya, A.; Ayala, F.J.

    1986-02-01

    The toxic effects of ionizing radiation to DNA are thought to be due to the generation of the superoxide radical, 02-. Superoxide dismutase (SOD), which scavenges 02-., has been invoked as a protecting enzyme against ionizing radiation in viruses, bacteria, mammalian cells in culture, and live mice. We now demonstrate that SOD is involved in the resistance of Drosophila melanogaster against irradiation. The protection is greatest when flies carry the S form of the enzyme (which exhibits highest in vitro specific activity), intermediate when they carry the F form of the enzyme, and lowest when they are homozygous for N, an allele that reduces the amount of the enzyme to 3.5% of the normal level. Natural selection experiments show that the fitness of the high-activity S allele is increased in an irradiated population relative to the nonirradiated control. These results point towards a possible adaptive function of the S/F polymorphism found in natural populations of D. melanogaster.

  14. Floral display size, conspecific density and florivory affect fruit set in natural populations of Phlox hirsuta, an endangered species

    PubMed Central

    Ruane, Lauren G.; Rotzin, Andrew T.; Congleton, Philip H.

    2014-01-01

    Background and Aims Natural variation in fruit and seed set may be explained by factors that affect the composition of pollen grains on stigmas. Self-incompatible species require compatible outcross pollen grains to produce seeds. The siring success of outcross pollen grains, however, can be hindered if self (or other incompatible) pollen grains co-occur on stigmas. This study identifies factors that determine fruit set in Phlox hirsuta, a self-sterile endangered species that is prone to self-pollination, and its associated fitness costs. Methods Multiple linear regressions were used to identify factors that explain variation in percentage fruit set within three of the five known populations of this endangered species. Florivorous beetle density, petal colour, floral display size, local conspecific density and pre-dispersal seed predation were quantified and their effects on the ability of flowers to produce fruits were assessed. Key Results In all three populations, percentage fruit set decreased as florivorous beetle density increased and as floral display size increased. The effect of floral display size on fruit set, however, often depended on the density of nearby conspecific plants. High local conspecific densities offset – even reversed – the negative effects of floral display size on percentage fruit set. Seed predation by mammals decreased fruit set in one population. Conclusions The results indicate that seed production in P. hirsuta can be maximized by selectively augmenting populations in areas containing isolated large plants, by reducing the population sizes of florivorous beetles and by excluding mammals that consume unripe fruits. PMID:24557879

  15. Adaptive significance of natural variations in maternal care in rats: a translational perspective

    PubMed Central

    Beery, Annaliese K.; Francis, Darlene D.

    2011-01-01

    A wealth of data from the last fifty years documents the potency of early life experiences including maternal care on developing offspring. A majority of this research has focused on the developing stress axis and stress-sensitive behaviors in hopes of identifying factors impacting resilience and risk-sensitivity. The power of early life experience to shape later development is profound and has the potential to increase fitness of individuals for their environments. Current findings in a rat maternal care paradigm highlight the complex and dynamic relation between early experiences and a variety of outcomes. In this review we propose adaptive hypotheses for alternate maternal strategies and resulting offspring phenotypes, and ways to distinguish between these hypotheses. We also provide evidence underscoring the critical role of context in interpreting the adaptive significance of early experiences. If our goal is to identify risk-factors relevant to humans, we must better explore the role of the social and physical environment in our basic animal models. PMID:21458485

  16. Efficient reconstruction method for ground layer adaptive optics with mixed natural and laser guide stars.

    PubMed

    Wagner, Roland; Helin, Tapio; Obereder, Andreas; Ramlau, Ronny

    2016-02-20

    The imaging quality of modern ground-based telescopes such as the planned European Extremely Large Telescope is affected by atmospheric turbulence. In consequence, they heavily depend on stable and high-performance adaptive optics (AO) systems. Using measurements of incoming light from guide stars, an AO system compensates for the effects of turbulence by adjusting so-called deformable mirror(s) (DMs) in real time. In this paper, we introduce a novel reconstruction method for ground layer adaptive optics. In the literature, a common approach to this problem is to use Bayesian inference in order to model the specific noise structure appearing due to spot elongation. This approach leads to large coupled systems with high computational effort. Recently, fast solvers of linear order, i.e., with computational complexity O(n), where n is the number of DM actuators, have emerged. However, the quality of such methods typically degrades in low flux conditions. Our key contribution is to achieve the high quality of the standard Bayesian approach while at the same time maintaining the linear order speed of the recent solvers. Our method is based on performing a separate preprocessing step before applying the cumulative reconstructor (CuReD). The efficiency and performance of the new reconstructor are demonstrated using the OCTOPUS, the official end-to-end simulation environment of the ESO for extremely large telescopes. For more specific simulations we also use the MOST toolbox. PMID:26906596

  17. Adaptive pattern of nectar volume within inflorescences: bumblebee foraging behavior and pollinator-mediated natural selection

    PubMed Central

    Zhao, Zhigang; Lu, Ningna; Conner, Jeffrey K.

    2016-01-01

    Larger floral displays increase pollinator visitation as well as among-flower self-pollination (geitonogamy) in self-compatible species. Dichogamy (temporal separation of gender expression) can limit geitonogamy and increase outcrossing but this depends on pollinator behavior within inflorescences. Declining nectar volume from lower to upper flowers is a hypothesized adaptation to increase outcrossing and pollen export by encouraging the upward movment of pollinators from female to male flowers and by reducing the number of flowers probed per inflorescence, but supporting evidence has been equivocal. We tested this hypothesis in Aconitum gymnandrum by studying floral display and rewards, pollinator visitation, and pollinator-mediated selection on floral traits. We found that larger inflorescences of A. gymnandrum attracted more pollinators, but did not increase the number of flowers probed per visit. Nectar production declined with increasing flower height on average, but the opposite pattern was also common. Bumblebees responded strongly to the nectar pattern, moving from higher to lower nectar concentration. Finally, there was significant pollinator-mediated direct selection for this pattern of declining nectar volume after correcting for correlations with flower size, number, and mean nectar volume. Together, the results strongly suggest that declining nectar production in higher flowers is an adaptation to enhance outcrossing in A. gymnandrum. PMID:27687244

  18. Natural bond orbital analysis, electronic structure and vibrational spectral analysis of N-(4-hydroxyl phenyl) acetamide: a density functional theory.

    PubMed

    Govindasamy, P; Gunasekaran, S; Ramkumaar, G R

    2014-09-15

    The Fourier transform infrared (FT-IR) and FT-Raman spectra of N-(4-hydroxy phenyl) acetamide (N4HPA) of painkiller agent were recorded in the region 4000-450 cm(-1) and 4000-50 cm(-1) respectively. Density functional theory (DFT) has been used to calculate the optimized geometrical parameter, atomic charges, and vibrational wavenumbers and intensity of the vibrational bands. The computed vibrational wave numbers were compared with the FT-IR and FT-Raman experimental data. The computational calculations at DFT/B3LYP level with 6-31G(d,p), 6-31++G(d,p), 6-311G(d,p) and 6-311++G(d,p) basis sets. The complete vibrational assignments were performed on the basis of the potential energy distribution (PED) of the vibrational modes calculated using Vibrational energy distribution analysis (VEDA 4) program. The oscillator's strength calculated by TD-DFT and N4HPA is approach complement with the experimental findings. The NMR chemical shifts 13C and 1H were recorded and calculated using the gauge independent atomic orbital (GIAO) method. The molecular electrostatic potential (MESP) and electron density surfaces of the molecule were constructed. The Natural charges and intermolecular contacts have been interpreted using Natural Bond orbital (NBO) analysis the HOMO-LUMO energy gap has been calculated. The thermodynamic properties like entropy, heat capacity and zero vibrational energy have been calculated.

  19. Development of a natural practice to adapt conservation goals to global change.

    PubMed

    Heller, Nicole E; Hobbs, Richard J

    2014-06-01

    Conservation goals at the start of the 21st century reflect a combination of contrasting ideas. Ideal nature is something that is historically intact but also futuristically flexible. Ideal nature is independent from humans, but also, because of the pervasiveness of human impacts, only able to reach expression through human management. These tensions emerge in current management rationales because scientists and managers are struggling to accommodate old and new scientific and cultural thinking, while also maintaining legal mandates from the past and commitments to preservation of individual species in particular places under the stresses of global change. Common management goals (such as integrity, wilderness, resilience), whether they are forward looking and focused on sustainability and change, or backward looking and focused on the persistence and restoration of historic states, tend to create essentialisms about how ecosystems should be. These essentialisms limit the options of managers to accommodate the dynamic, and often novel, response of ecosystems to global change. Essentialisms emerge because there is a tight conceptual coupling of place and historical species composition as an indicator of naturalness (e.g., normal, healthy, independent from humans). Given that change is increasingly the norm and ecosystems evolve in response, the focus on idealized ecosystem states is increasingly unwise and unattainable. To provide more open-ended goals, we propose greater attention be paid to the characteristics of management intervention. We suggest that the way we interact with other species in management and the extent to which those interactions reflect the interactions among other biotic organisms, and also reflect our conservation virtues (e.g., humility, respect), influences our ability to cultivate naturalness on the landscape. We call this goal a natural practice (NP) and propose it as a framework for prioritizing and formulating how, when, and where to

  20. Development of a natural practice to adapt conservation goals to global change.

    PubMed

    Heller, Nicole E; Hobbs, Richard J

    2014-06-01

    Conservation goals at the start of the 21st century reflect a combination of contrasting ideas. Ideal nature is something that is historically intact but also futuristically flexible. Ideal nature is independent from humans, but also, because of the pervasiveness of human impacts, only able to reach expression through human management. These tensions emerge in current management rationales because scientists and managers are struggling to accommodate old and new scientific and cultural thinking, while also maintaining legal mandates from the past and commitments to preservation of individual species in particular places under the stresses of global change. Common management goals (such as integrity, wilderness, resilience), whether they are forward looking and focused on sustainability and change, or backward looking and focused on the persistence and restoration of historic states, tend to create essentialisms about how ecosystems should be. These essentialisms limit the options of managers to accommodate the dynamic, and often novel, response of ecosystems to global change. Essentialisms emerge because there is a tight conceptual coupling of place and historical species composition as an indicator of naturalness (e.g., normal, healthy, independent from humans). Given that change is increasingly the norm and ecosystems evolve in response, the focus on idealized ecosystem states is increasingly unwise and unattainable. To provide more open-ended goals, we propose greater attention be paid to the characteristics of management intervention. We suggest that the way we interact with other species in management and the extent to which those interactions reflect the interactions among other biotic organisms, and also reflect our conservation virtues (e.g., humility, respect), influences our ability to cultivate naturalness on the landscape. We call this goal a natural practice (NP) and propose it as a framework for prioritizing and formulating how, when, and where to

  1. Self-generating density gradients of Percoll provide a simple and rapid method that consistently enriches natural killer cells.

    PubMed

    Ravnik, S E; Gage, S; Pollack, S B

    1988-06-13

    The separation or enrichment of natural killer (NK) cells from the heterogeneous cell populations in murine spleen or bone marrow is a vital step for the study of NK cells. We report in this study a simple and rapid method for the enrichment of NK cells from B cell-depleted spleen cells, using a self-generating density gradient of polyvinyl pyrrolidone-coated silica (Percoll). Nylon wool-passed spleen cells are suspended in Percoll that is isotonic and isosmotic with mouse blood at a density of 1.087 g/ml and ultracentrifuged at 30,000 x g for 10 min. This method consistently enriches for NK cell cytotoxic activity, in spleen cells of both unstimulated and interferon-stimulated mice, as measured in the chromium release assay. There is a concomitant enrichment for cells bearing the NK marker asialo GM-1 and depletion of L3T4 or Lyt-2-bearing T cells. In contrast to discontinuous, step-wise gradients, the self-generating Percoll gradient, which relies on the intrinsic property of Percoll to form a continuous density gradient, appears to provide the cells with a physiological environment both before and during the centrifugation step.

  2. A new equation of state for better liquid density prediction of natural gas systems

    NASA Astrophysics Data System (ADS)

    Nwankwo, Princess C.

    Equations of state formulations, modifications and applications have remained active research areas since the success of van der Waal's equation in 1873. The need for better reservoir fluid modeling and characterization is of great importance to petroleum engineers who deal with thermodynamic related properties of petroleum fluids at every stage of the petroleum "life span" from its drilling, to production through the wellbore, to transportation, metering and storage. Equations of state methods are far less expensive (in terms of material cost and time) than laboratory or experimental forages and the results are interestingly not too far removed from the limits of acceptable accuracy. In most cases, the degree of accuracy obtained, by using various EOS's, though not appreciable, have been acceptable when considering the gain in time. The possibility of obtaining an equation of state which though simple in form and in use, could have the potential of further narrowing the present existing bias between experimentally determined and popular EOS estimated results spurred the interest that resulted in this study. This research study had as its chief objective, to develop a new equation of state that would more efficiently capture the thermodynamic properties of gas condensate fluids, especially the liquid phase density, which is the major weakness of other established and popular cubic equations of state. The set objective was satisfied by a new semi analytical cubic three parameter equation of state, derived by the modification of the attraction term contribution to pressure of the van der Waal EOS without compromising either structural simplicity or accuracy of estimating other vapor liquid equilibria properties. The application of new EOS to single and multi-component light hydrocarbon fluids recorded far lower error values than does the popular two parameter, Peng-Robinson's (PR) and three parameter Patel-Teja's (PT) equations of state. Furthermore, this research

  3. High natural gene expression variation in the reef-building coral Acropora millepora: potential for acclimative and adaptive plasticity

    PubMed Central

    2013-01-01

    Background Ecosystems worldwide are suffering the consequences of anthropogenic impact. The diverse ecosystem of coral reefs, for example, are globally threatened by increases in sea surface temperatures due to global warming. Studies to date have focused on determining genetic diversity, the sequence variability of genes in a species, as a proxy to estimate and predict the potential adaptive response of coral populations to environmental changes linked to climate changes. However, the examination of natural gene expression variation has received less attention. This variation has been implicated as an important factor in evolutionary processes, upon which natural selection can act. Results We acclimatized coral nubbins from six colonies of the reef-building coral Acropora millepora to a common garden in Heron Island (Great Barrier Reef, GBR) for a period of four weeks to remove any site-specific environmental effects on the physiology of the coral nubbins. By using a cDNA microarray platform, we detected a high level of gene expression variation, with 17% (488) of the unigenes differentially expressed across coral nubbins of the six colonies (jsFDR-corrected, p < 0.01). Among the main categories of biological processes found differentially expressed were transport, translation, response to stimulus, oxidation-reduction processes, and apoptosis. We found that the transcriptional profiles did not correspond to the genotype of the colony characterized using either an intron of the carbonic anhydrase gene or microsatellite loci markers. Conclusion Our results provide evidence of the high inter-colony variation in A. millepora at the transcriptomic level grown under a common garden and without a correspondence with genotypic identity. This finding brings to our attention the importance of taking into account natural variation between reef corals when assessing experimental gene expression differences. The high transcriptional variation detected in this study is

  4. IL-5 links adaptive and natural immunity specific for epitopes of oxidized LDL and protects from atherosclerosis

    PubMed Central

    Binder, Christoph J.; Hartvigsen, Karsten; Chang, Mi-Kyung; Miller, Marina; Broide, David; Palinski, Wulf; Curtiss, Linda K.; Corr, Maripat; Witztum, Joseph L.

    2004-01-01

    During atherogenesis, LDL is oxidized, generating various oxidation-specific neoepitopes, such as malondialdehyde-modified (MDA-modified) LDL (MDA-LDL) or the phosphorylcholine (PC) headgroup of oxidized phospholipids (OxPLs). These epitopes are recognized by both adaptive T cell–dependent (TD) and innate T cell–independent type 2 (TI-2) immune responses. We previously showed that immunization of mice with MDA-LDL induces a TD response and atheroprotection. In addition, a PC-based immunization strategy that leads to a TI-2 expansion of innate B-1 cells and secretion of T15/EO6 clonotype natural IgM antibodies, which bind the PC of OxPLs within oxidized LDL (OxLDL), also reduces atherogenesis. T15/EO6 antibodies inhibit OxLDL uptake by macrophages. We now report that immunization with MDA-LDL, which does not contain OxPL, unexpectedly led to the expansion of T15/EO6 antibodies. MDA-LDL immunization caused a preferential expansion of MDA-LDL–specific Th2 cells that prominently secreted IL-5. In turn, IL-5 provided noncognate stimulation to innate B-1 cells, leading to increased secretion of T15/EO6 IgM. Using a bone marrow transplant model, we also demonstrated that IL-5 deficiency led to decreased titers of T15/EO6 and accelerated atherosclerosis. Thus, IL-5 links adaptive and natural immunity specific to epitopes of OxLDL and protects from atherosclerosis, in part by stimulating the expansion of atheroprotective natural IgM specific for OxLDL. PMID:15286809

  5. Spatial variation in osteon population density at the human femoral midshaft: histomorphometric adaptations to habitual load environment.

    PubMed

    Gocha, Timothy P; Agnew, Amanda M

    2016-05-01

    Intracortical remodeling, and the osteons it produces, is one aspect of the bone microstructure that is influenced by and, in turn, can influence its mechanical properties. Previous research examining the spatial distribution of intracortical remodeling density across the femoral midshaft has been limited to either considering only small regions of the cortex or, when looking at the entirety of the cortex, considering only a single individual. This study examined the spatial distribution of all remodeling events (intact osteons, fragmentary osteons, and resorptive bays) across the entirety of the femoral midshaft in a sample of 30 modern cadaveric donors. The sample consisted of 15 males and 15 females, aged 21-97 years at time of death. Using geographic information systems software, the femoral cortex was subdivided radially into thirds and circumferentially into octants, and the spatial location of all remodeling events was marked. Density maps and calculation of osteon population density in cortical regions of interest revealed that remodeling density is typically highest in the periosteal third of the bone, particularly in the lateral and anterolateral regions of the cortex. Due to modeling drift, this area of the midshaft femur has some of the youngest primary tissue, which consequently reveals that the lateral and anterolateral regions of the femoral midshaft have higher remodeling rates than elsewhere in the cortex. This is likely the result of tension/shear forces and/or greater strain magnitudes acting upon the anterolateral femur, which results in a greater amount of microdamage in need of repair than is seen in the medial and posterior regions of the femoral midshaft, which are more subject to compressive forces and/or lesser strain magnitudes.

  6. Natural Selection at the Brush-Border: Adaptations to Carbohydrate Diets in Humans and Other Mammals

    PubMed Central

    Pontremoli, Chiara; Mozzi, Alessandra; Forni, Diego; Cagliani, Rachele; Pozzoli, Uberto; Menozzi, Giorgia; Vertemara, Jacopo; Bresolin, Nereo; Clerici, Mario; Sironi, Manuela

    2015-01-01

    Dietary shifts can drive molecular evolution in mammals and a major transition in human history, the agricultural revolution, favored carbohydrate consumption. We investigated the evolutionary history of nine genes encoding brush-border proteins involved in carbohydrate digestion/absorption. Results indicated widespread adaptive evolution in mammals, with several branches experiencing episodic selection, particularly strong in bats. Many positively selected sites map to functional protein regions (e.g., within glucosidase catalytic crevices), with parallel evolution at SI (sucrase-isomaltase) and MGAM (maltase-glucoamylase). In human populations, five genes were targeted by positive selection acting on noncoding variants within regulatory elements. Analysis of ancient DNA samples indicated that most derived alleles were already present in the Paleolithic. Positively selected variants at SLC2A5 (fructose transporter) were an exception and possibly spread following the domestication of specific fruit crops. We conclude that agriculture determined no major selective event at carbohydrate metabolism genes in humans, with implications for susceptibility to metabolic disorders. PMID:26319403

  7. [Adaptive reactions of dehydrogenation processes in root voles during additional impacts of the physical nature].

    PubMed

    Kudiasheva, A G; Taskaev, A I

    2011-01-01

    Variations of the dehydrogenation enzyme activity (succinate dehydrogenase, pyruvate dehydrogenase, lactate dehydrogenase) in the heart muscle, liver and brain of root voles (Microtus oeconomus Pall.) and their progeny associated with additional stress effects (chronic low-level gamma-irradiation, short-term exposure to cold) have been studied. Root voles (parents) were caught in the areas with a normal and high-level natural radioactivity in the Republic of Komi. It has been revealed that the direction of shifts of the dehydrogenation enzyme activity in response to the factors of the physical nature is determined by the initial level of the oxidation process in tissues of root voles and their progeny that haven't been subjected to these actions. The reaction of root voles and their progeny (1-3 generations) from the radium zone has lower reserve functional possibilities in relation to the additional exposure as compared with the animals from the control zone. In some cases, chronic low-level irradiation and short-term cooling lead to leveling of differences between groups of animals which initially varied from each other in biochemical indexes. PMID:22279768

  8. Limits to the thermal tolerance of corals adapted to a highly fluctuating, naturally extreme temperature environment

    PubMed Central

    Schoepf, Verena; Stat, Michael; Falter, James L.; McCulloch, Malcolm T.

    2015-01-01

    Naturally extreme temperature environments can provide important insights into the processes underlying coral thermal tolerance. We determined the bleaching resistance of Acropora aspera and Dipsastraea sp. from both intertidal and subtidal environments of the naturally extreme Kimberley region in northwest Australia. Here tides of up to 10 m can cause aerial exposure of corals and temperatures as high as 37 °C that fluctuate daily by up to 7 °C. Control corals were maintained at ambient nearshore temperatures which varied diurnally by 4-5 °C, while treatment corals were exposed to similar diurnal variations and heat stress corresponding to ~20 degree heating days. All corals hosted Symbiodinium clade C independent of treatment or origin. Detailed physiological measurements showed that these corals were nevertheless highly sensitive to daily average temperatures exceeding their maximum monthly mean of ~31 °C by 1 °C for only a few days. Generally, Acropora was much more susceptible to bleaching than Dipsastraea and experienced up to 75% mortality, whereas all Dipsastraea survived. Furthermore, subtidal corals, which originated from a more thermally stable environment compared to intertidal corals, were more susceptible to bleaching. This demonstrates that while highly fluctuating temperatures enhance coral resilience to thermal stress, they do not provide immunity to extreme heat stress events. PMID:26627576

  9. Limits to the thermal tolerance of corals adapted to a highly fluctuating, naturally extreme temperature environment

    NASA Astrophysics Data System (ADS)

    Schoepf, Verena; Stat, Michael; Falter, James L.; McCulloch, Malcolm T.

    2015-12-01

    Naturally extreme temperature environments can provide important insights into the processes underlying coral thermal tolerance. We determined the bleaching resistance of Acropora aspera and Dipsastraea sp. from both intertidal and subtidal environments of the naturally extreme Kimberley region in northwest Australia. Here tides of up to 10 m can cause aerial exposure of corals and temperatures as high as 37 °C that fluctuate daily by up to 7 °C. Control corals were maintained at ambient nearshore temperatures which varied diurnally by 4-5 °C, while treatment corals were exposed to similar diurnal variations and heat stress corresponding to ~20 degree heating days. All corals hosted Symbiodinium clade C independent of treatment or origin. Detailed physiological measurements showed that these corals were nevertheless highly sensitive to daily average temperatures exceeding their maximum monthly mean of ~31 °C by 1 °C for only a few days. Generally, Acropora was much more susceptible to bleaching than Dipsastraea and experienced up to 75% mortality, whereas all Dipsastraea survived. Furthermore, subtidal corals, which originated from a more thermally stable environment compared to intertidal corals, were more susceptible to bleaching. This demonstrates that while highly fluctuating temperatures enhance coral resilience to thermal stress, they do not provide immunity to extreme heat stress events.

  10. Limits to the thermal tolerance of corals adapted to a highly fluctuating, naturally extreme temperature environment.

    PubMed

    Schoepf, Verena; Stat, Michael; Falter, James L; McCulloch, Malcolm T

    2015-01-01

    Naturally extreme temperature environments can provide important insights into the processes underlying coral thermal tolerance. We determined the bleaching resistance of Acropora aspera and Dipsastraea sp. from both intertidal and subtidal environments of the naturally extreme Kimberley region in northwest Australia. Here tides of up to 10 m can cause aerial exposure of corals and temperatures as high as 37 °C that fluctuate daily by up to 7 °C. Control corals were maintained at ambient nearshore temperatures which varied diurnally by 4-5 °C, while treatment corals were exposed to similar diurnal variations and heat stress corresponding to ~20 degree heating days. All corals hosted Symbiodinium clade C independent of treatment or origin. Detailed physiological measurements showed that these corals were nevertheless highly sensitive to daily average temperatures exceeding their maximum monthly mean of ~31 °C by 1 °C for only a few days. Generally, Acropora was much more susceptible to bleaching than Dipsastraea and experienced up to 75% mortality, whereas all Dipsastraea survived. Furthermore, subtidal corals, which originated from a more thermally stable environment compared to intertidal corals, were more susceptible to bleaching. This demonstrates that while highly fluctuating temperatures enhance coral resilience to thermal stress, they do not provide immunity to extreme heat stress events. PMID:26627576

  11. Symmetry-adapted perturbation-theory calculations of intermolecular forces employing density-functional description of monomers.

    PubMed

    Misquitta, Alston J; Szalewicz, Krzysztof

    2005-06-01

    A symmetry-adapted perturbation theory based on Kohn-Sham determinants [SAPT(KS)] and utilizing asymptotically corrected exchange-correlation potentials has been applied to the He2, Ne2, (H2O)2, and (CO2)2 dimers. It is shown that SAPT(KS) is able to recover the electrostatic, first-order exchange, second-order induction, and exchange-induction energies with an accuracy approaching and occasionally surpassing that of regular SAPT at the currently programmed theory level. The use of the asymptotic corrections is critical to achieve this accuracy. The SAPT(KS) results can be obtained at a small fraction of the time needed for regular SAPT calculations. The robustness of the SAPT(KS) method with respect to the basis set size is also demonstrated. A theoretical justification for high accuracy of SAPT(KS) predictions for the electrostatic, first-order exchange, and second-order induction energies has been provided.

  12. The nature of organic carbon in density-fractionated sediments in the Sacramento-San Joaquin River Delta (California)

    NASA Astrophysics Data System (ADS)

    Wakeham, S. G.; Canuel, E. A.

    2015-10-01

    Rivers are the primary means by which sediments and carbon are transported from the terrestrial biosphere to the oceans but gaps remain in our understanding of carbon associations from source to sink. Bed sediments from the Sacramento-San Joaquin River Delta (CA) were fractionated according to density and analyzed for sediment mass distribution, elemental (C and N) composition, mineral surface area, and stable carbon and radiocarbon isotope compositions of organic carbon (OC) and fatty acids to evaluate the nature of organic carbon in river sediments. OC was unevenly distributed among density fractions. Mass and TOC were in general concentrated in mesodensity (1.6-2.0 and 2.0-2.5 g cm-3) fractions, comprising 84.0 ± 1.3 % of total sediment mass and 80.8 ± 13.3 % of total OC (TOC). Low density (< 1.6 g cm-3) material, although rich in OC (34.0 ± 2.0 % OC) due to woody debris, constituted only 17.3 ± 12.8 % of TOC. High density (> 2.5 g cm-3) organic-poor, mineral material made-up 13.7 ± 1.4 % of sediment mass and 2.0 ± 0.9 % of TOC. Stable carbon isotope compositions of sedimentary OC were relatively uniform across bulk and density fractions (δ13C -27.4 ± 0.5 ‰). Radiocarbon content varied from Δ14C values of -382 (radiocarbon age 3800 yr BP) to +94 ‰ (modern) indicating a~mix of young and pre-aged OC. Fatty acids were used to further constrain the origins of sedimentary OC. Short-chain n-C14-n-C18 fatty acids of algal origin were depleted in δ13C (δ13C -37.5 to -35.2 ‰) but were enriched in 14C (Δ14C > 0) compared to long-chain n-C24-n-C28 acids of vascular plant origins with higher δ13C (-33.0 to -31.0 ‰) but variable Δ14C values (-180 and 61 ‰). These data demonstrate the potentially complex source and age distributions found within river sediments and provide insights about sediment and organic matter supply to the Sacramento-San Joaquin River Delta.

  13. The nature of organic carbon in density-fractionated sediments in the Sacramento-San Joaquin River Delta (California)

    NASA Astrophysics Data System (ADS)

    Wakeham, S. G.; Canuel, E. A.

    2016-02-01

    Rivers are the primary means by which sediments and carbon are transported from the terrestrial biosphere to the oceans but gaps remain in our understanding of carbon associations from source to sink. Bed sediments from the Sacramento-San Joaquin River Delta (CA) were fractionated according to density and analyzed for sediment mass distribution, elemental (C and N) composition, mineral surface area, and stable carbon and radiocarbon isotope compositions of organic carbon (OC) and fatty acids to evaluate the nature of organic carbon in river sediments. OC was unevenly distributed among density fractions. Mass and OC were in general concentrated in mesodensity (1.6-2.0 and 2.0-2.5 g cm-3) fractions, comprising 84.0 ± 1.3 % of total sediment mass and 80.8 ± 13.3 % of total OC (TOC). Low-density (< 1.6 g cm-3) material, although rich in OC (34.0 ± 2.0 % OC) due to woody debris, constituted only 17.3 ± 12.8 % of TOC. High-density (> 2.5 g cm-3) organic-poor, mineral-rich material made-up 13.7 ± 1.4 % of sediment mass and 2.0 ± 0.9 % of TOC. Stable carbon isotope compositions of sedimentary OC were relatively uniform across bulk and density fractions (δ13C -27.4 ± 0.5 ‰). Radiocarbon content varied from Δ14C values of -382 (radiocarbon age 3800 yr BP) to +94 ‰ (modern) indicating a mix of young and old OC. Fatty acids were used to further constrain the origins of sedimentary OC. Short-chain n-C14-n-C18 fatty acids of algal origin were depleted in 13C (δ13C -37.5 to -35.2 ‰) but were enriched in 14C (Δ14C > 0) compared to long-chain n-C24-n-C28 acids of vascular plant origins with higher δ13C (-33.0 to -31.0 ‰) but variable Δ14C values (-180 and 61 ‰). These data demonstrate the potentially complex source and age distributions found within river sediments and provide insights about sediment and organic matter supply to the Delta.

  14. Natural guide star adaptive optics systems at LBT: FLAO commissioning and science operations status

    NASA Astrophysics Data System (ADS)

    Esposito, S.; Riccardi, A.; Pinna, E.; Puglisi, A. T.; Quirós-Pacheco, F.; Arcidiacono, C.; Xompero, M.; Briguglio, R.; Busoni, L.; Fini, L.; Argomedo, J.; Gherardi, A.; Agapito, G.; Brusa, G.; Miller, D. L.; Guerra Ramon, J. C.; Boutsia, K.; Stefanini, P.

    2012-07-01

    This paper summarizes the activities and the principal results achieved during the commissioning of the two Natural Guide Star (NGS) AO systems called FLAO#1 & 2 installed at the bent Gregorian focal stations of the 2x8.4m Large Binocular Telescope (LBT). The commissioning activities of FLAO#1 took place in the period February 2010 - October 2011, while FLAO#2 commissioning started in December 2011 and should be completed by November 2012. The main results of the commissioning campaign are presented in terms of the H-band Strehl Ratio values achieved under different observing conditions. We will also describe the automatic procedures to configure and set-up the FLAO systems, and in particular the modal gain optimization procedure, which has been proven to be a very important one in achieving the nominal performance. Finally, some of the results achieved in two science runs using the near infra-red camera PISCES are briefly highlighted.

  15. Natural dye extracted from karkadah and its application in dye-sensitized solar cells: experimental and density functional theory study.

    PubMed

    Reda, S M; Soliman, K A

    2016-02-01

    This work presents an experimental and theoretical study of cyanidin natural dye as a sensitizer for ZnO dye-sensitized solar cells. ZnO nanoparticles were prepared using ammonia and oxalic acid as a capping agent. The calculated average size of the synthesized ZnO with different capping agents was found to be 32.1 nm. Electronic properties of cyanidin and delphinidin dye were studied using density functional theory (DFT) and time-dependent DFT with a B3LYP/6-31G(d,p) level. By comparing the theoretical results with the experimental data, the cyanidin dye can be used as a sensitizer in dye-sensitized solar cells. An efficiency of 0.006% under an AM-1.5 illumination at 100  mW/cm(2) was attained. The influence of dye adsorption time on the solar cell performance is discussed.

  16. Natural dye extracted from karkadah and its application in dye-sensitized solar cells: experimental and density functional theory study.

    PubMed

    Reda, S M; Soliman, K A

    2016-02-01

    This work presents an experimental and theoretical study of cyanidin natural dye as a sensitizer for ZnO dye-sensitized solar cells. ZnO nanoparticles were prepared using ammonia and oxalic acid as a capping agent. The calculated average size of the synthesized ZnO with different capping agents was found to be 32.1 nm. Electronic properties of cyanidin and delphinidin dye were studied using density functional theory (DFT) and time-dependent DFT with a B3LYP/6-31G(d,p) level. By comparing the theoretical results with the experimental data, the cyanidin dye can be used as a sensitizer in dye-sensitized solar cells. An efficiency of 0.006% under an AM-1.5 illumination at 100  mW/cm(2) was attained. The influence of dye adsorption time on the solar cell performance is discussed. PMID:26836089

  17. Human APOBEC3 Induced Mutation of Human Immunodeficiency Virus Type-1 Contributes to Adaptation and Evolution in Natural Infection

    PubMed Central

    Kim, Eun-Young; Lorenzo-Redondo, Ramon; Little, Susan J.; Chung, Yoon-Seok; Phalora, Prabhjeet K.; Maljkovic Berry, Irina; Archer, John; Penugonda, Sudhir; Fischer, Will; Richman, Douglas D.; Bhattacharya, Tanmoy; Malim, Michael H.; Wolinsky, Steven M.

    2014-01-01

    Human APOBEC3 proteins are cytidine deaminases that contribute broadly to innate immunity through the control of exogenous retrovirus replication and endogenous retroelement retrotransposition. As an intrinsic antiretroviral defense mechanism, APOBEC3 proteins induce extensive guanosine-to-adenosine (G-to-A) mutagenesis and inhibit synthesis of nascent human immunodeficiency virus-type 1 (HIV-1) cDNA. Human APOBEC3 proteins have additionally been proposed to induce infrequent, potentially non-lethal G-to-A mutations that make subtle contributions to sequence diversification of the viral genome and adaptation though acquisition of beneficial mutations. Using single-cycle HIV-1 infections in culture and highly parallel DNA sequencing, we defined trinucleotide contexts of the edited sites for APOBEC3D, APOBEC3F, APOBEC3G, and APOBEC3H. We then compared these APOBEC3 editing contexts with the patterns of G-to-A mutations in HIV-1 DNA in cells obtained sequentially from ten patients with primary HIV-1 infection. Viral substitutions were highest in the preferred trinucleotide contexts of the edited sites for the APOBEC3 deaminases. Consistent with the effects of immune selection, amino acid changes accumulated at the APOBEC3 editing contexts located within human leukocyte antigen (HLA)-appropriate epitopes that are known or predicted to enable peptide binding. Thus, APOBEC3 activity may induce mutations that influence the genetic diversity and adaptation of the HIV-1 population in natural infection. PMID:25080100

  18. A Multi-Moment Bulkwater Ice Microphysics Scheme with Consideration of the Adaptive Growth Habit and Apparent Density for Pristine Ice in the WRF Model

    NASA Astrophysics Data System (ADS)

    Tsai, T. C.; Chen, J. P.; Dearden, C.

    2014-12-01

    The wide variety of ice crystal shapes and growth habits makes it a complicated issue in cloud models. This study developed the bulk ice adaptive habit parameterization based on the theoretical approach of Chen and Lamb (1994) and introduced a 6-class hydrometeors double-moment (mass and number) bulk microphysics scheme with gamma-type size distribution function. Both the proposed schemes have been implemented into the Weather Research and Forecasting model (WRF) model forming a new multi-moment bulk microphysics scheme. Two new moments of ice crystal shape and volume are included for tracking pristine ice's adaptive habit and apparent density. A closure technique is developed to solve the time evolution of the bulk moments. For the verification of the bulk ice habit parameterization, some parcel-type (zero-dimension) calculations were conducted and compared with binned numerical calculations. The results showed that: a flexible size spectrum is important in numerical accuracy, the ice shape can significantly enhance the diffusional growth, and it is important to consider the memory of growth habit (adaptive growth) under varying environmental conditions. Also, the derived results with the 3-moment method were much closer to the binned calculations. A field campaign of DIAMET was selected to simulate in the WRF model for real-case studies. The simulations were performed with the traditional spherical ice and the new adaptive shape schemes to evaluate the effect of crystal habits. Some main features of narrow rain band, as well as the embedded precipitation cells, in the cold front case were well captured by the model. Furthermore, the simulations produced a good agreement in the microphysics against the aircraft observations in ice particle number concentration, ice crystal aspect ratio, and deposition heating rate especially within the temperature region of ice secondary multiplication production.

  19. The assessment of natural flood management measures as a climate change adaptation option through land use scenarios

    NASA Astrophysics Data System (ADS)

    Iacob, Oana; Rowan, John; Brown, Iain; Ellis, Chris

    2014-05-01

    Climate change is one of the most pressing issues facing civil society. Greater variability and more frequent extremes of temperature and precipitation will result in increased flood risk and corresponding social, economic and environmental impacts. Complementing more traditional structurally-based engineering interventions an important additional adaptation strategy is through natural flood management (NFM) measures utilising natural soil, wetland and groundwater storage at the catchment scale to attenuate runoff generation and downstream flooding. Such schemes have multiple co-benefits including improved water quality, biodiversity and amenity and so contribute to greater resilience to uncertain climate futures. As a case-study of a more integrated approach to land use planning we here consider the policy target of the Scottish Government to expand woodland in Scotland by 100,000 ha by 2025 from the current 3 000 ha/year. In this paper we examine runoff response under different woodland expansion scenarios using climate projections obtained from the UK Climate Projections (UKCP09). Woodland creation has recognised potential as a NFM measure, but locating this new planting is constrained by physical and cultural constraints. Land use choices in the future will also strongly reflect emergent socio-economic contexts, here assessed through scenario analysis. The distributed hydrological model WaSiM-ETH was utilised for the analysis using the case-study of the Tarland catchment, a tributary of the River Dee. Terrain data were obtained on a 50 m grid and the model calibrated using meteorological and river gauge data from 2005 to 2007 following a manual and an automatic calibration process. This novel approach highlights that land use change should be carefully managed for planned benefits and to avoid unintended consequences, such as changing the timing of tributary flood responses. Whilst woodland expansion may only provide modest gains in flood reductions the co

  20. Elevated Periimplantation Uterine Natural Killer Cell Density in Human Endometrium Is Associated With Impaired Corticosteroid Signaling in Decidualizing Stromal Cells

    PubMed Central

    Kuroda, Keiji; Venkatakrishnan, Radha; James, Sean; Šućurović, Sandra; Mulac-Jericevic, Biserka; Lucas, Emma S.; Takeda, Satoru; Shmygol, Anatoly; Brosens, Jan J.

    2013-01-01

    Background: Decidualizing human endometrial stromal cells (HESCs) profoundly up-regulate 11β-hydroxysteroid dehydrogenase type 1 (11βHSD1), the enzyme that converts inert cortisone to active cortisol. We postulated that the induction of a cortisol gradient upon decidualization of the periimplantation endometrium may impact on the uterine natural killer (uNK) cell population and on local expression of corticosteroid-dependent target genes. Methods: Midluteal endometrial biopsies (n = 55) were processed for uNK cell (CD56) analysis and primary HESC cultures. The cultures remained either untreated or were decidualized for 4 or 8 days. A tissue microarray was constructed from endometria with normal (n = 18) and elevated uNK cell (n = 18) scores. An abnormal uNK cell test was defined as greater than 5% CD56+ cells in the subluminal stroma. Results: Increased uNK cell density was associated with lower endometrial expression of 11βHSD1 and mineralocorticoid receptor (MR) but not glucocorticoid receptor in vivo. Elevated uNK cell density also corresponded to impaired induction of key decidual markers (11βHSD1, prolactin, and insulin-like growth factor binding protein-1) and MR-dependent enzymes (dehydrogenase/reductase member 3 and retinol saturase) in differentiating HESC cultures. Increased uNK cell density in vivo was not associated with increased in vitro expression of either IL-15 or IL-11, two cytokines implicated in uNK cell regulation. Conclusions: Elevated levels of uNK cells in the stroma underlying the surface epithelium are associated with inadequate cortisol biosynthesis by resident decidualizing cells and suboptimal induction of key MR-dependent enzymes involved in lipid biogenesis and the retinoid transport pathway. Our observations suggest that uNK cell testing identifies those women at risk of reproductive failure due to relative uterine cortisol deficiency. PMID:24025400

  1. An Atlas-Based Electron Density Mapping Method for Magnetic Resonance Imaging (MRI)-Alone Treatment Planning and Adaptive MRI-Based Prostate Radiation Therapy

    SciTech Connect

    Dowling, Jason A.; Lambert, Jonathan; Parker, Joel; Salvado, Olivier; Fripp, Jurgen; Capp, Anne; Wratten, Chris; Denham, James W.; Greer, Peter B.

    2012-05-01

    Purpose: Prostate radiation therapy dose planning directly on magnetic resonance imaging (MRI) scans would reduce costs and uncertainties due to multimodality image registration. Adaptive planning using a combined MRI-linear accelerator approach will also require dose calculations to be performed using MRI data. The aim of this work was to develop an atlas-based method to map realistic electron densities to MRI scans for dose calculations and digitally reconstructed radiograph (DRR) generation. Methods and Materials: Whole-pelvis MRI and CT scan data were collected from 39 prostate patients. Scans from 2 patients showed significantly different anatomy from that of the remaining patient population, and these patients were excluded. A whole-pelvis MRI atlas was generated based on the manually delineated MRI scans. In addition, a conjugate electron-density atlas was generated from the coregistered computed tomography (CT)-MRI scans. Pseudo-CT scans for each patient were automatically generated by global and nonrigid registration of the MRI atlas to the patient MRI scan, followed by application of the same transformations to the electron-density atlas. Comparisons were made between organ segmentations by using the Dice similarity coefficient (DSC) and point dose calculations for 26 patients on planning CT and pseudo-CT scans. Results: The agreement between pseudo-CT and planning CT was quantified by differences in the point dose at isocenter and distance to agreement in corresponding voxels. Dose differences were found to be less than 2%. Chi-squared values indicated that the planning CT and pseudo-CT dose distributions were equivalent. No significant differences (p > 0.9) were found between CT and pseudo-CT Hounsfield units for organs of interest. Mean {+-} standard deviation DSC scores for the atlas-based segmentation of the pelvic bones were 0.79 {+-} 0.12, 0.70 {+-} 0.14 for the prostate, 0.64 {+-} 0.16 for the bladder, and 0.63 {+-} 0.16 for the rectum

  2. Genetic adaptation to metal stress by natural populations of Daphnia longispina.

    PubMed

    Lopes, Isabel; Baird, Donald J; Ribeiro, Rui

    2006-02-01

    Loss of genetic diversity in natural populations as a result of chemical contamination has been reported in some studies. Here, four field populations of Daphnia longispina, two from sites historically impacted by acid mine drainage (AMD) and two from reference sites, were used to address four objectives: (1) identify differences in sensitivity between the stressed and reference populations; (2) distinguish between the components responsible for those differences (environmental influence vs genetic determination); (3) determine if genetically determined responses of reference and stressed populations converge from lethal to sublethal levels of contamination; and (4) evaluate losses of variability in genetically determined resistance by the stressed populations. Lethal and sublethal assays were carried out by exposing nonacclimated and acclimated neonates to AMD-contaminated waters and to copper dissolved in an artificial medium. Results indicate that both nonacclimated and acclimated individuals from the stressed populations are significantly less sensitive to AMD-contaminated waters than those from the reference populations, at both lethal and sublethal levels. The hypothesis of a convergence from lethal to sublethal responses was confirmed.

  3. A fast tree-based method for estimating column densities in adaptive mesh refinement codes. Influence of UV radiation field on the structure of molecular clouds

    NASA Astrophysics Data System (ADS)

    Valdivia, Valeska; Hennebelle, Patrick

    2014-11-01

    Context. Ultraviolet radiation plays a crucial role in molecular clouds. Radiation and matter are tightly coupled and their interplay influences the physical and chemical properties of gas. In particular, modeling the radiation propagation requires calculating column densities, which can be numerically expensive in high-resolution multidimensional simulations. Aims: Developing fast methods for estimating column densities is mandatory if we are interested in the dynamical influence of the radiative transfer. In particular, we focus on the effect of the UV screening on the dynamics and on the statistical properties of molecular clouds. Methods: We have developed a tree-based method for a fast estimate of column densities, implemented in the adaptive mesh refinement code RAMSES. We performed numerical simulations using this method in order to analyze the influence of the screening on the clump formation. Results: We find that the accuracy for the extinction of the tree-based method is better than 10%, while the relative error for the column density can be much more. We describe the implementation of a method based on precalculating the geometrical terms that noticeably reduces the calculation time. To study the influence of the screening on the statistical properties of molecular clouds we present the probability distribution function of gas and the associated temperature per density bin and the mass spectra for different density thresholds. Conclusions: The tree-based method is fast and accurate enough to be used during numerical simulations since no communication is needed between CPUs when using a fully threaded tree. It is then suitable to parallel computing. We show that the screening for far UV radiation mainly affects the dense gas, thereby favoring low temperatures and affecting the fragmentation. We show that when we include the screening, more structures are formed with higher densities in comparison to the case that does not include this effect. We

  4. Effects of "natural" water and "added" water on prediction of moisture content and bulk density of shelled corn from microwave dielectric properties.

    PubMed

    Trabelsi, Samir; Nelson, Stuart O; Lewis, Micah A

    2010-01-01

    Dielectric properties of samples of shelled corn of "natural" water content and those prepared by adding water were measured in free space at microwave frequencies and 23 degrees C. Results of measurements of attenuation, phase shift and dielectric constant and loss factor at 9 GHz show no difference between the samples with "natural" water and those in which water was added artificially. Bulk densities and moisture contents predicted from calibration equations expressed in terms of dielectric properties of both natural and added water samples agreed closely, and standard errors were less than 1% for moisture content and relative error for bulk density was less than 5%.

  5. The Origin of Mutants Under Selection: How Natural Selection Mimics Mutagenesis (Adaptive Mutation).

    PubMed

    Maisnier-Patin, Sophie; Roth, John R

    2015-07-01

    Selection detects mutants but does not cause mutations. Contrary to this dictum, Cairns and Foster plated a leaky lac mutant of Escherichia coli on lactose medium and saw revertant (Lac(+)) colonies accumulate with time above a nongrowing lawn. This result suggested that bacteria might mutagenize their own genome when growth is blocked. However, this conclusion is suspect in the light of recent evidence that revertant colonies are initiated by preexisting cells with multiple copies the conjugative F'lac plasmid, which carries the lac mutation. Some plated cells have multiple copies of the simple F'lac plasmid. This provides sufficient LacZ activity to support plasmid replication but not cell division. In nongrowing cells, repeated plasmid replication increases the likelihood of a reversion event. Reversion to lac(+) triggers exponential cell growth leading to a stable Lac(+) revertant colony. In 10% of these plated cells, the high-copy plasmid includes an internal tandem lac duplication, which provides even more LacZ activity—sufficient to support slow growth and formation of an unstable Lac(+) colony. Cells with multiple copies of the F'lac plasmid have an increased mutation rate, because the plasmid encodes the error-prone (mutagenic) DNA polymerase, DinB. Without DinB, unstable and stable Lac(+) revertant types form in equal numbers and both types arise with no mutagenesis. Amplification and selection are central to behavior of the Cairns-Foster system, whereas mutagenesis is a system-specific side effect or artifact caused by coamplification of dinB with lac. Study of this system has revealed several broadly applicable principles. In all populations, gene duplications are frequent stable genetic polymorphisms, common near-neutral mutant alleles can gain a positive phenotype when amplified under selection, and natural selection can operate without cell division when variability is generated by overreplication of local genome subregions.

  6. Estimation of breast percent density in raw and processed full field digital mammography images via adaptive fuzzy c-means clustering and support vector machine segmentation

    SciTech Connect

    Keller, Brad M.; Nathan, Diane L.; Wang Yan; Zheng Yuanjie; Gee, James C.; Conant, Emily F.; Kontos, Despina

    2012-08-15

    Purpose: The amount of fibroglandular tissue content in the breast as estimated mammographically, commonly referred to as breast percent density (PD%), is one of the most significant risk factors for developing breast cancer. Approaches to quantify breast density commonly focus on either semiautomated methods or visual assessment, both of which are highly subjective. Furthermore, most studies published to date investigating computer-aided assessment of breast PD% have been performed using digitized screen-film mammograms, while digital mammography is increasingly replacing screen-film mammography in breast cancer screening protocols. Digital mammography imaging generates two types of images for analysis, raw (i.e., 'FOR PROCESSING') and vendor postprocessed (i.e., 'FOR PRESENTATION'), of which postprocessed images are commonly used in clinical practice. Development of an algorithm which effectively estimates breast PD% in both raw and postprocessed digital mammography images would be beneficial in terms of direct clinical application and retrospective analysis. Methods: This work proposes a new algorithm for fully automated quantification of breast PD% based on adaptive multiclass fuzzy c-means (FCM) clustering and support vector machine (SVM) classification, optimized for the imaging characteristics of both raw and processed digital mammography images as well as for individual patient and image characteristics. Our algorithm first delineates the breast region within the mammogram via an automated thresholding scheme to identify background air followed by a straight line Hough transform to extract the pectoral muscle region. The algorithm then applies adaptive FCM clustering based on an optimal number of clusters derived from image properties of the specific mammogram to subdivide the breast into regions of similar gray-level intensity. Finally, a SVM classifier is trained to identify which clusters within the breast tissue are likely fibroglandular, which are then

  7. Measuring cone density in a Japanese macaque (Macaca fuscata) model of age-related macular degeneration with commercially available adaptive optics.

    PubMed

    Pennesi, Mark E; Garg, Anupam K; Feng, Shu; Michaels, Keith V; Smith, Travis B; Fay, Jonathan D; Weiss, Alison R; Renner, Laurie M; Hurst, Sawan; McGill, Trevor J; Cornea, Anda; Rittenhouse, Kay D; Sperling, Marvin; Fruebis, Joachim; Neuringer, Martha

    2014-01-01

    The aim of this study was to assess the feasibility of using a commercially available high-resolution adaptive optics (AO) camera to image the cone mosaic in Japanese macaques (Macaca fuscata) with dominantly inherited drusen. The macaques examined develop drusen closely resembling those seen in humans with age-related macular degeneration (AMD). For each animal, we acquired and processed images from the AO camera, montaged the results into a composite image, applied custom cone-counting software to detect individual cone photoreceptors, and created a cone density map of the macular region. We conclude that flood-illuminated AO provides a promising method of visualizing the cone mosaic in nonhuman primates. Future studies will quantify the longitudinal change in the cone mosaic and its relationship to the severity of drusen in these animals.

  8. Complaint-adaptive power density optimization as a tool for HTP-guided steering in deep hyperthermia treatment of pelvic tumors.

    PubMed

    Canters, R A M; Franckena, M; van der Zee, J; Van Rhoon, G C

    2008-12-01

    For an efficient clinical use of HTP (hyperthermia treatment planning), optimization methods are needed. In this study, a complaint-adaptive PD (power density) optimization as a tool for HTP-guided steering in deep hyperthermia of pelvic tumors is developed and tested. PD distribution in patients is predicted using FE-models. Two goal functions, Opt1 and Opt2, are applied to optimize PD distributions. Optimization consists of three steps: initial optimization, adaptive optimization after a first complaint and increasing the weight of a region after recurring complaints. Opt1 initially considers only target PD whereas Opt2 also takes into account hot spots. After patient complaints though, both limit PD in a region. Opt1 and Opt2 are evaluated in a phantom test, using patient models and during hyperthermia treatment. The phantom test and a sensitivity study in ten patient models, show that HTP-guided steering is most effective in peripheral complaint regions. Clinical evaluation in two groups of five patients shows that time between complaints is longer using Opt2 (p = 0.007). However, this does not lead to significantly different temperatures (T50s of 40.3 (Opt1) versus 40.1 degrees C (Opt2) (p = 0.898)). HTP-guided steering is feasible in terms of PD reduction in complaint regions and in time consumption. Opt2 is preferable in future use, because of better complaint reduction and control.

  9. Host-Specific Parvovirus Evolution in Nature Is Recapitulated by In Vitro Adaptation to Different Carnivore Species

    PubMed Central

    Allison, Andrew B.; Kohler, Dennis J.; Ortega, Alicia; Hoover, Elizabeth A.; Grove, Daniel M.; Holmes, Edward C.; Parrish, Colin R.

    2014-01-01

    Canine parvovirus (CPV) emerged as a new pandemic pathogen of dogs in the 1970s and is closely related to feline panleukopenia virus (FPV), a parvovirus of cats and related carnivores. Although both viruses have wide host ranges, analysis of viral sequences recovered from different wild carnivore species, as shown here, demonstrated that >95% were derived from CPV-like viruses, suggesting that CPV is dominant in sylvatic cycles. Many viral sequences showed host-specific mutations in their capsid proteins, which were often close to sites known to control binding to the transferrin receptor (TfR), the host receptor for these carnivore parvoviruses, and which exhibited frequent parallel evolution. To further examine the process of host adaptation, we passaged parvoviruses with alternative backgrounds in cells from different carnivore hosts. Specific mutations were selected in several viruses and these differed depending on both the background of the virus and the host cells in which they were passaged. Strikingly, these in vitro mutations recapitulated many specific changes seen in viruses from natural populations, strongly suggesting they are host adaptive, and which were shown to result in fitness advantages over their parental virus. Comparison of the sequences of the transferrin receptors of the different carnivore species demonstrated that many mutations occurred in and around the apical domain where the virus binds, indicating that viral variants were likely selected through their fit to receptor structures. Some of the viruses accumulated high levels of variation upon passage in alternative hosts, while others could infect multiple different hosts with no or only a few additional mutations. Overall, these studies demonstrate that the evolutionary history of a virus, including how long it has been circulating and in which hosts, as well as its phylogenetic background, has a profound effect on determining viral host range. PMID:25375184

  10. Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors

    PubMed Central

    Kelly, Linda W.; Williams, Gareth J.; Barott, Katie L.; Carlson, Craig A.; Dinsdale, Elizabeth A.; Edwards, Robert A.; Haas, Andreas F.; Haynes, Matthew; Lim, Yan Wei; McDole, Tracey; Nelson, Craig E.; Sala, Enric; Sandin, Stuart A.; Smith, Jennifer E.; Vermeij, Mark J. A.; Youle, Merry; Rohwer, Forest

    2014-01-01

    Holobionts are species-specific associations between macro- and microorganisms. On coral reefs, the benthic coverage of coral and algal holobionts varies due to natural and anthropogenic forcings. Different benthic macroorganisms are predicted to have specific microbiomes. In contrast, local environmental factors are predicted to select for specific metabolic pathways in microbes. To reconcile these two predictions, we hypothesized that adaptation of microbiomes to local conditions is facilitated by the horizontal transfer of genes responsible for specific metabolic capabilities. To test this hypothesis, microbial metagenomes were sequenced from 22 coral reefs at 11 Line Islands in the central Pacific that together span a wide range of biogeochemical and anthropogenic influences. Consistent with our hypothesis, the percent cover of major benthic functional groups significantly correlated with particular microbial taxa. Reefs with higher coral cover had a coral microbiome with higher abundances of Alphaproteobacteria (such as Rhodobacterales and Sphingomonadales), whereas microbiomes of algae-dominated reefs had higher abundances of Gammaproteobacteria (such as Alteromonadales, Pseudomonadales, and Vibrionales), Betaproteobacteria, and Bacteriodetes. In contrast to taxa, geography was the strongest predictor of microbial community metabolism. Microbial communities on reefs with higher nutrient availability (e.g., equatorial upwelling zones) were enriched in genes involved in nutrient-related metabolisms (e.g., nitrate and nitrite ammonification, Ton/Tol transport, etc.). On reefs further from the equator, microbes had more genes encoding chlorophyll biosynthesis and photosystems I/II. These results support the hypothesis that core microbiomes are determined by holobiont macroorganisms, and that those core taxa adapt to local conditions by selecting for advantageous metabolic genes. PMID:24982156

  11. Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors.

    PubMed

    Kelly, Linda W; Williams, Gareth J; Barott, Katie L; Carlson, Craig A; Dinsdale, Elizabeth A; Edwards, Robert A; Haas, Andreas F; Haynes, Matthew; Lim, Yan Wei; McDole, Tracey; Nelson, Craig E; Sala, Enric; Sandin, Stuart A; Smith, Jennifer E; Vermeij, Mark J A; Youle, Merry; Rohwer, Forest

    2014-07-15

    Holobionts are species-specific associations between macro- and microorganisms. On coral reefs, the benthic coverage of coral and algal holobionts varies due to natural and anthropogenic forcings. Different benthic macroorganisms are predicted to have specific microbiomes. In contrast, local environmental factors are predicted to select for specific metabolic pathways in microbes. To reconcile these two predictions, we hypothesized that adaptation of microbiomes to local conditions is facilitated by the horizontal transfer of genes responsible for specific metabolic capabilities. To test this hypothesis, microbial metagenomes were sequenced from 22 coral reefs at 11 Line Islands in the central Pacific that together span a wide range of biogeochemical and anthropogenic influences. Consistent with our hypothesis, the percent cover of major benthic functional groups significantly correlated with particular microbial taxa. Reefs with higher coral cover had a coral microbiome with higher abundances of Alphaproteobacteria (such as Rhodobacterales and Sphingomonadales), whereas microbiomes of algae-dominated reefs had higher abundances of Gammaproteobacteria (such as Alteromonadales, Pseudomonadales, and Vibrionales), Betaproteobacteria, and Bacteriodetes. In contrast to taxa, geography was the strongest predictor of microbial community metabolism. Microbial communities on reefs with higher nutrient availability (e.g., equatorial upwelling zones) were enriched in genes involved in nutrient-related metabolisms (e.g., nitrate and nitrite ammonification, Ton/Tol transport, etc.). On reefs further from the equator, microbes had more genes encoding chlorophyll biosynthesis and photosystems I/II. These results support the hypothesis that core microbiomes are determined by holobiont macroorganisms, and that those core taxa adapt to local conditions by selecting for advantageous metabolic genes.

  12. Natural resource mitigation, adaptation and research needs related to climate change in the Great Basin and Mojave Desert

    USGS Publications Warehouse

    Hughson, Debra L.; Busch, David E.; Davis, Scott; Finn, Sean P.; Caicco, Steve; Verburg, Paul S.J.

    2011-01-01

    This report synthesizes the knowledge, opinions, and concerns of many Federal and State land managers, scientists, stakeholders, and partners from a workshop, held at the University of Nevada, Las Vegas, on April 20-22, 2010. Land managers, research scientists, and resource specialists identified common concerns regarding the potential effects of climate change on public lands and natural resources in the Great Basin and Mojave Desert and developed recommendations for mitigation, adaptation, and research needs. Water and, conversely, the effects of drought emerged as a common theme in all breakout sessions on terrestrial and aquatic species at risk, managing across boundaries, monitoring, and ecosystem services. Climate change models for the southwestern deserts predict general warming and drying with increasing precipitation variability year to year. Scientists noted that under these changing conditions the past may no longer be a guide to the future in which managers envision increasing conflicts between human water uses and sustaining ecosystems. Increasing environmental stress also is expected as a consequence of shifting ecosystem boundaries and species distributions, expansion of non-native species, and decoupling of biotic mutualisms, leading to increasingly unstable biologic communities. Managers uniformly expressed a desire to work across management and agency boundaries at a landscape scale but conceded that conflicting agency missions and budgetary constraints often impede collaboration. More and better science is needed to cope with the effects of climate change but, perhaps even more important is the application of science to management issues using the methods of adaptive management based on long-term monitoring to assess the merits of management actions. Access to data is essential for science-based land management. Basic inventories, spatial databases, baseline condition assessments, data quality assurance, and data sharing were identified as top

  13. Mating system in a low-density natural population of the dioecious wind-pollinated Patagonian cypress.

    PubMed

    Pastorino, Mario J; Gallo, Leonardo A

    2006-03-01

    The mating system of a species is an essential factor that determines the genotypic frequencies of its populations in each generation. Thus, knowledge in this regard is important in the application of practical measures in conservation and forest tree breeding. Austrocedrus chilensis (D.DON) PIC. SER. ET BIZZARRI: is a member of the Cupressaceae native to the Andean-Patagonian Forest of Argentina and Chile with regional economic importance. It is a dioecious tree with pollen and seeds distributed by wind. Isozyme markers were utilized to study the mating system of this species through the survey of individual effective pollen clouds in a natural low-density population. If random mating occurs, effective pollen clouds that pollinate single seed trees are expected to be genetically homogeneous. The classical HardyWeinberg test of panmixia was also performed. Although it failed to reject random mating, the analysis of the pollen clouds showed that this mating pattern does not occur. Evidence of locally distributed heterogeneous pollen clouds is presented. The two methods are critically compared.

  14. Adaptive management of invasive pests in natural protected areas: the case of Matsucoccus feytaudi in Central Italy.

    PubMed

    Sciarretta, A; Marziali, L; Squarcini, M; Marianelli, L; Benassai, D; Logli, F; Roversi, P F

    2016-02-01

    Invasive species are a significant threat to affected ecosystems, having serious environmental, economic and social impacts. The maritime pine bast scale, Matsucoccus feytaudi Ducasse (Hemiptera: Matsucoccidae), causes serious damage to Pinus pinaster forests in SE France, Corsica and Italy where it has been introduced. This study illustrates the adaptive management plan implemented in the Migliarino, San Rossore, Massaciuccoli Regional Natural Park in Tuscany, Italy, where M. feytaudi arrived in 2004, leading to the decay of local P. pinaster stands. The management programme, aimed at slowing the establishment and growth of M. feytaudi, was carried out in the main sector of the park, Tenuta di San Rossore, to retard the destruction of the P. pinaster coastal strip protecting the more internal woodland from sea salt and to allow replacement of P. pinaster trees with a more stable broad-leaved wood. The combined use of mass trapping and silvicultural interventions, applied in a targeted manner according to distribution maps of pest captures and damage, helped to delay forest destruction compared with a nearby unmanaged area of the park Tenuta di Tombolo. Although M. feytaudi continued to spread during the management period, the populations remained at low levels for 6 years, showing a marked increase in 2012. During this period, the P. pinaster stands were reduced from 320 to 249 ha. The final result of this ongoing gradual conversion process will be transformation of the P. pinaster forest into Holm oak woods and Mediterranean shrub land, while P. pinaster will survive as clusters or blocks of trees.

  15. Marine microbes rapidly adapt to consume ethane, propane, and butane within the dissolved hydrocarbon plume of a natural seep

    NASA Astrophysics Data System (ADS)

    Mendes, Stephanie D.; Redmond, Molly C.; Voigritter, Karl; Perez, Christian; Scarlett, Rachel; Valentine, David L.

    2015-03-01

    Simple hydrocarbon gases containing two to four carbons (ethane, propane, and butane) are among the most abundant compounds present in petroleum reservoirs, and are introduced into the ocean through natural seepage and industrial discharge. Yet little is known about the bacterial consumption of these compounds in ocean waters. To assess the timing by which microbes metabolize these gases, we conducted a three-phase study that tested and applied a radiotracer-based method to quantify the oxidation rates of ethane, propane, and butane in fresh seawater samples. Phase 1 involved the synthesis of tritiated ethane, propane, and butane using Grignard reagents and tritiated water. Phase 2 was a systematic assessment of experimental conditions, wherein the indigenous microbial community was found to rapidly oxidize ethane, propane, and butane. Phase 3 was the application of this tritium method near the Coal Oil Point seeps, offshore California. Spatial and temporal patterns of ethane, propane, and butane oxidation down current from the hydrocarbon seeps demonstrated that >99% of these gases are metabolized within 1.3 days following initial exposure. The oxidation of ethane outpaced oxidation of propane and butane with patterns indicating the microbial community responded to these gases by rapid adaptation or growth. Methane oxidation responded the slowest in plume waters. Estimates based on the observed metabolic rates and carbon mass balance suggest that ethane, propane, and butane-consuming microorganisms may transiently account for a majority of the total microbial community in these impacted waters.

  16. Metabolic Noise, Vestigial Metabolites or the Raw Material of Ecological Adaptation? Opportunitistic Enzymes, Catalytic Promiscuity and the Evolution of chemodiversity in Nature (2010 JGI User Meeting)

    ScienceCinema

    Noel, Joseph

    2016-07-12

    Joseph Noel from the Salk Institute on "Metabolic Noise, Vestigial Metabolites or the Raw Material of Ecological Adaptation? Enzymes, Catalytic Promiscuity and the Evolution of Chemodiversity in Nature" on March 26, 2010 at the 5th Annual DOE JGI User Meeting

  17. Metabolic Noise, Vestigial Metabolites or the Raw Material of Ecological Adaptation? Opportunitistic Enzymes, Catalytic Promiscuity and the Evolution of chemodiversity in Nature (2010 JGI User Meeting)

    SciTech Connect

    Noel, Joseph

    2010-03-26

    Joseph Noel from the Salk Institute on "Metabolic Noise, Vestigial Metabolites or the Raw Material of Ecological Adaptation? Enzymes, Catalytic Promiscuity and the Evolution of Chemodiversity in Nature" on March 26, 2010 at the 5th Annual DOE JGI User Meeting

  18. NOTE: Cone beam computerized tomography: the effect of calibration of the Hounsfield unit number to electron density on dose calculation accuracy for adaptive radiation therapy

    NASA Astrophysics Data System (ADS)

    Hatton, Joan; McCurdy, Boyd; Greer, Peter B.

    2009-08-01

    The availability of cone beam computerized tomography (CBCT) images at the time of treatment has opened possibilities for dose calculations representing the delivered dose for adaptive radiation therapy. A significant component in the accuracy of dose calculation is the calibration of the Hounsfield unit (HU) number to electron density (ED). The aim of this work is to assess the impact of HU to ED calibration phantom insert composition and phantom volume on dose calculation accuracy for CBCT. CBCT HU to ED calibration curves for different commercial phantoms were measured and compared. The effect of the scattering volume of the phantom on the HU to ED calibration was examined as a function of phantom length and radial diameter. The resulting calibration curves were used at the treatment planning system to calculate doses for geometrically simple phantoms and a pelvic anatomical phantom to compare against measured doses. Three-dimensional dose distributions for the pelvis phantom were calculated using the HU to ED curves and compared using Chi comparisons. The HU to ED calibration curves for the commercial phantoms diverge at densities greater than that of water, depending on the elemental composition of the phantom insert. The effect of adding scatter material longitudinally, increasing the phantom length from 5 cm to 26 cm, was found to be up to 260 HU numbers for the high-density insert. The change in the HU value, by increasing the diameter of the phantom from 18 to 40 cm, was found to be up to 1200 HU for the high-density insert. The effect of phantom diameter on the HU to ED curve can lead to dose differences for 6 MV and 18 MV x-rays under bone inhomogeneities of up to 20% in extreme cases. These results show significant dosimetric differences when using a calibration phantom with materials which are not tissue equivalent. More importantly, the amount of scattering material used with the HU to ED calibration phantom has a significant effect on the dosimetric

  19. Efficacy of direct detection of pathogens in naturally infected mice by using a high-density PCR array.

    PubMed

    Henderson, Kenneth S; Perkins, Cheryl L; Havens, Richard B; Kelly, Mee-Jin E; Francis, Brian C; Dole, Vandana S; Shek, William R

    2013-11-01

    We used a high-density array of real-time PCR assays for commonly reported rodent infectious agents (PRIA) to test naturally infected index mice and sentinel mice exposed by contact and soiled-bedding transfer. PRIA detected 14 pathogens--including viruses, bacteria, fur mites, pinworms, and enteric protozoa--in 97.2% of 28 pooled fecal samples, fur-perianal swabs, and oral swabs from 4 cages containing a total of 10 index mice. Among these pathogens, PRIA (like conventional health monitoring methods) failed to detect Mycoplasma pulmonis, Pasteurella pneumotropica, and Giardia spp. in all of the 9 contact and 9 soiled-bedding sentinels. PRIA demonstrated murine adenovirus and Cryptosporidium and Spironucleus spp. in contact but not soiled-bedding sentinels and detected Helicobacter and pinworms in fewer than half of the soiled-bedding sentinels. Of the 4 species of Helicobacter that species-specific PCR assays identified in index mice, only H. ganmani was found in soiled-bedding and contact sentinels. PRIA detected all of the pathogens in sentinels that were identified by conventional methods. Myobia musculi was detected by PCR in index and sentinel mice but missed by conventional parasitologic examinations. In summary, PRIA reproducibly detected diverse pathogens in heavily pooled specimens collected noninvasively from infected index mice antemortem. The inability of PRIA and conventional health monitoring methods (that is, parasitology, micro-biology, and serology) to demonstrate transmission of some pathogens to contact sentinels and the inefficient transmission of others to soiled-bedding sentinels underscores the importance of direct PCR testing to determine the pathogen status of rodents in quarantine and during routine colony surveillance. PMID:24351765

  20. Effects of Climate Change on Natural and Regulated Flood Risks in the Skagit River Basin and Prospects for Adaptation

    NASA Astrophysics Data System (ADS)

    LEE, S.; Hamlet, A. F.

    2011-12-01

    Based on global climate model (GCM) scenarios from the Intergovernmental Panel on Climate Change Fourth Assessment Report (IPCC AR4) and subsequent hydrologic modeling studies for the Pacific Northwest, the impacts of climate change on flooding in Western Washington are likely to be substantial. Many rivers draining to Puget Sound show timing shifts of peak flows from spring to winter and increases in the simulated natural 100-year flood (Q100) of 20-30% by the mid-21st century. A regional climate model (RCM) scenario, which provides greatly improved representation of mountain topography and important feedback mechanisms, is also used in this study. Preliminary results based on a RCM scenario (Echam5 A1B) for the 2050s also show substantial increases in future flood risk in many Pacific Northwest River basins. In comparison with GCM scenarios, a RCM scenario shows more apparent timing shifts of peak flows from spring to fall/winter. To assess the combined effects of increasing natural flood risks and dam operations that determine impacts to regulated flow, a new integrated daily time step reservoir operations model was built for the Skagit River Basin. The model simulates current operating policies for historical flow conditions and for projected flow for the 2040s and 2080s associated with the Echam5 A1B scenario (a global climate model scenario which approximates the average conditions simulated by all models). By simulating alternative reservoir operating policies that provide increased flood storage and starting flood evacuation one month earlier, prospects for the adaptation are considered. Preliminary results from daily time step reservoir operations modeling (based on a single climate change scenario) suggest that the regulated 100-year flood will increase substantially in the future in comparison with historical baselines (20% by the 2040s and 24% by the 2080s). Proposed increases in flood storage are simulated to decrease the magnitude of the regulated 100

  1. Motivation and drives in bottom-up developments in natural hazards management: multiple-use of adaptation strategies in Austria

    NASA Astrophysics Data System (ADS)

    Thaler, Thomas; Fuchs, Sven

    2015-04-01

    Losses from extreme hydrological events, such as recently experienced in Europe have focused the attention of policymakers as well as researchers on vulnerability to natural hazards. In parallel, the context of changing flood risks under climate and societal change is driving transformation in the role of the state in responsibility sharing and individual responsibilities for risk management and precaution. The new policy agenda enhances the responsibilities of local authorities and private citizens in hazard management and reduces the role of central governments. Within the objective is to place added responsibility on local organisations and citizens to determine locally-based strategies for risk reduction. A major challenge of modelling adaptation is to represent the complexity of coupled human-environmental systems and particularly the feedback loops between environmental dynamics and human decision-making processes on different scales. This paper focuses on bottom-up initiatives to flood risk management which are, by definition, different from the mainstream. These initiatives are clearly influenced (positively or negatively) by a number of factors, where the combination of these interdependences can create specific conditions that alter the opportunity for effective governance arrangements in a local scheme approach. In total, this study identified six general drivers which encourage the implementation of flood storages, such as direct relation to recent major flood frequency and history, the initiative of individual stakeholders (promoters), political pressures from outside (e.g. business companies, private households) and a strong solidarity attitude of municipalities and the stakeholders involved. Although partnership approach may be seen as an 'optimal' solution for flood risk management, in practice there are many limitations and barriers in establishing these collaborations and making them effective (especially in the long term) with the consequences

  2. Natural and adaptive IgM antibodies in the recognition of tumor-associated antigens of breast cancer (Review)

    PubMed Central

    DÍAZ-ZARAGOZA, MARIANA; HERNÁNDEZ-ÁVILA, RICARDO; VIEDMA-RODRÍGUEZ, RUBÍ; ARENAS-ARANDA, DIEGO; OSTOA-SALOMA, PEDRO

    2015-01-01

    For early detection of cancer, education and screening are important, but the most critical factor is the development of early diagnostic tools. Methods that recognize the warning signs of cancer and take prompt action lead to an early diagnosis; simple tests can identify individuals in a healthy population who have the disease but have not developed symptoms. Early detection of cancer is significant and is one of the most promising approaches by which to reduce the growing cancer burden and guide curative treatment. The early diagnosis of patients with breast cancer is challenging, since it is the most common cancer in women worldwide. Despite the advent of mammography in screening for breast cancer, low-resource, low-cost alternative tools must be implemented to complement mammography findings. IgM is part of the first line of defense of an organism and is responsible for recognizing and eliminating infectious particles and removing transformed cells. Most studies on breast cancer have focused on the development of IgG-like molecules as biomarkers or as a treatment for the advanced stages of cancer, but autoantibodies (IgM) and tumor-associated antigens (proteins or carbohydrates with aberrant structures) have not been examined as early diagnostic tools for breast cancer. The present review summarizes the function of natural and adaptive IgM in eliminating cancer cells in the early stages of pathology and their value as early diagnostic tools. IgM, as a component of the immune system, is being used to identify tumor-associated antigens and tumor-associated carbohydrate antigens. PMID:26133558

  3. Rapid adaptive divergence of life-history traits in response to abiotic stress within a natural population of a parthenogenetic nematode

    PubMed Central

    Doroszuk, Agnieszka; Wojewodzic, Marcin W; Kammenga, Jan E

    2006-01-01

    Sexual reproduction is acknowledged to facilitate adaptation to novel environments while asexual eukaryotes are often regarded as having low adaptive potential. This view has been challenged in a number of studies, but the adaptive potential of asexual populations in the field is poorly documented. We investigated the response of natural populations of the parthenogenetic nematode Acrobeloides nanus to imposed divergent selective pressures. For this purpose, we employed a replicated evolution experiment in the field. After 20 years of evolution under abiotic stress and control conditions, life-history traits were assessed in reaction norm- and reciprocal transplant experiments. Both these experiments indicated adaptive divergence within the population of A. nanus. Namely, the transplant experiment demonstrated that in the stressed soil environment, body growth rate was more reduced in the nematodes originating from the control treatment. In the reaction norm experiment, survival and reproduction were higher under test conditions corresponding to the native environment of the nematodes. The differences in the analysed traits are discussed in the context of life-history theory. Overall, our results strongly support high adaptive potential of A. nanus and suggest that population structure and distribution of asexual species is shaped by local adaptation events. PMID:17002946

  4. Density-fitted open-shell symmetry-adapted perturbation theory and application to π-stacking in benzene dimer cation and ionized DNA base pair steps

    NASA Astrophysics Data System (ADS)

    Gonthier, Jérôme F.; Sherrill, C. David

    2016-10-01

    Symmetry-Adapted Perturbation Theory (SAPT) is one of the most popular approaches to energy component analysis of non-covalent interactions between closed-shell systems, yielding both accurate interaction energies and meaningful interaction energy components. In recent years, the full open-shell equations for SAPT up to second-order in the intermolecular interaction and zeroth-order in the intramolecular correlation (SAPT0) were published [P. S. Zuchowski et al., J. Chem. Phys. 129, 084101 (2008); M. Hapka et al., ibid. 137, 164104 (2012)]. Here, we utilize density-fitted electron repulsion integrals to produce an efficient computational implementation. This approach is used to examine the effect of ionization on π-π interactions. For the benzene dimer radical cation, comparison against reference values indicates a good performance for open-shell SAPT0, except in cases with substantial charge transfer. For π stacking between hydrogen-bonded pairs of nucleobases, dispersion interactions still dominate binding, in spite of the creation of a positive charge.

  5. Symmetry-adapted perturbation theory with Kohn-Sham orbitals using non-empirically tuned, long-range-corrected density functionals

    SciTech Connect

    Lao, Ka Un; Herbert, John M.

    2014-01-28

    The performance of second-order symmetry-adapted perturbation theory (SAPT) calculations using Kohn-Sham (KS) orbitals is evaluated against benchmark results for intermolecular interactions. Unlike previous studies of this “SAPT(KS)” methodology, the present study uses non-empirically tuned long-range corrected (LRC) functionals for the monomers. The proper v{sub xc} (r)→0 asymptotic limit is achieved by tuning the range separation parameter in order to satisfy the condition that the highest occupied KS energy level equals minus the molecule's ionization energy, for each monomer unit. Tests for He{sub 2}, Ne{sub 2}, and the S22 and S66 data sets reveal that this condition is important for accurate prediction of the non-dispersion components of the energy, although errors in SAPT(KS) dispersion energies remain unacceptably large. In conjunction with an empirical dispersion potential, however, the SAPT(KS) method affords good results for S22 and S66, and also accurately predicts the whole potential energy curve for the sandwich isomer of the benzene dimer. Tuned LRC functionals represent an attractive alternative to other asymptotic corrections that have been employed in density-functional-based SAPT calculations, and we recommend the use of tuned LRC functionals in both coupled-perturbed SAPT(DFT) calculations and dispersion-corrected SAPT(KS) calculations.

  6. Correction for ‘artificial’ electron disequilibrium due to cone-beam CT density errors: implications for on-line adaptive stereotactic body radiation therapy of lung

    NASA Astrophysics Data System (ADS)

    Disher, Brandon; Hajdok, George; Wang, An; Craig, Jeff; Gaede, Stewart; Battista, Jerry J.

    2013-06-01

    Cone-beam computed tomography (CBCT) has rapidly become a clinically useful imaging modality for image-guided radiation therapy. Unfortunately, CBCT images of the thorax are susceptible to artefacts due to scattered photons, beam hardening, lag in data acquisition, and respiratory motion during a slow scan. These limitations cause dose errors when CBCT image data are used directly in dose computations for on-line, dose adaptive radiation therapy (DART). The purpose of this work is to assess the magnitude of errors in CBCT numbers (HU), and determine the resultant effects on derived tissue density and computed dose accuracy for stereotactic body radiation therapy (SBRT) of lung cancer. Planning CT (PCT) images of three lung patients were acquired using a Philips multi-slice helical CT simulator, while CBCT images were obtained with a Varian On-Board Imaging system. To account for erroneous CBCT data, three practical correction techniques were tested: (1) conversion of CBCT numbers to electron density using phantoms, (2) replacement of individual CBCT pixel values with bulk CT numbers, averaged from PCT images for tissue regions, and (3) limited replacement of CBCT lung pixels values (LCT) likely to produce artificial lateral electron disequilibrium. For each corrected CBCT data set, lung SBRT dose distributions were computed for a 6 MV volume modulated arc therapy (VMAT) technique within the Philips Pinnacle treatment planning system. The reference prescription dose was set such that 95% of the planning target volume (PTV) received at least 54 Gy (i.e. D95). Further, we used the relative depth dose factor as an a priori index to predict the effects of incorrect low tissue density on computed lung dose in regions of severe electron disequilibrium. CT number profiles from co-registered CBCT and PCT patient lung images revealed many reduced lung pixel values in CBCT data, with some pixels corresponding to vacuum (-1000 HU). Similarly, CBCT data in a plastic lung

  7. Thoracic and Lumbar Vertebral Bone Mineral Density Changes in a Natural Occurring Dog Model of Diffuse Idiopathic Skeletal Hyperostosis

    PubMed Central

    De Decker, Steven; Lam, Richard; Packer, Rowena M. A.; Gielen, Ingrid M. V. L.; Volk, Holger A.

    2015-01-01

    Ankylosing spinal disorders can be associated with alterations in vertebral bone mineral density (BMD). There is however controversy about vertebral BMD in patients wuse idiopathic skeletal hyperostosis (DISH). DISH in Boxer dogs has been considered a natural occurring disease model for DISH in people. The purpose of this study was to compare vertebral BMD between Boxers with and without DISH. Fifty-nine Boxers with (n=30) or without (n=29) DISH that underwent computed tomography were included. Vertebral BMD was calculated for each thoracic and lumbar vertebra by using an earlier reported and validated protocol. For each vertebral body, a region of interest was drawn on the axial computed tomographic images at three separate locations: immediately inferior to the superior end plate, in the middle of the vertebral body, and superior to the inferior end plate. Values from the three axial slices were averaged to give a mean Hounsfield Unit value for each vertebral body. Univariate statistical analysis was performed to identify factors to be included in a multivariate model. The multivariate model including all dogs demonstrated that vertebral DISH status (Coefficient 24.63; 95% CI 16.07 to 33.19; p <0.001), lumbar vertebrae (Coefficient -17.25; 95% CI -23.42 to -11.09; p < 0.01), and to a lesser extent higher age (Coefficient -0.56; 95% CI -1.07 to -0.05; p = 0.03) were significant predictors for vertebral BMD. When the multivariate model was repeated using only dogs with DISH, vertebral DISH status (Coefficient 20.67; 95% CI, 10.98 to 30.37; p < 0.001) and lumbar anatomical region (Coefficient -38.24; 95% CI, -47.75 to -28.73; p < 0.001) were again predictors for vertebral BMD but age was not. The results of this study indicate that DISH can be associated with decreased vertebral BMD. Further studies are necessary to evaluate the clinical importance and pathophysiology of this finding. PMID:25898128

  8. Thoracic and lumbar vertebral bone mineral density changes in a natural occurring dog model of diffuse idiopathic skeletal hyperostosis.

    PubMed

    De Decker, Steven; Lam, Richard; Packer, Rowena M A; Gielen, Ingrid M V L; Volk, Holger A

    2015-01-01

    Ankylosing spinal disorders can be associated with alterations in vertebral bone mineral density (BMD). There is however controversy about vertebral BMD in patients wuse idiopathic skeletal hyperostosis (DISH). DISH in Boxer dogs has been considered a natural occurring disease model for DISH in people. The purpose of this study was to compare vertebral BMD between Boxers with and without DISH. Fifty-nine Boxers with (n=30) or without (n=29) DISH that underwent computed tomography were included. Vertebral BMD was calculated for each thoracic and lumbar vertebra by using an earlier reported and validated protocol. For each vertebral body, a region of interest was drawn on the axial computed tomographic images at three separate locations: immediately inferior to the superior end plate, in the middle of the vertebral body, and superior to the inferior end plate. Values from the three axial slices were averaged to give a mean Hounsfield Unit value for each vertebral body. Univariate statistical analysis was performed to identify factors to be included in a multivariate model. The multivariate model including all dogs demonstrated that vertebral DISH status (Coefficient 24.63; 95% CI 16.07 to 33.19; p <0.001), lumbar vertebrae (Coefficient -17.25; 95% CI -23.42 to -11.09; p < 0.01), and to a lesser extent higher age (Coefficient -0.56; 95% CI -1.07 to -0.05; p = 0.03) were significant predictors for vertebral BMD. When the multivariate model was repeated using only dogs with DISH, vertebral DISH status (Coefficient 20.67; 95% CI, 10.98 to 30.37; p < 0.001) and lumbar anatomical region (Coefficient -38.24; 95% CI, -47.75 to -28.73; p < 0.001) were again predictors for vertebral BMD but age was not. The results of this study indicate that DISH can be associated with decreased vertebral BMD. Further studies are necessary to evaluate the clinical importance and pathophysiology of this finding. PMID:25898128

  9. The Relationship Between Perceptions of Wilderness Character and Attitudes Toward Management Intervention to Adapt Biophysical Resources to a Changing Climate and Nature Restoration at Sequoia and Kings Canyon National Parks.

    PubMed

    Watson, Alan; Martin, Steve; Christensen, Neal; Fauth, Gregg; Williams, Dan

    2015-09-01

    In a recent national survey of federal wilderness managers, respondents identified the high priority need for scientific information about public attitudes toward biophysical intervention to adapt to climate change and attitudes of the public toward restoration of natural conditions. In a survey of visitors to one National Park wilderness in California, visitors revealed that they largely do not support biophysical intervention in wilderness to mitigate the effects of climate change, but broad support for activities that restore natural conditions exists. In an attempt to understand how these attitudes vary among visitors, it was found that those visitors who most value naturalness aspects of wilderness character also most positively support restoration and are most negative toward climate change intervention practices. More information about visitor-defined wilderness character attributes is needed and strategic planning to guide intervention decisions and restoration should be a priority. In this study, it was found that wilderness character is largely defined by visitors based on its wildness attributes, which include natural sounds, low density of people, pure water, clean air, and the presence of humans substantially unnoticeable. PMID:25910871

  10. The Relationship Between Perceptions of Wilderness Character and Attitudes Toward Management Intervention to Adapt Biophysical Resources to a Changing Climate and Nature Restoration at Sequoia and Kings Canyon National Parks.

    PubMed

    Watson, Alan; Martin, Steve; Christensen, Neal; Fauth, Gregg; Williams, Dan

    2015-09-01

    In a recent national survey of federal wilderness managers, respondents identified the high priority need for scientific information about public attitudes toward biophysical intervention to adapt to climate change and attitudes of the public toward restoration of natural conditions. In a survey of visitors to one National Park wilderness in California, visitors revealed that they largely do not support biophysical intervention in wilderness to mitigate the effects of climate change, but broad support for activities that restore natural conditions exists. In an attempt to understand how these attitudes vary among visitors, it was found that those visitors who most value naturalness aspects of wilderness character also most positively support restoration and are most negative toward climate change intervention practices. More information about visitor-defined wilderness character attributes is needed and strategic planning to guide intervention decisions and restoration should be a priority. In this study, it was found that wilderness character is largely defined by visitors based on its wildness attributes, which include natural sounds, low density of people, pure water, clean air, and the presence of humans substantially unnoticeable.

  11. The Relationship Between Perceptions of Wilderness Character and Attitudes Toward Management Intervention to Adapt Biophysical Resources to a Changing Climate and Nature Restoration at Sequoia and Kings Canyon National Parks

    NASA Astrophysics Data System (ADS)

    Watson, Alan; Martin, Steve; Christensen, Neal; Fauth, Gregg; Williams, Dan

    2015-09-01

    In a recent national survey of federal wilderness managers, respondents identified the high priority need for scientific information about public attitudes toward biophysical intervention to adapt to climate change and attitudes of the public toward restoration of natural conditions. In a survey of visitors to one National Park wilderness in California, visitors revealed that they largely do not support biophysical intervention in wilderness to mitigate the effects of climate change, but broad support for activities that restore natural conditions exists. In an attempt to understand how these attitudes vary among visitors, it was found that those visitors who most value naturalness aspects of wilderness character also most positively support restoration and are most negative toward climate change intervention practices. More information about visitor-defined wilderness character attributes is needed and strategic planning to guide intervention decisions and restoration should be a priority. In this study, it was found that wilderness character is largely defined by visitors based on its wildness attributes, which include natural sounds, low density of people, pure water, clean air, and the presence of humans substantially unnoticeable.

  12. An endocytic YXXΦ (YRRF) cargo sorting motif in the cytoplasmic tail of murine cytomegalovirus AP2 'adapter adapter' protein m04/gp34 antagonizes virus evasion of natural killer cells.

    PubMed

    Fink, Annette; Blaum, Franziska; Babic Cac, Marina; Ebert, Stefan; Lemmermann, Niels A W; Reddehase, Matthias J

    2015-06-01

    Viruses have evolved proteins that bind immunologically relevant cargo molecules at the cell surface for their downmodulation by internalization. Via a tyrosine-based sorting motif YXXΦ in their cytoplasmic tails, they link the bound cargo to the cellular adapter protein-2 (AP2), thereby sorting it into clathrin-triskelion-coated pits for accelerated endocytosis. Downmodulation of CD4 molecules by lentiviral protein NEF represents the most prominent example. Based on connecting cargo to cellular adapter molecules, such specialized viral proteins have been referred to as 'connectors' or 'adapter adapters.' Murine cytomegalovirus glycoprotein m04/gp34 binds stably to MHC class-I (MHC-I) molecules and suspiciously carries a canonical YXXΦ endocytosis motif YRRF in its cytoplasmic tail. Disconnection from AP2 by motif mutation ARRF should retain m04-MHC-I complexes at the cell surface and result in an enhanced silencing of natural killer (NK) cells, which recognize them via inhibitory receptors. We have tested this prediction with a recombinant virus in which the AP2 motif is selectively destroyed by point mutation Y248A, and compared this with the deletion of the complete protein in a Δm04 mutant. Phenotypes were antithetical in that loss of AP2-binding enhanced NK cell silencing, whereas absence of m04-MHC-I released them from silencing. We thus conclude that AP2-binding antagonizes NK cell silencing by enhancing endocytosis of the inhibitory ligand m04-MHC-I. Based on a screen for tyrosine-based endocytic motifs in cytoplasmic tail sequences, we propose here the new hypothesis that most proteins of the m02-m16 gene family serve as 'adapter adapters,' each selecting its specific cell surface cargo for clathrin-assisted internalization.

  13. Investigation on effect of Populus alba stands distance on density of pests and their natural enemies population under poplar/alfalfa agroforestry system.

    PubMed

    Khabir, Z H; Sadeghi, S E; Hanifeh, S; Eivazi, A

    2009-01-15

    This study was carried out in order to distinguish the effect of agroforestry system (combination of agriculture and forestry) on pests and natural enemy's population in poplar research station. Wood is one of the first substances that naturally was used for a long period of time. Forage is an important production of natural resources too. Some factors such as proper lands deficit, lack of economy, pest and disease attacks and faced production of these materials with serious challenges. Agroforestry is a method for decrease of the mentioned problems. The stands of poplar had have planted by complete randomized design with 4 treatments (stand distance) of poplar/alfalfa include 3x4, 3x6.7, 3x8, 3x10 m and 2 control treatments, alfalfa and poplar. The results showed that Chaitophorus populeti had the highest density in poplar and 3x10 m treatments. Monosteira unicostata is another insect pest that had most density in 3x10 m treatment. And alfalfa had high density of Chrysoperla carnea. The density of Coccinella septempunctata, were almost equal in all treatments.

  14. Relative contributions of local and regional factors to species richness and total density of butterflies and moths in semi-natural grasslands.

    PubMed

    Pöyry, Juha; Paukkunen, Juho; Heliölä, Janne; Kuussaari, Mikko

    2009-06-01

    Metapopulation theory predicts that species richness and total population density of habitat specialists increase with increasing area and regional connectivity of the habitat. To test these predictions, we examined the relative contributions of habitat patch area, connectivity of the regional habitat network and local habitat quality to species richness and total density of butterflies and day-active moths inhabiting semi-natural grasslands. We studied butterflies and moths in 48 replicate landscapes situated in southwest Finland, including a focal patch and the surrounding network of other semi-natural grasslands within a radius of 1.5 km from the focal patch. By applying the method of hierarchical partitioning, which can distinguish between independent and joint contributions of individual explanatory variables, we observed that variables of the local habitat quality (e.g. mean vegetation height and nectar plant abundance) generally showed the highest independent effect on species richness and total density of butterflies and moths. Habitat area did not show a significant independent contribution to species richness and total density of butterflies and moths. The effect of habitat connectivity was observed only for total density of the declining butterflies and moths. These observations indicate that the local habitat quality is of foremost importance in explaining variation in species richness and total density of butterflies and moths. In addition, declining butterflies and moths have larger populations in well-connected networks of semi-natural grasslands. Our results suggest that, while it is crucial to maintain high-quality habitats by management, with limited resources it would be appropriate to concentrate grassland management and restoration to areas with well-connected grassland networks in which the declining species currently have their strongest populations.

  15. Adaptation in Practice: How Managers of Nature Conservation Areas in Eastern England are Responding to Climate Change

    NASA Astrophysics Data System (ADS)

    Macgregor, Nicholas A.; van Dijk, Nikki

    2014-10-01

    Although good general principles for climate change adaptation in conservation have been developed, it is proving a challenge to translate them into more detailed recommendations for action. To improve our understanding of what adaptation might involve in practice, we investigated how the managers of conservation areas in eastern England are considering climate change. We used a written questionnaire and semi-structured interviews to collect information from managers of a range of different conservation areas. Topics investigated include the impacts of climate change perceived to be of the greatest importance; adaptation goals being set; management actions being carried out to achieve these goals; sources of information used; and perceived barriers to taking action. We identified major themes and issues that were apparent across the sites studied. Specifically, we found ways in which adaptation had been informed by past experience; different strategies relating to whether to accept or resist change; approaches for coping with more variable conditions; ways of taking a large-scale approach and managing sites as networks; some practical examples of aspects of adaptive management; and examples of the role that other sectors can play in both constraining and increasing a conservation area's capacity to adapt. We discuss the relevance of these findings to the growing discussion in conservation about identifying adaptation pathways for different conservation areas and a potential progression from a focus on resilience and incremental change to embracing "transformation." Though adaptation will be place-specific, we believe these findings provide useful lessons for future action in both England and other countries.

  16. CheMPS2: A free open-source spin-adapted implementation of the density matrix renormalization group for ab initio quantum chemistry

    NASA Astrophysics Data System (ADS)

    Wouters, Sebastian; Poelmans, Ward; Ayers, Paul W.; Van Neck, Dimitri

    2014-06-01

    The density matrix renormalization group (DMRG) has become an indispensable numerical tool to find exact eigenstates of finite-size quantum systems with strong correlation. In the fields of condensed matter, nuclear structure and molecular electronic structure, it has significantly extended the system sizes that can be handled compared to full configuration interaction, without losing numerical accuracy. For quantum chemistry (QC), the most efficient implementations of DMRG require the incorporation of particle number, spin and point group symmetries in the underlying matrix product state (MPS) ansatz, as well as the use of so-called complementary operators. The symmetries introduce a sparse block structure in the MPS ansatz and in the intermediary contracted tensors. If a symmetry is non-abelian, the Wigner-Eckart theorem allows to factorize a tensor into a Clebsch-Gordan coefficient and a reduced tensor. In addition, the fermion signs have to be carefully tracked. Because of these challenges, implementing DMRG efficiently for QC is not straightforward. Efficient and freely available implementations are therefore highly desired. In this work we present CheMPS2, our free open-source spin-adapted implementation of DMRG for ab initio QC. Around CheMPS2, we have implemented the augmented Hessian Newton-Raphson complete active space self-consistent field method, with exact Hessian. The bond dissociation curves of the 12 lowest states of the carbon dimer were obtained at the DMRG(28 orbitals, 12 electrons, DSU(2) = 2500)/cc-pVDZ level of theory. The contribution of 1 s core correlation to the X1Σg+ bond dissociation curve of the carbon dimer was estimated by comparing energies at the DMRG(36o, 12e, DSU(2) = 2500)/cc-pCVDZ and DMRG-SCF(34o, 8e, DSU(2) = 2500)/cc-pCVDZ levels of theory.

  17. The effects of natural disturbances, reef state, and herbivorous fish densities on ciguatera poisoning in Rarotonga, southern Cook Islands.

    PubMed

    Rongo, Teina; van Woesik, Robert

    2013-03-15

    Ciguatera poisoning is a critical public-health issue among Pacific island nations. Accurately predicting ciguatera outbreaks has become a priority, particularly in Rarotonga in the southern Cook Islands, which has reported the highest incidence of ciguatera poisoning globally. Since 2006, however, cases of ciguatera poisoning have declined, and in 2011 ciguatera cases were the lowest in nearly 20 years. Here we examined the relationships between cases of ciguatera poisoning, from 1994 to 2011, and: (i) coral cover, used as a proxy of reef state, (ii) the densities of herbivorous fishes, and (iii) reef disturbances. We found that coral cover was not a good predictor of cases of ciguatera poisoning, but high densities of the herbivorous fish Ctenochaetus striatus and reef disturbances were both strong predictors of ciguatera poisoning. Yet these two predictors were correlated, because the densities of C. striatus increased only after major cyclones had disturbed the reefs. Since 2006, the number of cyclones has decreased considerably in Rarotonga, because of the climatic shift toward the negative phase of the Pacific Decadal Oscillation. We suggest that fewer cyclones have led to decreases in both the densities of C. striatus and of the number of reported cases of ciguatera poisoning in Rarotonga. PMID:23313379

  18. The effects of natural disturbances, reef state, and herbivorous fish densities on ciguatera poisoning in Rarotonga, southern Cook Islands.

    PubMed

    Rongo, Teina; van Woesik, Robert

    2013-03-15

    Ciguatera poisoning is a critical public-health issue among Pacific island nations. Accurately predicting ciguatera outbreaks has become a priority, particularly in Rarotonga in the southern Cook Islands, which has reported the highest incidence of ciguatera poisoning globally. Since 2006, however, cases of ciguatera poisoning have declined, and in 2011 ciguatera cases were the lowest in nearly 20 years. Here we examined the relationships between cases of ciguatera poisoning, from 1994 to 2011, and: (i) coral cover, used as a proxy of reef state, (ii) the densities of herbivorous fishes, and (iii) reef disturbances. We found that coral cover was not a good predictor of cases of ciguatera poisoning, but high densities of the herbivorous fish Ctenochaetus striatus and reef disturbances were both strong predictors of ciguatera poisoning. Yet these two predictors were correlated, because the densities of C. striatus increased only after major cyclones had disturbed the reefs. Since 2006, the number of cyclones has decreased considerably in Rarotonga, because of the climatic shift toward the negative phase of the Pacific Decadal Oscillation. We suggest that fewer cyclones have led to decreases in both the densities of C. striatus and of the number of reported cases of ciguatera poisoning in Rarotonga.

  19. Natural variation and the capacity to adapt to ocean acidification in the keystone sea urchin Strongylocentrotus purpuratus.

    PubMed

    Kelly, Morgan W; Padilla-Gamiño, Jacqueline L; Hofmann, Gretchen E

    2013-08-01

    A rapidly growing body of literature documents the potential negative effects of CO2 -driven ocean acidification (OA) on marine organisms. However, nearly all this work has focused on the effects of future conditions on modern populations, neglecting the role of adaptation. Rapid evolution can alter demographic responses to environmental change, ultimately affecting the likelihood of population persistence, but the capacity for adaptation will differ among populations and species. Here, we measure the capacity of the ecologically important purple sea urchin Strongylocentrotus purpuratus to adapt to OA, using a breeding experiment to estimate additive genetic variance for larval size (an important component of fitness) under future high-pCO2 /low-pH conditions. Although larvae reared under future conditions were smaller than those reared under present-day conditions, we show that there is also abundant genetic variation for body size under elevated pCO2 , indicating that this trait can evolve. The observed heritability of size was 0.40 ± 0.32 (95% CI) under low pCO2 , and 0.50 ± 0.30 under high-pCO2 conditions. Accounting for the observed genetic variation in models of future larval size and demographic rates substantially alters projections of performance for this species in the future ocean. Importantly, our model shows that after incorporating the effects of adaptation, the OA-driven decrease in population growth rate is up to 50% smaller, than that predicted by the 'no-adaptation' scenario. Adults used in the experiment were collected from two sites on the coast of the Northeast Pacific that are characterized by different pH regimes, as measured by autonomous sensors. Comparing results between sites, we also found subtle differences in larval size under high-pCO2 rearing conditions, consistent with local adaptation to carbonate chemistry in the field. These results suggest that spatially varying selection may help to maintain genetic variation necessary

  20. Genome-Wide Association Study in Arabidopsis thaliana of Natural Variation in Seed Oil Melting Point: A Widespread Adaptive Trait in Plants.

    PubMed

    Branham, Sandra E; Wright, Sara J; Reba, Aaron; Morrison, Ginnie D; Linder, C Randal

    2016-05-01

    Seed oil melting point is an adaptive, quantitative trait determined by the relative proportions of the fatty acids that compose the oil. Micro- and macro-evolutionary evidence suggests selection has changed the melting point of seed oils to covary with germination temperatures because of a trade-off between total energy stores and the rate of energy acquisition during germination under competition. The seed oil compositions of 391 natural accessions of Arabidopsis thaliana, grown under common-garden conditions, were used to assess whether seed oil melting point within a species varied with germination temperature. In support of the adaptive explanation, long-term monthly spring and fall field temperatures of the accession collection sites significantly predicted their seed oil melting points. In addition, a genome-wide association study (GWAS) was performed to determine which genes were most likely responsible for the natural variation in seed oil melting point. The GWAS found a single highly significant association within the coding region of FAD2, which encodes a fatty acid desaturase central to the oil biosynthesis pathway. In a separate analysis of 15 a priori oil synthesis candidate genes, 2 (FAD2 and FATB) were located near significant SNPs associated with seed oil melting point. These results comport with others' molecular work showing that lines with alterations in these genes affect seed oil melting point as expected. Our results suggest natural selection has acted on a small number of loci to alter a quantitative trait in response to local environmental conditions.

  1. Genome-Wide Association Study in Arabidopsis thaliana of Natural Variation in Seed Oil Melting Point: A Widespread Adaptive Trait in Plants.

    PubMed

    Branham, Sandra E; Wright, Sara J; Reba, Aaron; Morrison, Ginnie D; Linder, C Randal

    2016-05-01

    Seed oil melting point is an adaptive, quantitative trait determined by the relative proportions of the fatty acids that compose the oil. Micro- and macro-evolutionary evidence suggests selection has changed the melting point of seed oils to covary with germination temperatures because of a trade-off between total energy stores and the rate of energy acquisition during germination under competition. The seed oil compositions of 391 natural accessions of Arabidopsis thaliana, grown under common-garden conditions, were used to assess whether seed oil melting point within a species varied with germination temperature. In support of the adaptive explanation, long-term monthly spring and fall field temperatures of the accession collection sites significantly predicted their seed oil melting points. In addition, a genome-wide association study (GWAS) was performed to determine which genes were most likely responsible for the natural variation in seed oil melting point. The GWAS found a single highly significant association within the coding region of FAD2, which encodes a fatty acid desaturase central to the oil biosynthesis pathway. In a separate analysis of 15 a priori oil synthesis candidate genes, 2 (FAD2 and FATB) were located near significant SNPs associated with seed oil melting point. These results comport with others' molecular work showing that lines with alterations in these genes affect seed oil melting point as expected. Our results suggest natural selection has acted on a small number of loci to alter a quantitative trait in response to local environmental conditions. PMID:26865732

  2. Structural changes in the low-density polyethylene/natural rubber composites in the aqueous and soil media

    NASA Astrophysics Data System (ADS)

    Mastalygina, Elena E.; Varyan, Ivetta A.; Kolesnikova, Natalya N.; Popov, Anatoly A.

    2016-05-01

    The novel biodegradable materials based on polyethylene with different content of natural rubber have been developed. In this paper the regularities of changes in structure and properties of the composites under the influence of biological and non-biological factors have been investigated. High levels of biodegradability and satisfied mechanical properties of biocomposites, as well as the significant modification of the polyethylene crystalline phase in the composites affected by moisture and environmental factors have been determined.

  3. The adaptive nature of eye movements in linguistic tasks: how payoff and architecture shape speed-accuracy trade-offs.

    PubMed

    Lewis, Richard L; Shvartsman, Michael; Singh, Satinder

    2013-07-01

    We explore the idea that eye-movement strategies in reading are precisely adapted to the joint constraints of task structure, task payoff, and processing architecture. We present a model of saccadic control that separates a parametric control policy space from a parametric machine architecture, the latter based on a small set of assumptions derived from research on eye movements in reading (Engbert, Nuthmann, Richter, & Kliegl, 2005; Reichle, Warren, & McConnell, 2009). The eye-control model is embedded in a decision architecture (a machine and policy space) that is capable of performing a simple linguistic task integrating information across saccades. Model predictions are derived by jointly optimizing the control of eye movements and task decisions under payoffs that quantitatively express different desired speed-accuracy trade-offs. The model yields distinct eye-movement predictions for the same task under different payoffs, including single-fixation durations, frequency effects, accuracy effects, and list position effects, and their modulation by task payoff. The predictions are compared to-and found to accord with-eye-movement data obtained from human participants performing the same task under the same payoffs, but they are found not to accord as well when the assumptions concerning payoff optimization and processing architecture are varied. These results extend work on rational analysis of oculomotor control and adaptation of reading strategy (Bicknell & Levy, ; McConkie, Rayner, & Wilson, 1973; Norris, 2009; Wotschack, 2009) by providing evidence for adaptation at low levels of saccadic control that is shaped by quantitatively varying task demands and the dynamics of processing architecture. PMID:23757203

  4. Application of Time-Dependent Density Functional and Natural Bond Orbital Theories to the UV-vis Absorption Spectra of Some Phenolic Compounds.

    PubMed

    Marković, Svetlana; Tošović, Jelena

    2015-09-01

    The UV-vis properties of 22 natural phenolic compounds, comprising anthraquinones, neoflavonoids, and flavonoids were systematically examined. The time-dependent density functional theory (TDDFT) approach in combination with the B3LYP, B3LYP-D2, B3P86, and M06-2X functionals was used to simulate the UV-vis spectra of the investigated compounds. It was shown that all methods exhibit very good (B3LYP slightly better) performance in reproducing the examined UV-vis spectra. However, the shapes of the Kohn-Sham molecular orbitals (MOs) involved in electronic transitions were misleading in constructing the MO correlation diagrams. To provide better understanding of redistribution of electron density upon excitation, the natural bond orbital (NBO) analysis was applied. Bearing in mind the spatial and energetic separations, as well as the character of the π bonding, lone pair, and π* antibonding natural localized molecular orbitals (NLMOs), the "NLMO clusters" were constructed. NLMO cluster should be understood as a part of a molecule characterized with distinguished electron density. It was shown that all absorption bands including all electronic transitions need to be inspected to fully understand the UV-vis spectrum of a certain compound, and, thus, to learn more about its UV-vis light absorption. Our investigation showed that the TDDFT and NBO theories are complementary, as the results from the two approaches can be combined to interpret the UV-vis spectra. Agreement between the predictions of the TDDFT approach and those based on the NLMO clusters is excellent in the case of major electronic transitions and long wavelengths. It should be emphasized that the approach for investigation of UV-vis light absorption based on the NLMO clusters is applied for the first time.

  5. Enhancing the limiting sensitivity of optical/infrared interferometry with natural guide star adaptive optics: happy couples or bad bed-fellows?

    NASA Astrophysics Data System (ADS)

    Rea, Alexander D.; Haniff, Christopher A.

    2012-07-01

    Enhancing the limiting sensitivity of optical/infrared interferometry is one of the "holy grails" of interferometric research. While the use of adaptive optics is in principle attractive, a number of issues suggest that its ability to enhance the sensitivity of ground-based arrays is less clear. Indeed, the ultimate sensitivity of an array may be limited by any of the multiple active and photon-hungry subsystems that comprise its whole. In this paper we investigate the limiting sensitivity of interferometer arrays using unit telescopes of moderate size (i.e. with D <= 4 m) equipped with natural guide star adaptive optics systems. We focus on how to realise the best limiting sensitivity for observations in the near-infrared. We nd that for Vega-type targets, i.e. those that have similar magnitudes at all wavelengths, the use of an adaptive optics system can provide enchancements in limiting sensitivity of up to 1.5 magnitudes. However, for redder targets this improvement can decrease dramatically, and very similar sensitivity (Δmlimiting <= 0.5) can be obtained with arrays using 1.5m-class apertures and tip-tilt correction alone.

  6. Testing the adaptive nature of radiation: growth form and life history divergence in the African grass genus Ehrharta (Poaceae: Ehrhartoideae).

    PubMed

    Verboom, G Anthony; Linder, H Peter; Stock, William D

    2004-09-01

    In most documented examples of adaptive radiation, the processes underlying divergence in form and function are poorly explored and remain speculative. Here, data from a comparative seedling growth experiment are used to explore growth form divergence in Ehrharta, a group of grasses that radiated in seasonally arid environments of the Cape region of South Africa. Seedlings of eight Ehrharta species of variable growth form were grown in liquid culture under conditions of high resource availabilty for 56 d, during which time changes in dry mass, allocation, and leaf parameters were measured. The results of this experiment reveal the existence of distinct seedling growth patterns that are associated with differences in adult plant form and seasonal drought survival strategy. Specifically, species that utilize a reseeding strategy have higher seedling growth rates and flower earlier than species that persist by vegetative means. A correlation between species' growth rates and their native substrates suggests that edaphic heterogeneity has been central in directing the evolution of alternative persistence strategies and growth forms. Parsimony reconstruction identifies slow growth and an association with nutrient-deficient sandstone-derived soils as ancestral in Ehrharta, with fast growth evolving after a transition to richer shale- and granite-derived soils. The emergence of annual species in two fast-growth lineages suggests that the latter is a key step in the evolution of an ephemeral strategy. An association between plant function and habitat identifies the radiation of Ehrharta as adaptive.

  7. Keeping wetlands wet in the western United States: adaptations to drought in agriculture-dominated human-natural systems.

    PubMed

    Downard, Rebekah; Endter-Wada, Joanna

    2013-12-15

    Water is critical to protecting wetlands in arid regions, especially in agriculture-dominated watersheds. This comparative case study analyzes three federal wildlife refuges in the Bear River Basin of the U.S. West where refuge managers secured water supplies by adapting to their local environmental context and their refuge's relationship to agriculture in being either irrigation-dependent, reservoir-adjacent or diked-delta wetlands. We found that each refuge's position confers different opportunities for securing a water supply and entails unique management challenges linked to agricultural water uses. Acquiring contextually-appropriate water rights portfolios was important for protecting these arid region wetlands and was accomplished through various strategies. Once acquired, water is managed to buffer wetlands against fluctuations caused by a dynamic climate and agricultural demands, especially during droughts. Management plans are responsive to needs of neighboring water users and values of the public at large. Such context-specific adaptations will be critical as the West faces climate change and population growth that threaten wetlands and agricultural systems to which they are linked.

  8. When climate change is a fact! Adaptive strategies for drinking water production in a changing natural environment.

    PubMed

    Meuleman, A F M; Cirkel, G; Zwolsman, G J J

    2007-01-01

    Climate change increases water system dynamics through temperature changes, changes in precipitation patterns, evaporation, and water quality and water storage in ice packs. Water system dependent economical stakeholders, such as drinking water companies in the Netherlands, have to cope with consequences of climate change, e.g. floods and water shortages in river systems, upcoming of brackish ground water, salt water intrusion, increasing peak demands and microbiological activity due to temperature rise. In the past decades, however, both water systems and drinking water production have become more and more inflexible; water systems have been heavily regulated aiming at maximum security and economic functions and the drinking water supply in the Netherlands has grown into an inflexible, but cheap and reliable, system. At a water catchment scale, flexibility and adaptation are solutions to overcome climate change related consequences. Flexible adaptive strategies for drinking water production comprise new sources for drinking water production, application of storage concepts in the short term, and a redesign of large centralized systems, including flexible treatment plants, in the long term. Transition to flexible concepts will take decades because investment depreciation periods of assets are long. These strategies must be based on thorough knowledge of current assets to seize opportunities for change.

  9. Genome-wide amplifications caused by chromosomal rearrangements play a major role in the adaptive evolution of natural yeast.

    PubMed Central

    Infante, Juan J; Dombek, Kenneth M; Rebordinos, Laureana; Cantoral, Jesús M; Young, Elton T

    2003-01-01

    The relative importance of gross chromosomal rearrangements to adaptive evolution has not been precisely defined. The Saccharomyces cerevisiae flor yeast strains offer significant advantages for the study of molecular evolution since they have recently evolved to a high degree of specialization in a very restrictive environment. Using DNA microarray technology, we have compared the genomes of two prominent variants of S. cerevisiae flor yeast strains. The strains differ from one another in the DNA copy number of 116 genomic regions that comprise 38% of the genome. In most cases, these regions are amplicons flanked by repeated sequences or other recombination hotspots previously described as regions where double-strand breaks occur. The presence of genes that confer specific characteristics to the flor yeast within the amplicons supports the role of chromosomal rearrangements as a major mechanism of adaptive evolution in S. cerevisiae. We propose that nonallelic interactions are enhanced by ethanol- and acetaldehyde-induced double-strand breaks in the chromosomal DNA, which are repaired by pathways that yield gross chromosomal rearrangements. This mechanism of chromosomal evolution could also account for the sexual isolation shown among the flor yeast. PMID:14704163

  10. Towards Biocontained Cell Factories: An Evolutionarily Adapted Escherichia coli Strain Produces a New-to-nature Bioactive Lantibiotic Containing Thienopyrrole-Alanine

    PubMed Central

    Kuthning, Anja; Durkin, Patrick; Oehm, Stefan; Hoesl, Michael G.; Budisa, Nediljko; Süssmuth, Roderich D.

    2016-01-01

    Genetic code engineering that enables reassignment of genetic codons to non-canonical amino acids (ncAAs) is a powerful strategy for enhancing ribosomally synthesized peptides and proteins with functions not commonly found in Nature. Here we report the expression of a ribosomally synthesized and post-translationally modified peptide (RiPP), the 32-mer lantibiotic lichenicidin with a canonical tryptophan (Trp) residue replaced by the ncAA L-β-(thieno[3,2-b]pyrrolyl)alanine ([3,2]Tpa) which does not sustain cell growth in the culture. We have demonstrated that cellular toxicity of [3,2]Tpa for the production of the new-to-nature bioactive congener of lichenicidin in the host Escherichia coli can be alleviated by using an evolutionarily adapted host strain MT21 which not only tolerates [3,2]Tpa but also uses it as a proteome-wide synthetic building block. This work underscores the feasibility of the biocontainment concept and establishes a general framework for design and large scale production of RiPPs with evolutionarily adapted host strains. PMID:27634138

  11. Towards Biocontained Cell Factories: An Evolutionarily Adapted Escherichia coli Strain Produces a New-to-nature Bioactive Lantibiotic Containing Thienopyrrole-Alanine.

    PubMed

    Kuthning, Anja; Durkin, Patrick; Oehm, Stefan; Hoesl, Michael G; Budisa, Nediljko; Süssmuth, Roderich D

    2016-01-01

    Genetic code engineering that enables reassignment of genetic codons to non-canonical amino acids (ncAAs) is a powerful strategy for enhancing ribosomally synthesized peptides and proteins with functions not commonly found in Nature. Here we report the expression of a ribosomally synthesized and post-translationally modified peptide (RiPP), the 32-mer lantibiotic lichenicidin with a canonical tryptophan (Trp) residue replaced by the ncAA L-β-(thieno[3,2-b]pyrrolyl)alanine ([3,2]Tpa) which does not sustain cell growth in the culture. We have demonstrated that cellular toxicity of [3,2]Tpa for the production of the new-to-nature bioactive congener of lichenicidin in the host Escherichia coli can be alleviated by using an evolutionarily adapted host strain MT21 which not only tolerates [3,2]Tpa but also uses it as a proteome-wide synthetic building block. This work underscores the feasibility of the biocontainment concept and establishes a general framework for design and large scale production of RiPPs with evolutionarily adapted host strains. PMID:27634138

  12. Prediction of successive steps of SOM formation in aggregates and density fractions based on the 13C natural abundance

    NASA Astrophysics Data System (ADS)

    Gunina, Anna; Kuzyakov, Yakov

    2014-05-01

    Aggregate formation is a key process of soil development, which promotes carbon (C) stabilization by hindering decomposition of particulate organic matter (POM) and its interactions with mineral particles. C stabilization processes lead to 13C fractionation and consequently to various δ13C values of soil organic matter (SOM) fractions. Differences in δ13C within the aggregates and fractions may have two reasons: 1) preferential stabilization of organic compounds with light or heavy δ13C and/or 2) stabilization of organic materials after passing one or more microbial utilization cycles, leading to heavier δ13C in remaining C. We hypothesized that: 1) 13C enrichment between the SOM fractions corresponds to successive steps of SOM formation; 2) 13C fractionation (but not the δ13C signature) depends mainly on the transformation steps and not on the C precursors. Consequently, minimal differences between Δ13C of SOM fractions between various ecosystems correspond to maximal probability of the SOM formation pathways. We tested these hypotheses on three soils formed from cover loam during 45 years of growth of coniferous or deciduous forests or arable crops. Organic C pools in large macroaggregates, small macroaggregates, and microaggregates were fractionated sequentially for four density fractions to obtain free POM with ρ

  13. Nature of the Triple Point in Chromium Alloys: Mode-Softening of the Incommensurate Spin Density Wave

    SciTech Connect

    Noakes, D.R.; Fawcett, E.; Sternlieb, B.L.; Shirane, G.; Jankowska, J.

    1997-12-31

    The magnetic stiffness parameter, A2, associated with the critical fluctuations in the paramagnetic phase close to the incommensurate spin-density-wave (SDW) transition of a Cr+0.18at.%Re single crystal, when compared with that of in pure chromium and dilute alloys of vanadium in chromium, indicates that the singularity responsible for the onset of the commensurate SDW phase occurs when A2 approaches zero at a finite value of the incommensurability parameter, delta 0.017 rlu, instead of zero as usually assumed. The mode of the incommensurate SDW softens as delta approaches this critical value with rhenium doping, and conversely hardens as delta increases when vanadium is added to chromium. Also, the amplitude of the critical scattering increases as delta approaches its end point, by a factor of about two going from 0.2 and 0.5at.%V to pure chromium, and by another factor near two in going from pure Cr to Cr+0.18at.%Re.

  14. Nature of charge density waves and superconductivity in 1 T -TaSe2 -xTex

    NASA Astrophysics Data System (ADS)

    Liu, Y.; Shao, D. F.; Li, L. J.; Lu, W. J.; Zhu, X. D.; Tong, P.; Xiao, R. C.; Ling, L. S.; Xi, C. Y.; Pi, L.; Tian, H. F.; Yang, H. X.; Li, J. Q.; Song, W. H.; Zhu, X. B.; Sun, Y. P.

    2016-07-01

    Transition-metal dichalcogenides (TMDs) M X2 (M =Ti,Nb,Ta;X =S,Se,Te) exhibit a rich set of charge density wave (CDW) orders, which usually coexist and/or compete with superconductivity. The mechanisms of CDWs and superconductivity in TMDs are still under debate. Here we perform an investigation on a typical TMD system, 1 T -TaSe2 -xTex (0 ≤x ≤2 ). Doping-induced disordered distribution of Se/Te suppresses CDWs in 1 T -TaSe2. A domelike superconducting phase with the maximum Tconset of 2.5 K was observed near CDWs. The superconducting volume is very small inside the CDW phase and becomes very large instantly when the CDW phase is fully suppressed. The observations can be understood based on the strong q -dependent electron-phonon coupling-induced periodic-lattice-distortion (PLD) mechanism of CDWs. The volume variation of superconductivity implies the emergence of domain walls in the suppressing process of CDWs. Our concluded scenario makes a fundamental understanding about CDWs and related superconductivity in TMDs.

  15. Adaptive management

    USGS Publications Warehouse

    Allen, Craig R.; Garmestani, Ahjond S.

    2015-01-01

    Adaptive management is an approach to natural resource management that emphasizes learning through management where knowledge is incomplete, and when, despite inherent uncertainty, managers and policymakers must act. Unlike a traditional trial and error approach, adaptive management has explicit structure, including a careful elucidation of goals, identification of alternative management objectives and hypotheses of causation, and procedures for the collection of data followed by evaluation and reiteration. The process is iterative, and serves to reduce uncertainty, build knowledge and improve management over time in a goal-oriented and structured process.

  16. Vibrational spectra, molecular structure, natural bond orbital, first order hyperpolarizability, thermodynamic analysis and normal coordinate analysis of Salicylaldehyde p-methylphenylthiosemicarbazone by density functional method.

    PubMed

    Porchelvi, E Elamurugu; Muthu, S

    2015-01-01

    The thiosemicarbazone compound, Salicylaldehyde p-methylphenylthiosemicarbazone (abbreviated as SMPTSC) was synthesized and characterized by FTIR, FT-Raman and UV. Density functional (DFT) calculations have been carried out for the title compound by performing DFT level of theory using B3LYP/6-31++G(d,p) basis set. The molecular geometry and vibrational frequencies were calculated and compared with the experimental data. The detailed interpretation of the vibrational spectra has been carried out with aid of normal coordinate analysis (NCA) following the scaled quantum mechanical force field methodology. The electronic dipole moment (μD) and the first hyperpolarizability (βtot) values of the investigated molecule were computed using density functional theory (DFT/B3LYP) with 6-311++G(d,p) basis set. The stability and charge delocalization of the molecule was studied by natural bond orbital (NBO) analysis. Thearomaticities of the phenyl rings were studied using the standard harmonic oscillator model of aromaticity (HOMA) index. Mulliken population analysis on atomic charges is also calculated. The molecule orbital contributions are studied by density of energy states (DOSs).

  17. Carbon storage potential in size-density fractions from semi-natural grassland ecosystems with different productivities over varying soil depths.

    PubMed

    Breulmann, Marc; Boettger, Tatjana; Buscot, François; Gruendling, Ralf; Schulz, Elke

    2016-03-01

    Researchers have increasingly recognised a profound need for more information on SOC stocks in the soil and the factors governing their stability and dynamics. Many questions still remain unanswered about the interplay between changes in plant communities and the extent to which changes in aboveground productivity affect the carbon dynamics in soils through changes in its quantity and quality. Therefore, the main aim of this research was to examine the SOC accumulation potential of semi-natural grasslands of different productivities and determine the distribution of SOM fractions over varying soil depth intervals (0-10, 10-20, 20-30 30-50 50-80 and 80+cm). SOM fractionation was considered as a relative measure of stability to separate SOM associated with clay minerals from SOM of specific light densities less than 2 g cm(-3) (size-density fractionation). Two clay-associated fractions (CF1, <1 μm; and CF2, 1-2 μm) and two light fractions (LF1, <1.8 g cm(-3); and LF2, 1.8-2.0 g cm(-3)) were separated. The stability of these fractions was characterised by their carbon hot water extractability (CHWE) and stable carbon isotope composition. In the semi-natural grasslands studied, most OC was stored in the top 30 cm, where turnover is rapid. Effects of low productivity grasslands became only significantly apparent when fractional OC contributions of total SOM was considered (CF1 and LF1). In deeper soil depths OC was largely attributed to the CF1 fraction of low productivity grasslands. We suggest that the majority of OM in deeper soil depth intervals is microbially-derived, as evidenced by decreasing C/N ratios and decreasing δ(13)C values. The hot water extraction and natural δ(13)C abundance, employed here allowed the characterisation of SOM stabilisation properties, however how climatic changes affect the fate of OM within different soil depth intervals is still unknown.

  18. Application of thermodynamic modelling to natural mantle xenoliths: examples of density variations and pressure-temperature evolution of the lithospheric mantle

    NASA Astrophysics Data System (ADS)

    Ziberna, L.; Klemme, S.

    2016-02-01

    In this paper, we show how the results of phase equilibria calculations in different mantle compositions can be reconciled with the evidence from natural mantle samples. We present data on the response of bulk rock density to pressure (P), temperature (T) and compositional changes in the lithospheric mantle and obtain constraints on the P-T evolution recorded by mantle xenoliths. To do this, we examine the mantle xenolith suite from the Quaternary alkali basalts of Pali-Aike, Patagonia, using phase equilibria calculation in six representative compositions. The calculations were done subsolidus and in volatile-free conditions. Our results show that the density change related to the spinel peridotite to garnet peridotite transition is not sharp and strongly depends on the bulk composition. In a depleted mantle composition, this transition is not reflected in the density profile, while in a fertile mantle it leads to a relative increase in density with respect to more depleted compositions. In mantle sections characterized by hot geothermal gradients (~70 mW/m2), the spinel-garnet transition may overlap with the lithosphere-asthenosphere boundary. Phase equilibria calculations in peridotitic compositions representative of the Pali-Aike mantle were also used to constrain the origin and evolution of the mantle xenoliths. Our results indicate that the mineral modes and compositions, and the mineral zonation reported for the low-temperature peridotites (spinel and spinel + garnet harzburgites and lherzolites), are linked to a cooling event in the mantle which occurred long before the eruption of the host basalts. In addition, our phase equilibria calculations show that kelyphitic rims around garnets, as those observed in the high-temperature garnet peridotites from Pali-Aike, can be explained simply by decompression and do not require additional metasomatic fluid or melt.

  19. Response of fish communities to cropland density and natural environmental setting in the Eastern Highland Rim Ecoregion of the lower Tennessee River basin, Alabama and Tennessee, 1999

    USGS Publications Warehouse

    Powell, Jeffrey R.

    2003-01-01

    Response of fish communities to cropland density and natural environmental setting were evaluated at 20 streams in the Eastern Highland Rim Ecoregion of the lower Tennessee River Basin during the spring of 1999. Sites were selected to represent a gradient of cropland densities in basins draining about 30 to 100 square miles. Fish communities were sampled by using a combination of seining and electrofishing techniques. A total of 10,550 individual fish, representing 63 species and 15 families, were collected during the study and included the families Cyprinidae (minnows), 18 species; Percidae (perch and darters), 12 species; and Centrarchidae (sunfish), 12 species. Assessments of environmental characteristics, including instream and terrestrial data and land-cover data, were conducted for each site. Instream measurements, such as depth, velocity, substrate type, and embeddedness, were recorded at 3 points across 11 equidistant transects at each site. Terrestrial measurements, such as bank angle, canopy angle, and canopy closure percentage, were made along the stream bank and midchannel areas. Water-quality data collected included pH, dissolved oxygen, specific conductivity, water temperature, nutrients, and fecal-indicator bacteria. Substrate embeddedness was the only variable correlated with both cropland density and fish communities (as characterized by ordination scores and several community level metrics). Multivariate and nonparametric correlation techniques were used to evaluate fish-community responses to physical and chemical factors associated with a cropland-density gradient, where the gradient was defined as the percentage of the basin in row crops. Principal component analysis and correspondence analysis suggest that the Eastern Highland Rim Ecoregion is composed of three subgroups of sites based on inherent physical and biological differences. Data for the subgroup containing the largest number of sites were then re-analyzed, revealing that several

  20. Neural adaptation and perceptual learning using a portable real-time cochlear implant simulator in natural environments.

    PubMed

    Smalt, Christopher J; Talavage, Thomas M; Pisoni, David B; Svirsky, Mario A

    2011-01-01

    A portable real-time speech processor that implements an acoustic simulation model of a cochlear implant (CI) has been developed on the Apple iPhone / iPod Touch to permit testing and experimentation under extended exposure in real-world environments. This simulator allows for both a variable number of noise band channels and electrode insertion depth. Utilizing this portable CI simulator, we tested perceptual learning in normal hearing listeners by measuring word and sentence comprehension behaviorally before and after 2 weeks of exposure. To evaluate changes in neural activation related to adaptation to transformed speech, fMRI was also conducted. Differences in brain activation after training occurred in the inferior frontal gyrus and areas related to language processing. A 15-20% improvement in word and sentence comprehension of cochlear implant simulated speech was also observed. These results demonstrate the effectiveness of a portable CI simulator as a research tool and provide new information about the physiological changes that accompany perceptual learning of degraded auditory input. PMID:22254517

  1. Natural alleles of a proteasome α2 subunit gene contribute to thermotolerance and adaptation of African rice.

    PubMed

    Li, Xin-Min; Chao, Dai-Yin; Wu, Yuan; Huang, Xuehui; Chen, Ke; Cui, Long-Gang; Su, Lei; Ye, Wang-Wei; Chen, Hao; Chen, Hua-Chang; Dong, Nai-Qian; Guo, Tao; Shi, Min; Feng, Qi; Zhang, Peng; Han, Bin; Shan, Jun-Xiang; Gao, Ji-Ping; Lin, Hong-Xuan

    2015-07-01

    Global warming threatens many aspects of human life, for example, by reducing crop yields. Breeding heat-tolerant crops using genes conferring thermotolerance is a fundamental way to help deal with this challenge. Here we identify a major quantitative trait locus (QTL) for thermotolerance in African rice (Oryza glaberrima), Thermo-tolerance 1 (TT1), which encodes an α2 subunit of the 26S proteasome involved in the degradation of ubiquitinated proteins. Ubiquitylome analysis indicated that OgTT1 protects cells from heat stress through more efficient elimination of cytotoxic denatured proteins and more effective maintenance of heat-response processes than achieved with OsTT1. Variation in TT1 has been selected for on the basis of climatic temperature and has had an important role in local adaptation during rice evolution. In addition, we found that overexpression of OgTT1 was associated with markedly enhanced thermotolerance in rice, Arabidopsis and Festuca elata. This discovery may lead to an increase in crop security in the face of the ongoing threat of global warming.

  2. The signature of fine scale local adaptation in Atlantic salmon revealed from common garden experiments in nature

    PubMed Central

    O'Toole, Ciar L; Reed, Thomas E; Bailie, Deborah; Bradley, Caroline; Cotter, Deirdre; Coughlan, Jamie; Cross, Tom; Dillane, Eileen; McEvoy, Sarah; Ó Maoiléidigh, Niall; Prodöhl, Paulo; Rogan, Ger; McGinnity, Philip

    2015-01-01

    Understanding the extent, scale and genetic basis of local adaptation (LA) is important for conservation and management. Its relevance in salmonids at microgeographic scales, where dispersal (and hence potential gene flow) can be substantial, has however been questioned. Here, we compare the fitness of communally reared offspring of local and foreign Atlantic salmon Salmo salar from adjacent Irish rivers and reciprocal F1 hybrid crosses between them, in the wild ‘home’ environment of the local population. Experimental groups did not differ in wild smolt output but a catastrophic flood event may have limited our ability to detect freshwater performance differences, which were evident in a previous study. Foreign parr exhibited higher, and hybrids intermediate, emigration rates from the natal stream relative to local parr, consistent with genetically based behavioural differences. Adult return rates were lower for the foreign compared to the local group. Overall lifetime success of foreigners and hybrids relative to locals was estimated at 31% and 40% (mean of both hybrid groups), respectively. The results imply a genetic basis to fitness differences among populations separated by only 50 km, driven largely by variation in smolt to adult return rates. Hence even if supplementary stocking programs obtain broodstock from neighbouring rivers, the risk of extrinsic outbreeding depression may be high. PMID:26495041

  3. Real time algorithm invariant to natural lighting with LBP techniques through an adaptive thresholding implemented in GPU processors

    NASA Astrophysics Data System (ADS)

    Orjuela-Vargas, S. A.; Triana-Martinez, J.; Yañez, J. P.; Philips, W.

    2014-03-01

    Video analysis in real time requires fast and efficient algorithms to extract relevant information from a considerable number, commonly 25, of frames per second. Furthermore, robust algorithms for outdoor visual scenes may retrieve correspondent features along the day where a challenge is to deal with lighting changes. Currently, Local Binary Pattern (LBP) techniques are widely used for extracting features due to their robustness to illumination changes and the low requirements for implementation. We propose to compute an automatic threshold based on the distribution of the intensity residuals resulting from the pairwise comparisons when using LBP techniques. The intensity residuals distribution can be modelled by a Generalized Gaussian Distribution (GGD). In this paper we compute the adaptive threshold using the parameters of the GGD. We present a CUDA implementation of our proposed algorithm. We use the LBPSYM technique. Our approach is tested on videos of four different urban scenes with mobilities captured during day and night. The extracted features can be used in a further step to determine patterns, identify objects or detect background. However, further research must be conducted for blurring correction since the scenes at night are commonly blurred due to artificial lighting.

  4. Natural alleles of a proteasome α2 subunit gene contribute to thermotolerance and adaptation of African rice.

    PubMed

    Li, Xin-Min; Chao, Dai-Yin; Wu, Yuan; Huang, Xuehui; Chen, Ke; Cui, Long-Gang; Su, Lei; Ye, Wang-Wei; Chen, Hao; Chen, Hua-Chang; Dong, Nai-Qian; Guo, Tao; Shi, Min; Feng, Qi; Zhang, Peng; Han, Bin; Shan, Jun-Xiang; Gao, Ji-Ping; Lin, Hong-Xuan

    2015-07-01

    Global warming threatens many aspects of human life, for example, by reducing crop yields. Breeding heat-tolerant crops using genes conferring thermotolerance is a fundamental way to help deal with this challenge. Here we identify a major quantitative trait locus (QTL) for thermotolerance in African rice (Oryza glaberrima), Thermo-tolerance 1 (TT1), which encodes an α2 subunit of the 26S proteasome involved in the degradation of ubiquitinated proteins. Ubiquitylome analysis indicated that OgTT1 protects cells from heat stress through more efficient elimination of cytotoxic denatured proteins and more effective maintenance of heat-response processes than achieved with OsTT1. Variation in TT1 has been selected for on the basis of climatic temperature and has had an important role in local adaptation during rice evolution. In addition, we found that overexpression of OgTT1 was associated with markedly enhanced thermotolerance in rice, Arabidopsis and Festuca elata. This discovery may lead to an increase in crop security in the face of the ongoing threat of global warming. PMID:25985140

  5. Reviewing molecular adaptations of Lyme borreliosis spirochetes in the context of reproductive fitness in natural transmission cycles.

    PubMed

    Tsao, Jean I

    2009-01-01

    Lyme borreliosis (LB) is caused by a group of pathogenic spirochetes - most often Borrelia burgdorferi, B. afzelii, and B. garinii - that are vectored by hard ticks in the Ixodes ricinus-persulcatus complex, which feed on a variety of mammals, birds, and lizards. Although LB is one of the best-studied vector-borne zoonoses, the annual incidence in North America and Europe leads other vector-borne diseases and continues to increase. What factors make the LB system so successful, and how can researchers hope to reduce disease risk - either through vaccinating humans or reducing the risk of contacting infected ticks in nature? Discoveries of molecular interactions involved in the transmission of LB spirochetes have accelerated recently, revealing complex interactions among the spirochete-tick-vertebrate triad. These interactions involve multiple, and often redundant, pathways that reflect the evolution of general and specific mechanisms by which the spirochetes survive and reproduce. Previous reviews have focused on the molecular interactions or population biology of the system. Here molecular interactions among the LB spirochete, its vector, and vertebrate hosts are reviewed in the context of natural maintenance cycles, which represent the ecological and evolutionary contexts that shape these interactions. This holistic system approach may help researchers develop additional testable hypotheses about transmission processes, interpret laboratory results, and guide development of future LB control measures and management. PMID:19368764

  6. Microscale Adaptation of In Vitro Transcription/Translation for High-Throughput Screening of Natural Product Extract Libraries

    PubMed Central

    Lowell, Andrew N.; Santoro, Nicholas; Swaney, Steven M.; McQuade, Thomas J.; Schultz, Pamela J.; Larsen, Martha J.; Sherman, David H.

    2016-01-01

    Novel antimicrobials that effectively inhibit bacterial growth are essential to fight the growing threat of antibiotic resistance. A promising target is the bacterial ribosome, a 2.5 MDa organelle susceptible to several biorthogonal modes of action used by different classes of antibiotics. To promote the discovery of unique inhibitors, we have miniaturized a coupled transcription/translation assay using E. coli and applied it to screen a natural product library of ∼30 000 extracts. We significantly reduced the scale of the assay to 2 μL in a 1536-well plate format and decreased the effective concentration of costly reagents. The improved assay returned 1327 hits (4.6% hit rate) with %CV and Z′ values of 8.5% and 0.74, respectively. This assay represents a significant advance in molecular screening, both in miniaturization and its application to a natural product extract library, and we intend to apply it to a broad array of pathogenic microbes in the search for novel anti-infective agents. PMID:26147927

  7. Reviewing molecular adaptations of Lyme borreliosis spirochetes in the context of reproductive fitness in natural transmission cycles

    PubMed Central

    Tsao, Jean I.

    2009-01-01

    Lyme borreliosis (LB) is caused by a group of pathogenic spirochetes – most often Borrelia burgdorferi, B. afzelii, and B. garinii – that are vectored by hard ticks in the Ixodes ricinus-persulcatus complex, which feed on a variety of mammals, birds, and lizards. Although LB is one of the best-studied vector-borne zoonoses, the annual incidence in North America and Europe leads other vector-borne diseases and continues to increase. What factors make the LB system so successful, and how can researchers hope to reduce disease risk – either through vaccinating humans or reducing the risk of contacting infected ticks in nature? Discoveries of molecular interactions involved in the transmission of LB spirochetes have accelerated recently, revealing complex interactions among the spirochete-tick-vertebrate triad. These interactions involve multiple, and often redundant, pathways that reflect the evolution of general and specific mechanisms by which the spirochetes survive and reproduce. Previous reviews have focused on the molecular interactions or population biology of the system. Here molecular interactions among the LB spirochete, its vector, and vertebrate hosts are reviewed in the context of natural maintenance cycles, which represent the ecological and evolutionary contexts that shape these interactions. This holistic system approach may help researchers develop additional testable hypotheses about transmission processes, interpret laboratory results, and guide development of future LB control measures and management. PMID:19368764

  8. Towards adaptive management of the natural capital: Disentangling trade-offs among marine activities and seagrass meadows.

    PubMed

    Bas Ventín, Leticia; de Souza Troncoso, Jesús; Villasante, Sebastián

    2015-12-15

    This paper investigates the ecological, social and institutional dimensions of the synergies and trade-offs between seagrasses and human activities operating in the Natura 2000 protected site of San Simón Bay (Galicia, NW Spain). By means of a multidisciplinary approach that brings together the development of a biological inventory combined with participatory mapping processes we get key spatial and contextual understanding regarding how, where and why marine users interact with seagrasses and how seagrasses are considered in policy making. The results highlight the fisheries' reliance on seagrass meadows and the controversial links with shellfisheries. The study also reveals unresolved conflicts among those management plans that promote the protection of natural values and those responsible for the exploitation of marine resources. We conclude that the adoption of pre-planning bottom-up participatory processes is crucial for the design of realistic strategies where both seagrasses and human activities were considered as a couple system.

  9. Towards adaptive management of the natural capital: Disentangling trade-offs among marine activities and seagrass meadows.

    PubMed

    Bas Ventín, Leticia; de Souza Troncoso, Jesús; Villasante, Sebastián

    2015-12-15

    This paper investigates the ecological, social and institutional dimensions of the synergies and trade-offs between seagrasses and human activities operating in the Natura 2000 protected site of San Simón Bay (Galicia, NW Spain). By means of a multidisciplinary approach that brings together the development of a biological inventory combined with participatory mapping processes we get key spatial and contextual understanding regarding how, where and why marine users interact with seagrasses and how seagrasses are considered in policy making. The results highlight the fisheries' reliance on seagrass meadows and the controversial links with shellfisheries. The study also reveals unresolved conflicts among those management plans that promote the protection of natural values and those responsible for the exploitation of marine resources. We conclude that the adoption of pre-planning bottom-up participatory processes is crucial for the design of realistic strategies where both seagrasses and human activities were considered as a couple system. PMID:26589639

  10. What kind of memory has evolution wrought? Introductory article for the special issue of memory: adaptive memory: the emergence and nature of proximate mechanisms.

    PubMed

    Otgaar, Henry; Howe, Mark L

    2014-01-01

    It is without question that our memory system evolved through a process of natural selection. However, basic research into the evolutionary foundations of memory has begun in earnest only recently. This is quite peculiar as the majority, perhaps even all, of memory research relates to whether memory is adaptive or not. In this Special Issue of Memory we have assembled a variety of papers that represent the cutting edge in research on the evolution of memory. These papers are centred on issues about the ultimate and proximate explanations of memory, the development of the adaptive functions of memory, as well as the positive consequences that arise from the current evolutionary form that our memory has taken. In this introductory article we briefly outline these different areas and indicate why they are vital for a more complete theory of memory. Further we argue that, by adopting a more applied stance in the area of the evolution of memory, one of the many future directions in this field could be a new branch of psychology that addresses questions in evolutionary legal psychology.

  11. Successful cross-protective efficacy induced by heat-adapted live attenuated nephropathogenic infectious bronchitis virus derived from a natural recombinant strain.

    PubMed

    Lim, Tae-Hyun; Youn, Ha-Na; Yuk, Seong-Su; Kwon, Jung-Hoon; Hong, Woo-Tack; Gwon, Gyeong-Bin; Lee, Jung-Ah; Lee, Joong-Bok; Lee, Sang-Won; Song, Chang-Seon

    2015-12-16

    A natural recombinant nephropathogenic K40/09 strain of infectious bronchitis virus (IBV) was heat-adapted for possible future use as live attenuated vaccine. The K40/09 strain was selected during successive serial passages in specific-pathogen free (SPF) embryonated eggs at sub-optimal higher temperature (56°C). Unlike the parental strain, the attenuated strain, designated K40/09 HP50, was found to be safe in 1-day-old SPF chicks, which showed neither mortality nor signs of morbidity, and rarely induced ciliostasis or histological changes in the trachea and kidney after intraocular and fine-spray administration. K40/09 HP50 provided almost complete protection against two distinct subgroups of a nephropathogenic strain (KM91-like and QX-like subgroup) and elicited the production of high titers of neutralizing antibody (neutralization index of 3.6). We conclude that the K40/09 HP50 vaccine virus is rapidly attenuated by heat adaptation and exhibits the desired level of attenuation, immunogenicity, and protective efficacy required for a live attenuated vaccine. These results indicate that the K40/09 vaccine could be helpful for the reduction of economic losses caused by recently emergent nephropathogenic IBV infection in many countries.

  12. Adapting to extreme events related to natural variability and climate change: the imperative of coupling technology with strong regulation and governance.

    PubMed

    Kythreotis, A P; Mercer, T G; Frostick, L E

    2013-09-01

    In recent years there has been an increase in extreme events related to natural variability (such as earthquakes, tsunamis and hurricanes) and climate change (such as flooding and more extreme weather). Developing innovative technologies is crucial in making society more resilient to such events. However, little emphasis has been placed on the role of human decision-making in maximizing the positive impacts of technological developments. This is exacerbated by the lack of appropriate adaptation options and the privatization of existing infrastructure, which can leave people exposed to increasing risk. This work examines the need for more robust government regulation and legislation to complement developments and innovations in technology in order to protect communities against such extreme events.

  13. Adapting to extreme events related to natural variability and climate change: the imperative of coupling technology with strong regulation and governance.

    PubMed

    Kythreotis, A P; Mercer, T G; Frostick, L E

    2013-09-01

    In recent years there has been an increase in extreme events related to natural variability (such as earthquakes, tsunamis and hurricanes) and climate change (such as flooding and more extreme weather). Developing innovative technologies is crucial in making society more resilient to such events. However, little emphasis has been placed on the role of human decision-making in maximizing the positive impacts of technological developments. This is exacerbated by the lack of appropriate adaptation options and the privatization of existing infrastructure, which can leave people exposed to increasing risk. This work examines the need for more robust government regulation and legislation to complement developments and innovations in technology in order to protect communities against such extreme events. PMID:23889236

  14. An adaptive computer vision technique for estimating the biomass and density of loblolly pine plantations using digital orthophotography and LiDAR imagery

    NASA Astrophysics Data System (ADS)

    Bortolot, Zachary J.

    Forests have been proposed as a means of reducing atmospheric carbon dioxide levels due to their ability to store carbon as biomass. To quantify the amount of atmospheric carbon sequestered by forests, biomass and density estimates are oven needed. This study develops, implements, and tests an individual tree-based algorithm for obtaining forest density and biomass using orthophotographs and small footprint LiDAR imagery. It was designed to work with a range of forests and image types without modification, which is accomplished by using generic properties of trees found in many types of images. Multiple parameters are employed to determine how these generic properties are used. To set these parameters, training data is used in conjunction with an optimization algorithm (a modified Nelder-Mead simplex algorithm or a genetic algorithm). The training data consist of small images in which density and biomass are known. A first test of this technique was performed using 25 circular plots (radius = 15 m) placed in young pine plantations in central Virginia, together with false color orthophotograph (spatial resolution = 0.5 m) or small footprint LiDAR (interpolated to 0.5 m) imagery. The highest density prediction accuracies (r2 up to 0.88, RMSE as low as 83 trees/ha) were found for runs where photointerpreted densities were used for training and testing. For tests run using density measurements made on the ground, accuracies were consistency higher for orthophotograph-based results than for LiDAR-based results, and were higher for trees with DBH ≥10cm than for trees with DBH ≥7 cm. Biomass estimates obtained by the algorithm using LiDAR imagery had a lower RMSE (as low as 15.6 t/ha) than most comparable studies. The correlations between the actual and predicted values (r2 up to 0.64) were lower than comparable studies, but were generally highly significant (p ≤ 0.05 or 0.01). In all runs there was no obvious sensitive to which training and testing data were

  15. C and N content in density fractions of whole soil and soil size fraction under cacao agroforestry systems and natural forest in Bahia, Brazil.

    PubMed

    Rita, Joice Cleide O; Gama-Rodrigues, Emanuela Forestieri; Gama-Rodrigues, Antonio Carlos; Polidoro, Jose Carlos; Machado, Regina Cele R; Baligar, Virupax C

    2011-07-01

    Agroforestry systems (AFSs) have an important role in capturing above and below ground soil carbon and play a dominant role in mitigation of atmospheric CO(2). Attempts has been made here to identify soil organic matter fractions in the cacao-AFSs that have different susceptibility to microbial decomposition and further represent the basis of understanding soil C dynamics. The objective of this study was to characterize the organic matter density fractions and soil size fractions in soils of two types of cacao agroforestry systems and to compare with an adjacent natural forest in Bahia, Brazil. The land-use systems studied were: (1) a 30-year-old stand of natural forest with cacao (cacao cabruca), (2) a 30-year-old stand of cacao with Erythrina glauca as shade trees (cacao + erythrina), and (3) an adjacent natural forest without cacao. Soil samples were collected from 0-10 cm depth layer in reddish-yellow Oxisols. Soil samples was separated by wet sieving into five fraction-size classes (>2000 μm, 1000-2000 μm, 250-1000 μm, 53-250 μm, and <53 μm). C and N accumulated in to the light (free- and intra-aggregate density fractions) and heavy fractions of whole soil and soil size fraction were determined. Soil size fraction obtained in cacao AFS soils consisted mainly (65 %) of mega-aggregates (>2000 μm) mixed with macroaggregates (32-34%), and microaggregates (1-1.3%). Soil organic carbon (SOC) and total N content increased with increasing soil size fraction in all land-use systems. Organic C-to-total N ratio was higher in the macroaggregate than in the microaggregate. In general, in natural forest and cacao cabruca the contribution of C and N in the light and heavy fractions was similar. However, in cacao + erythrina the heavy fraction was the most common and contributed 67% of C and 63% of N. Finding of this study shows that the majority of C and N in all three systems studied are found in macroaggregates, particularly in the 250-1000 μm size

  16. C and N Content in Density Fractions of Whole Soil and Soil Size Fraction Under Cacao Agroforestry Systems and Natural Forest in Bahia, Brazil

    NASA Astrophysics Data System (ADS)

    Rita, Joice Cleide O.; Gama-Rodrigues, Emanuela Forestieri; Gama-Rodrigues, Antonio Carlos; Polidoro, Jose Carlos; Machado, Regina Cele R.; Baligar, Virupax C.

    2011-07-01

    Agroforestry systems (AFSs) have an important role in capturing above and below ground soil carbon and play a dominant role in mitigation of atmospheric CO2. Attempts has been made here to identify soil organic matter fractions in the cacao-AFSs that have different susceptibility to microbial decomposition and further represent the basis of understanding soil C dynamics. The objective of this study was to characterize the organic matter density fractions and soil size fractions in soils of two types of cacao agroforestry systems and to compare with an adjacent natural forest in Bahia, Brazil. The land-use systems studied were: (1) a 30-year-old stand of natural forest with cacao (cacao cabruca), (2) a 30-year-old stand of cacao with Erythrina glauca as shade trees (cacao + erythrina), and (3) an adjacent natural forest without cacao. Soil samples were collected from 0-10 cm depth layer in reddish-yellow Oxisols. Soil samples was separated by wet sieving into five fraction-size classes (>2000 μm, 1000-2000 μm, 250-1000 μm, 53-250 μm, and <53 μm). C and N accumulated in to the light (free- and intra-aggregate density fractions) and heavy fractions of whole soil and soil size fraction were determined. Soil size fraction obtained in cacao AFS soils consisted mainly (65 %) of mega-aggregates (>2000 μm) mixed with macroaggregates (32-34%), and microaggregates (1-1.3%). Soil organic carbon (SOC) and total N content increased with increasing soil size fraction in all land-use systems. Organic C-to-total N ratio was higher in the macroaggregate than in the microaggregate. In general, in natural forest and cacao cabruca the contribution of C and N in the light and heavy fractions was similar. However, in cacao + erythrina the heavy fraction was the most common and contributed 67% of C and 63% of N. Finding of this study shows that the majority of C and N in all three systems studied are found in macroaggregates, particularly in the 250-1000 μm size aggregate class

  17. Metabolic adaptation and in situ attenuation of chlorinated ethenes by naturally occurring microorganisms in a fractured dolomite aquifer near Niagara Falls, New York

    USGS Publications Warehouse

    Yager, R.M.; Bilotta, S.E.; Mann, C.L.; Madsen, E.L.

    1997-01-01

    A combination of hydrogeological, geochemical, and microbiological methods was used to document the biotransformation of trichloroethene (TCE) to ethene, a completely dechlorinated and environmentally benign compound, by naturally occurring microorganisms within a fractured dolomite aquifer. Analyses of groundwater samples showed that three microbially produced TCE breakdown products (cis-1,2-dichloroethene, vinyl chloride, and ethene) were present in the contaminant plume. Hydrogen (H2) concentrations in groundwater indicated that iron reduction was the predominant terminal electron-accepting process in the most contaminated geologic zone of the site. Laboratory microcosms prepared with groundwater demonstrated complete sequential dechlorination of TCE to ethene. Microcosm assays also revealed that reductive dechlorination activity was present in waters from the center but not from the periphery of the contaminant plume. This dechlorination activity indicated that naturally occurring microorganisms have adapted to utilize chlorinated ethenes and suggested that dehalorespiring rather than cometabolic, microbial processes were the cause of the dechlorination. The addition of pulverized dolomite to microcosms enhanced the rate of reductive dechlorination, suggesting that hydrocarbons in the dolomite aquifer may serve as electron donors to drive microbially mediated reductive dechlorination reactions. Biodegradation of the chlorinated ethenes appears to contribute significantly to decontamination of the site.A combination of hydrogeological, geochemical, and microbiological methods was used to document the biotransformation of trichloroethene (TCE) to ethene, a completely dechlorinated and environmentally benign compound, by naturally occurring microorganisms within a fractured dolomite aquifer. Analyses of groundwater samples showed that three microbially produced TCE breakdown products (cis-1,2-dichloroethene, vinyl chloride, and ethene) were present in the

  18. Adaptation as organism design

    PubMed Central

    Gardner, Andy

    2009-01-01

    The problem of adaptation is to explain the apparent design of organisms. Darwin solved this problem with the theory of natural selection. However, population geneticists, whose responsibility it is to formalize evolutionary theory, have long neglected the link between natural selection and organismal design. Here, I review the major historical developments in theory of organismal adaptation, clarifying what adaptation is and what it is not, and I point out future avenues for research. PMID:19793739

  19. Viability and adaptation potential of indigenous microorganisms from natural gas field fluids in high pressure incubations with supercritical CO2.

    PubMed

    Frerichs, Janin; Rakoczy, Jana; Ostertag-Henning, Christian; Krüger, Martin

    2014-01-21

    Carbon Capture and Storage (CCS) is currently under debate as large-scale solution to globally reduce emissions of the greenhouse gas CO2. Depleted gas or oil reservoirs and saline aquifers are considered as suitable reservoirs providing sufficient storage capacity. We investigated the influence of high CO2 concentrations on the indigenous bacterial population in the saline formation fluids of a natural gas field. Bacterial community changes were closely examined at elevated CO2 concentrations under near in situ pressures and temperatures. Conditions in the high pressure reactor systems simulated reservoir fluids i) close to the CO2 injection point, i.e. saturated with CO2, and ii) at the outer boundaries of the CO2 dissolution gradient. During the incubations with CO2, total cell numbers remained relatively stable, but no microbial sulfate reduction activity was detected. After CO2 release and subsequent transfer of the fluids, an actively sulfate-respiring community was re-established. The predominance of spore-forming Clostridiales provided evidence for the resilience of this taxon against the bactericidal effects of supercritical (sc)CO2. To ensure the long-term safety and injectivity, the viability of fermentative and sulfate-reducing bacteria has to be considered in the selection, design, and operation of CCS sites.

  20. Interaction of estradiol and high density lipoproteins on proliferation of the human breast cancer cell line MCF-7 adapted to grow in serum free conditions

    SciTech Connect

    Jozan, S.; Faye, J.C.; Tournier, J.F.; Tauber, J.P.; David, J.F.; Bayard, F.

    1985-11-27

    The responsiveness of the human mammary carcinoma cell line MCF-7 to estradiol and tamoxifen treatment has been studied in different culture conditions. Cells from exponentially growing cultures were compared with cells in their initial cycles after replating from confluent cultures (''confluent-log'' cells). It has been observed that estradiol stimulation of tritiated thymidine incorporation decreases with cell density and that ''confluent-log'' cells are estrogen unresponsive for a period of four cell cycles in serum-free medium conditions. On the other hand, growth of cells replated from exponentially growing, as well as from confluent cultures, can be inhibited by tamoxifen or a combined treatment with tamoxifen and the progestin levonorgestrel. This growth inhibitory effect can be rescued by estradiol when cells are replated from exponentially growing cultures. The growth inhibitory effect cannot be rescued by estradiol alone (10(-10) to 10(-8) M) when cells are replated from confluent cultures. In this condition, the addition of steroid depleted serum is necessary to reverse the state of estradiol unresponsiveness. Serum can be replaced by high density lipoproteins but not by low density lipoproteins or lipoprotein deficient serum. The present data show that estradiol and HDL interact in the control of MCF-7 cell proliferation.

  1. Carbon storage potential in size-density fractions from semi-natural grassland ecosystems with different productivities over varying soil depths.

    PubMed

    Breulmann, Marc; Boettger, Tatjana; Buscot, François; Gruendling, Ralf; Schulz, Elke

    2016-03-01

    Researchers have increasingly recognised a profound need for more information on SOC stocks in the soil and the factors governing their stability and dynamics. Many questions still remain unanswered about the interplay between changes in plant communities and the extent to which changes in aboveground productivity affect the carbon dynamics in soils through changes in its quantity and quality. Therefore, the main aim of this research was to examine the SOC accumulation potential of semi-natural grasslands of different productivities and determine the distribution of SOM fractions over varying soil depth intervals (0-10, 10-20, 20-30 30-50 50-80 and 80+cm). SOM fractionation was considered as a relative measure of stability to separate SOM associated with clay minerals from SOM of specific light densities less than 2 g cm(-3) (size-density fractionation). Two clay-associated fractions (CF1, <1 μm; and CF2, 1-2 μm) and two light fractions (LF1, <1.8 g cm(-3); and LF2, 1.8-2.0 g cm(-3)) were separated. The stability of these fractions was characterised by their carbon hot water extractability (CHWE) and stable carbon isotope composition. In the semi-natural grasslands studied, most OC was stored in the top 30 cm, where turnover is rapid. Effects of low productivity grasslands became only significantly apparent when fractional OC contributions of total SOM was considered (CF1 and LF1). In deeper soil depths OC was largely attributed to the CF1 fraction of low productivity grasslands. We suggest that the majority of OM in deeper soil depth intervals is microbially-derived, as evidenced by decreasing C/N ratios and decreasing δ(13)C values. The hot water extraction and natural δ(13)C abundance, employed here allowed the characterisation of SOM stabilisation properties, however how climatic changes affect the fate of OM within different soil depth intervals is still unknown. PMID:26745290

  2. Climate change adaptation strategies and mitigation policies

    NASA Astrophysics Data System (ADS)

    García Fernández, Cristina

    2015-04-01

    The pace of climate change and the consequent warming of the Earth's surface is increasing vulnerability and decreasing adaptive capacity. Achieving a successful adaptation depends on the development of technology, institutional organization, financing availability and the exchange of information. Populations living in arid and semi-arid zones, low-lying coastal areas, land with water shortages or at risk of overflow or small islands are particularly vulnerable to climate change. Due to increasing population density in sensitive areas, some regions have become more vulnerable to events such as storms, floods and droughts, like the river basins and coastal plains. Human activities have fragmented and increased the vulnerability of ecosystems, which limit both, their natural adaptation and the effectiveness of the measures adopted. Adaptation means to carry out the necessary modifications for society to adapt to new climatic conditions in order to reduce their vulnerability to climate change. Adaptive capacity is the ability of a system to adjust to climate change (including climate variability and extremes) and to moderate potential damages, to take advantage of opportunities or face the consequences. Adaptation reduces the adverse impacts of climate change and enhance beneficial impacts, but will not prevent substantial cost that are produced by all damages. The performances require adaptation actions. These are defined and implemented at national, regional or local levels since many of the impacts and vulnerabilities depend on the particular economic, geographic and social circumstances of each country or region. We will present some adaptation strategies at national and local level and revise some cases of its implementation in several vulnerable areas. However, adaptation to climate change must be closely related to mitigation policies because the degree of change planned in different climatic variables is a function of the concentration levels that are achieved

  3. Is It Possible To Obtain Coupled Cluster Quality Energies at near Density Functional Theory Cost? Domain-Based Local Pair Natural Orbital Coupled Cluster vs Modern Density Functional Theory.

    PubMed

    Liakos, Dimitrios G; Neese, Frank

    2015-09-01

    The recently developed domain-based local pair natural orbital coupled cluster theory with single, double, and perturbative triple excitations (DLPNO-CCSD(T)) delivers results that are closely approaching those of the parent canonical coupled cluster method at a small fraction of the computational cost. A recent extended benchmark study established that, depending on the three main truncation thresholds, it is possible to approach the canonical CCSD(T) results within 1 kJ (default setting, TightPNO), 1 kcal/mol (default setting, NormalPNO), and 2-3 kcal (default setting, LoosePNO). Although thresholds for calculations with TightPNO are 2-4 times slower than those based on NormalPNO thresholds, they are still many orders of magnitude faster than canonical CCSD(T) calculations, even for small and medium sized molecules where there is little locality. The computational effort for the coupled cluster step scales nearly linearly with system size. Since, in many instances, the coupled cluster step in DLPNO-CCSD(T) is cheaper or at least not much more expensive than the preceding Hartree-Fock calculation, it is useful to compare the method against modern density functional theory (DFT), which requires an effort comparable to that of Hartree-Fock theory (at least if Hartree-Fock exchange is part of the functional definition). Double hybrid density functionals (DHDF's) even require a MP2-like step. The purpose of this article is to evaluate the cost vs accuracy ratio of DLPNO-CCSD(T) against modern DFT (including the PBE, B3LYP, M06-2X, B2PLYP, and B2GP-PLYP functionals and, where applicable, their van der Waals corrected counterparts). To eliminate any possible bias in favor of DLPNO-CCSD(T), we have chosen established benchmark sets that were specifically proposed for evaluating DFT functionals. It is demonstrated that DLPNO-CCSD(T) with any of the three default thresholds is more accurate than any of the DFT functionals. Furthermore, using the aug-cc-pVTZ basis set and

  4. Natural Selection Causes Adaptive Genetic Resistance in Wild Emmer Wheat against Powdery Mildew at “Evolution Canyon” Microsite, Mt. Carmel, Israel

    PubMed Central

    Yin, Huayan; Ben-Abu, Yuval; Wang, Hongwei; Li, Anfei; Nevo, Eviatar; Kong, Lingrang

    2015-01-01

    Background “Evolution Canyon” (ECI) at Lower Nahal Oren, Mount Carmel, Israel, is an optimal natural microscale model for unraveling evolution in action highlighting the basic evolutionary processes of adaptation and speciation. A major model organism in ECI is wild emmer, Triticum dicoccoides, the progenitor of cultivated wheat, which displays dramatic interslope adaptive and speciational divergence on the tropical-xeric “African” slope (AS) and the temperate-mesic “European” slope (ES), separated on average by 250 m. Methods We examined 278 single sequence repeats (SSRs) and the phenotype diversity of the resistance to powdery mildew between the opposite slopes. Furthermore, 18 phenotypes on the AS and 20 phenotypes on the ES, were inoculated by both Bgt E09 and a mixture of powdery mildew races. Results In the experiment of genetic diversity, very little polymorphism was identified intra-slope in the accessions from both the AS or ES. By contrast, 148 pairs of SSR primers (53.23%) amplified polymorphic products between the phenotypes of AS and ES. There are some differences between the two wild emmer wheat genomes and the inter-slope SSR polymorphic products between genome A and B. Interestingly, all wild emmer types growing on the south-facing slope (SFS=AS) were susceptible to a composite of Blumeria graminis, while the ones growing on the north-facing slope (NFS=ES) were highly resistant to Blumeria graminis at both seedling and adult stages. Conclusion/Significance Remarkable inter-slope evolutionary divergent processes occur in wild emmer wheat, T. dicoccoides at EC I, despite the shot average distance of 250 meters. The AS, a dry and hot slope, did not develop resistance to powdery mildew, whereas the ES, a cool and humid slope, did develop resistance since the disease stress was strong there. This is a remarkable demonstration in host-pathogen interaction on how resistance develops when stress causes an adaptive result at a micro

  5. Communication: Spin densities within a unitary group based spin-adapted open-shell coupled-cluster theory: Analytic evaluation of isotropic hyperfine-coupling constants for the combinatoric open-shell coupled-cluster scheme

    SciTech Connect

    Datta, Dipayan Gauss, Jürgen

    2015-07-07

    We report analytical calculations of isotropic hyperfine-coupling constants in radicals using a spin-adapted open-shell coupled-cluster theory, namely, the unitary group based combinatoric open-shell coupled-cluster (COSCC) approach within the singles and doubles approximation. A scheme for the evaluation of the one-particle spin-density matrix required in these calculations is outlined within the spin-free formulation of the COSCC approach. In this scheme, the one-particle spin-density matrix for an open-shell state with spin S and M{sub S} = + S is expressed in terms of the one- and two-particle spin-free (charge) density matrices obtained from the Lagrangian formulation that is used for calculating the analytic first derivatives of the energy. Benchmark calculations are presented for NO, NCO, CH{sub 2}CN, and two conjugated π-radicals, viz., allyl and 1-pyrrolyl in order to demonstrate the performance of the proposed scheme.

  6. Does phenotypic plasticity for adult size versus food level in Drosophila melanogaster evolve in response to adaptation to different rearing densities?

    PubMed

    Mueller, Laurence D; Cabral, Larry G

    2012-01-01

    Recent studies with Drosophila have suggested that there is extensive genetic variability for phenotypic plasticity of body size versus food level. If true, we expect that the outcome of evolution at very different food levels should yield genotypes whose adult size show different patterns of phenotypic plasticity. We have tested this prediction with six independent populations of Drosophila melanogaster kept at extreme densities for 125 generations. We found that the phenotypic plasticity of body size versus food level is not affected by selection or the presence of competitors of a different genotype. However, we document increasing among population variation in phenotypic plasticity due to random genetic drift. Several reasons are explored to explain these results including the possibility that the use of highly inbred lines to make inferences about the evolution of genetically variable populations may be misleading.

  7. The Concept of Density

    ERIC Educational Resources Information Center

    Hawkes, Stephen J.

    2004-01-01

    Students are aware of the theoretical or abstract concept of density, but fail to understand its practical implication in that the thickness concentrated in a solid object is what constitutes density. A study of the density concept reveals its very practical and qualitative nature, and the students must look beyond theoretical equations to…

  8. Distribution and density of cysticerci of Taenia solium by muscle groups and organs in naturally infected local finished pigs in Tanzania.

    PubMed

    Boa, M E; Kassuku, A A; Willingham, A L; Keyyu, J D; Phiri, I K; Nansen, P

    2002-06-01

    The distribution and density of cysticerci of Taenia solium among distinct carcass sites was determined in 24 naturally infected finished pigs from Mbulu district, Tanzania. The heart, tongue, internal and external masseters, triceps brachii, lungs, liver, kidneys, psoas, diaphragm and brain of each pig as well as the muscles from the forelimb, hind limb, abdomen, head and thorax from one half of each pig carcass were all designated as distinct carcass sites and sliced in such a way that all fully developed cysts could be revealed and enumerated (i.e. each slice was less than 0.5 cm thick). The carcasses harboured from 76 to 80,340 cysts in total. Carcass sites which harboured the highest proportion of cysts were those of the hind and forelimbs (mean: 27.7 and 24.5%, respectively, of the total cysts in the carcass), while lower proportions were found in the tongue, heart, triceps brachii, and diaphragm (7, 3.6, 2 and 2, respectively). Relative cyst density was calculated for the different carcass sites by dividing the mean proportion of the total weight of the tissue groups into the mean proportion of cysts located in that site. The cysticerci in the examined distinct carcass sites were found in the following order of relative density: psoas muscles (10.5), internal masseter (8.1), external masseter (7.1), triceps brachii (4.9), forelimb (4.0), head muscles (3.8), tongue (3.4), hind limb (3.2), diaphragm (2.4), heart (1.9), abdominal muscles (1.3), trunk muscles (1.1), brain (1.0) and oesophagus (0.3). The proportion of cysts expected to be found at the surfaces exposed by visual examination or incision at meat inspection was calculated using an indirect method, which incorporated the area revealed by incision and visual inspection of an organ and the proportion of cysts located in the particular organ. It was estimated that 10.6% of the cysts would be located at inspected sites if regulations were followed carefully.

  9. Nature of Zr-monosubstituted monomeric and dimeric polyoxometalates in water solution at different pH conditions: static density functional theory calculations and dynamic simulations.

    PubMed

    Jiménez-Lozano, Pablo; Carbó, Jorge J; Chaumont, Alain; Poblet, Josep M; Rodríguez-Fortea, Antonio; Wipff, Georges

    2014-01-21

    Static density functional theory (DFT) calculations with a continuous solvent model as well as classical and Car-Parrinello molecular dynamics (MD) simulations with explicit solvent molecules were performed to study the nature of Zr-monosubstituted monomeric and dimeric polyoxometalates (POMs) in water at different pHs. We have analyzed Zr-aqua, -hydroxo, and -aqua-hydroxo species derived from Linqvist- and Keggin-type anions. Both DFT and Car-Parrinello MD methods suggest that the Zr center tends to have coordination number greater than 6 and can bind up to 3 water molecules. Car-Parrinello MD simulations also show that the Zr atom fluctuates within the oxide POM framework, providing a flexible coordination environment. There is a small thermodynamic preference for the Zr-aqua species over the protonated Zr-hydroxo species; however the prevalence of one or the other species might depend on the pH. Classical MD simulations show that H3O(+) interacts mainly with hydroxo ligand, while OH(-) anions prefer the protons of the H2O ligands. In general, an increase of the acidity favors the formation of Zr-aqua species, explaining why dimer dissociation is promoted at low pH. At basic conditions Zr-hydroxo species are generated, providing the reactive groups to form Zr···Zr linkages. PMID:24364825

  10. Density functional theory (DFT) and natural bond orbital (NBO) study of vibrational spectra and intramolecular hydrogen bond interaction of L-ornithine-L-aspartate.

    PubMed

    Li, Linwei; Wu, Chengjun; Wang, Zhiqiang; Zhao, Lixia; Li, Zhen; Sun, Changshan; Sun, Tiemin

    2015-02-01

    In this study, exhaustive conformations of (S)-4-amino-4-carboxybutan-1-aminium (S)-3-amino-3-carboxypropanoate (LOLA) have been scanned. Experimental and theoretical studies on the structure and vibrations of the title compound are presented. The optimized molecular structure, vibrational wavenumbers, Mulliken atomic charges, natural bond orbital (NBO) and molecular electrostatic potential studies have been performed by density functional theory (DFT) using B3LYP method with the 6-311++G(d,p) basis set. Computed X-ray powder diffraction (XRPD) data has been carried out by DFT calculations and ab initio from measured XRPD finding. The LOLA molecular geometry has been determined which exists in the form of salt by intramolecular H-bonds and ionic bonding. Moreover, calculated vibrational frequencies were applied to simulate IR and Raman spectra of the title compound which showed excellent agreement with observed spectra. Reliable vibrational assignments have been made on the basis of potential energy distribution (PED) and 0.992 has been obtained by least squares method which is the uniform scaled factor for theoretical frequencies at 6-311++G(d,p) basis set. In addition, the hydrogen bonding in LOLA molecule has been explored by calculation of the hyperconjugative charge transfer interaction on [LP X-σ(*)(Y-H)], under NBO analysis, Mulliken atomic charge analysis, molecular electrostatic potential map (MEP) and vibrational spectra. Finally, HOMO-LUMO of the title compound has been plotted for predicting reactive sites.

  11. Natural Resources Climate Adaptation Act

    THOMAS, 111th Congress

    Sen. Bingaman, Jeff [D-NM

    2009-10-27

    10/27/2009 Read twice and referred to the Committee on Environment and Public Works. (text of measure as introduced: CR S10781-10785) (All Actions) Tracker: This bill has the status IntroducedHere are the steps for Status of Legislation:

  12. Adaptation to Ephemeral Habitat May Overcome Natural Barriers and Severe Habitat Fragmentation in a Fire-Dependent Species, the Bachman's Sparrow (Peucaea aestivalis)

    PubMed Central

    Cerame, Blain; Cox, James A.; Brumfield, Robb T.; Tucker, James W.; Taylor, Sabrina S.

    2014-01-01

    Bachman's Sparrow (Peucaea aestivalis) is a fire-dependent species that has undergone range-wide population declines in recent decades. We examined genetic diversity in Bachman's Sparrows to determine whether natural barriers have led to distinct population units and to assess the effect of anthropogenic habitat loss and fragmentation. Genetic diversity was examined across the geographic range by genotyping 226 individuals at 18 microsatellite loci and sequencing 48 individuals at mitochondrial and nuclear genes. Multiple analyses consistently demonstrated little genetic structure and high levels of genetic variation, suggesting that populations are panmictic. Based on these genetic data, separate management units/subspecies designations or translocations to promote gene flow among fragmented populations do not appear to be necessary. Panmixia in Bachman's Sparrow may be a consequence of an historical range expansion and retraction. Alternatively, high vagility in Bachman's Sparrow may be an adaptation to the ephemeral, fire-mediated habitat that this species prefers. In recent times, high vagility also appears to have offset inbreeding and loss of genetic diversity in highly fragmented habitat. PMID:25180939

  13. A Resource for Eliciting Student Alternative Conceptions: Examining the Adaptability of a Concept Inventory for Natural Selection at the Secondary School Level

    NASA Astrophysics Data System (ADS)

    Lucero, Margaret M.; Petrosino, Anthony J.

    2016-07-01

    The Conceptual Inventory of Natural Selection (CINS) is an example of a research-based instrument that assesses conceptual understanding in an area that contains well-documented alternative conceptions. Much of the CINS's use and original validation has been relegated to undergraduate settings, but the information learned from student responses on the CINS can also potentially be a useful resource for teachers at the secondary level. Because of its structure, the CINS can have a role in eliciting alternative conceptions and induce deeper conceptual understanding by having student ideas leveraged during instruction. In a first step toward this goal, the present study further investigated the CINS's internal properties by having it administered to a group (n = 339) of students among four different biology teachers at a predominantly Latino, economically disadvantaged high school. In addition, incidences of the concept inventory's use among the teachers' practices were collected for support of its adaptability at the secondary level. Despite the teachers' initial enthusiasm for the CINS's use as an assessment tool in the present study, results from a principal components analysis demonstrate inconsistencies between the original and present validations. Results also reveal how the teachers think CINS items may be revised for future use among secondary student populations.

  14. Comparative Characterization of Two Marine Alginate Lyases from Zobellia galactanivorans Reveals Distinct Modes of Action and Exquisite Adaptation to Their Natural Substrate*

    PubMed Central

    Thomas, François; Lundqvist, Lena C. E.; Jam, Murielle; Jeudy, Alexandra; Barbeyron, Tristan; Sandström, Corine; Michel, Gurvan; Czjzek, Mirjam

    2013-01-01

    Cell walls of brown algae are complex supramolecular assemblies containing various original, sulfated, and carboxylated polysaccharides. Among these, the major marine polysaccharide component, alginate, represents an important biomass that is successfully turned over by the heterotrophic marine bacteria. In the marine flavobacterium Zobellia galactanivorans, the catabolism and uptake of alginate are encoded by operon structures that resemble the typical Bacteroidetes polysaccharide utilization locus. The genome of Z. galactanivorans contains seven putative alginate lyase genes, five of which are localized within two clusters comprising additional carbohydrate-related genes. This study reports on the detailed biochemical and structural characterization of two of these. We demonstrate here that AlyA1PL7 is an endolytic guluronate lyase, and AlyA5 cleaves unsaturated units, α-l-guluronate or β-d-manuronate residues, at the nonreducing end of oligo-alginates in an exolytic fashion. Despite a common jelly roll-fold, these striking differences of the mode of action are explained by a distinct active site topology, an open cleft in AlyA1PL7, whereas AlyA5 displays a pocket topology due to the presence of additional loops partially obstructing the catalytic groove. Finally, in contrast to PL7 alginate lyases from terrestrial bacteria, both enzymes proceed according to a calcium-dependent mechanism suggesting an exquisite adaptation to their natural substrate in the context of brown algal cell walls. PMID:23782694

  15. Experimental adaptive Bayesian tomography

    NASA Astrophysics Data System (ADS)

    Kravtsov, K. S.; Straupe, S. S.; Radchenko, I. V.; Houlsby, N. M. T.; Huszár, F.; Kulik, S. P.

    2013-06-01

    We report an experimental realization of an adaptive quantum state tomography protocol. Our method takes advantage of a Bayesian approach to statistical inference and is naturally tailored for adaptive strategies. For pure states, we observe close to N-1 scaling of infidelity with overall number of registered events, while the best nonadaptive protocols allow for N-1/2 scaling only. Experiments are performed for polarization qubits, but the approach is readily adapted to any dimension.

  16. [Postvagotomy adaptation syndrome].

    PubMed

    Shapovalov, V A

    1998-01-01

    It was established in experiment, that the changes of the natural resistance of organism indexes and of the peritoneal cavity cytology has compensatory-adaptational character while the denervation-adaptational syndrome occurrence and progress, which may be assessed as eustress. Vagotomy and operative trauma cause qualitatively different reactions of an organism.

  17. Adaptive Management of Ecosystems

    EPA Science Inventory

    Adaptive management is an approach to natural resource management that emphasizes learning through management. As such, management may be treated as experiment, with replication, or management may be conducted in an iterative manner. Although the concept has resonated with many...

  18. The genomics of adaptation.

    PubMed

    Radwan, Jacek; Babik, Wiesław

    2012-12-22

    The amount and nature of genetic variation available to natural selection affect the rate, course and outcome of evolution. Consequently, the study of the genetic basis of adaptive evolutionary change has occupied biologists for decades, but progress has been hampered by the lack of resolution and the absence of a genome-level perspective. Technological advances in recent years should now allow us to answer many long-standing questions about the nature of adaptation. The data gathered so far are beginning to challenge some widespread views of the way in which natural selection operates at the genomic level. Papers in this Special Feature of Proceedings of the Royal Society B illustrate various aspects of the broad field of adaptation genomics. This introductory article sets up a context and, on the basis of a few selected examples, discusses how genomic data can advance our understanding of the process of adaptation.

  19. The Limits to Adaptation; A Systems Approach

    EPA Science Inventory

    The Limits to Adaptation: A Systems Approach. The ability to adapt to climate change is delineated by capacity thresholds, after which climate damages begin to overwhelm the adaptation response. Such thresholds depend upon physical properties (natural processes and engineering...

  20. Toward panchromatic organic functional molecules: density functional theory study on the nature of the broad UV-Vis-NIR spectra of substituted tetra(azulene)porphyrins.

    PubMed

    Qi, Dongdong; Zhang, Lijuan; Jiang, Jianzhuang

    2012-09-01

    To achieve full solar spectrum absorption of organic dyes for organic solar cells and organic solar antenna collectors, a series of tetra(azulene)porphyrin derivatives including H₂(TAzP), H₂(α-F₄TAzP), H₂(β-F₄TAzP), H₂(γ-F₄TAzP), H₂(δ-F₄TAzP), H₂(ɛ-F₄TAzP), H₂(ζ-F₄TAzP), H₂[α-(NH₂)₄TAzP], H₂[β-(NH₂)₄TAzP], H₂[γ-(NH₂)₄TAzP], H₂[δ-(NH₂)₄TAzP], H₂[ɛ-(NH₂)₄TAzP], and H₂[ζ-(NH₂)₄TAzP] were designed and their electronic absorption spectra were systematically studied on the basis of TDDFT calculations. The nature of the broad and intense electronic absorptions of H₂(TAzP) in the range of 500-1450 nm is clearly revealed. In addition, different types of π→π* electronic transitions associated with different absorption bands are revealed to correspond to different electron density moving direction between peripherally-fused ten electron-π-conjugated azulene units and the central eighteen electron-π-conjugated porphyrin core. Introduction of electron-donating groups onto the periphery of H₂(TAzP) macrocycle is revealed to be able to lead to novel NIR dyes such as H₂[α-(NH₂)₄TAzP] and H₂[ɛ-(NH₂)₄TAzP] with regulated UV-Vis-NIR absorption bands covering the full solar spectrum in the range of 300-2500 nm. In addition, the basic designing rules for panchromatic organic functional molecules based on tetrapyrrole derivatives are proposed together with the suggestions in experiments, including low molecular symmetry and narrow gap between HOMO and LUMO/LUMO+1, which will be helpful toward the design and synthesis of new panchromatic organic functional molecules.

  1. Human heat adaptation.

    PubMed

    Taylor, Nigel A S

    2014-01-01

    In this overview, human morphological and functional adaptations during naturally and artificially induced heat adaptation are explored. Through discussions of adaptation theory and practice, a theoretical basis is constructed for evaluating heat adaptation. It will be argued that some adaptations are specific to the treatment used, while others are generalized. Regarding ethnic differences in heat tolerance, the case is put that reported differences in heat tolerance are not due to natural selection, but can be explained on the basis of variations in adaptation opportunity. These concepts are expanded to illustrate how traditional heat adaptation and acclimatization represent forms of habituation, and thermal clamping (controlled hyperthermia) is proposed as a superior model for mechanistic research. Indeed, this technique has led to questioning the perceived wisdom of body-fluid changes, such as the expansion and subsequent decay of plasma volume, and sudomotor function, including sweat habituation and redistribution. Throughout, this contribution was aimed at taking another step toward understanding the phenomenon of heat adaptation and stimulating future research. In this regard, research questions are posed concerning the influence that variations in morphological configuration may exert upon adaptation, the determinants of postexercise plasma volume recovery, and the physiological mechanisms that modify the cholinergic sensitivity of sweat glands, and changes in basal metabolic rate and body core temperature following adaptation.

  2. Effects of natural and artificial selection on survival of columnar cacti seedlings: the role of adaptation to xeric and mesic environments

    PubMed Central

    Guillén, Susana; Terrazas, Teresa; Casas, Alejandro

    2015-01-01

    Escontria chiotilla, Polaskia chichipe, and Stenocereus pruinosus are species of Mexican columnar cacti that are economically important because of their edible fruits. These species are managed by gathering fruits from the wild, silvicultural management in agroforestry systems, and cultivation in home gardens. Previous studies reported that artificial selection favored individuals that produced larger fruits, which indirectly led to the production of larger seeds and seedlings, with possible effects on survival. We hypothesized that seedlings from managed populations would be larger but more susceptible to xeric conditions than those from wild populations. We evaluated the effects of artificial and natural selection on seedling survival of the three species in wild and managed populations, which were managed with low and high intensity, respectively. We tested seedling performance in gradients of shade (0, 40, and 80%) and humidity (low and high). A GLM of seedling survival showed significant differences among species, shade, and humidity treatments, with each species having environmental requirements associated with their particular adaptations. High humidity decreased seedling survival of all species, and high solar radiation decreased survival of S. pruinosus and P. chichipe. The effect of management type was significant only in S. pruinosus. Significant differences in the initial growth of seedlings among species were detected with ANOVA. In optimal conditions, the hypocotyl and the cotyledons decreased in size and the epicotyl grew, whereas under stress, these structures remained unchanged. The optimum conditions of shade and humidity varied among species and management types. The seedlings of S. pruinosus were the largest and the most susceptible, but in all species, seedlings from managed populations were more susceptible to environmental conditions. Thus, artificial selection influenced the susceptibility of these cacti to xeric environments. PMID

  3. Evaluation of total effective dose due to certain environmentally placed naturally occurring radioactive materials using a procedural adaptation of RESRAD code.

    PubMed

    Beauvais, Z S; Thompson, K H; Kearfott, K J

    2009-07-01

    Due to a recent upward trend in the price of uranium and subsequent increased interest in uranium mining, accurate modeling of baseline dose from environmental sources of radioactivity is of increasing interest. Residual radioactivity model and code (RESRAD) is a program used to model environmental movement and calculate the dose due to the inhalation, ingestion, and exposure to radioactive materials following a placement. This paper presents a novel use of RESRAD for the calculation of dose from non-enhanced, or ancient, naturally occurring radioactive material (NORM). In order to use RESRAD to calculate the total effective dose (TED) due to ancient NORM, a procedural adaptation was developed to negate the effects of time progressive distribution of radioactive materials. A dose due to United States' average concentrations of uranium, actinium, and thorium series radionuclides was then calculated. For adults exposed in a residential setting and assumed to eat significant amounts of food grown in NORM concentrated areas, the annual dose due to national average NORM concentrations was 0.935 mSv y(-1). A set of environmental dose factors were calculated for simple estimation of dose from uranium, thorium, and actinium series radionuclides for various age groups and exposure scenarios as a function of elemental uranium and thorium activity concentrations in groundwater and soil. The values of these factors for uranium were lowest for an adult exposed in an industrial setting: 0.00476 microSv kg Bq(-1) y(-1) for soil and 0.00596 microSv m(3) Bq(-1) y(-1) for water (assuming a 1:1 234U:238U activity ratio in water). The uranium factors were highest for infants exposed in a residential setting and assumed to ingest food grown onsite: 34.8 microSv kg Bq(-1) y(-1) in soil and 13.0 microSv m(3) Bq(-1) y(-1) in water. PMID:19509509

  4. Human-specific evolution and adaptation led to major qualitative differences in the variable receptors of human and chimpanzee natural killer cells.

    PubMed

    Abi-Rached, Laurent; Moesta, Achim K; Rajalingam, Raja; Guethlein, Lisbeth A; Parham, Peter

    2010-11-04

    Natural killer (NK) cells serve essential functions in immunity and reproduction. Diversifying these functions within individuals and populations are rapidly-evolving interactions between highly polymorphic major histocompatibility complex (MHC) class I ligands and variable NK cell receptors. Specific to simian primates is the family of Killer cell Immunoglobulin-like Receptors (KIR), which recognize MHC class I and associate with a range of human diseases. Because KIR have considerable species-specificity and are lacking from common animal models, we performed extensive comparison of the systems of KIR and MHC class I interaction in humans and chimpanzees. Although of similar complexity, they differ in genomic organization, gene content, and diversification mechanisms, mainly because of human-specific specialization in the KIR that recognizes the C1 and C2 epitopes of MHC-B and -C. Humans uniquely focused KIR recognition on MHC-C, while losing C1-bearing MHC-B. Reversing this trend, C1-bearing HLA-B46 was recently driven to unprecedented high frequency in Southeast Asia. Chimpanzees have a variety of ancient, avid, and predominantly inhibitory receptors, whereas human receptors are fewer, recently evolved, and combine avid inhibitory receptors with attenuated activating receptors. These differences accompany human-specific evolution of the A and B haplotypes that are under balancing selection and differentially function in defense and reproduction. Our study shows how the qualitative differences that distinguish the human and chimpanzee systems of KIR and MHC class I predominantly derive from adaptations on the human line in response to selective pressures placed on human NK cells by the competing needs of defense and reproduction.

  5. Regulation of Emotions in Socially Challenging Learning Situations: An Instrument to Measure the Adaptive and Social Nature of the Regulation Process

    ERIC Educational Resources Information Center

    Jarvenoja, Hanna; Volet, Simone; Jarvela, Sanna

    2013-01-01

    Self-regulated learning (SRL) research has conventionally relied on measures, which treat SRL as an aptitude. To study self-regulation and motivation in learning contexts as an ongoing adaptive process, situation-specific methods are needed in addition to static measures. This article presents an "Adaptive Instrument for Regulation of Emotions"…

  6. Technology transfer for adaptation

    NASA Astrophysics Data System (ADS)

    Biagini, Bonizella; Kuhl, Laura; Gallagher, Kelly Sims; Ortiz, Claudia

    2014-09-01

    Technology alone will not be able to solve adaptation challenges, but it is likely to play an important role. As a result of the role of technology in adaptation and the importance of international collaboration for climate change, technology transfer for adaptation is a critical but understudied issue. Through an analysis of Global Environment Facility-managed adaptation projects, we find there is significantly more technology transfer occurring in adaptation projects than might be expected given the pessimistic rhetoric surrounding technology transfer for adaptation. Most projects focused on demonstration and early deployment/niche formation for existing technologies rather than earlier stages of innovation, which is understandable considering the pilot nature of the projects. Key challenges for the transfer process, including technology selection and appropriateness under climate change, markets and access to technology, and diffusion strategies are discussed in more detail.

  7. The nature of isostasy on the moon - How big a Pratt-fall for Airy models. [crustal density-topographic elevation correlation

    NASA Technical Reports Server (NTRS)

    Solomon, S. C.

    1978-01-01

    The correlation between topographic elevation and the major element chemistry of the lunar surface in non-mare regions suggest that a Pratt-type isostatic mechanism may be important in the lunar highlands. Pratt isostasy involves compensation of greater elevation by lower crustal density. Computation of the bulk density from surface chemistry and normative mineralogy, followed by comparisons between calculated density and surface height, is suggested as a means of testing the applicability of the Pratt isostatic model to the moon. A Pratt-type lunar crustal model requires much smaller variations in lunar crustal thickness than those necessitated by a constant-density (Airy) isostatic model. Mechanisms to produce a crust regionally heterogeneous in composition early in lunar differentiation are also required for Pratt isostasy.

  8. Study of settlement distribution pattern in the Kolkheti lowland (Black Sea coast of Georgia) starting from early Bronze Age - natural and human influence and adaptation to landscape evolution

    NASA Astrophysics Data System (ADS)

    Elashvili, Mikheil; Akhvlediani, Dimitri; Navrozashvili, Levan; Sukhishvili, Lasha; Kirkitadze, Giorgi; Kelterbaum, Daniel; Laermans, Hannes

    2015-04-01

    During the past decades the question of a changing environment/nature became crucial. Actually we are trying to understand its nature or to predict future changes and their possible effects represent the main goals of many interdisciplinary studies. Therefore, the study of paleoenvironmental changes delivers key information for a better understanding of the whole process and especially the influence of these changes on human society. The selected research topic is dictated by the fact that the Colchis lowland played an important role in the history of old societies (countries and empires). Especially the interaction between developing human societies under the pressure of a changing environment are most interesting in this context. The Kolkheti valley and the Black Sea shore represent a region involved in many global historical events, starting from the Myth of Argonauts and followed by the ancient greek colonization, the Kingdom of Pontus ending at the Roman and Byzantine empires. River Phasis (present Rioni) was an important segment in trade way between the Mediterranean and India and the East in general. In addition it is the area of the "lost or vanished" city of Phasis, an ancient and early medieval city, founded in the 7th or 6th century BC as a colony of the Milesian Greeks at the mouth of the river Phasis, near the modern-day seaport Poti. Considering the local history of Georgia, this is the area of formation of the Kolkhys (Colchis) culture in late bronze-early iron periods, forming Colchis and later on the Lazika kingdoms. It is important to note that the archaeology and geomorphology of the seashore of Georgia is rather scarcely studied (mainly in the 1970s during soviet era). It is quite clear that the history of the region will not be deciphered without the reconstruction of the paleo and historical environment. The study based on an ongoing collaboration between the University of Cologne and the Ilia State University. Actually, geomorphological and

  9. Low genetic diversity and local adaptive divergence of Dracaena cambodiana (Liliaceae) populations associated with historical population bottlenecks and natural selection: an endangered long-lived tree endemic to Hainan Island, China.

    PubMed

    Zheng, D-J; Xie, L-S; Zhu, J-H; Zhang, Z-L

    2012-09-01

    Historical population bottlenecks and natural selection have important effects on the current genetic diversity and structure of long-lived trees. Dracaena cambodiana is an endangered, long-lived tree endemic to Hainan Island, China. Our field investigations showed that only 10 populations remain on Hainan Island and that almost all have been seriously isolated and grow in distinct habitats. A considerable amount of genetic variation at the species level, but little variation at the population level, and a high level of genetic differentiation among the populations with limited gene flow in D. cambodiana were detected using inter-simple sequence repeat (ISSR) and random amplified polymorphic DNA (RAPD) analyses. No significant correlation was found between genetic diversity and actual population size, as the genetic diversities were similar regardless of population size. The Mantel test revealed that there was no correlation between genetic and geographic distances among the 10 populations. The UPGMA, PCoA and Bayesian analyses showed that local adaptive divergence has occurred among the D. cambodiana populations, which was further supported by habitat-private fragments. We suggest that the current genetic diversity and population differentiation of D. cambodiana resulted from historical population bottlenecks and natural selection followed by historical isolation. However, the lack of natural regeneration of D. cambodiana indicates that former local adaptations with low genetic diversity may have been genetically weak and are unable to adapt to the current ecological environments.

  10. Uncertainty in adaptive capacity

    NASA Astrophysics Data System (ADS)

    Adger, W. Neil; Vincent, Katharine

    2005-03-01

    The capacity to adapt is a critical element of the process of adaptation: it is the vector of resources that represent the asset base from which adaptation actions can be made. Adaptive capacity can in theory be identified and measured at various scales, from the individual to the nation. The assessment of uncertainty within such measures comes from the contested knowledge domain and theories surrounding the nature of the determinants of adaptive capacity and the human action of adaptation. While generic adaptive capacity at the national level, for example, is often postulated as being dependent on health, governance and political rights, and literacy, and economic well-being, the determinants of these variables at national levels are not widely understood. We outline the nature of this uncertainty for the major elements of adaptive capacity and illustrate these issues with the example of a social vulnerability index for countries in Africa. To cite this article: W.N. Adger, K. Vincent, C. R. Geoscience 337 (2005).

  11. Vibrational spectra (FT-IR and FT-Raman), molecular structure, natural bond orbital, and TD-DFT analysis of L-Asparagine Monohydrate by Density Functional Theory approach.

    PubMed

    Sylvestre, S; Sebastian, S; Edwin, S; Amalanathan, M; Ayyapan, S; Jayavarthanan, T; Oudayakumar, K; Solomon, S

    2014-12-10

    In this work we report the vibrational spectral analysis of l-Asparagine Monohydrate (LAM) molecule by using FT-IR and FT-Raman spectroscopic techniques. The equilibrium geometry, harmonic vibrational wavenumbers, various bonding features have been computed using density functional B3LYP method with 6-311G(d,p) as basis set. Stability of the molecule arising from hyperconjugative interactions, charge delocalization have been analyzed using natural bond orbital (NBO) analysis. The results show that charge in electron density (ED) in σ(*) and π(*) antibonding orbitals and second order delocalization energies E((2)) confirms the occurrence of Intramolecular Charge Transfer (ICT) within the molecule. The energy and oscillator strength calculated by Time-Dependent Density Functional Theory (TD-DFT) complements with the experimental findings. The simulated spectra satisfactorily coincide with the experimental spectra.

  12. Adaptive Natural Killer Cell and Killer Cell Immunoglobulin-Like Receptor-Expressing T Cell Responses are Induced by Cytomegalovirus and Are Associated with Protection against Cytomegalovirus Reactivation after Allogeneic Donor Hematopoietic Cell Transplantation.

    PubMed

    Davis, Zachary B; Cooley, Sarah A; Cichocki, Frank; Felices, Martin; Wangen, Rose; Luo, Xianghua; DeFor, Todd E; Bryceson, Yenan T; Diamond, Don J; Brunstein, Claudio; Blazar, Bruce R; Wagner, John E; Weisdorf, Daniel J; Horowitz, Amir; Guethlein, Lisbeth A; Parham, Peter; Verneris, Michael R; Miller, Jeffrey S

    2015-09-01

    Cytomegalovirus (CMV) reactivates in >30% of CMV-seropositive patients after allogeneic hematopoietic cell transplantation (HCT). Previously, we reported an increase of natural killer (NK) cells expressing NKG2C, CD57, and inhibitory killer cell immunoglobulin-like receptors (KIRs) in response to CMV reactivation after HCT. These NK cells persist after the resolution of infection and display "adaptive" or memory properties. Despite these findings, the differential impact of persistent/inactive versus reactivated CMV on NK versus T cell maturation after HCT from different graft sources has not been defined. We compared the phenotype of NK and T cells from 292 recipients of allogeneic sibling (n = 118) or umbilical cord blood (UCB; n = 174) grafts based on recipient pretransplantation CMV serostatus and post-HCT CMV reactivation. This cohort was utilized to evaluate CMV-dependent increases in KIR-expressing NK cells exhibiting an adaptive phenotype (NKG2C(+)CD57(+)). Compared with CMV-seronegative recipients, those who reactivated CMV had the highest adaptive cell frequencies, whereas intermediate frequencies were observed in CMV-seropositive recipients harboring persistent/nonreplicating CMV. The same effect was observed in T cells and CD56(+) T cells. These adaptive lymphocyte subsets were increased in CMV-seropositive recipients of sibling but not UCB grafts and were correlated with lower rates of CMV reactivation (sibling 33% versus UCB 51%; P < .01). These data suggest that persistent/nonreplicating recipient CMV induces rapid production of adaptive NK and T cells from mature cells from sibling but not UCB grafts. These adaptive lymphocytes are associated with protection from CMV reactivation. PMID:26055301

  13. Adaptive Natural Killer Cell and Killer Cell Immunoglobulin-Like Receptor-Expressing T Cell Responses are Induced by Cytomegalovirus and Are Associated with Protection against Cytomegalovirus Reactivation after Allogeneic Donor Hematopoietic Cell Transplantation.

    PubMed

    Davis, Zachary B; Cooley, Sarah A; Cichocki, Frank; Felices, Martin; Wangen, Rose; Luo, Xianghua; DeFor, Todd E; Bryceson, Yenan T; Diamond, Don J; Brunstein, Claudio; Blazar, Bruce R; Wagner, John E; Weisdorf, Daniel J; Horowitz, Amir; Guethlein, Lisbeth A; Parham, Peter; Verneris, Michael R; Miller, Jeffrey S

    2015-09-01

    Cytomegalovirus (CMV) reactivates in >30% of CMV-seropositive patients after allogeneic hematopoietic cell transplantation (HCT). Previously, we reported an increase of natural killer (NK) cells expressing NKG2C, CD57, and inhibitory killer cell immunoglobulin-like receptors (KIRs) in response to CMV reactivation after HCT. These NK cells persist after the resolution of infection and display "adaptive" or memory properties. Despite these findings, the differential impact of persistent/inactive versus reactivated CMV on NK versus T cell maturation after HCT from different graft sources has not been defined. We compared the phenotype of NK and T cells from 292 recipients of allogeneic sibling (n = 118) or umbilical cord blood (UCB; n = 174) grafts based on recipient pretransplantation CMV serostatus and post-HCT CMV reactivation. This cohort was utilized to evaluate CMV-dependent increases in KIR-expressing NK cells exhibiting an adaptive phenotype (NKG2C(+)CD57(+)). Compared with CMV-seronegative recipients, those who reactivated CMV had the highest adaptive cell frequencies, whereas intermediate frequencies were observed in CMV-seropositive recipients harboring persistent/nonreplicating CMV. The same effect was observed in T cells and CD56(+) T cells. These adaptive lymphocyte subsets were increased in CMV-seropositive recipients of sibling but not UCB grafts and were correlated with lower rates of CMV reactivation (sibling 33% versus UCB 51%; P < .01). These data suggest that persistent/nonreplicating recipient CMV induces rapid production of adaptive NK and T cells from mature cells from sibling but not UCB grafts. These adaptive lymphocytes are associated with protection from CMV reactivation.

  14. Evolution of adaptation mechanisms: Adaptation energy, stress, and oscillating death.

    PubMed

    Gorban, Alexander N; Tyukina, Tatiana A; Smirnova, Elena V; Pokidysheva, Lyudmila I

    2016-09-21

    In 1938, Selye proposed the notion of adaptation energy and published 'Experimental evidence supporting the conception of adaptation energy.' Adaptation of an animal to different factors appears as the spending of one resource. Adaptation energy is a hypothetical extensive quantity spent for adaptation. This term causes much debate when one takes it literally, as a physical quantity, i.e. a sort of energy. The controversial points of view impede the systematic use of the notion of adaptation energy despite experimental evidence. Nevertheless, the response to many harmful factors often has general non-specific form and we suggest that the mechanisms of physiological adaptation admit a very general and nonspecific description. We aim to demonstrate that Selye׳s adaptation energy is the cornerstone of the top-down approach to modelling of non-specific adaptation processes. We analyze Selye׳s axioms of adaptation energy together with Goldstone׳s modifications and propose a series of models for interpretation of these axioms. Adaptation energy is considered as an internal coordinate on the 'dominant path' in the model of adaptation. The phenomena of 'oscillating death' and 'oscillating remission' are predicted on the base of the dynamical models of adaptation. Natural selection plays a key role in the evolution of mechanisms of physiological adaptation. We use the fitness optimization approach to study of the distribution of resources for neutralization of harmful factors, during adaptation to a multifactor environment, and analyze the optimal strategies for different systems of factors.

  15. Adaptations, exaptations, and spandrels.

    PubMed

    Buss, D M; Haselton, M G; Shackelford, T K; Bleske, A L; Wakefield, J C

    1998-05-01

    Adaptation and natural selection are central concepts in the emerging science of evolutionary psychology. Natural selection is the only known causal process capable of producing complex functional organic mechanisms. These adaptations, along with their incidental by-products and a residue of noise, comprise all forms of life. Recently, S. J. Gould (1991) proposed that exaptations and spandrels may be more important than adaptations for evolutionary psychology. These refer to features that did not originally arise for their current use but rather were co-opted for new purposes. He suggested that many important phenomena--such as art, language, commerce, and war--although evolutionary in origin, are incidental spandrels of the large human brain. The authors outline the conceptual and evidentiary standards that apply to adaptations, exaptations, and spandrels and discuss the relative utility of these concepts for psychological science. PMID:9612136

  16. Patterns of host-parasite adaptation in three populations of monarch butterflies infected with a naturally occurring protozoan disease: virulence, resistance, and tolerance.

    PubMed

    Sternberg, Eleanore D; Li, Hui; Wang, Rebecca; Gowler, Camden; de Roode, Jacobus C

    2013-12-01

    Many studies have used host-parasite systems to study local adaptation, but few of these studies have found unequivocal evidence for adaptation. One potential reason is that most studies have focused on limited measures of host and parasite fitness that are generally assumed to be under negative frequency-dependent selection. We have used reciprocal cross-infection experiments to test for local adaptation in Hawaiian, south Floridian, and eastern North American populations of monarch butterflies and their protozoan parasites. Sympatric host-parasite combinations did not result in greater host or parasite fitness, as would be expected under coevolutionary dynamics driven by negative frequency-dependent selection. Instead, we found that Hawaiian hosts were more resistant and carried more infective and virulent parasites, which is consistent with theoretical predictions for virulence evolution and coevolutionary arms race dynamics. We also found that Hawaiian hosts were more tolerant, particularly of Hawaiian parasites, indicating that increased resistance does not preclude increased tolerance within a population and that hosts may be more tolerant of local parasites. We did not find a similar pattern in the south Floridian or eastern populations, possibly because host-parasite adaptation occurs within the context of a greater ecological community.

  17. "Do You Know Actimel?" The Adaptive Nature of Dialogic Teacher-Led Discussions in the CLIL Science Classroom: A Case Study

    ERIC Educational Resources Information Center

    Escobar Urmeneta, Cristina; Evnitskaya, Natalia

    2014-01-01

    This interpretive case study is framed within recent sociocultural conceptualisations of learning. It draws on research on teacher-led classroom discussions, and investigates the conversational intricacies through which "dialogicity" is accomplished in adaptive ways in one content and language integrated learning (CLIL) science…

  18. Genome-wide association study in arabidopsis thaliana of natural variation in seed oil melting point, a widespread adaptive trait in plants

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Seed oil melting point is an adaptive, quantitative trait determined by the relative proportions of the fatty acids that compose the oil. Micro- and macro-evolutionary evidence suggests selection has changed the melting point of seed oils to co-vary with germination temperatures because of a trade-o...

  19. The structure, energetics, and nature of the chemical bonding of phenylthiol adsorbed on the Au(111) surface: implications for density-functional calculations of molecular-electronic conduction.

    PubMed

    Bilić, Ante; Reimers, Jeffrey R; Hush, Noel S

    2005-03-01

    The adsorption of phenylthiol on the Au(111) surface is modeled using Perdew and Wang density-functional calculations. Both direct molecular physisorption and dissociative chemisorption via S-H bond cleavage are considered as well as dimerization to form disulfides. For the major observed product, the chemisorbed thiol, an extensive potential-energy surface is produced as a function of both the azimuthal orientation of the adsorbate and the linear translation of the adsorbate through the key fcc, hcp, bridge, and top binding sites. Key structures are characterized, the lowest-energy one being a broad minimum of tilted orientation ranging from the bridge structure halfway towards the fcc one. The vertically oriented threefold binding sites, often assumed to dominate molecular electronics measurements, are identified as transition states at low coverage but become favored in dense monolayers. A similar surface is also produced for chemisorption of phenylthiol on Ag(111); this displays significant qualitative differences, consistent with the qualitatively different observed structures for thiol chemisorption on Ag and Au. Full contours of the minimum potential energy as a function of sulfur translation over the crystal face are described, from which the barrier to diffusion is deduced to be 5.8 kcal mol(-1), indicating that the potential-energy surface has low corrugation. The calculated bond lengths, adsorbate charge and spin density, and the density of electronic states all indicate that, at all sulfur locations, the adsorbate can be regarded as a thiyl species that forms a net single covalent bond to the surface of strength 31 kcal mol(-1). No detectable thiolate character is predicted, however, contrary to experimental results for alkyl thiols that indicate up to 20%-30% thiolate involvement. This effect is attributed to the asymptotic-potential error of all modern density functionals that becomes manifest through a 3-4 eV error in the lineup of the adsorbate and

  20. Fireplace adapters

    SciTech Connect

    Hunt, R.L.

    1983-12-27

    An adapter is disclosed for use with a fireplace. The stove pipe of a stove standing in a room to be heated may be connected to the flue of the chimney so that products of combustion from the stove may be safely exhausted through the flue and outwardly of the chimney. The adapter may be easily installed within the fireplace by removing the damper plate and fitting the adapter to the damper frame. Each of a pair of bolts has a portion which hooks over a portion of the damper frame and a threaded end depending from the hook portion and extending through a hole in the adapter. Nuts are threaded on the bolts and are adapted to force the adapter into a tight fit with the adapter frame.

  1. Vibronic Characteristics and Spin-Density Distributions in Bacteriochlorins as Revealed by Spectroscopic Studies of 16 Isotopologues. Implications for Energy- and Electron-Transfer in Natural Photosynthesis and Artificial Solar-Energy Conversion.

    PubMed

    Diers, James R; Tang, Qun; Hondros, Christopher J; Chen, Chih-Yuan; Holten, Dewey; Lindsey, Jonathan S; Bocian, David F

    2014-06-26

    Vibronic characteristics and spin-density distributions in the core bacteriochlorin macrocycle were revealed by spectroscopic and theoretical studies of 16 isotopologues. The vibrational modes in copper bacteriochlorin isotopologues were examined via resonance Raman and Fourier-transform infrared spectroscopy. The resonance Raman spectra exhibit an exceptional sparcity of vibronically active modes of the core macrocycle, in contrast with the rich spectra of the natural bacteriochlorophylls. The Qy-excitation resonance Raman spectrum is dominated by a single mode at 727 cm(-1), which calculations suggest is due to a symmetrical accordion-like deformation of the five-atom Cm(CaNCa)pyrroleCm portion of the ring core. This deformation also dominates the vibronic features in the absorption and fluorescence spectra. The spin-density distributions in the π-cation radical of the zinc bacteriochlorin isotopologues were studied by electron paramagnetic resonance spectroscopy. The spectra indicate a significant electron/spin density (ρ ∼ 0.1) on each meso-carbon atom. This observation contradicts the predictions of early calculations that have been assumed to be correct for nearly four decades. Collectively, these findings have implications for how the structural features that characterize natural bacteriochlorophylls might influence energy- and electron-transfer processes in photosynthesis and alter the thinking on the design of synthetic, bacteriochlorin-based arrays for solar-energy conversion.

  2. Computational chemistry of natural products: a comparison of the chemical reactivity of isonaringin calculated with the M06 family of density functionals.

    PubMed

    Glossman-Mitnik, Daniel

    2014-07-01

    The M06 family of density functionals has been assessed for the calculation of the molecular structure and properties of the Isonaringin flavonoid that can be an interesting material for dye-sensitized solar cells (DSSC). The chemical reactivity descriptors have been calculated through chemical reactivity theory within DFT (CR-DFT). The active sites for nucleophilic and electrophilic attacks have been chosen by relating them to the Fukui function indices and the dual descriptor f ((2))(r). A comparison between the descriptors calculated through vertical energy values and those arising from the Janak's theorem approximation have been performed in order to check for the validity of the last procedure.

  3. Computational chemistry of natural products: a comparison of the chemical reactivity of isonaringin calculated with the M06 family of density functionals.

    PubMed

    Glossman-Mitnik, Daniel

    2014-07-01

    The M06 family of density functionals has been assessed for the calculation of the molecular structure and properties of the Isonaringin flavonoid that can be an interesting material for dye-sensitized solar cells (DSSC). The chemical reactivity descriptors have been calculated through chemical reactivity theory within DFT (CR-DFT). The active sites for nucleophilic and electrophilic attacks have been chosen by relating them to the Fukui function indices and the dual descriptor f ((2))(r). A comparison between the descriptors calculated through vertical energy values and those arising from the Janak's theorem approximation have been performed in order to check for the validity of the last procedure. PMID:24992989

  4. Density Visualization

    ERIC Educational Resources Information Center

    Keiter, Richard L.; Puzey, Whitney L.; Blitz, Erin A.

    2006-01-01

    Metal rods of high purity for many elements are now commercially available and may be used to construct a display of relative densities. We have constructed a display with nine metal rods (Mg, Al, Ti, V, Fe, Cu, Ag, Pb, and W) of equal mass whose densities vary from 1.74 to 19.3 g cm[superscript -3]. The relative densities of the metals may be…

  5. Transformational adaptation when incremental adaptations to climate change are insufficient

    PubMed Central

    Kates, Robert W.; Travis, William R.; Wilbanks, Thomas J.

    2012-01-01

    All human–environment systems adapt to climate and its natural variation. Adaptation to human-induced change in climate has largely been envisioned as increments of these adaptations intended to avoid disruptions of systems at their current locations. In some places, for some systems, however, vulnerabilities and risks may be so sizeable that they require transformational rather than incremental adaptations. Three classes of transformational adaptations are those that are adopted at a much larger scale, that are truly new to a particular region or resource system, and that transform places and shift locations. We illustrate these with examples drawn from Africa, Europe, and North America. Two conditions set the stage for transformational adaptation to climate change: large vulnerability in certain regions, populations, or resource systems; and severe climate change that overwhelms even robust human use systems. However, anticipatory transformational adaptation may be difficult to implement because of uncertainties about climate change risks and adaptation benefits, the high costs of transformational actions, and institutional and behavioral actions that tend to maintain existing resource systems and policies. Implementing transformational adaptation requires effort to initiate it and then to sustain the effort over time. In initiating transformational adaptation focusing events and multiple stresses are important, combined with local leadership. In sustaining transformational adaptation, it seems likely that supportive social contexts and the availability of acceptable options and resources for actions are key enabling factors. Early steps would include incorporating transformation adaptation into risk management and initiating research to expand the menu of innovative transformational adaptations. PMID:22509036

  6. Transformational adaptation when incremental adaptations to climate change are insufficient.

    PubMed

    Kates, Robert W; Travis, William R; Wilbanks, Thomas J

    2012-05-01

    All human-environment systems adapt to climate and its natural variation. Adaptation to human-induced change in climate has largely been envisioned as increments of these adaptations intended to avoid disruptions of systems at their current locations. In some places, for some systems, however, vulnerabilities and risks may be so sizeable that they require transformational rather than incremental adaptations. Three classes of transformational adaptations are those that are adopted at a much larger scale, that are truly new to a particular region or resource system, and that transform places and shift locations. We illustrate these with examples drawn from Africa, Europe, and North America. Two conditions set the stage for transformational adaptation to climate change: large vulnerability in certain regions, populations, or resource systems; and severe climate change that overwhelms even robust human use systems. However, anticipatory transformational adaptation may be difficult to implement because of uncertainties about climate change risks and adaptation benefits, the high costs of transformational actions, and institutional and behavioral actions that tend to maintain existing resource systems and policies. Implementing transformational adaptation requires effort to initiate it and then to sustain the effort over time. In initiating transformational adaptation focusing events and multiple stresses are important, combined with local leadership. In sustaining transformational adaptation, it seems likely that supportive social contexts and the availability of acceptable options and resources for actions are key enabling factors. Early steps would include incorporating transformation adaptation into risk management and initiating research to expand the menu of innovative transformational adaptations.

  7. An adaptive contextual quantum language model

    NASA Astrophysics Data System (ADS)

    Li, Jingfei; Zhang, Peng; Song, Dawei; Hou, Yuexian

    2016-08-01

    User interactions in search system represent a rich source of implicit knowledge about the user's cognitive state and information need that continuously evolves over time. Despite massive efforts that have been made to exploiting and incorporating this implicit knowledge in information retrieval, it is still a challenge to effectively capture the term dependencies and the user's dynamic information need (reflected by query modifications) in the context of user interaction. To tackle these issues, motivated by the recent Quantum Language Model (QLM), we develop a QLM based retrieval model for session search, which naturally incorporates the complex term dependencies occurring in user's historical queries and clicked documents with density matrices. In order to capture the dynamic information within users' search session, we propose a density matrix transformation framework and further develop an adaptive QLM ranking model. Extensive comparative experiments show the effectiveness of our session quantum language models.

  8. Hierarchical and cybernetic nature of biologic systems and their relevance to homeostatic adaptation to low-level exposures to oxidative stress-inducing agents.

    PubMed Central

    Trosko, J E

    1998-01-01

    During evolution in an aerobic environment, multicellular organisms survived by adaptive responses to both the endogenous oxidative metabolism in the cells of the organism and the chemicals and low-level radiation to which they had been exposed. The defense repertoire exists at all levels of the biological hierarchy--from the molecular and biochemical level to the cellular and tissue level to the organ and organ system level. Cells contain preventive antioxidants to suppress oxidative damage to membranes. Cells also contain proteins and DNA; built-in redundancies for damaged molecules and organelles; tightly coupled redox systems; pools of reductants; antioxidants; DNA repair mechanisms and sensitive sensor molecules such as nuclear factor kappa beta; and signal transduction mechanisms affecting both transcription and post-translational modification of proteins needed to cope with oxidative stress. The biologic consequences of the low-level radiation that exceeds the background level of oxidative damage could be necrosis or apoptosis, cell proliferation, or cell differentiation. These effects are triggered by oxidative stress-induced signal transduction mechanisms--an epigenetic, not genotoxic, process. If the end points of cell proliferation, differentiation, or cell death are not seen at frequencies above background levels in an organism, it is unlikely that low-level radiation would play a role in the multistep processes of chronic diseases such as cancer. The mechanism linked to homeostatic regulation of proliferation and adaptive functions in a multicellular organism could provide protection of any one cell receiving deposited energy by the radiation tract through the sharing of reductants and by triggering apoptosis of target stem cells. Examples of the role of gap junctional intercellular communication in the adaptive response of cells and the bystander effect illustrate how the interaction of cells can modulate the effect of radiation on the single cell

  9. Adaptive SPECT

    PubMed Central

    Barrett, Harrison H.; Furenlid, Lars R.; Freed, Melanie; Hesterman, Jacob Y.; Kupinski, Matthew A.; Clarkson, Eric; Whitaker, Meredith K.

    2008-01-01

    Adaptive imaging systems alter their data-acquisition configuration or protocol in response to the image information received. An adaptive pinhole single-photon emission computed tomography (SPECT) system might acquire an initial scout image to obtain preliminary information about the radiotracer distribution and then adjust the configuration or sizes of the pinholes, the magnifications, or the projection angles in order to improve performance. This paper briefly describes two small-animal SPECT systems that allow this flexibility and then presents a framework for evaluating adaptive systems in general, and adaptive SPECT systems in particular. The evaluation is in terms of the performance of linear observers on detection or estimation tasks. Expressions are derived for the ideal linear (Hotelling) observer and the ideal linear (Wiener) estimator with adaptive imaging. Detailed expressions for the performance figures of merit are given, and possible adaptation rules are discussed. PMID:18541485

  10. Hypervariable region 1 deletion and required adaptive envelope mutations confer decreased dependency on scavenger receptor class B type I and low-density lipoprotein receptor for hepatitis C virus.

    PubMed

    Prentoe, Jannick; Serre, Stéphanie B N; Ramirez, Santseharay; Nicosia, Alfredo; Gottwein, Judith M; Bukh, Jens

    2014-02-01

    Hypervariable region 1 (HVR1) of envelope protein 2 (E2) of hepatitis C virus (HCV) serves important yet undefined roles in the viral life cycle. We previously showed that the viability of HVR1-deleted JFH1-based recombinants with Core-NS2 of H77 (H77(ΔHVR1), genotype 1a) and S52 (S52(ΔHVR1), genotype 3a) in Huh7.5 cells was rescued by E2 substitutions N476D/S733F and an E1 substitution, A369V, respectively; HVR1-deleted J6 (J6(ΔHVR1), genotype 2a) was fully viable. In single-cycle production assays, where HCV RNA was transfected into entry-deficient Huh7-derived S29 cells with low CD81 expression, we found no effect of HVR1 deletion on replication or particle release for H77 and S52. HCV pseudoparticle assays in Huh7.5 cells showed that HVR1 deletion decreased entry by 20- to 100-fold for H77, J6, and S52; N476D/S733F restored entry for H77(ΔHVR1), while A369V further impaired S52(ΔHVR1) entry. We investigated receptor usage by antibody blocking and receptor silencing in Huh7.5 cells, followed by inoculation of parental and HVR1-deleted HCV recombinants. Compared to parental viruses, scavenger receptor class B type I (SR-BI) dependency was decreased for H77(ΔHVR1/N476D/S733F), H77(N476D/S733F), S52(ΔHVR1/A369V), and S52(A369V), but not for J6(ΔHVR1). Low-density lipoprotein receptor (LDLr) dependency was decreased for HVR1-deleted viruses, but not for H77(N476D/S733F) and S52(A369V). Soluble LDLr neutralization revealed strong inhibition of parental HCV but limited effect against HVR1-deleted viruses. Apolipoprotein E (ApoE)-specific HCV neutralization was similar for H77, J6, and S52 viruses with and without HVR1. In conclusion, HVR1 and HVR1-related adaptive envelope mutations appeared to be involved in LDLr and SR-BI dependency, respectively. Also, LDLr served ApoE-independent but HVR1-dependent functions in HCV entry. PMID:24257605

  11. Towards clarifying the N-M vibrational nature of metallo-phthalocyanines. Infrared spectrum of phthalocyanine magnesium complex: density functional calculations.

    PubMed

    Zhang, Xianxi; Zhang, Yuexing; Jiang, Jianzhuang

    2004-08-01

    Infrared frequencies and intensities for the magnesium phthalocyanine complex MgPc have been calculated at density functional B3LYP level using the 6-31G(d) basis set. Detailed assignments of the metal-nitrogen (N-M) vibrational bands in the IR spectrum have been made on the basis of comparison of the calculated data of MgPc with the experimental result and also with that of H(2)Pc. The empirical controversial assignment of the characteristic band at 886-919 cm(-1) for metallo-phthalocyanines is also clearly interpreted. Nevertheless, the previous assignments of N-H stretchings, in-plane bending (IPB) and out-of-plane bending (OPB) modes made based on the comparative calculation of H(2)Pc and D(2)Pc are confirmed again by the present research result.

  12. Adaptive Computing.

    ERIC Educational Resources Information Center

    Harrell, William

    1999-01-01

    Provides information on various adaptive technology resources available to people with disabilities. (Contains 19 references, an annotated list of 129 websites, and 12 additional print resources.) (JOW)

  13. Contour adaptation.

    PubMed

    Anstis, Stuart

    2013-01-01

    It is known that adaptation to a disk that flickers between black and white at 3-8 Hz on a gray surround renders invisible a congruent gray test disk viewed afterwards. This is contrast adaptation. We now report that adapting simply to the flickering circular outline of the disk can have the same effect. We call this "contour adaptation." This adaptation does not transfer interocularly, and apparently applies only to luminance, not color. One can adapt selectively to only some of the contours in a display, making only these contours temporarily invisible. For instance, a plaid comprises a vertical grating superimposed on a horizontal grating. If one first adapts to appropriate flickering vertical lines, the vertical components of the plaid disappears and it looks like a horizontal grating. Also, we simulated a Cornsweet (1970) edge, and we selectively adapted out the subjective and objective contours of a Kanisza (1976) subjective square. By temporarily removing edges, contour adaptation offers a new technique to study the role of visual edges, and it demonstrates how brightness information is concentrated in edges and propagates from them as it fills in surfaces.

  14. Toward optimizing the delivery and use of climate science for natural resource management: lessons learned from recent adaptation efforts in the southwestern U.S.

    NASA Astrophysics Data System (ADS)

    Enquist, C.

    2014-12-01

    Within the past decade, a wealth of federal, state, and NGO-driven initiatives has emerged across managed landscapes in the United States with the goal of facilitating a coordinated response to rapidly changing climate and environmental conditions. In addition to acquisition and translation of the latest climate science, climate vulnerability assessment and scenario planning at multiple spatial and temporal scales are typically major components of such broad adaptation efforts. Numerous approaches for conducting this work have emerged in recent years and have culminated in general guidance and trainings for resource professionals that are specifically designed to help practitioners face the challenges of climate change. In particular, early engagement of stakeholders across multiple jurisdictions is particularly critical to cultivate buy-in and other enabling conditions for moving the science to on-the-ground action. I report on a suite of adaptation efforts in the southwestern US and interior Rockies, highlighting processes used, actions taken, lessons learned, and recommended next steps to facilitate achieving desired management outcomes. This includes a discussion of current efforts to optimize funding for actionable climate science, formalize science-management collaborations, and facilitate new investments in approaches for strategic climate-informed monitoring and evaluation.

  15. Exploring the Nature of the Intention, Meaning and Perception Process of the Neuro-occupation Model to Understand Adaptation to Change.

    PubMed

    Derakhshanrad, Seyed Alireza; Piven, Emily; Hosseini, Seyed Ali; Shahboulaghi, Farahnaz Mohammadi; Nazeran, Homer; Rassafiani, Mehdi

    2016-03-01

    The theoretical model of neuro-occupation, intention, meaning and perception, sought to describe the symbiotic relationship between occupation and the brain, as a chaotic, self-organized, complex system. Lack of evidence has limited its applicability to practice. The aim of this study was to track the postulates of the model within the daily experiences of subjects. Structured matrices were created for content analysis, using a qualitative multiple-case-study design, typically used for testing models. An underpinning principle of the model, defined a circular causality feedback process, which was confirmed as described through tracing the repetitive processes within the lived experience of two Iranian men. The process suggested that continual adaptation occurred in lives interrupted by cerebrovascular accident, which enabled the subjects to return to expression of meaning through purposeful occupation and continually re-shaped their perceptions. The primary limitation of this study was that it was the earliest attempt to test the model and to substantiate the process by comparing the similarities and differences between too few subjects. Future research should identify the same process in more subjects and validate a practical assessment tool for clients. These findings may inform practitioners about intentional use of occupational challenges to elicit adaptive behaviours in clients. PMID:26234718

  16. The Limits to Adaptation: A Systems Approach

    EPA Science Inventory

    The ability to adapt to climate change is delineated by capacity thresholds, after which climate damages begin to overwhelm the adaptation response. Such thresholds depend upon physical properties (natural processes and engineering parameters), resource constraints (expressed th...

  17. A holistic strategy for adaptive land management

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Adaptive management is widely applied to natural resources management. Adaptive management can be generally defined as an iterative decision-making process that incorporates formulation of management objectives, actions designed to address these objectives, monitoring of results, and repeated adapta...

  18. Adapting to the Environment.

    ERIC Educational Resources Information Center

    Kovach, Amy L.

    2003-01-01

    Presents an activity on natural selection and how the peppered moth's adaptive values for their colors changed during the Industrial Revolution in Manchester, England, influencing their survival and ultimately affecting the survival of their offspring. Includes activity objectives. (Author/KHR)

  19. Adapting Bulls to Florida

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The adaptation of bulls used for natural breeding purposes to the Gulf Coast region of the United States including all of Florida is an important topic. Nearly 40% of the U.S. cow/calf population resides in the Gulf Coast and Southeast. Thus, as A.I. is relatively rare, the number of bulls used for ...

  20. Climate adaptation

    NASA Astrophysics Data System (ADS)

    Kinzig, Ann P.

    2015-03-01

    This paper is intended as a brief introduction to climate adaptation in a conference devoted otherwise to the physics of sustainable energy. Whereas mitigation involves measures to reduce the probability of a potential event, such as climate change, adaptation refers to actions that lessen the impact of climate change. Mitigation and adaptation differ in other ways as well. Adaptation does not necessarily have to be implemented immediately to be effective; it only needs to be in place before the threat arrives. Also, adaptation does not necessarily require global, coordinated action; many effective adaptation actions can be local. Some urban communities, because of land-use change and the urban heat-island effect, currently face changes similar to some expected under climate change, such as changes in water availability, heat-related morbidity, or changes in disease patterns. Concern over those impacts might motivate the implementation of measures that would also help in climate adaptation, despite skepticism among some policy makers about anthropogenic global warming. Studies of ancient civilizations in the southwestern US lends some insight into factors that may or may not be important to successful adaptation.

  1. Thiol dependent NF-κB suppression and inhibition of T-cell mediated adaptive immune responses by a naturally occurring steroidal lactone Withaferin A.

    PubMed

    Gambhir, Lokesh; Checker, Rahul; Sharma, Deepak; Thoh, M; Patil, Anand; Degani, M; Gota, Vikram; Sandur, Santosh K

    2015-12-01

    Withaferin A (WA), a steroidal lactone isolated from ayurvedic medicinal plant Withania somnifera, was shown to inhibit tumor growth by inducing oxidative stress and suppressing NF-κB pathway. However, its effect on T-cell mediated adaptive immune responses and the underlying mechanism has not been investigated. Since both T-cell responses and NF-κB pathway are known to be redox sensitive, the present study was undertaken to elucidate the effect of WA on adaptive immune responses in vitro and in vivo. WA inhibited mitogen induced T-cell and B-cell proliferation in vitro without inducing any cell death. It inhibited upregulation of T-cell (CD25, CD69, CD71 and CD54) and B-cell (CD80, CD86 and MHC-II) activation markers and secretion of Th1 and Th2 cytokines. WA induced oxidative stress by increasing the basal ROS levels and the immunosuppressive effects of WA were abrogated only by thiol anti-oxidants. The redox modulatory effects of WA in T-cells were attributed to its ability to directly interact with free thiols. WA inhibited NF-κB nuclear translocation in lymphocytes and prevented the direct binding of nuclear NF-κB to its consensus sequence. MALDI-TOF analysis using a synthetic NF-κB-p50 peptide containing Cys-62 residue suggested that WA can modify the cysteine residue of NF-κB. The pharmacokinetic studies for WA were also carried out and in vivo efficacy of WA was studied using mouse model of Graft-versus-host disease. In conclusion, WA is a potent inhibitor of T-cell responses and acts via a novel thiol dependent mechanism and inhibition of NF-κB pathway.

  2. Genomics of local adaptation with gene flow.

    PubMed

    Tigano, Anna; Friesen, Vicki L

    2016-05-01

    Gene flow is a fundamental evolutionary force in adaptation that is especially important to understand as humans are rapidly changing both the natural environment and natural levels of gene flow. Theory proposes a multifaceted role for gene flow in adaptation, but it focuses mainly on the disruptive effect that gene flow has on adaptation when selection is not strong enough to prevent the loss of locally adapted alleles. The role of gene flow in adaptation is now better understood due to the recent development of both genomic models of adaptive evolution and genomic techniques, which both point to the importance of genetic architecture in the origin and maintenance of adaptation with gene flow. In this review, we discuss three main topics on the genomics of adaptation with gene flow. First, we investigate selection on migration and gene flow. Second, we discuss the three potential sources of adaptive variation in relation to the role of gene flow in the origin of adaptation. Third, we explain how local adaptation is maintained despite gene flow: we provide a synthesis of recent genomic models of adaptation, discuss the genomic mechanisms and review empirical studies on the genomics of adaptation with gene flow. Despite predictions on the disruptive effect of gene flow in adaptation, an increasing number of studies show that gene flow can promote adaptation, that local adaptations can be maintained despite high gene flow, and that genetic architecture plays a fundamental role in the origin and maintenance of local adaptation with gene flow.

  3. Tractability gains in symmetry-adapted perturbation theory including coupled double excitations: CCD+ST(CCD) dispersion with natural orbital truncations.

    PubMed

    Parrish, Robert M; Hohenstein, Edward G; Sherrill, C David

    2013-11-01

    This work focuses on efficient and accurate treatment of the intermolecular dispersion interaction using the CCD+ST(CCD) dispersion approach formulated by Williams et al. [J. Chem. Phys. 103, 4586 (1995)]. We apply natural orbital truncation techniques to the solution of the monomer coupled-cluster double (CCD) equations, yielding substantial accelerations in this computationally demanding portion of the SAPT2+(CCD), SAPT2+(3)(CCD), and SAPT2+3(CCD) analyses. It is shown that the wholly rate-limiting dimer-basis particle-particle ladder term can be computed in a reduced natural virtual space which is essentially the same size as the monomer-basis virtual space, with an error on the order of a few thousandths of 1 kcal mol(-1). Coupled with our existing natural orbital techniques for the perturbative triple excitation contributions [E. G. Hohenstein and C. D. Sherrill, J. Chem. Phys. 133, 104107 (2010)], this technique provides speedups of greater than an order of magnitude for the evaluation of the complete SAPT2+3(CCD) decomposition, with a total error of a few hundredths of 1 kcal mol(-1). The combined approach yields tractability gains of almost 2× in the system size, allowing for SAPT2+3(CCD)/aug-cc-pVTZ analysis to be performed for systems such as adenine-thymine for the first time. Natural orbital based SAPT2+3(CCD)/aug-cc-pVTZ results are presented for stacked and hydrogen-bonded configurations of uracil dimer and the adenine-thymine dimer.

  4. Nature vs. nurture in the low-density environment: structure and evolution of early-type dwarf galaxies in poor groups

    NASA Astrophysics Data System (ADS)

    Annibali, F.; Grützbauch, R.; Rampazzo, R.; Bressan, A.; Zeilinger, W. W.

    2011-04-01

    We present the stellar population properties of 13 dwarf galaxies residing in poor groups (low-density environment, LDE) observed with VIMOS at VLT. Ages, metallicities, and [α/Fe] ratios were derived within an r < re/2 aperture from the Lick indices Hβ, Mgb, Fe5270, and Fe5335 through comparison with our simple stellar population (SSP) models that account for variable [α/Fe] ratios. For a fiducial subsample of 10 early-type dwarfs, we derived median values and scatters around the medians of 5.7 ± 4.4 Gyr, -0.26 ± 0.28, and -0.04 ± 0.33 for age, log Z/Z⊙, and [α/Fe] , respectively. For a selection of bright early-type galaxies (ETGs) from an earlier sample residing in a comparable environment, we derive median values of 9.8 ± 4.1 Gyr, 0.06 ± 0.16, and 0.18 ± 0.13 for the same stellar population parameters. It follows that dwarfs are on average younger, less metal rich, and less enhanced in the α-elements than giants, in agreement with the extrapolation to the low-mass regime of the scaling relations derived for giant ETGs. From the total (dwarf + giant) sample, we find that age ∝ σ0.39 ± 0.22, Z ∝ σ0.80 ± 0.16, and α/Fe ∝ σ0.42 ± 0.22. We also find correlations with morphology, in the sense that the metallicity and the [α/Fe] ratio increase with the Sersic index n or with the bulge-to-total light fraction B/T. The presence of a strong morphology-[α/Fe] relation appears to contradict the possible evolution along the Hubble sequence from low B/T (low n) to high B/T (high n) galaxies. We also investigate the role played by environment by comparing the properties of our LDE dwarfs with those of Coma red passive dwarfs from the literature. We find possible evidence that LDE dwarfs experienced more prolonged star formations than Coma dwarfs, however larger data samples are needed to draw firmer conclusions. Based on observations obtained at the European Southern Observatory, La Silla, Chile.

  5. Low Bone Density

    MedlinePlus

    ... Density Exam/Testing › Low Bone Density Low Bone Density Low bone density is when your bone density ... people with normal bone density. Detecting Low Bone Density A bone density test will determine whether you ...

  6. Measuring opportunity for natural selection: Adaptation among two linguistically cognate tribes inhabiting two eco-situations of North-East India

    PubMed Central

    Sarma, Maitreyee

    2013-01-01

    BACKGROUND: Numerous literature on the migration of Mishings point out to the fact that the Mishing and the Minyong are two culturally and linguistically cognate tribes that co-existed in the same ecology in the hills of Arunachal Pradesh. The Mishing tribe after migration, now inhabits flood-prone areas of Brahmaputra valley of Assam. AIM: The study aims to measure the adaptation process of these two cognate tribes inhabiting two different ecologies at present: Hills and plains by calculating the index of selection intensity by Crow’s and Johnston and Kensinger’s formulae. MATERIALS AND METHODS: The reproductive histories of 77 Mishing mothers of completed fertility inhabiting a flood affected village of Assam and 74 Minyong mothers inhabiting a hilly village of Arunachal Pradesh are selected. RESULTS AND DISCUSSION: The Minyongs show higher average fertility than the Mishings. The proportion of embryonic death is higher, and child death is lower among the Mishings (0.1661; 0.1623) than the Minyongs (0.1319; 0.2238). The index of selection due to mortality component is contributing more toward the total index of selection in both the tribes. CONCLUSION: The contribution of mortality component is sizeable to the total selection like many other tribes of North-East India. Higher proportion of embryonic deaths among the Mishings infers that the causes are mostly biological whereas, the higher proportion of child deaths among the Minyongs infers that the causes are mostly socio-cultural. PMID:24019616

  7. Numerosity perception after size adaptation

    PubMed Central

    Zimmermann, Eckart; Fink, Gereon R.

    2016-01-01

    While some researchers propose the existence of a special numerosity sense, others challenge this view and argue that numerosity is derived from low-level features as density information. Here, we used size adaptation to manipulate the apparent area size of an object set without changing its physical density. After size adaptation, two probe patches were shown, each of which contained a specific numerosity of dots. Subjects were required to report, which probe patch contained more dots. Numerosity perception was compared between conditions where probe patches were adapted to appear smaller or larger. Size adaptation affected numerosity perception in a logarithmic fashion, increasing with the numerosity in the probe patch. No changes in density perception were found after size adaptation. Data suggest that size and density information play only a minor role in the estimation of low numerosities. In stark contrast, high numerosities strongly depend on size and density information. The data reinforce recent claims of separate mechanism for the perception of low and high numerosities. PMID:27650296

  8. Numerosity perception after size adaptation.

    PubMed

    Zimmermann, Eckart; Fink, Gereon R

    2016-01-01

    While some researchers propose the existence of a special numerosity sense, others challenge this view and argue that numerosity is derived from low-level features as density information. Here, we used size adaptation to manipulate the apparent area size of an object set without changing its physical density. After size adaptation, two probe patches were shown, each of which contained a specific numerosity of dots. Subjects were required to report, which probe patch contained more dots. Numerosity perception was compared between conditions where probe patches were adapted to appear smaller or larger. Size adaptation affected numerosity perception in a logarithmic fashion, increasing with the numerosity in the probe patch. No changes in density perception were found after size adaptation. Data suggest that size and density information play only a minor role in the estimation of low numerosities. In stark contrast, high numerosities strongly depend on size and density information. The data reinforce recent claims of separate mechanism for the perception of low and high numerosities. PMID:27650296

  9. The nature of chemical bonding in actinide and lanthanide ferrocyanides determined by X-ray absorption spectroscopy and density functional theory.

    PubMed

    Dumas, Thomas; Guillaumont, Dominique; Fillaux, Clara; Scheinost, Andreas; Moisy, Philippe; Petit, Sébastien; Shuh, David K; Tyliszczak, Tolek; Den Auwer, Christophe

    2016-01-28

    The electronic properties of actinide cations are of fundamental interest to describe intramolecular interactions and chemical bonding in the context of nuclear waste reprocessing or direct storage. The 5f and 6d orbitals are the first partially or totally vacant states in these elements, and the nature of the actinide ligand bonds is related to their ability to overlap with ligand orbitals. Because of its chemical and orbital selectivities, X-ray absorption spectroscopy (XAS) is an effective probe of actinide species frontier orbitals and for understanding actinide cation reactivity toward chelating ligands. The soft X-ray probes of the light elements provide better resolution than actinide L3-edges to obtain electronic information from the ligand. Thus coupling simulations to experimental soft X-ray spectral measurements and complementary quantum chemical calculations yields quantitative information on chemical bonding. In this study, soft X-ray XAS at the K-edges of C and N, and the L2,3-edges of Fe was used to investigate the electronic structures of the well-known ferrocyanide complexes K4Fe(II)(CN)6, thorium hexacyanoferrate Th(IV)Fe(II)(CN)6, and neodymium hexacyanoferrate KNd(III)Fe(II)(CN)6. The soft X-ray spectra were simulated based on quantum chemical calculations. Our results highlight the orbital overlapping effects and atomic effective charges in the Fe(II)(CN)6 building block. In addition to providing a detailed description of the electronic structure of the ferrocyanide complex (K4Fe(II)(CN)6), the results strongly contribute to confirming the actinide 5f and 6d orbital oddity in comparison to lanthanide 4f and 5d.

  10. The nature of chemical bonding in actinide and lanthanide ferrocyanides determined by X-ray absorption spectroscopy and density functional theory.

    PubMed

    Dumas, Thomas; Guillaumont, Dominique; Fillaux, Clara; Scheinost, Andreas; Moisy, Philippe; Petit, Sébastien; Shuh, David K; Tyliszczak, Tolek; Den Auwer, Christophe

    2016-01-28

    The electronic properties of actinide cations are of fundamental interest to describe intramolecular interactions and chemical bonding in the context of nuclear waste reprocessing or direct storage. The 5f and 6d orbitals are the first partially or totally vacant states in these elements, and the nature of the actinide ligand bonds is related to their ability to overlap with ligand orbitals. Because of its chemical and orbital selectivities, X-ray absorption spectroscopy (XAS) is an effective probe of actinide species frontier orbitals and for understanding actinide cation reactivity toward chelating ligands. The soft X-ray probes of the light elements provide better resolution than actinide L3-edges to obtain electronic information from the ligand. Thus coupling simulations to experimental soft X-ray spectral measurements and complementary quantum chemical calculations yields quantitative information on chemical bonding. In this study, soft X-ray XAS at the K-edges of C and N, and the L2,3-edges of Fe was used to investigate the electronic structures of the well-known ferrocyanide complexes K4Fe(II)(CN)6, thorium hexacyanoferrate Th(IV)Fe(II)(CN)6, and neodymium hexacyanoferrate KNd(III)Fe(II)(CN)6. The soft X-ray spectra were simulated based on quantum chemical calculations. Our results highlight the orbital overlapping effects and atomic effective charges in the Fe(II)(CN)6 building block. In addition to providing a detailed description of the electronic structure of the ferrocyanide complex (K4Fe(II)(CN)6), the results strongly contribute to confirming the actinide 5f and 6d orbital oddity in comparison to lanthanide 4f and 5d. PMID:26733312

  11. Natural gradient learning algorithms for RBF networks.

    PubMed

    Zhao, Junsheng; Wei, Haikun; Zhang, Chi; Li, Weiling; Guo, Weili; Zhang, Kanjian

    2015-02-01

    Radial basis function (RBF) networks are one of the most widely used models for function approximation and classification. There are many strange behaviors in the learning process of RBF networks, such as slow learning speed and the existence of the plateaus. The natural gradient learning method can overcome these disadvantages effectively. It can accelerate the dynamics of learning and avoid plateaus. In this letter, we assume that the probability density function (pdf) of the input and the activation function are gaussian. First, we introduce natural gradient learning to the RBF networks and give the explicit forms of the Fisher information matrix and its inverse. Second, since it is difficult to calculate the Fisher information matrix and its inverse when the numbers of the hidden units and the dimensions of the input are large, we introduce the adaptive method to the natural gradient learning algorithms. Finally, we give an explicit form of the adaptive natural gradient learning algorithm and compare it to the conventional gradient descent method. Simulations show that the proposed adaptive natural gradient method, which can avoid the plateaus effectively, has a good performance when RBF networks are used for nonlinear functions approximation. PMID:25380332

  12. Adaptive management: Chapter 1

    USGS Publications Warehouse

    Allen, Craig R.; Garmestani, Ahjond S.; Allen, Craig R.; Garmestani, Ahjond S.

    2015-01-01

    Adaptive management is an approach to natural resource management that emphasizes learning through management where knowledge is incomplete, and when, despite inherent uncertainty, managers and policymakers must act. Unlike a traditional trial and error approach, adaptive management has explicit structure, including a careful elucidation of goals, identification of alternative management objectives and hypotheses of causation, and procedures for the collection of data followed by evaluation and reiteration. The process is iterative, and serves to reduce uncertainty, build knowledge and improve management over time in a goal-oriented and structured process.

  13. Learning and Domain Adaptation

    NASA Astrophysics Data System (ADS)

    Mansour, Yishay

    Domain adaptation is a fundamental learning problem where one wishes to use labeled data from one or several source domains to learn a hypothesis performing well on a different, yet related, domain for which no labeled data is available. This generalization across domains is a very significant challenge for many machine learning applications and arises in a variety of natural settings, including NLP tasks (document classification, sentiment analysis, etc.), speech recognition (speakers and noise or environment adaptation) and face recognition (different lighting conditions, different population composition).

  14. Verification of Adaptive Systems

    SciTech Connect

    Pullum, Laura L; Cui, Xiaohui; Vassev, Emil; Hinchey, Mike; Rouff, Christopher; Buskens, Richard

    2012-01-01

    Adaptive systems are critical for future space and other unmanned and intelligent systems. Verification of these systems is also critical for their use in systems with potential harm to human life or with large financial investments. Due to their nondeterministic nature and extremely large state space, current methods for verification of software systems are not adequate to provide a high level of assurance for them. The combination of stabilization science, high performance computing simulations, compositional verification and traditional verification techniques, plus operational monitors, provides a complete approach to verification and deployment of adaptive systems that has not been used before. This paper gives an overview of this approach.

  15. Toothbrush Adaptations.

    ERIC Educational Resources Information Center

    Exceptional Parent, 1987

    1987-01-01

    Suggestions are presented for helping disabled individuals learn to use or adapt toothbrushes for proper dental care. A directory lists dental health instructional materials available from various organizations. (CB)

  16. SELEX_DB: a database on in vitro selected oligomers adapted for recognizing natural sites and for analyzing both SNPs and site-directed mutagenesis data.

    PubMed

    Ponomarenko, Julia V; Orlova, Galina V; Frolov, Anatoly S; Gelfand, Mikhail S; Ponomarenko, Mikhail P

    2002-01-01

    SELEX_DB is an online resource containing both the experimental data on in vitro selected DNA/RNA oligomers (aptamers) and the applets for recognition of these oligomers. Since in vitro experimental data are evidently system-dependent, the new release of the SELEX_DB has been supplemented by the database SYSTEM storing the experimental design. In addition, the recognition applet package, SELEX_TOOLS, applying in vitro selected data to annotation of the genome DNA, is accompanied by the cross-validation test database CROSS_TEST discriminating the sites (natural or other) related to in vitro selected sites out of random DNA. By cross-validation testing, we have unexpectedly observed that the recognition accuracy increases with the growth of homology between the training and test sets of protein binding sequences. For natural sites, the recognition accuracy was lower than that for the nearest protein homologs and higher than that for distant homologs and non-homologous proteins binding the common site. The current SELEX_DB release is available at http://wwwmgs.bionet.nsc.ru/mgs/systems/selex/. PMID:11752291

  17. Adaptation in Collaborative Governance Regimes

    NASA Astrophysics Data System (ADS)

    Emerson, Kirk; Gerlak, Andrea K.

    2014-10-01

    Adaptation and the adaptive capacity of human and environmental systems have been of central concern to natural and social science scholars, many of whom characterize and promote the need for collaborative cross-boundary systems that are seen as flexible and adaptive by definition. Researchers who study collaborative governance systems in the public administration, planning and policy literature have paid less attention to adaptive capacity specifically and institutional adaptation in general. This paper bridges the two literatures and finds four common dimensions of capacity, including structural arrangements, leadership, knowledge and learning, and resources. In this paper, we focus on institutional adaptation in the context of collaborative governance regimes and try to clarify and distinguish collaborative capacity from adaptive capacity and their contributions to adaptive action. We posit further that collaborative capacities generate associated adaptive capacities thereby enabling institutional adaptation within collaborative governance regimes. We develop these distinctions and linkages between collaborative and adaptive capacities with the help of an illustrative case study in watershed management within the National Estuary Program.

  18. Adaptation in collaborative governance regimes.

    PubMed

    Emerson, Kirk; Gerlak, Andrea K

    2014-10-01

    Adaptation and the adaptive capacity of human and environmental systems have been of central concern to natural and social science scholars, many of whom characterize and promote the need for collaborative cross-boundary systems that are seen as flexible and adaptive by definition. Researchers who study collaborative governance systems in the public administration, planning and policy literature have paid less attention to adaptive capacity specifically and institutional adaptation in general. This paper bridges the two literatures and finds four common dimensions of capacity, including structural arrangements, leadership, knowledge and learning, and resources. In this paper, we focus on institutional adaptation in the context of collaborative governance regimes and try to clarify and distinguish collaborative capacity from adaptive capacity and their contributions to adaptive action. We posit further that collaborative capacities generate associated adaptive capacities thereby enabling institutional adaptation within collaborative governance regimes. We develop these distinctions and linkages between collaborative and adaptive capacities with the help of an illustrative case study in watershed management within the National Estuary Program.

  19. Classifying climate change adaptation frameworks

    NASA Astrophysics Data System (ADS)

    Armstrong, Jennifer

    2014-05-01

    Complex socio-ecological demographics are factors that must be considered when addressing adaptation to the potential effects of climate change. As such, a suite of deployable climate change adaptation frameworks is necessary. Multiple frameworks that are required to communicate the risks of climate change and facilitate adaptation. Three principal adaptation frameworks have emerged from the literature; Scenario - Led (SL), Vulnerability - Led (VL) and Decision - Centric (DC). This study aims to identify to what extent these adaptation frameworks; either, planned or deployed are used in a neighbourhood vulnerable to climate change. This work presents a criterion that may be used as a tool for identifying the hallmarks of adaptation frameworks and thus enabling categorisation of projects. The study focussed on the coastal zone surrounding the Sizewell nuclear power plant in Suffolk in the UK. An online survey was conducted identifying climate change adaptation projects operating in the study area. This inventory was analysed to identify the hallmarks of each adaptation project; Levels of dependency on climate model information, Metrics/units of analysis utilised, Level of demographic knowledge, Level of stakeholder engagement, Adaptation implementation strategies and Scale of adaptation implementation. The study found that climate change adaptation projects could be categorised, based on the hallmarks identified, in accordance with the published literature. As such, the criterion may be used to establish the matrix of adaptation frameworks present in a given area. A comprehensive summary of the nature of adaptation frameworks in operation in a locality provides a platform for further comparative analysis. Such analysis, enabled by the criterion, may aid the selection of appropriate frameworks enhancing the efficacy of climate change adaptation.

  20. Adaptive Development

    NASA Technical Reports Server (NTRS)

    2005-01-01

    The goal of this research is to develop and demonstrate innovative adaptive seal technologies that can lead to dramatic improvements in engine performance, life, range, and emissions, and enhance operability for next generation gas turbine engines. This work is concentrated on the development of self-adaptive clearance control systems for gas turbine engines. Researchers have targeted the high-pressure turbine (HPT) blade tip seal location for following reasons: Current active clearance control (ACC) systems (e.g., thermal case-cooling schemes) cannot respond to blade tip clearance changes due to mechanical, thermal, and aerodynamic loads. As such they are prone to wear due to the required tight running clearances during operation. Blade tip seal wear (increased clearances) reduces engine efficiency, performance, and service life. Adaptive sealing technology research has inherent impact on all envisioned 21st century propulsion systems (e.g. distributed vectored, hybrid and electric drive propulsion concepts).

  1. Coastal Climate Change Education, Mitigation, and Adaptation in the Natural and Built Environments: Progress of the Coastal Areas Climate Change Education Partnership

    NASA Astrophysics Data System (ADS)

    Feldman, A.; Herman, B.; Vernaza-Hernández, V.; Ryan, J. G.; Muller-Karger, F. E.; Gilbes, F.

    2011-12-01

    The Coastal Area Climate Change Education (CACCE) Partnership, funded by the National Science Foundation, seeks to develop new ways to educate citizens about global climate change. The core themes are sea level rise and impacts of climate change in the southeastern United States and the Caribbean Sea. CACCE focuses on helping partners, educators, students, and the general public gain a fundamental and working understanding of the interrelation among the natural environment, built environment, and social aspects in the context of climate change in coastal regions. To this end, CACCE's objectives reported here include: 1) defining the current state of awareness, perceptions, and literacy about the impacts of climate change; and 2) testing a model of transdisciplinary research and learning as a means of training a new generation of climate professionals. Objective one is met in part by CACCE survey efforts that reveal Florida and Puerto Rico secondary science teachers hold many non-scientific views about climate change and climate change science and provide inadequate instruction about climate change. Associated with objective two are five Multiple Outcome Interdisciplinary Research and Learning (MOIRL) pilot projects underway in schools in Florida and Puerto Rico. In the CACCE Partnership the stakeholders include: students (K-16 and graduate); teachers and education researchers; informal science educators; scientists and engineers; business and industry; policy makers; and community members. CACCE combines interdisciplinary research with action research and community-based participatory research in a way that is best described as "transdisciplinary". Learning occurs in all spheres of interactions among stakeholders as they engage in scientific, educational, community and business activities through their legitimate peripheral participation in research communities of practice. We will describe the process of seeking and building partnerships, and call for a dialogue

  2. Negative Ion Density Fronts

    SciTech Connect

    Igor Kaganovich

    2000-12-18

    Negative ions tend to stratify in electronegative plasmas with hot electrons (electron temperature Te much larger than ion temperature Ti, Te > Ti ). The boundary separating a plasma containing negative ions, and a plasma, without negative ions, is usually thin, so that the negative ion density falls rapidly to zero-forming a negative ion density front. We review theoretical, experimental and numerical results giving the spatio-temporal evolution of negative ion density fronts during plasma ignition, the steady state, and extinction (afterglow). During plasma ignition, negative ion fronts are the result of the break of smooth plasma density profiles during nonlinear convection. In a steady-state plasma, the fronts are boundary layers with steepening of ion density profiles due to nonlinear convection also. But during plasma extinction, the ion fronts are of a completely different nature. Negative ions diffuse freely in the plasma core (no convection), whereas the negative ion front propagates towards the chamber walls with a nearly constant velocity. The concept of fronts turns out to be very effective in analysis of plasma density profile evolution in strongly non-isothermal plasmas.

  3. Adaptive Thresholds

    SciTech Connect

    Bremer, P. -T.

    2014-08-26

    ADAPT is a topological analysis code that allow to compute local threshold, in particular relevance based thresholds for features defined in scalar fields. The initial target application is vortex detection but the software is more generally applicable to all threshold based feature definitions.

  4. Rapid contrast gain reduction following motion adaptation.

    PubMed

    Nordström, Karin; Moyer de Miguel, Irene; O'Carroll, David C

    2011-12-01

    Neural and sensory systems adapt to prolonged stimulation to allow signaling across broader input ranges than otherwise possible with the limited bandwidth of single neurons and receptors. In the visual system, adaptation takes place at every stage of processing, from the photoreceptors that adapt to prevailing luminance conditions, to higher-order motion-sensitive neurons that adapt to prolonged exposure to motion. Recent experiments using dynamic, fluctuating visual stimuli indicate that adaptation operates on a time scale similar to that of the response itself. Further work from our own laboratory has highlighted the role for rapid motion adaptation in reliable encoding of natural image motion. Physiologically, motion adaptation can be broken down into four separate components. It is not clear from the previous studies which of these motion adaptation components are involved in the fast and dynamic response changes. To investigate the adapted response in more detail, we therefore analyzed the effect of motion adaptation using a test-adapt-test protocol with adapting durations ranging from 20 ms to 20 s. Our results underscore the very rapid rate of motion adaptation, suggesting that under free flight, visual motion-sensitive neurons continuously adapt to the changing scenery. This might help explain recent observations of strong invariance in the response to natural scenes with highly variable contrast and image structure.

  5. Cellular Adaptation Facilitates Sparse and Reliable Coding in Sensory Pathways

    PubMed Central

    Farkhooi, Farzad; Froese, Anja; Muller, Eilif; Menzel, Randolf; Nawrot, Martin P.

    2013-01-01

    Most neurons in peripheral sensory pathways initially respond vigorously when a preferred stimulus is presented, but adapt as stimulation continues. It is unclear how this phenomenon affects stimulus coding in the later stages of sensory processing. Here, we show that a temporally sparse and reliable stimulus representation develops naturally in sequential stages of a sensory network with adapting neurons. As a modeling framework we employ a mean-field approach together with an adaptive population density treatment, accompanied by numerical simulations of spiking neural networks. We find that cellular adaptation plays a critical role in the dynamic reduction of the trial-by-trial variability of cortical spike responses by transiently suppressing self-generated fast fluctuations in the cortical balanced network. This provides an explanation for a widespread cortical phenomenon by a simple mechanism. We further show that in the insect olfactory system cellular adaptation is sufficient to explain the emergence of the temporally sparse and reliable stimulus representation in the mushroom body. Our results reveal a generic, biophysically plausible mechanism that can explain the emergence of a temporally sparse and reliable stimulus representation within a sequential processing architecture. PMID:24098101

  6. Perceptual adaptation in the use of night vision goggles

    NASA Technical Reports Server (NTRS)

    Durgin, Frank H.; Proffitt, Dennis R.

    1992-01-01

    The image intensification (I sup 2) systems studied for this report were the biocular AN/PVS-7(NVG) and the binocular AN/AVS-6(ANVIS). Both are quite impressive for purposes of revealing the structure of the environment in a fairly straightforward way in extremely low-light conditions. But these systems represent an unusual viewing medium. The perceptual information available through I sup 2 systems is different in a variety of ways from the typical input of everyday vision, and extensive training and practice is required for optimal use. Using this sort of system involves a kind of perceptual skill learning, but is may also involve visual adaptations that are not simply an extension of normal vision. For example, the visual noise evident in the goggles in very low-light conditions results in unusual statistical properties in visual input. Because we had recently discovered a strong and enduring aftereffect of perceived texture density which seemed to be sensitive to precisely the sorts of statistical distortions introduced by I sup 2 systems, it occurred to use that visual noise of this sort might be a very adapting stimulus for texture density and produce an aftereffect that extended into normal vision once the goggles were removed. We have not found any experimental evidence that I sup 2 systems produce texture density aftereffects. The nature of the texture density aftereffect is briefly explained, followed by an accounting of our studies of I sup 2 systems and our most recent work on the texture density aftereffect. A test for spatial frequency adaptation after exposure to NVG's is also reported, as is a study of perceived depth from motion (motion parallax) while wearing the biocular goggles. We conclude with a summary of our findings.

  7. [Cellular adaptation and cancerogenesis].

    PubMed

    La Torre, F; Silpigni, A; Tomasello, R; Picone, G S; La Torre, I; Aragona, M

    1998-06-01

    The paper describes the main adaptive mechanisms involved in the carcinogenic process. As a result of the action of carcinogenic agents (physical, chemical, biological), and in relation to the functional status of the affected cells, a number of systems are triggered off: detoxification and conjugation systems, the metabolisation of the said agents, DNA repairing enzymes, increased shock proteins (HSP), the induction of clonal proliferation. All these systems are valuable to the survival of the body and the species and culminate in the apoptosis of damaged cells as the last attempt at adaptation of a social kind for the good of the body. When these compensation mechanisms prove ineffective, imprecise or are exceeded by cell adaptive capacity, the resulting structural and functional alterations trigger off (induction) a very long process which often lasts between one and two thirds of the body's life, in various stages, multistep and multifactorial: this neoplastic transformation leads to a purposeless, egoistic, anarchic proliferation of cells which wish to survive at all costs, even to the detriment of the body of which they form part. Following the exhaustion of cell adaptive defences, there is an accumulation of additional genetic alterations (promotion and progression), the cells become manifestly neoplastic and continue their egoistic adaptation, according to the laws of natural selection: the cells which survive are those which adapt best to the hostile environment of the host's body, which are unaffected by proliferation control mechanisms (contact inhibition, differentiation factors, apoptosis, etc.), which make the best of the growth factors present in their microenvironment, which accomplish the so-called decathlon of the metastatization process, namely acquiring new capacities which can overcome the basal membrane, invade tissues to which they are attracted and continue to proliferate. Manifestly neoplastic cells become not self at a later stage

  8. Natural Gas Emergencies

    MedlinePlus

    ... by the Cass (ND) and Clay (MN) Emergency Planning Partnerships. Adapted with funding provided by Fargo Cass Public Health through the Cities Readiness Initiative (CRI) English – Natural Gas Emergencies - Last ...

  9. Density estimators in particle hydrodynamics. DTFE versus regular SPH

    NASA Astrophysics Data System (ADS)

    Pelupessy, F. I.; Schaap, W. E.; van de Weygaert, R.

    2003-05-01

    We present the results of a study comparing density maps reconstructed by the Delaunay Tessellation Field Estimator (DTFE) and by regular SPH kernel-based techniques. The density maps are constructed from the outcome of an SPH particle hydrodynamics simulation of a multiphase interstellar medium. The comparison between the two methods clearly demonstrates the superior performance of the DTFE with respect to conventional SPH methods, in particular at locations where SPH appears to fail. Filamentary and sheetlike structures form telling examples. The DTFE is a fully self-adaptive technique for reconstructing continuous density fields from discrete particle distributions, and is based upon the corresponding Delaunay tessellation. Its principal asset is its complete independence of arbitrary smoothing functions and parameters specifying the properties of these. As a result it manages to faithfully reproduce the anisotropies of the local particle distribution and through its adaptive and local nature proves to be optimally suited for uncovering the full structural richness in the density distribution. Through the improvement in local density estimates, calculations invoking the DTFE will yield a much better representation of physical processes which depend on density. This will be crucial in the case of feedback processes, which play a major role in galaxy and star formation. The presented results form an encouraging step towards the application and insertion of the DTFE in astrophysical hydrocodes. We describe an outline for the construction of a particle hydrodynamics code in which the DTFE replaces kernel-based methods. Further discussion addresses the issue and possibilities for a moving grid-based hydrocode invoking the DTFE, and Delaunay tessellations, in an attempt to combine the virtues of the Eulerian and Lagrangian approaches.

  10. Connector adapter

    NASA Technical Reports Server (NTRS)

    Hacker, Scott C. (Inventor); Dean, Richard J. (Inventor); Burge, Scott W. (Inventor); Dartez, Toby W. (Inventor)

    2007-01-01

    An adapter for installing a connector to a terminal post, wherein the connector is attached to a cable, is presented. In an embodiment, the adapter is comprised of an elongated collet member having a longitudinal axis comprised of a first collet member end, a second collet member end, an outer collet member surface, and an inner collet member surface. The inner collet member surface at the first collet member end is used to engage the connector. The outer collet member surface at the first collet member end is tapered for a predetermined first length at a predetermined taper angle. The collet includes a longitudinal slot that extends along the longitudinal axis initiating at the first collet member end for a predetermined second length. The first collet member end is formed of a predetermined number of sections segregated by a predetermined number of channels and the longitudinal slot.

  11. Adaptive VFH

    NASA Astrophysics Data System (ADS)

    Odriozola, Iñigo; Lazkano, Elena; Sierra, Basi

    2011-10-01

    This paper investigates the improvement of the Vector Field Histogram (VFH) local planning algorithm for mobile robot systems. The Adaptive Vector Field Histogram (AVFH) algorithm has been developed to improve the effectiveness of the traditional VFH path planning algorithm overcoming the side effects of using static parameters. This new algorithm permits the adaptation of planning parameters for the different type of areas in an environment. Genetic Algorithms are used to fit the best VFH parameters to each type of sector and, afterwards, every section in the map is labelled with the sector-type which best represents it. The Player/Stage simulation platform has been chosen for making all sort of tests and to prove the new algorithm's adequateness. Even though there is still much work to be carried out, the developed algorithm showed good navigation properties and turned out to be softer and more effective than the traditional VFH algorithm.

  12. Adaptive sampler

    DOEpatents

    Watson, B.L.; Aeby, I.

    1980-08-26

    An adaptive data compression device for compressing data is described. The device has a frequency content, including a plurality of digital filters for analyzing the content of the data over a plurality of frequency regions, a memory, and a control logic circuit for generating a variable rate memory clock corresponding to the analyzed frequency content of the data in the frequency region and for clocking the data into the memory in response to the variable rate memory clock.

  13. Adaptive sampler

    DOEpatents

    Watson, Bobby L.; Aeby, Ian

    1982-01-01

    An adaptive data compression device for compressing data having variable frequency content, including a plurality of digital filters for analyzing the content of the data over a plurality of frequency regions, a memory, and a control logic circuit for generating a variable rate memory clock corresponding to the analyzed frequency content of the data in the frequency region and for clocking the data into the memory in response to the variable rate memory clock.

  14. Adaptive antennas

    NASA Astrophysics Data System (ADS)

    Barton, P.

    1987-04-01

    The basic principles of adaptive antennas are outlined in terms of the Wiener-Hopf expression for maximizing signal to noise ratio in an arbitrary noise environment; the analogy with generalized matched filter theory provides a useful aid to understanding. For many applications, there is insufficient information to achieve the above solution and thus non-optimum constrained null steering algorithms are also described, together with a summary of methods for preventing wanted signals being nulled by the adaptive system. The three generic approaches to adaptive weight control are discussed; correlation steepest descent, weight perturbation and direct solutions based on sample matrix conversion. The tradeoffs between hardware complexity and performance in terms of null depth and convergence rate are outlined. The sidelobe cancellor technique is described. Performance variation with jammer power and angular distribution is summarized and the key performance limitations identified. The configuration and performance characteristics of both multiple beam and phase scan array antennas are covered, with a brief discussion of performance factors.

  15. Adaptive node techniques for Maxwell's equations

    SciTech Connect

    Hewett, D W

    2000-04-01

    The computational mesh in numerical simulation provides a framework on which to monitor the spatial dependence of function and their derivatives. Spatial mesh is therefore essential to the ability to integrate systems in time without loss of fidelity. Several philosophies have emerged to provide such fidelity (Eulerian, Lagrangian, Arbitrary Lagrangian Eulerian ALE, Adaptive Mesh Refinement AMR, and adaptive node generation/deletion). Regardless of the type of mesh, a major difficulty is in setting up the initial mesh. Clearly a high density of grid points is essential in regions of high geometric complexity and/or regions of intense, energetic activity. For some problems, mesh generation is such a crucial part of the problem that it can take as much computational effort as the run itself, and these tasks are now taking weeks of massively parallel CPU time. Mesh generation is no less crucial to electromagnetic calculations. In fact EM problem set up can be even more challenging without the clues given by fluid motion in hydrodynamic systems. When the mesh is advected with the fluid (Lagrangian), mesh points naturally congregate in regions of high activity. Similarly in AMR algorithms, strong gradients in the fluid flow are one of the triggers for mesh refinement. In the hyperbolic Maxwell's equations without advection, mesh point placement/motion is not so intuitive. In fixed geometry systems, it at least feasible to finely mesh high leverage, geometrically challenged areas. For other systems, where the action takes place far from the boundaries and, likely, changes position in time, the options are limited to either using a high resolution (expensive) mesh in all regions that could require such resolution or adaptively generating nodes to resolve the physics as it evolves. The authors have developed a new time of adaptive node technique for Maxwell's equations to deal with this set of issues.

  16. Coupled adaptive complex networks.

    PubMed

    Shai, S; Dobson, S

    2013-04-01

    Adaptive networks, which combine topological evolution of the network with dynamics on the network, are ubiquitous across disciplines. Examples include technical distribution networks such as road networks and the internet, natural and biological networks, and social science networks. These networks often interact with or depend upon other networks, resulting in coupled adaptive networks. In this paper we study susceptible-infected-susceptible (SIS) epidemic dynamics on coupled adaptive networks, where susceptible nodes are able to avoid contact with infected nodes by rewiring their intranetwork connections. However, infected nodes can pass the disease through internetwork connections, which do not change with time: The dependencies between the coupled networks remain constant. We develop an analytical formalism for these systems and validate it using extensive numerical simulation. We find that stability is increased by increasing the number of internetwork links, in the sense that the range of parameters over which both endemic and healthy states coexist (both states are reachable depending on the initial conditions) becomes smaller. Finally, we find a new stable state that does not appear in the case of a single adaptive network but only in the case of weakly coupled networks, in which the infection is endemic in one network but neither becomes endemic nor dies out in the other. Instead, it persists only at the nodes that are coupled to nodes in the other network through internetwork links. We speculate on the implications of these findings. PMID:23679478

  17. Coupled adaptive complex networks

    NASA Astrophysics Data System (ADS)

    Shai, S.; Dobson, S.

    2013-04-01

    Adaptive networks, which combine topological evolution of the network with dynamics on the network, are ubiquitous across disciplines. Examples include technical distribution networks such as road networks and the internet, natural and biological networks, and social science networks. These networks often interact with or depend upon other networks, resulting in coupled adaptive networks. In this paper we study susceptible-infected-susceptible (SIS) epidemic dynamics on coupled adaptive networks, where susceptible nodes are able to avoid contact with infected nodes by rewiring their intranetwork connections. However, infected nodes can pass the disease through internetwork connections, which do not change with time: The dependencies between the coupled networks remain constant. We develop an analytical formalism for these systems and validate it using extensive numerical simulation. We find that stability is increased by increasing the number of internetwork links, in the sense that the range of parameters over which both endemic and healthy states coexist (both states are reachable depending on the initial conditions) becomes smaller. Finally, we find a new stable state that does not appear in the case of a single adaptive network but only in the case of weakly coupled networks, in which the infection is endemic in one network but neither becomes endemic nor dies out in the other. Instead, it persists only at the nodes that are coupled to nodes in the other network through internetwork links. We speculate on the implications of these findings.

  18. Teaching About Adaptation: Why Evolutionary History Matters

    NASA Astrophysics Data System (ADS)

    Kampourakis, Kostas

    2013-02-01

    Adaptation is one of the central concepts in evolutionary theory, which nonetheless has been given different definitions. Some scholars support a historical definition of adaptation, considering it as a trait that is the outcome of natural selection, whereas others support an ahistorical definition, considering it as a trait that contributes to the survival and reproduction of its possessors. Finally, adaptation has been defined as a process, as well. Consequently, two questions arise: the first is a philosophical one and focuses on what adaptation actually is; the second is a pedagogical one and focuses on what science teachers and educators should teach about it. In this article, the various definitions of adaptation are discussed and their uses in some textbooks are presented. It is suggested that, given elementary students' intuitions about purpose and design in nature and secondary students' teleological explanations for the origin of adaptations, any definition of adaptation as a trait should include some information about its evolutionary history.

  19. Hydropower, Adaptive Management, and Biodiversity

    PubMed

    WIERINGA; MORTON

    1996-11-01

    / Adaptive management is a policy framework within which an iterative process of decision making is followed based on the observed responses to and effectiveness of previous decisions. The use of adaptive management allows science-based research and monitoring of natural resource and ecological community responses, in conjunction with societal values and goals, to guide decisions concerning man's activities. The adaptive management process has been proposed for application to hydropower operations at Glen Canyon Dam on the Colorado River, a situation that requires complex balancing of natural resources requirements and competing human uses. This example is representative of the general increase in public interest in the operation of hydropower facilities and possible effects on downstream natural resources and of the growing conflicts between uses and users of river-based resources. This paper describes the adaptive management process, using the Glen Canyon Dam example, and discusses ways to make the process work effectively in managing downstream natural resources and biodiversity. KEY WORDS: Adaptive management; Biodiversity; Hydropower; Glen Canyon Dam; Ecology

  20. Density Fluctuations in Liquid Water

    NASA Astrophysics Data System (ADS)

    English, Niall J.; Tse, John S.

    2011-01-01

    The density distributions and fluctuations in grids of varying size in liquid water at ambient pressure, both above the freezing point and in the supercooled state, are analyzed from the trajectories obtained from large-scale molecular dynamics simulations. It is found that the occurrence of low- and high-density regions (LDL and HDL) is transient and their respective residence times are dependent on the size of the simulated system. The spatial extent of density-density correlation is found to be within 7 Å or less. The temporal existence of LDL and HDL arises as a result of natural density fluctuations of an equilibrium system. The density of bulk water at ambient conditions is homogenous.

  1. First-principles calculation of the 17O NMR parameters in Ca oxide and Ca aluminosilicates: the partially covalent nature of the Ca-O bond, a challenge for density functional theory.

    PubMed

    Profeta, Mickaël; Benoit, Magali; Mauri, Francesco; Pickard, Chris J

    2004-10-01

    We apply density functional theory (DFT) to the calculation of the (17)O NMR parameters in Ca and Mg oxides and aluminosilicates. We study the accuracy of the Perdew, Burke, and Ernzerhof (PBE) generalized-gradient approximation to DFT in the description of these systems and the origin of the experimentally observed large dependence of the (17)O chemical shift on the alkaline earth ion. We find that (i) the partially covalent nature of the Ca-O bond has a huge impact on the O chemical shifts. The Ca-O covalence alone explains why in Ca oxides and aluminosilicates the (17)O chemical shifts are much more deshielded than those of the corresponding Mg compounds. (ii) The Ca-O covalence is overestimated by the PBE functional. Thus PBE-DFT is not able to reproduce the measured (17)O NMR parameters in Ca oxide and Ca aluminosilicates. (iii) It is possible to correct for the PBE-DFT deficiency in a simple and transferable way and to predict very accurate (17)O NMR parameters. Such accuracy allows us to assign the (17)O NMR spectra of two important model systems: the grossite aluminate (CaAl(4)O(7)) and the wollastonite (CaSiO(3)) silicate.

  2. Adaptive passive fathometer processing.

    PubMed

    Siderius, Martin; Song, Heechun; Gerstoft, Peter; Hodgkiss, William S; Hursky, Paul; Harrison, Chris

    2010-04-01

    Recently, a technique has been developed to image seabed layers using the ocean ambient noise field as the sound source. This so called passive fathometer technique exploits the naturally occurring acoustic sounds generated on the sea-surface, primarily from breaking waves. The method is based on the cross-correlation of noise from the ocean surface with its echo from the seabed, which recovers travel times to significant seabed reflectors. To limit averaging time and make this practical, beamforming is used with a vertical array of hydrophones to reduce interference from horizontally propagating noise. The initial development used conventional beamforming, but significant improvements have been realized using adaptive techniques. In this paper, adaptive methods for this process are described and applied to several data sets to demonstrate improvements possible as compared to conventional processing.

  3. Density-dependent movement and the consequences of the Allee effect in the model organism Tetrahymena.

    PubMed

    Fronhofer, Emanuel A; Kropf, Tabea; Altermatt, Florian

    2015-05-01

    Movement and dispersal are critical processes for almost all organisms in natural populations. Understanding their causes and consequences is therefore of high interest. While both theoretical and empirical work suggest that dispersal, more exactly emigration, is plastic and may be a function of local population density, the functional relationship between the underlying movement strategies and population density has received less attention. We here present evidence for the shape of this reaction norm and are able to differentiate between three possible cues: the relative number of individuals, the presence of metabolites (chemical cues) and resource availability. We performed microcosm experiments with the ciliate model organism Tetrahymena in order to understand the plasticity of movement strategies with respect to local density while controlling for possible confounding effects mediated by the availability of different cues. In addition, we investigated how an Allee effect can influence movement and dispersal plasticity. Our findings suggest that movement strategies in Tetrahymena are plastic and density-dependent. The observed movement reaction norm was U-shaped. This may be due to an Allee effect which led to negative density dependence at low population densities and generally positive density dependence at high population densities due to local competition. This possibly adaptive density-dependent movement strategy was likely mediated by chemical cues. Our experimental work in highly controlled conditions indicates that both environmental cues as well as inherent population dynamics must be considered to understand movement and dispersal.

  4. Energy in density gradient

    SciTech Connect

    Vranjes, J.; Kono, M.

    2015-01-15

    Inhomogeneous plasmas and fluids contain energy stored in inhomogeneity and they naturally tend to relax into lower energy states by developing instabilities or by diffusion. But the actual amount of energy in such inhomogeneities has remained unknown. In the present work, the amount of energy stored in a density gradient is calculated for several specific density profiles in a cylindrical configuration. This is of practical importance for drift wave instability in various plasmas, and, in particular, in its application in models dealing with the heating of solar corona because the instability is accompanied with stochastic heating, so the energy contained in inhomogeneity is effectively transformed into heat. It is shown that even for a rather moderate increase of the density at the axis in magnetic structures in the corona by a factor 1.5 or 3, the amount of excess energy per unit volume stored in such a density gradient becomes several orders of magnitude greater than the amount of total energy losses per unit volume (per second) in quiet regions in the corona. Consequently, within the life-time of a magnetic structure such energy losses can easily be compensated by the stochastic drift wave heating.

  5. Reconceptualizing Family Adaptation to Developmental Delay.

    PubMed

    Pedersen, Anita L; Crnic, Keith A; Baker, Bruce L; Blacher, Jan

    2015-07-01

    This study explores accurate conceptualization of the adaptation construct in families of children with developmental delay aged 3 to 8 years. Parents' self-reported measures of adaptation and observed dyadic relationship variables were examined. Confirmatory factor analysis and longitudinal growth modeling were used to evaluate the nature of adaptational processes. Results indicate that adaptational processes vary across adaptation index, child developmental level, and parent gender. Adaptation indices did not load onto a single construct at any time point. Several adaptational processes remained stable across time, although others showed linear or quadratic change. The findings of the current study indicate that it is time for a change in how adaptation is conceived for families of children with developmental delay.

  6. Adaptive management of watersheds and related resources

    USGS Publications Warehouse

    Williams, Byron K.

    2009-01-01

    The concept of learning about natural resources through the practice of management has been around for several decades and by now is associated with the term adaptive management. The objectives of this paper are to offer a framework for adaptive management that includes an operational definition, a description of conditions in which it can be usefully applied, and a systematic approach to its application. Adaptive decisionmaking is described as iterative, learning-based management in two phases, each with its own mechanisms for feedback and adaptation. The linkages between traditional experimental science and adaptive management are discussed.

  7. Adaptation of Maize to Temperate Climates: Mid-Density Genome-Wide Association Genetics and Diversity Patterns Reveal Key Genomic Regions, with a Major Contribution of the Vgt2 (ZCN8) Locus

    PubMed Central

    Bouchet, Sophie; Servin, Bertrand; Bertin, Pascal; Madur, Delphine; Combes, Valérie; Dumas, Fabrice; Brunel, Dominique; Laborde, Jacques; Charcosset, Alain; Nicolas, Stéphane

    2013-01-01

    The migration of maize from tropical to temperate climates was accompanied by a dramatic evolution in flowering time. To gain insight into the genetic architecture of this adaptive trait, we conducted a 50K SNP-based genome-wide association and diversity investigation on a panel of tropical and temperate American and European representatives. Eighteen genomic regions were associated with flowering time. The number of early alleles cumulated along these regions was highly correlated with flowering time. Polymorphism in the vicinity of the ZCN8 gene, which is the closest maize homologue to Arabidopsis major flowering time (FT) gene, had the strongest effect. This polymorphism is in the vicinity of the causal factor of Vgt2 QTL. Diversity was lower, whereas differentiation and LD were higher for associated loci compared to the rest of the genome, which is consistent with selection acting on flowering time during maize migration. Selection tests also revealed supplementary loci that were highly differentiated among groups and not associated with flowering time in our panel, whereas they were in other linkage-based studies. This suggests that allele fixation led to a lack of statistical power when structure and relatedness were taken into account in a linear mixed model. Complementary designs and analysis methods are necessary to unravel the architecture of complex traits. Based on linkage disequilibrium (LD) estimates corrected for population structure, we concluded that the number of SNPs genotyped should be at least doubled to capture all QTLs contributing to the genetic architecture of polygenic traits in this panel. These results show that maize flowering time is controlled by numerous QTLs of small additive effect and that strong polygenic selection occurred under cool climatic conditions. They should contribute to more efficient genomic predictions of flowering time and facilitate the dissemination of diverse maize genetic resources under a wide range of

  8. Adaptation, Bacteria and Maxwell's Demons

    NASA Astrophysics Data System (ADS)

    Galajda, Peter; Keymer, Juan E.; Austin, Robert H.

    2007-03-01

    We propose a method to study the adaptation of bacterial populations with an asymmetric wall of Maxwell Demon openings. A Maxwell Demon opening is a funnel which is easier to enter than to leave. The interaction of swimming cells with such a Maxwell Demon Wall results in a population density separation, in apparent (but not real) violation of the Second Law of Thermodynamics, as we will show. Bacteria can be exposed to spatial challenges in order to move to e. g. higher food levels. The question we address in these experiments is: do the bacteria adapt and overcome the Maxwell Demon Wall?

  9. Adapted Minds and Evolved Schools

    ERIC Educational Resources Information Center

    Keil, Frank C.

    2008-01-01

    Evolutionary psychology raises questions about how cognitive adaptations might be related to the emergence of formal schooling. Is there a special role for natural domains of cognition such as folk physics, folk psychology and folk biology? These domains may vary from small fragments of reasoning to large integrated systems. This heterogeneity…

  10. Hydropower, adaptive management, and biodiversity

    SciTech Connect

    Wieringa, M.J.; Morton, A.G.

    1996-11-01

    Adaptive management is a policy framework within which an iterative process of decision making is allowed based on the observed responses to and effectiveness of previous decisions. The use of adaptive management allows science-based research and monitoring of natural resource and ecological community responses, in conjunction with societal values and goals, to guide decisions concerning man`s activities. The adaptive management process has been proposed for application to hydropower operations at Glen Canyon Dam on the Colorado River, a situation that requires complex balancing of natural resources requirements and competing human uses. This example is representative of the general increase in public interest in the operation of hydropower facilities and possible effects on downstream natural resources and of the growing conflicts between uses and users of river-based resources. This paper describes the adaptive management process, using the Glen Canyon Dam example, and discusses ways to make the process work effectively in managing downstream natural resources and biodiversity. 10 refs., 2 figs.

  11. Adaptive encoding in the visual pathway.

    PubMed

    Lesica, Nicholas A; Boloori, Alireza S; Stanley, Garrett B

    2003-02-01

    In a natural setting, the mean luminance and contrast of the light within a visual neuron's receptive field are constantly changing as the eyes saccade across complex scenes. Adaptive mechanisms modulate filtering properties of the early visual pathway in response to these variations, allowing the system to maintain differential sensitivity to nonstationary stimuli. An adaptive variant of the reverse correlation technique is used to characterize these changes during single trials. Properties of the adaptive reverse correlation algorithm were investigated via simulation. Analysis of data collected from the mammalian visual system demonstrates the ability to continuously track adaptive changes in the encoding scheme. The adaptive estimation approach provides a framework for characterizing the role of adaptation in natural scene viewing. PMID:12613554

  12. Coevolution of information processing and topology in hierarchical adaptive random Boolean networks

    NASA Astrophysics Data System (ADS)

    Górski, Piotr J.; Czaplicka, Agnieszka; Hołyst, Janusz A.

    2016-02-01

    Random Boolean Networks (RBNs) are frequently used for modeling complex systems driven by information processing, e.g. for gene regulatory networks (GRNs). Here we propose a hierarchical adaptive random Boolean Network (HARBN) as a system consisting of distinct adaptive RBNs (ARBNs) - subnetworks - connected by a set of permanent interlinks. We investigate mean node information, mean edge information as well as mean node degree. Information measures and internal subnetworks topology of HARBN coevolve and reach steady-states that are specific for a given network structure. The main natural feature of ARBNs, i.e. their adaptability, is preserved in HARBNs and they evolve towards critical configurations which is documented by power law distributions of network attractor lengths. The mean information processed by a single node or a single link increases with the number of interlinks added to the system. The mean length of network attractors and the mean steady-state connectivity possess minima for certain specific values of the quotient between the density of interlinks and the density of all links in networks. It means that the modular network displays extremal values of its observables when subnetworks are connected with a density a few times lower than a mean density of all links.

  13. Teaching about Adaptation: Why Evolutionary History Matters

    ERIC Educational Resources Information Center

    Kampourakis, Kostas

    2013-01-01

    Adaptation is one of the central concepts in evolutionary theory, which nonetheless has been given different definitions. Some scholars support a historical definition of adaptation, considering it as a trait that is the outcome of natural selection, whereas others support an ahistorical definition, considering it as a trait that contributes to…

  14. Adaptation of Jobs for the Disabled.

    ERIC Educational Resources Information Center

    International Labour Office, Geneva (Switzerland).

    The handbook provides an illustrated guide to ways of improving useful employment of the disabled by adapting jobs. How to increase employment opportunities by making simple adjustments (adaption or redesign of tools, machines, work places) is demonstrated. The nature of occupational handicap is discussed, stressing the importance of job and…

  15. Stress-induced mutagenesis and complex adaptation

    PubMed Central

    Ram, Yoav; Hadany, Lilach

    2014-01-01

    Because mutations are mostly deleterious, mutation rates should be reduced by natural selection. However, mutations also provide the raw material for adaptation. Therefore, evolutionary theory suggests that the mutation rate must balance between adaptability—the ability to adapt—and adaptedness—the ability to remain adapted. We model an asexual population crossing a fitness valley and analyse the rate of complex adaptation with and without stress-induced mutagenesis (SIM)—the increase of mutation rates in response to stress or maladaptation. We show that SIM increases the rate of complex adaptation without reducing the population mean fitness, thus breaking the evolutionary trade-off between adaptability and adaptedness. Our theoretical results support the hypothesis that SIM promotes adaptation and provide quantitative predictions of the rate of complex adaptation with different mutational strategies. PMID:25143032

  16. Population Genomics of Human Adaptation.

    PubMed

    Lachance, Joseph; Tishkoff, Sarah A

    2013-11-01

    Recent advances in genotyping technologies have facilitated genome-wide scans for natural selection. Identification of targets of natural selection will shed light on processes of human adaptation and evolution and could be important for identifying variation that influences both normal human phenotypic variation as well as disease susceptibility. Here we focus on studies of natural selection in modern humans who originated ~200,000 years go in Africa and migrated across the globe ~50,000 - 100,000 years ago. Movement into new environments, as well as changes in culture and technology including plant and animal domestication, resulted in local adaptation to diverse environments. We summarize statistical approaches for detecting targets of natural selection and for distinguishing the effects of demographic history from natural selection. On a genome-wide scale, immune-related genes appear to be major targets of positive selection. Genes associated with reproduction and fertility also appear to be fast evolving. Additional examples of recent human adaptation include genes associated with lactase persistence, eccrine glands, and response to hypoxia. Lastly, we emphasize the need to supplement scans of selection with functional studies to demonstrate the physiologic impact of candidate loci. PMID:25383060

  17. Adaptive oxide electronics: A review

    NASA Astrophysics Data System (ADS)

    Ha, Sieu D.; Ramanathan, Shriram

    2011-10-01

    Novel information processing techniques are being actively explored to overcome fundamental limitations associated with CMOS scaling. A new paradigm of adaptive electronic devices is emerging that may reshape the frontiers of electronics and enable new modalities. Creating systems that can learn and adapt to various inputs has generally been a complex algorithm problem in information science, albeit with wide-ranging and powerful applications from medical diagnosis to control systems. Recent work in oxide electronics suggests that it may be plausible to implement such systems at the device level, thereby drastically increasing computational density and power efficiency and expanding the potential for electronics beyond Boolean computation. Intriguing possibilities of adaptive electronics include fabrication of devices that mimic human brain functionality: the strengthening and weakening of synapses emulated by electrically, magnetically, thermally, or optically tunable properties of materials.In this review, we detail materials and device physics studies on functional metal oxides that may be utilized for adaptive electronics. It has been shown that properties, such as resistivity, polarization, and magnetization, of many oxides can be modified electrically in a non-volatile manner, suggesting that these materials respond to electrical stimulus similarly as a neural synapse. We discuss what device characteristics will likely be relevant for integration into adaptive platforms and then survey a variety of oxides with respect to these properties, such as, but not limited to, TaOx, SrTiO3, and Bi4-xLaxTi3O12. The physical mechanisms in each case are detailed and analyzed within the framework of adaptive electronics. We then review theoretically formulated and current experimentally realized adaptive devices with functional oxides, such as self-programmable logic and neuromorphic circuits. Finally, we speculate on what advances in materials physics and engineering may

  18. Device for determining frost depth and density

    NASA Technical Reports Server (NTRS)

    Huneidi, F.

    1983-01-01

    A hand held device having a forward open window portion adapted to be pushed downwardly into the frost on a surface, and a rear container portion adapted to receive the frost removed from the window area are described. A graph on a side of the container enables an observer to determine the density of the frost from certain measurements noted. The depth of the frost is noted from calibrated lines on the sides of the open window portion.

  19. Adaptive information design for outdoor augmented reality.

    PubMed

    Neuhöfer, Jan A; Govaers, Felix; El Mokni, Hichem; Alexander, Thomas

    2012-01-01

    Augmented Reality focuses on the enrichment of the user's natural field of view by consistent integration of text, symbols and interactive three-dimensional objects in real time. Placing virtual objects directly into the user's view in a natural context empowers highly dynamic applications. On the other hand, this necessitates deliberate choice of information design and density, in particular for deployment in hazardous environments like military combat scenarios. As the amount of information needed is not foreseeable and strongly depends on the individual mission, an appropriate system must offer adequate adaptation capabilities. The paper presents a prototypical, vehicle-mountable Augmented Reality vision system, designed for enhancing situation awareness in stressful urban warfare scenarios. Tracking, as one of the most crucial challenges for outdoor Augmented Reality, is accomplished by means of a Differential-GPS approach while the type of display to attach can be modified, ranging from ocular displays to standard LCD mini-screens. The overall concept also includes envisioning of own troops (blue forces), for which a multi-sensor tracking approach has been chosen. As a main feature, the system allows switching between different information categories, focusing on friendly, hostile, unidentified or neutral data. Results of an empirical study on the superiority of an in-view navigation cue approach conclude the paper.

  20. Incentive theory III: Adaptive clocks.

    PubMed

    Killeen, P R

    1984-01-01

    Incentive theory is extended to address the phenomenon of autoshaping. To do so, it is necessary to permit the speed of the animal's internal clock to vary with rates of reinforcement; clock speed is the basis for the animal's calculations of reinforcement densities. This notion of an "adaptive clock" is consistent with other effects, such as the partial-reinforcement extinction effect, and permits us to deal with the various experimental manipulations that are found in autoshaping experiments from a unified perspective.

  1. Conservation and adaptation to climate change.

    PubMed

    Brooke, Cassandra

    2008-12-01

    The need to adapt to climate change has become increasingly apparent, and many believe the practice of biodiversity conservation will need to alter to face this challenge. Conservation organizations are eager to determine how they should adapt their practices to climate change. This involves asking the fundamental question of what adaptation to climate change means. Most studies on climate change and conservation, if they consider adaptation at all, assume it is equivalent to the ability of species to adapt naturally to climate change as stated in Article 2 of the United Nations Framework Convention on Climate Change. Adaptation, however, can refer to an array of activities that range from natural adaptation, at one end of the spectrum, to sustainability science in coupled human and natural systems at the other. Most conservation organizations deal with complex systems in which adaptation to climate change involves making decisions on priorities for biodiversity conservation in the face of dynamic risks and involving the public in these decisions. Discursive methods such as analytic deliberation are useful for integrating scientific knowledge with public perceptions and values, particularly when large uncertainties and risks are involved. The use of scenarios in conservation planning is a useful way to build shared understanding at the science-policy interface. Similarly, boundary organizations-organizations or institutions that bridge different scales or mediate the relationship between science and policy-could prove useful for managing the transdisciplinary nature of adaptation to climate change, providing communication and brokerage services and helping to build adaptive capacity. The fact that some nongovernmental organizations (NGOs) are active across the areas of science, policy, and practice makes them well placed to fulfill this role in integrated assessments of biodiversity conservation and adaptation to climate change.

  2. Conservation and adaptation to climate change.

    PubMed

    Brooke, Cassandra

    2008-12-01

    The need to adapt to climate change has become increasingly apparent, and many believe the practice of biodiversity conservation will need to alter to face this challenge. Conservation organizations are eager to determine how they should adapt their practices to climate change. This involves asking the fundamental question of what adaptation to climate change means. Most studies on climate change and conservation, if they consider adaptation at all, assume it is equivalent to the ability of species to adapt naturally to climate change as stated in Article 2 of the United Nations Framework Convention on Climate Change. Adaptation, however, can refer to an array of activities that range from natural adaptation, at one end of the spectrum, to sustainability science in coupled human and natural systems at the other. Most conservation organizations deal with complex systems in which adaptation to climate change involves making decisions on priorities for biodiversity conservation in the face of dynamic risks and involving the public in these decisions. Discursive methods such as analytic deliberation are useful for integrating scientific knowledge with public perceptions and values, particularly when large uncertainties and risks are involved. The use of scenarios in conservation planning is a useful way to build shared understanding at the science-policy interface. Similarly, boundary organizations-organizations or institutions that bridge different scales or mediate the relationship between science and policy-could prove useful for managing the transdisciplinary nature of adaptation to climate change, providing communication and brokerage services and helping to build adaptive capacity. The fact that some nongovernmental organizations (NGOs) are active across the areas of science, policy, and practice makes them well placed to fulfill this role in integrated assessments of biodiversity conservation and adaptation to climate change. PMID:18759775

  3. ADAPTATION AND ADAPTABILITY, THE BELLEFAIRE FOLLOWUP STUDY.

    ERIC Educational Resources Information Center

    ALLERHAND, MELVIN E.; AND OTHERS

    A RESEARCH TEAM STUDIED INFLUENCES, ADAPTATION, AND ADAPTABILITY IN 50 POORLY ADAPTING BOYS AT BELLEFAIRE, A REGIONAL CHILD CARE CENTER FOR EMOTIONALLY DISTURBED CHILDREN. THE TEAM ATTEMPTED TO GAUGE THE SUCCESS OF THE RESIDENTIAL TREATMENT CENTER IN TERMS OF THE PSYCHOLOGICAL PATTERNS AND ROLE PERFORMANCES OF THE BOYS DURING INDIVIDUAL CASEWORK…

  4. Adaptive wavelets and relativistic magnetohydrodynamics

    NASA Astrophysics Data System (ADS)

    Hirschmann, Eric; Neilsen, David; Anderson, Matthe; Debuhr, Jackson; Zhang, Bo

    2016-03-01

    We present a method for integrating the relativistic magnetohydrodynamics equations using iterated interpolating wavelets. Such provide an adaptive implementation for simulations in multidimensions. A measure of the local approximation error for the solution is provided by the wavelet coefficients. They place collocation points in locations naturally adapted to the flow while providing expected conservation. We present demanding 1D and 2D tests includingthe Kelvin-Helmholtz instability and the Rayleigh-Taylor instability. Finally, we consider an outgoing blast wave that models a GRB outflow.

  5. Adaptive Evolution Is Substantially Impeded by Hill-Robertson Interference in Drosophila.

    PubMed

    Castellano, David; Coronado-Zamora, Marta; Campos, Jose L; Barbadilla, Antonio; Eyre-Walker, Adam

    2016-02-01

    Hill-Robertson interference (HRi) is expected to reduce the efficiency of natural selection when two or more linked selected sites do not segregate freely, but no attempt has been done so far to quantify the overall impact of HRi on the rate of adaptive evolution for any given genome. In this work, we estimate how much HRi impedes the rate of adaptive evolution in the coding genome of Drosophila melanogaster. We compiled a data set of 6,141 autosomal protein-coding genes from Drosophila, from which polymorphism levels in D. melanogaster and divergence out to D. yakuba were estimated. The rate of adaptive evolution was calculated using a derivative of the McDonald-Kreitman test that controls for slightly deleterious mutations. We find that the rate of adaptive amino acid substitution at a given position of the genome is positively correlated to both the rate of recombination and the mutation rate, and negatively correlated to the gene density of the region. These correlations are robust to controlling for each other, for synonymous codon bias and for gene functions related to immune response and testes. We show that HRi diminishes the rate of adaptive evolution by approximately 27%. Interestingly, genes with low mutation rates embedded in gene poor regions lose approximately 17% of their adaptive substitutions whereas genes with high mutation rates embedded in gene rich regions lose approximately 60%. We conclude that HRi hampers the rate of adaptive evolution in Drosophila and that the variation in recombination, mutation, and gene density along the genome affects the HRi effect.

  6. Adaptation pathways of global wheat production: Importance of strategic adaptation to climate change

    NASA Astrophysics Data System (ADS)

    Tanaka, Akemi; Takahashi, Kiyoshi; Masutomi, Yuji; Hanasaki, Naota; Hijioka, Yasuaki; Shiogama, Hideo; Yamanaka, Yasuhiro

    2015-09-01

    Agricultural adaptation is necessary to reduce the negative impacts of climate change on crop yields and to maintain food production. However, few studies have assessed the course of adaptation along with the progress of climate change in each of the current major food producing countries. Adaptation pathways, which describe the temporal sequences of adaptations, are helpful for illustrating the timing and intensity of the adaptation required. Here we present adaptation pathways in the current major wheat-producing countries, based on sequential introduction of the minimum adaptation measures necessary to maintain current wheat yields through the 21st century. We considered two adaptation options: (i) expanding irrigation infrastructure; and (ii) switching crop varieties and developing new heat-tolerant varieties. We find that the adaptation pathways differ markedly among the countries. The adaptation pathways are sensitive to both the climate model uncertainty and natural variability of the climate system, and the degree of sensitivity differs among countries. Finally, the negative impacts of climate change could be moderated by implementing adaptations steadily according to forecasts of the necessary future adaptations, as compared to missing the appropriate timing to implement adaptations.

  7. Adaptation pathways of global wheat production: Importance of strategic adaptation to climate change.

    PubMed

    Tanaka, Akemi; Takahashi, Kiyoshi; Masutomi, Yuji; Hanasaki, Naota; Hijioka, Yasuaki; Shiogama, Hideo; Yamanaka, Yasuhiro

    2015-09-16

    Agricultural adaptation is necessary to reduce the negative impacts of climate change on crop yields and to maintain food production. However, few studies have assessed the course of adaptation along with the progress of climate change in each of the current major food producing countries. Adaptation pathways, which describe the temporal sequences of adaptations, are helpful for illustrating the timing and intensity of the adaptation required. Here we present adaptation pathways in the current major wheat-producing countries, based on sequential introduction of the minimum adaptation measures necessary to maintain current wheat yields through the 21st century. We considered two adaptation options: (i) expanding irrigation infrastructure; and (ii) switching crop varieties and developing new heat-tolerant varieties. We find that the adaptation pathways differ markedly among the countries. The adaptation pathways are sensitive to both the climate model uncertainty and natural variability of the climate system, and the degree of sensitivity differs among countries. Finally, the negative impacts of climate change could be moderated by implementing adaptations steadily according to forecasts of the necessary future adaptations, as compared to missing the appropriate timing to implement adaptations.

  8. Adaptive Image Denoising by Mixture Adaptation

    NASA Astrophysics Data System (ADS)

    Luo, Enming; Chan, Stanley H.; Nguyen, Truong Q.

    2016-10-01

    We propose an adaptive learning procedure to learn patch-based image priors for image denoising. The new algorithm, called the Expectation-Maximization (EM) adaptation, takes a generic prior learned from a generic external database and adapts it to the noisy image to generate a specific prior. Different from existing methods that combine internal and external statistics in ad-hoc ways, the proposed algorithm is rigorously derived from a Bayesian hyper-prior perspective. There are two contributions of this paper: First, we provide full derivation of the EM adaptation algorithm and demonstrate methods to improve the computational complexity. Second, in the absence of the latent clean image, we show how EM adaptation can be modified based on pre-filtering. Experimental results show that the proposed adaptation algorithm yields consistently better denoising results than the one without adaptation and is superior to several state-of-the-art algorithms.

  9. Development of Underwater Laser Scaling Adapter

    NASA Astrophysics Data System (ADS)

    Bluss, Kaspars

    2012-12-01

    In this paper the developed laser scaling adapter is presented. The scaling adapter is equipped with a twin laser unit where the two parallel laser beams are projected onto any target giving an exact indication of scale. The body of the laser scaling adapter is made of Teflon, the density of which is approximately two times the water density. The development involved multiple challenges - numerical hydrodynamic calculations for choosing an appropriate shape which would reduce the effects of turbulence, an accurate sealing of the power supply and the laser diodes, and others. The precision is estimated by the partial derivation method. Both experimental and theoretical data conclude the overall precision error to be in the 1% margin. This paper presents the development steps of such an underwater laser scaling adapter for a remotely operated vehicle (ROV).

  10. Man and SuperNature. Lecture 12, September 27, 1946

    ERIC Educational Resources Information Center

    Montessori, Maria

    2015-01-01

    "Man and SuperNature" is a lyrical chapter in the 1946 London course following the emergence of Cosmic Education in Kodaikanal, India. Montessori contrasts the adaptation required of animals for their survival to conscious human adaptation. Animals exist and adapt to nature, but man can alter nature and change the environment.…

  11. Adaptation, aging, and genomic information

    PubMed Central

    Rose, Michael R.

    2009-01-01

    Aging is not simply an accumulation of damage or inappropriate higher-order signaling, though it does secondarily involve both of these subsidiary mechanisms. Rather, aging occurs because of the extensive absence of adaptive genomic information required for survival to, and function at, later adult ages, due to the declining forces of natural selection during adult life. This absence of information then secondarily leads to misallocations and damage at every level of biological organization. But the primary problem is a failure of adaptation at later ages. Contemporary proposals concerning means by which human aging can be ended or cured which are based on simple signaling or damage theories will thus reliably fail. Strategies based on reverse-engineering age-extended adaptation using experimental evolution and genomics offer the prospect of systematically greater success. PMID:20157529

  12. Adaptive Sampling in Hierarchical Simulation

    SciTech Connect

    Knap, J; Barton, N R; Hornung, R D; Arsenlis, A; Becker, R; Jefferson, D R

    2007-07-09

    We propose an adaptive sampling methodology for hierarchical multi-scale simulation. The method utilizes a moving kriging interpolation to significantly reduce the number of evaluations of finer-scale response functions to provide essential constitutive information to a coarser-scale simulation model. The underlying interpolation scheme is unstructured and adaptive to handle the transient nature of a simulation. To handle the dynamic construction and searching of a potentially large set of finer-scale response data, we employ a dynamic metric tree database. We study the performance of our adaptive sampling methodology for a two-level multi-scale model involving a coarse-scale finite element simulation and a finer-scale crystal plasticity based constitutive law.

  13. Conformational behaviors of trans-2,3- and trans-2,5-dihalo-1,4-diselenanes. A complete basis set, hybrid-density functional theory study and natural bond orbital interpretations.

    PubMed

    Nori-Shargh, Davood; Mousavi, Seiedeh Negar; Kayi, Hakan

    2014-05-01

    Complete basis set CBS-4, hybrid-density functional theory (hybrid-DFT: B3LYP/6-311+G**) based methods and natural bond orbital (NBO) interpretations have been used to examine the contributions of the hyperconjugative, electrostatic, and steric effects on the conformational behaviors of trans-2,3-dihalo-1,4-diselenane [halo = F (1), Cl (2), Br (3)] and trans-2,5-dihalo-1,4-diselenane [halo = F (4), Cl (5), Br (6)]. Both levels of theory showed that the axial conformation stability, compared to its corresponding equatorial conformation, decreases from compounds 1 → 3 and 4 → 6. Based on the results obtained from the NBO analysis, there are significant anomeric effects for compounds 1-6. The anomeric effect associated with the electron delocalization is in favor of the axial conformation and increases from compounds 1 → 3 and 4 → 6. On the other hand, dipole moment differences between the axial and equatorial conformations [Δ(μ(eq)-μ(ax)] decrease from compounds 1 → 3. Although Δ(μ(eq)-μ(ax)) parameter decreases from compound 1 to compound 3, the dipole moment values of the axial conformations are smaller than those of their corresponding equatorial conformations. Therefore, the anomeric effect associated with the electron delocalizations (for halogen-C-Se segments) and the electrostatic model associated with the dipole-dipole interactions fail to account for the increase of the equatorial conformations stability on going from compound 1 to compound 3. Since there is no dipole moment for the axial and equatorial conformations of compounds 4-6, consequently, the conformational preferences in compounds 1-6 is in general dictated by the steric hindrance factor associated with the 1,3-syn-axial repulsions. Importantly, the CBS-4 results show that the entropy difference (∆S) between the equatorial axial conformations increases from compounds 1 → 3 and 4 → 6. This fact can be explained by the anomeric effect associated

  14. A holistic strategy for adaptive land management

    USGS Publications Warehouse

    Herrick, Jeffrey E.; Duniway, Michael C.; Pyke, David A.; Bestelmeyer, Brandon T.; Wills, Skye A.; Brown, Joel R.; Karl, Jason W.; Havstad, Kris M.

    2012-01-01

    Adaptive management is widely applied to natural resources management (Holling 1973; Walters and Holling 1990). Adaptive management can be generally defined as an iterative decision-making process that incorporates formulation of management objectives, actions designed to address these objectives, monitoring of results, and repeated adaptation of management until desired results are achieved (Brown and MacLeod 1996; Savory and Butterfield 1999). However, adaptive management is often criticized because very few projects ever complete more than one cycle, resulting in little adaptation and little knowledge gain (Lee 1999; Walters 2007). One significant criticism is that adaptive management is often used as a justification for undertaking actions with uncertain outcomes or as a surrogate for the development of specific, measurable indicators and monitoring programs (Lee 1999; Ruhl 2007).

  15. Research on algorithms for adaptive antenna arrays

    NASA Astrophysics Data System (ADS)

    Widrow, B.; Newman, W.; Gooch, R.; Duvall, K.; Shur, D.

    1981-08-01

    The fundamental efficiency of adaptive algorithms is analyzed. It is found that noise in the adaptive weights increases with convergence speed. This causes loss in mean-square-error performance. Efficiency is considered from the point of view of misadjustment versus speed of convergence. A new version of the LMS algorithm based on Newton's method is analyzed and shown to make maximally efficient use of real-time input data. The performance of this algorithm is not affected by eigenvalue disparity. Practical algorithms can be devised that closely approximate Newton's method. In certain cases, the steepest descent version of LMS performs as well as Newton's method. The efficiency of adaptive algorithms with nonstationary input environments is analyzed where signals, jammers, and background noises can be of a transient and nonstationary nature. A new adaptive filtering method for broadband adaptive beamforming is described which uses both poles and zeros in the adaptive signal filtering paths from the antenna elements to the final array output.

  16. Assessing urban adaptive capacity to climate change.

    PubMed

    Araya-Muñoz, Dahyann; Metzger, Marc J; Stuart, Neil; Wilson, A Meriwether W; Alvarez, Luis

    2016-12-01

    Despite the growing number of studies focusing on urban vulnerability to climate change, adaptive capacity, which is a key component of the IPCC definition of vulnerability, is rarely assessed quantitatively. We examine the capacity of adaptation in the Concepción Metropolitan Area, Chile. A flexible methodology based on spatial fuzzy modelling was developed to standardise and aggregate, through a stepwise approach, seventeen indicators derived from widely available census statistical data into an adaptive capacity index. The results indicate that all the municipalities in the CMA increased their level of adaptive capacity between 1992 and 2002. However, the relative differences between municipalities did not change significantly over the studied timeframe. Fuzzy overlay allowed us to standardise and to effectively aggregate indicators with differing ranges and granularities of attribute values into an overall index. It also provided a conceptually sound and reproducible means of exploring the interplay of many indicators that individually influence adaptive capacity. Furthermore, it captured the complex, aggregated and continued nature of the adaptive capacity, favouring to deal with gaps of data and knowledge associated with the concept of adaptive capacity. The resulting maps can help identify municipalities where adaptive capacity is weak and identify which components of adaptive capacity need strengthening. Identification of these capacity conditions can stimulate dialogue amongst policymakers and stakeholders regarding how to manage urban areas and how to prioritise resources for urban development in ways that can also improve adaptive capacity and thus reduce vulnerability to climate change. PMID:27604755

  17. Adaptive Responses Limited by Intrinsic Noise

    PubMed Central

    Shankar, Prabhat; Nishikawa, Masatoshi; Shibata, Tatsuo

    2015-01-01

    Sensory systems have mechanisms to respond to the external environment and adapt to them. Such adaptive responses are effective for a wide dynamic range of sensing and perception of temporal change in stimulus. However, noise generated by the adaptation system itself as well as extrinsic noise in sensory inputs may impose a limit on the ability of adaptation systems. The relation between response and noise is well understood for equilibrium systems in the form of fluctuation response relation. However, the relation for nonequilibrium systems, including adaptive systems, are poorly understood. Here, we systematically explore such a relation between response and fluctuation in adaptation systems. We study the two network motifs, incoherent feedforward loops (iFFL) and negative feedback loops (nFBL), that can achieve perfect adaptation. We find that the response magnitude in adaption systems is limited by its intrinsic noise, implying that higher response would have higher noise component as well. Comparing the relation of response and noise in iFFL and nFBL, we show that whereas iFFL exhibits adaptation over a wider parameter range, nFBL offers higher response to noise ratio than iFFL. We also identify the condition that yields the upper limit of response for both network motifs. These results may explain the reason of why nFBL seems to be more abundant in nature for the implementation of adaption systems. PMID:26305221

  18. Assessing urban adaptive capacity to climate change.

    PubMed

    Araya-Muñoz, Dahyann; Metzger, Marc J; Stuart, Neil; Wilson, A Meriwether W; Alvarez, Luis

    2016-12-01

    Despite the growing number of studies focusing on urban vulnerability to climate change, adaptive capacity, which is a key component of the IPCC definition of vulnerability, is rarely assessed quantitatively. We examine the capacity of adaptation in the Concepción Metropolitan Area, Chile. A flexible methodology based on spatial fuzzy modelling was developed to standardise and aggregate, through a stepwise approach, seventeen indicators derived from widely available census statistical data into an adaptive capacity index. The results indicate that all the municipalities in the CMA increased their level of adaptive capacity between 1992 and 2002. However, the relative differences between municipalities did not change significantly over the studied timeframe. Fuzzy overlay allowed us to standardise and to effectively aggregate indicators with differing ranges and granularities of attribute values into an overall index. It also provided a conceptually sound and reproducible means of exploring the interplay of many indicators that individually influence adaptive capacity. Furthermore, it captured the complex, aggregated and continued nature of the adaptive capacity, favouring to deal with gaps of data and knowledge associated with the concept of adaptive capacity. The resulting maps can help identify municipalities where adaptive capacity is weak and identify which components of adaptive capacity need strengthening. Identification of these capacity conditions can stimulate dialogue amongst policymakers and stakeholders regarding how to manage urban areas and how to prioritise resources for urban development in ways that can also improve adaptive capacity and thus reduce vulnerability to climate change.

  19. Visual adaptation and face perception

    PubMed Central

    Webster, Michael A.; MacLeod, Donald I. A.

    2011-01-01

    The appearance of faces can be strongly affected by the characteristics of faces viewed previously. These perceptual after-effects reflect processes of sensory adaptation that are found throughout the visual system, but which have been considered only relatively recently in the context of higher level perceptual judgements. In this review, we explore the consequences of adaptation for human face perception, and the implications of adaptation for understanding the neural-coding schemes underlying the visual representation of faces. The properties of face after-effects suggest that they, in part, reflect response changes at high and possibly face-specific levels of visual processing. Yet, the form of the after-effects and the norm-based codes that they point to show many parallels with the adaptations and functional organization that are thought to underlie the encoding of perceptual attributes like colour. The nature and basis for human colour vision have been studied extensively, and we draw on ideas and principles that have been developed to account for norms and normalization in colour vision to consider potential similarities and differences in the representation and adaptation of faces. PMID:21536555

  20. Parallel Density-Based Clustering for Discovery of Ionospheric Phenomena

    NASA Astrophysics Data System (ADS)

    Pankratius, V.; Gowanlock, M.; Blair, D. M.

    2015-12-01

    Ionospheric total electron content maps derived from global networks of dual-frequency GPS receivers can reveal a plethora of ionospheric features in real-time and are key to space weather studies and natural hazard monitoring. However, growing data volumes from expanding sensor networks are making manual exploratory studies challenging. As the community is heading towards Big Data ionospheric science, automation and Computer-Aided Discovery become indispensable tools for scientists. One problem of machine learning methods is that they require domain-specific adaptations in order to be effective and useful for scientists. Addressing this problem, our Computer-Aided Discovery approach allows scientists to express various physical models as well as perturbation ranges for parameters. The search space is explored through an automated system and parallel processing of batched workloads, which finds corresponding matches and similarities in empirical data. We discuss density-based clustering as a particular method we employ in this process. Specifically, we adapt Density-Based Spatial Clustering of Applications with Noise (DBSCAN). This algorithm groups geospatial data points based on density. Clusters of points can be of arbitrary shape, and the number of clusters is not predetermined by the algorithm; only two input parameters need to be specified: (1) a distance threshold, (2) a minimum number of points within that threshold. We discuss an implementation of DBSCAN for batched workloads that is amenable to parallelization on manycore architectures such as Intel's Xeon Phi accelerator with 60+ general-purpose cores. This manycore parallelization can cluster large volumes of ionospheric total electronic content data quickly. Potential applications for cluster detection include the visualization, tracing, and examination of traveling ionospheric disturbances or other propagating phenomena. Acknowledgments. We acknowledge support from NSF ACI-1442997 (PI V. Pankratius).

  1. Conditions and limitations on learning in the adaptive management of mallard harvests

    USGS Publications Warehouse

    Johnson, F.A.; Kendall, W.L.; Dubovsky, J.A.

    2002-01-01

    In 1995, the United States Fish and Wildlife Service adopted a protocol for the adaptive management of waterfowl hunting regulations (AHM) to help reduce uncertainty about the magnitude of sustainable harvests. To date, the AHM process has focused principally on the midcontinent population of mallards (Anas platyrhynchos), whose dynamics are described by 4 alternative models. Collectively, these models express uncertainty (or disagreement) about whether harvest is an additive or a compensatory form of mortality and whether the reproductive process is weakly or strongly density-dependent. Each model is associated with a probability or 'weight,' which describes its relative ability to predict changes in population size. These Bayesian probabilities are updated annually using a comparison of population size predicted under each model with that observed by a monitoring program. The current AHM process is passively adaptive, in the sense that there is no a priori consideration of how harvest decisions might affect discrimination among models. We contrast this approach with an actively adaptive approach, in which harvest decisions are used in part to produce the learning needed to increase long-term management performance. Our investigation suggests that the passive approach is expected to perform nearly as well as an optimal actively adaptive approach, particularly considering the nature of the model set, management objectives and constraints, and current regulatory alternatives. We offer some comments about the nature of the biological hypotheses being tested and describe some of the inherent limitations on learning in the AHM process.

  2. Emergent Fields through Adaptation and Identity: Overcoming Social Distance

    ERIC Educational Resources Information Center

    DeGennaro, Donna; Brown, Tiffany

    2009-01-01

    We examine the inseparability of one's environment with the elements of adaptation and identity. Specifically, we revisit the Project H.O.M.E. learning environment as we suggest that the entities of adaption and environment are not only binding, but also naturally in constant flux as they interact with each other. Contrary to nature, however, the…

  3. Natural inflation

    SciTech Connect

    Frieman, J.A.

    1991-02-01

    A pseduo-Nambu-Goldstone boson, with a potential of the form V({phi}) = {Lambda}{sup 4}(1 {plus minus} cos({phi}/f)), can naturally give rise to an epoch of inflation in the early universe. Successful inflation can be achieved if f {approximately} m{sub pl} and {Lambda} {approximately} m{sub GUT}. Such mass scales arise in particle physics models with a gauge group that becomes strongly interacting a the GUT scale, e.g., as is expected to happen in the hidden sector of superstring theories. The density fluctuation spectrum is a non-scale-invariant power law, with extra power on large scales. 12 refs., 3 figs.

  4. A genetic basis of variation in eccrine sweat gland and hair follicle density.

    PubMed

    Kamberov, Yana G; Karlsson, Elinor K; Kamberova, Gerda L; Lieberman, Daniel E; Sabeti, Pardis C; Morgan, Bruce A; Tabin, Clifford J

    2015-08-11

    Among the unique features of humans, one of the most salient is the ability to effectively cool the body during extreme prolonged activity through the evapotranspiration of water on the skin's surface. The evolution of this novel physiological ability required a dramatic increase in the density and distribution of eccrine sweat glands relative to other mammals and a concomitant reduction of body hair cover. Elucidation of the genetic underpinnings for these adaptive changes is confounded by a lack of knowledge about how eccrine gland fate and density are specified during development. Moreover, although reciprocal changes in hair cover and eccrine gland density are required for efficient thermoregulation, it is unclear if these changes are linked by a common genetic regulation. To identify pathways controlling the relative patterning of eccrine glands and hair follicles, we exploited natural variation in the density of these organs between different strains of mice. Quantitative trait locus mapping identified a large region on mouse Chromosome 1 that controls both hair and eccrine gland densities. Differential and allelic expression analysis of the genes within this interval coupled with subsequent functional studies demonstrated that the level of En1 activity directs the relative numbers of eccrine glands and hair follicles. These findings implicate En1 as a newly identified and reciprocal determinant of hair follicle and eccrine gland density and identify a pathway that could have contributed to the evolution of the unique features of human skin. PMID:26195765

  5. Variable density compressed image sampling.

    PubMed

    Wang, Zhongmin; Arce, Gonzalo R

    2010-01-01

    Compressed sensing (CS) provides an efficient way to acquire and reconstruct natural images from a limited number of linear projection measurements leading to sub-Nyquist sampling rates. A key to the success of CS is the design of the measurement ensemble. This correspondence focuses on the design of a novel variable density sampling strategy, where the a priori information of the statistical distributions that natural images exhibit in the wavelet domain is exploited. The proposed variable density sampling has the following advantages: 1) the generation of the measurement ensemble is computationally efficient and requires less memory; 2) the necessary number of measurements for image reconstruction is reduced; 3) the proposed sampling method can be applied to several transform domains and leads to simple implementations. Extensive simulations show the effectiveness of the proposed sampling method.

  6. Energy transfer in light-adapted photosynthetic membranes: from active to saturated photosynthesis.

    PubMed

    Fassioli, Francesca; Olaya-Castro, Alexandra; Scheuring, Simon; Sturgis, James N; Johnson, Neil F

    2009-11-01

    In bacterial photosynthesis light-harvesting complexes, LH2 and LH1 absorb sunlight energy and deliver it to reaction centers (RCs) with extraordinarily high efficiency. Submolecular resolution images have revealed that both the LH2:LH1 ratio, and the architecture of the photosynthetic membrane itself, adapt to light intensity. We investigate the functional implications of structural adaptations in the energy transfer performance in natural in vivo low- and high-light-adapted membrane architectures of Rhodospirillum photometricum. A model is presented to describe excitation migration across the full range of light intensities that cover states from active photosynthesis, where all RCs are available for charge separation, to saturated photosynthesis where all RCs are unavailable. Our study outlines three key findings. First, there is a critical light-energy density, below which the low-light adapted membrane is more efficient at absorbing photons and generating a charge separation at RCs, than the high-light-adapted membrane. Second, connectivity of core complexes is similar in both membranes, suggesting that, despite different growth conditions, a preferred transfer pathway is through core-core contacts. Third, there may be minimal subareas on the membrane which, containing the same LH2:LH1 ratio, behave as minimal functional units as far as excitation transfer efficiency is concerned.

  7. Expressing Adaptation Strategies Using Adaptation Patterns

    ERIC Educational Resources Information Center

    Zemirline, N.; Bourda, Y.; Reynaud, C.

    2012-01-01

    Today, there is a real challenge to enable personalized access to information. Several systems have been proposed to address this challenge including Adaptive Hypermedia Systems (AHSs). However, the specification of adaptation strategies remains a difficult task for creators of such systems. In this paper, we consider the problem of the definition…

  8. Molecular evolution and thermal adaptation

    NASA Astrophysics Data System (ADS)

    Chen, Peiqiu

    2011-12-01

    In this thesis, we address problems in molecular evolution, thermal adaptation, and the kinetics of adaptation of bacteria and viruses to elevated environmental temperatures. We use a nearly neutral fitness model where the replication speed of an organism is proportional to the copy number of folded proteins. Our model reproduces the distribution of stabilities of natural proteins in excellent agreement with experiment. We find that species with high mutation rates tend to have less stable proteins compared to species with low mutation rate. We found that a broad distribution of protein stabilities observed in the model and in experiment is the key determinant of thermal response for viruses and bacteria. Our results explain most of the earlier experimental observations: striking asymmetry of thermal response curves, the absence of evolutionary trade-off which was expected but not found in experiments, correlation between denaturation temperature for several protein families and the Optimal Growth Temperature (OGT) of their carrier organisms, and proximity of bacterial or viral OGTs to their evolutionary temperatures. Our theory quantitatively and with high accuracy described thermal response curves for 35 bacterial species. The model also addresses the key to adaptation is in weak-link genes (WLG), which encode least thermodynamically stable essential proteins in the proteome. We observe, as in experiment, a two-stage adaptation process. The first stage is a Luria-Delbruck type of selection, whereby rare WLG alleles, whose proteins are more stable than WLG proteins of the majority of the population (either due to standing genetic variation or due to an early acquired mutation), rapidly rise to fixation. The second stage constitutes subsequent slow accumulation of mutations in an adapted population. As adaptation progresses, selection regime changes from positive to neutral: Selection coefficient of beneficial mutations scales as a negative power of number of

  9. Response-Adaptive Allocation for Circular Data.

    PubMed

    Biswas, Atanu; Dutta, Somak; Laha, Arnab Kumar; Bakshi, Partho K

    2015-01-01

    Response-adaptive designs are used in phase III clinical trials to allocate a larger proportion of patients to the better treatment. Circular data is a natural outcome in many clinical trial setup, e.g., some measurements in opthalmologic studies, degrees of rotation of hand or waist, etc. There is no available work on response-adaptive designs for circular data. With reference to a dataset on cataract surgery we provide some response-adaptive designs where the responses are of circular nature and propose some test statistics for treatment comparison under adaptive data allocation procedure. Detailed simulation study and the analysis of the dataset, including redesigning the cataract surgery data, are carried out.

  10. Density-dependent adjustment of inducible defenses

    PubMed Central

    Tollrian, Ralph; Duggen, Sonja; Weiss, Linda C.; Laforsch, Christian; Kopp, Michael

    2015-01-01

    Predation is a major factor driving evolution, and organisms have evolved adaptations increasing their survival chances. However, most defenses incur trade-offs between benefits and costs. Many organisms save costs by employing inducible defenses as responses to fluctuating predation risk. The level of defense often increases with predator densities. However, individual predation risk should not only depend on predator density but also on the density of conspecifics. If the predator has a saturating functional response one would predict a negative correlation between prey density and individual predation risk and hence defense expression. Here, we tested this hypothesis using six model systems, covering a taxonomic range from protozoa to rotifers and crustaceans. In all six systems, we found that the level of defense expression increased with predator density but decreased with prey density. In one of our systems, i.e. in Daphnia, we further show that the response to prey density is triggered by a chemical cue released by conspecifics and congeners. Our results indicate that organisms adjust the degree of defense to the acute predation risk, rather than merely to predators’ densities. Our study suggests that density-dependent defense expression reflects accurate predation-risk assessment and is a general principle in many inducible-defense systems. PMID:26235428

  11. Density perturbation theory

    SciTech Connect

    Palenik, Mark C.; Dunlap, Brett I.

    2015-07-28

    Despite the fundamental importance of electron density in density functional theory, perturbations are still usually dealt with using Hartree-Fock-like orbital equations known as coupled-perturbed Kohn-Sham (CPKS). As an alternative, we develop a perturbation theory that solves for the perturbed density directly, removing the need for CPKS. This replaces CPKS with a true Hohenberg-Kohn density perturbation theory. In CPKS, the perturbed density is found in the basis of products of occupied and virtual orbitals, which becomes ever more over-complete as the size of the orbital basis set increases. In our method, the perturbation to the density is expanded in terms of a series of density basis functions and found directly. It is possible to solve for the density in such a way that it makes the total energy stationary even if the density basis is incomplete.

  12. An Adaptable Metric Shapes Perceptual Space.

    PubMed

    Hisakata, Rumi; Nishida, Shin'ya; Johnston, Alan

    2016-07-25

    How do we derive a sense of the separation of points in the world within a space-variant visual system? Visual directions are thought to be coded directly by a process referred to as local sign, in which a neuron acts as a labeled line for the perceived direction associated with its activation [1, 2]. The separations of visual directions, however, are not given, nor are they directly related to the separations of signals on the receptive surface or in the brain, which are modified by retinal and cortical magnification, respectively [3]. To represent the separation of directions veridically, the corresponding neural signals need to be scaled in some way. We considered this scaling process may be influenced by adaptation. Here, we describe a novel adaptation paradigm, which can alter both apparent spatial separation and size. We measured the perceived separation of two dots and the size of geometric figures after adaptation to random dot patterns. We show that adapting to high-density texture not only increases the apparent sparseness (average element separation) of a lower-density pattern, as expected [4], but paradoxically, it reduces the apparent separation of dot pairs and induces apparent shrinkage of geometric form. This demonstrates for the first time a contrary linkage between perceived density and perceived extent. Separation and size appear to be expressed relative to a variable spatial metric whose properties, while not directly observable, are revealed by reductions in both apparent size and texture density. PMID:27426520

  13. Explaining immigrant naturalization.

    PubMed

    Yang, P Q

    1994-01-01

    "Prior research on immigrant naturalization has focused mainly on the effects of immigrants' adaptation experiences and demographic characteristics on their propensity to naturalize. This article proposes a broader analytical framework which incorporates immigrants' individual characteristics and larger social contexts in the country of origin and the country of destination to explain the likelihood of citizenship acquisition. The framework is tested for a cohort of recent immigrants, using the PUMS data from the 1980 U.S. census. The results show that economic, political, social, cultural and geographical conditions in the country of origin, and immigrants ethnic communities and urban concentration in the country of destination, to a large extent influence immigrants' propensity for naturalization and that, net of the contextual factors, many of the immigrants' adaptation and demographic characteristics are also significant predictors of citizenship acquisition."

  14. Variational method for adaptive grid generation

    SciTech Connect

    Brackbill, J.U.

    1983-01-01

    A variational method for generating adaptive meshes is described. Functionals measuring smoothness, skewness, orientation, and the Jacobian are minimized to generate a mapping from a rectilinear domain in natural coordinate to an arbitrary domain in physical coordinates. From the mapping, a mesh is easily constructed. In using the method to adaptively zone computational problems, as few as one third the number of mesh points are required in each coordinate direction compared with a uniformly zoned mesh.

  15. Dynamic adaptivity of "smart" piezoelectric structures

    NASA Astrophysics Data System (ADS)

    Tzou, Horn-Sen; Zhong, Jianping P.

    1990-10-01

    Active smart" space and machine structures with adaptive dynamic characteristics have long been interested in a variety of high-performance systems, e.g., flexible robots, flexible space structures, "smart" machines, etc. In this paper, an active adaptive structure made of piezoelectric materials is proposed and evaluated. The structural adaptivity is achieved by a voltage feedback (open or closed loops) utilizing the converse piezoelectric effect. A mathematical model is proposed and the electrodynamic equations of motion and the generalized boundary conditions of a generic piezoelectric shell subjected to mechanical and electrical excitations are derived using Hamilton's principle and the linear piezoelectric theory. The dynamic adaptivity of the structure is introduced using a feedback control system. The theory is demonstrated in a case study in which the structural adaptivity (natural frequency) is investigated.

  16. [Naturalizing empathy].

    PubMed

    Decety, J

    2002-01-01

    Empathy is the ability to share emotions with others. It is acknowledged to be a powerful means of tacit communication, a key ingredient in any therapeutic relationship as well as in psychotherapy. Empathy is the cornerstone in the humanist perspective (Ego-psychology) in clinical psychology. This approach is often considered as poorly grounded on scientific and objective evidence. It is however acknowledged that empathetic therapists are more effective than less empathetic therapists. I shall argue that this paradox, i.e. it is the least scientific and the less validated psychotherapeutic approach that is the most efficient, can be eliminated if one considers the nature of empathy, its biological foundation, its evolutionary origin and its cognitive architecture. In this paper I will suggest that empathy is based on specific information processing modules which have been designed by natural selection to cope with social regularities in expressing and reading emotional states. This has provided adaptive benefits to individuals living in large groups bestowing them with mechanisms for cooperativity, altruism and more generally various aspects of prosocial behaviour. The capacity to express emotions, and to read and understand emotions of others also ensures implicit communication with others and may be at the root of intersubjectivity. This perspective on empathy is then articulated with two concurrent hypotheses regarding theory of mind (the simulation and the theory-theory) which aim to explain the human capacity to understand that the behaviors of other intelligent agents are caused by intentions, desires and beliefs. In this context, empathy can be considered as a simulation (or analogical) process that is necessary to understand but not sufficient to interpret other people. This last issue is relevant to clinical practice. PMID:11963348

  17. An adaptive paradigm for human space settlement

    NASA Astrophysics Data System (ADS)

    Smith, Cameron M.

    2016-02-01

    Because permanent space settlement will be multigenerational it will have to be viable on ecological timescales so far unfamiliar to those planning space exploration. Long-term viability will require evolutionary and adaptive planning. Adaptations in the natural world provide many lessons for such planning, but implementing these lessons will require a new, evolutionary paradigm for envisioning and carrying out Earth-independent space settlement. I describe some of these adaptive lessons and propose some cognitive shifts required to implement them in a genuinely evolutionary approach to human space settlement.

  18. Deleterious Passengers in Adapting Populations

    PubMed Central

    Good, Benjamin H.; Desai, Michael M.

    2014-01-01

    Most new mutations are deleterious and are eventually eliminated by natural selection. But in an adapting population, the rapid amplification of beneficial mutations can hinder the removal of deleterious variants in nearby regions of the genome, altering the patterns of sequence evolution. Here, we analyze the interactions between beneficial “driver” mutations and linked deleterious “passengers” during the course of adaptation. We derive analytical expressions for the substitution rate of a deleterious mutation as a function of its fitness cost, as well as the reduction in the beneficial substitution rate due to the genetic load of the passengers. We find that the fate of each deleterious mutation varies dramatically with the rate and spectrum of beneficial mutations and the deleterious substitution rate depends nonmonotonically on the population size and the rate of adaptation. By quantifying this dependence, our results allow us to estimate which deleterious mutations will be likely to fix and how many of these mutations must arise before the progress of adaptation is significantly reduced. PMID:25194161

  19. Contrast sensitivity in natural scenes depends on edge as well as spatial frequency structure

    PubMed Central

    Bex, Peter J.; Solomon, Samuel G.; Dakin, Steven C.

    2013-01-01

    The contrast sensitivity function is routinely measured in the laboratory with sine-wave gratings presented on homogenous gray backgrounds; natural images are instead composed of a broad range of spatial and temporal structures. In order to extend channel-based models of visual processing to more natural conditions, we examined how contrast sensitivity varies with the context in which it is measured. We report that contrast sensitivity is quite different under laboratory than natural viewing conditions: adaptation or masking with natural scenes attenuates contrast sensitivity at low spatial and temporal frequencies. Expressed another way, viewing stimuli presented on homogenous screens overcomes chronic adaptation to the natural environment and causes a sharp, unnatural increase in sensitivity to low spatial and temporal frequencies. Consequently, the standard contrast sensitivity function is a poor indicator of sensitivity to structure in natural scenes. The magnitude of masking by natural scenes is relatively independent of local contrast but depends strongly on the density of edges even though neither greatly affects the local amplitude spectrum. These results suggest that sensitivity to spatial structure in natural scenes depends on the distribution of local edges as well as the local amplitude spectrum. PMID:19810782

  20. A Dastardly Density Deed.

    ERIC Educational Resources Information Center

    Shaw, Mike

    2003-01-01

    Integrates story telling into a science activity on the density of liquids in order to increase student interest. Shows the relationship between mass and volume ratio and how they determine density. Includes teacher notes. (YDS)

  1. Direct Density Derivative Estimation.

    PubMed

    Sasaki, Hiroaki; Noh, Yung-Kyun; Niu, Gang; Sugiyama, Masashi

    2016-06-01

    Estimating the derivatives of probability density functions is an essential step in statistical data analysis. A naive approach to estimate the derivatives is to first perform density estimation and then compute its derivatives. However, this approach can be unreliable because a good density estimator does not necessarily mean a good density derivative estimator. To cope with this problem, in this letter, we propose a novel method that directly estimates density derivatives without going through density estimation. The proposed method provides computationally efficient estimation for the derivatives of any order on multidimensional data with a hyperparameter tuning method and achieves the optimal parametric convergence rate. We further discuss an extension of the proposed method by applying regularized multitask learning and a general framework for density derivative estimation based on Bregman divergences. Applications of the proposed method to nonparametric Kullback-Leibler divergence approximation and bandwidth matrix selection in kernel density estimation are also explored. PMID:27140943

  2. A mesh density study for application to large deformation rolling process evaluations

    SciTech Connect

    Martin, J.A.

    1997-12-01

    When addressing large deformation through an elastic-plastic analysis the mesh density is paramount in determining the accuracy of the solution. However, given the nonlinear nature of the problem, a highly-refined mesh will generally require a prohibitive amount of computer resources. This paper addresses finite element mesh optimization studies considering accuracy of results and computer resource needs as applied to large deformation rolling processes. In particular, the simulation of the thread rolling manufacturing process is considered using the MARC software package and a Cray C90 supercomputer. Both mesh density and adaptive meshing on final results for both indentation of a rigid body to a specified depth and contact rolling along a predetermined length are evaluated.

  3. Evaluation of Natural Resource Interventions

    ERIC Educational Resources Information Center

    Rowe, Andy

    2012-01-01

    This article provides a frame for evaluation of natural resource interventions, which necessarily involves both human and natural systems. Two-system evaluands require us to adapt evaluation methods for comparison and attribution and to address differences in time and space occurring across the systems as well as potentially very different values…

  4. Density distributions in nuclei

    NASA Astrophysics Data System (ADS)

    Strutinsky, V. M.; Magner, A. G.; Denisov, V. Yu.

    1985-03-01

    Density distribution across the nuclear surface is obtained in the approximation of relatively sharp nuclear edge. It is used to determine dynamical parts of the density relevant to density vibration resonances. Results of the simple calculations are in close agreement with detailed microscopic theories.

  5. Crowding and Density

    ERIC Educational Resources Information Center

    Design and Environment, 1972

    1972-01-01

    Three-part report pinpointing problems and uncovering solutions for the dual concepts of density (ratio of people to space) and crowding (psychological response to density). Section one, A Primer on Crowding,'' reviews new psychological and social findings; section two, Density in the Suburbs,'' shows conflict between status quo and increased…

  6. Evolutionary Adaptations to Dietary Changes

    PubMed Central

    Luca, F.; Perry, G.H.; Di Rienzo, A.

    2014-01-01

    Through cultural innovation and changes in habitat and ecology, there have been a number of major dietary shifts in human evolution, including meat eating, cooking, and those associated with plant and animal domestication. The identification of signatures of adaptations to such dietary changes in the genome of extant primates (including humans) may shed light not only on the evolutionary history of our species, but also on the mechanisms that underlie common metabolic diseases in modern human populations. In this review, we provide a brief overview of the major dietary shifts that occurred during hominin evolution, and we discuss the methods and approaches used to identify signals of natural selection in patterns of sequence variation. We then review the results of studies aimed at detecting the genetic loci that played a major role in dietary adaptations and conclude by outlining the potential of future studies in this area. PMID:20420525

  7. Plant adaptation to drought stress

    PubMed Central

    Basu, Supratim; Ramegowda, Venkategowda; Kumar, Anuj; Pereira, Andy

    2016-01-01

    Plants in their natural habitats adapt to drought stress in the environment through a variety of mechanisms, ranging from transient responses to low soil moisture to major survival mechanisms of escape by early flowering in absence of seasonal rainfall. However, crop plants selected by humans to yield products such as grain, vegetable, or fruit in favorable environments with high inputs of water and fertilizer are expected to yield an economic product in response to inputs. Crop plants selected for their economic yield need to survive drought stress through mechanisms that maintain crop yield. Studies on model plants for their survival under stress do not, therefore, always translate to yield of crop plants under stress, and different aspects of drought stress response need to be emphasized. The crop plant model rice ( Oryza sativa) is used here as an example to highlight mechanisms and genes for adaptation of crop plants to drought stress. PMID:27441087

  8. Plant adaptation to drought stress.

    PubMed

    Basu, Supratim; Ramegowda, Venkategowda; Kumar, Anuj; Pereira, Andy

    2016-01-01

    Plants in their natural habitats adapt to drought stress in the environment through a variety of mechanisms, ranging from transient responses to low soil moisture to major survival mechanisms of escape by early flowering in absence of seasonal rainfall. However, crop plants selected by humans to yield products such as grain, vegetable, or fruit in favorable environments with high inputs of water and fertilizer are expected to yield an economic product in response to inputs. Crop plants selected for their economic yield need to survive drought stress through mechanisms that maintain crop yield. Studies on model plants for their survival under stress do not, therefore, always translate to yield of crop plants under stress, and different aspects of drought stress response need to be emphasized. The crop plant model rice ( Oryza sativa) is used here as an example to highlight mechanisms and genes for adaptation of crop plants to drought stress. PMID:27441087

  9. Evolutionary adaptations to dietary changes.

    PubMed

    Luca, F; Perry, G H; Di Rienzo, A

    2010-08-21

    Through cultural innovation and changes in habitat and ecology, there have been a number of major dietary shifts in human evolution, including meat eating, cooking, and those associated with plant and animal domestication. The identification of signatures of adaptations to such dietary changes in the genome of extant primates (including humans) may shed light not only on the evolutionary history of our species, but also on the mechanisms that underlie common metabolic diseases in modern human populations. In this review, we provide a brief overview of the major dietary shifts that occurred during hominin evolution, and we discuss the methods and approaches used to identify signals of natural selection in patterns of sequence variation. We then review the results of studies aimed at detecting the genetic loci that played a major role in dietary adaptations and conclude by outlining the potential of future studies in this area. PMID:20420525

  10. Urban behavioural adaptation.

    PubMed

    Garroway, Colin J; Sheldon, Ben C

    2013-07-01

    A large and growing proportion of the world is impacted directly by human activities; among the most extreme of these is the spread of urban environments. Environmental change associated with urbanization represents a potentially potent source of selection. While urban environments generally have lowered biodiversity, some clades seem to thrive in urban settings. For example, many members of the bird family Turdidae, known as the ‘truethrushes’ and the blackbird Turdus merula (Fig. 1) in particular, are familiar urban species. Indeed, the colonization of urban environments by blackbirds has become a textbook case study for our understanding of the many ways a wild species can deal with urbanization. In this issue, Mueller et al. (Molecular Ecology, 00, 2013, 00) add to that story by beginning to address the genetic nature of behavioural adaptation of blackbirds colonizing urban areas. They do this by testing for divergence between paired urban and rural samples at a suite of candidate genes with hypothesized effects on behaviours thought to be important for the colonization of urban environments.They find evidence for consistent patterns of divergence at an exonic microsatellite associated with the SERT gene. SERT has a number of hypothesized behavioural effects, including harm avoidance, which may be associated with tolerating the hustle and bustle of urban environments. This is among the first evidence that behavioural differences between urban and rural environments have a genetic basis and this work suggests that urban environments can in some cases exert homogeneous selection pressures. PMID:23967452

  11. Adaptive management for a turbulent future.

    PubMed

    Allen, Craig R; Fontaine, Joseph J; Pope, Kevin L; Garmestani, Ahjond S

    2011-05-01

    The challenges that face humanity today differ from the past because as the scale of human influence has increased, our biggest challenges have become global in nature, and formerly local problems that could be addressed by shifting populations or switching resources, now aggregate (i.e., "scale up") limiting potential management options. Adaptive management is an approach to natural resource management that emphasizes learning through management based on the philosophy that knowledge is incomplete and much of what we think we know is actually wrong. Adaptive management has explicit structure, including careful elucidation of goals, identification of alternative management objectives and hypotheses of causation, and procedures for the collection of data followed by evaluation and reiteration. It is evident that adaptive management has matured, but it has also reached a crossroads. Practitioners and scientists have developed adaptive management and structured decision making techniques, and mathematicians have developed methods to reduce the uncertainties encountered in resource management, yet there continues to be misapplication of the method and misunderstanding of its purpose. Ironically, the confusion over the term "adaptive management" may stem from the flexibility inherent in the approach, which has resulted in multiple interpretations of "adaptive management" that fall along a continuum of complexity and a priori design. Adaptive management is not a panacea for the navigation of 'wicked problems' as it does not produce easy answers, and is only appropriate in a subset of natural resource management problems where both uncertainty and controllability are high. Nonetheless, the conceptual underpinnings of adaptive management are simple; there will always be inherent uncertainty and unpredictability in the dynamics and behavior of complex social-ecological systems, but management decisions must still be made, and whenever possible, we should incorporate

  12. Adaptive management for a turbulent future

    USGS Publications Warehouse

    Allen, C.R.; Fontaine, J.J.; Pope, K.L.; Garmestani, A.S.

    2011-01-01

    The challenges that face humanity today differ from the past because as the scale of human influence has increased, our biggest challenges have become global in nature, and formerly local problems that could be addressed by shifting populations or switching resources, now aggregate (i.e., "scale up") limiting potential management options. Adaptive management is an approach to natural resource management that emphasizes learning through management based on the philosophy that knowledge is incomplete and much of what we think we know is actually wrong. Adaptive management has explicit structure, including careful elucidation of goals, identification of alternative management objectives and hypotheses of causation, and procedures for the collection of data followed by evaluation and reiteration. It is evident that adaptive management has matured, but it has also reached a crossroads. Practitioners and scientists have developed adaptive management and structured decision making techniques, and mathematicians have developed methods to reduce the uncertainties encountered in resource management, yet there continues to be misapplication of the method and misunderstanding of its purpose. Ironically, the confusion over the term "adaptive management" may stem from the flexibility inherent in the approach, which has resulted in multiple interpretations of "adaptive management" that fall along a continuum of complexity and a priori design. Adaptive management is not a panacea for the navigation of 'wicked problems' as it does not produce easy answers, and is only appropriate in a subset of natural resource management problems where both uncertainty and controllability are high. Nonetheless, the conceptual underpinnings of adaptive management are simple; there will always be inherent uncertainty and unpredictability in the dynamics and behavior of complex social-ecological systems, but management decisions must still be made, and whenever possible, we should incorporate

  13. Adaptive Management for a Turbulent Future

    USGS Publications Warehouse

    Allen, Craig R.; Fontaine, Joseph J.; Pope, Kevin L.; Garmestani, Ahjond S.

    2011-01-01

    The challenges that face humanity today differ from the past because as the scale of human influence has increased, our biggest challenges have become global in nature, and formerly local problems that could be addressed by shifting populations or switching resources, now aggregate (i.e., "scale up") limiting potential management options. Adaptive management is an approach to natural resource management that emphasizes learning through management based on the philosophy that knowledge is incomplete and much of what we think we know is actually wrong. Adaptive management has explicit structure, including careful elucidation of goals, identification of alternative management objectives and hypotheses of causation, and procedures for the collection of data followed by evaluation and reiteration. It is evident that adaptive management has matured, but it has also reached a crossroads. Practitioners and scientists have developed adaptive management and structured decision making techniques, and mathematicians have developed methods to reduce the uncertainties encountered in resource management, yet there continues to be misapplication of the method and misunderstanding of its purpose. Ironically, the confusion over the term "adaptive management" may stem from the flexibility inherent in the approach, which has resulted in multiple interpretations of "adaptive management" that fall along a continuum of complexity and a priori design. Adaptive management is not a panacea for the navigation of 'wicked problems' as it does not produce easy answers, and is only appropriate in a subset of natural resource management problems where both uncertainty and controllability are high. Nonetheless, the conceptual underpinnings of adaptive management are simple; there will always be inherent uncertainty and unpredictability in the dynamics and behavior of complex social-ecological systems, but management decisions must still be made, and whenever possible, we should incorporate

  14. Trabecular eccentricity and bone adaptation.

    PubMed

    Fox, J C; Keaveny, T M

    2001-09-21

    It is well established that bones functionally adapt by mechanisms that control tissue density, whole bone geometry, and trabecular orientation. In this study, we propose the existence of another such powerful mechanism, namely, trabecular eccentricity, i.e. non-central placement of trabecular bone within a cortical envelope. In the human femoral neck, trabecular eccentricity results in a thicker cortical shell on the inferior than superior aspect. In an overall context of expanding understanding of bone adaptation, the goal of this study was to demonstrate the biomechanical significance of, and provide a mechanistic explanation for, the relationship between trabecular eccentricity and stresses in the human femoral neck. Using composite beam theory, we showed that the biomechanical effects of eccentricity during a habitual loading situation were to increase the stress at the superior aspect of the neck and decrease the stress at the inferior aspect, resulting in an overall protective effect. Further, increasing eccentricity had a stress-reducing effect equivalent to that of increasing cortical thickness or increasing trabecular modulus. We conclude that an asymmetric placement of trabecular bone within a cortical bone envelope represents yet another mechanism by which whole bones can adapt to mechanical demands.

  15. Fine-scale temporal adaptation within a salmonid population: mechanism and consequences.

    PubMed

    Gharrett, Anthony J; Joyce, John; Smoker, William W

    2013-09-01

    We demonstrate a clear example of local adaptation of seasonal timing of spawning and embryo development. The consequence is a population of pink salmon that is segmented into spawning groups that use the same limited habitat. We synthesize published observations with results of new analyses to demonstrate that genetic variation of these traits results in survival differentials related to that variation, and that density-dependent embryo mortality and seasonally variable juvenile mortality are a mechanism of selection. Most examples of local adaptation in natural systems depend on observed correlations between environments and fitness traits, but do not fully demonstrate local adaptation: that the trait is genetically determined, exhibits different fitness in common environments or across different environments, and its variation is mechanistically connected to fitness differences. The geographic or temporal scales of local adaptation often remain obscure. Here, we show that heritable, fine-scale differences of timing of reproductive migration in a pink salmon (Oncorhynchus gorbuscha) resulted in temporal structure that persisted several generations; the differences enable a density-dependent population to pack more spawners into limited spawning habitat, that is, enhance its fitness. A balanced trade-off of survivals results because embryos from early-migrating fish have a lower freshwater survival (harsh early physical conditions and disturbance by late spawners), but emigrant fry from late-migrating fish have lower marine survivals (timing of their vernal emergence into the estuarine environment). Such fine-scale local adaptations increase the genetic portfolio of the populations and may provide a buffer against the impacts of climate change.

  16. Cold adaptation in marine organisms.

    PubMed

    Johnston, I A

    1990-01-30

    Animals from polar seas exhibit numerous so called resistance adaptations that serve to maintain homeostasis at low temperature and prevent lethal freezing injury. Specialization to temperatures at or below 0 degrees C is associated with an inability to survive at temperatures above 3-8 degrees C. Polar fish synthesize various types of glycoproteins or peptides to lower the freezing point of most extracellular fluid compartments in a non-colligative manner. Antifreeze production is seasonal in boreal species and is often initiated by environmental cues other than low temperature, particularly short day lengths. Most of the adaptations that enable intertidal invertebrates to survive freezing are associated with their ability to withstand ariel exposure. Unique adaptations for freezing avoidance include the synthesis of low molecular mass ice-nucleating proteins that control and induce extracellular ice-formation. Marine poikilotherms also exhibit a range of capacity adaptations that increase the rate of some physiological processes so as to partially compensate for the effects of low temperature. However, the rate of embryonic development in a diverse range of marine organisms shows no evidence of temperature compensation. This results in a significant lengthening of the time from fertilization to hatching in polar, relative to temperate, species. Some aspects of the physiology of polar marine species, such as low metabolic and slow growth rates, probably result from a combination of low temperature and other factors such as the highly seasonal nature of food supplies. Although neuromuscular function shows a partial capacity adaptation in Antarctic fish, maximum swimming speeds are lower than for temperate and tropical species, particularly for early stages in the life history. PMID:1969650

  17. Intramolecular Nuclear Flux Densities

    NASA Astrophysics Data System (ADS)

    Barth, I.; Daniel, C.; Gindensperger, E.; Manz, J.; PéRez-Torres, J. F.; Schild, A.; Stemmle, C.; Sulzer, D.; Yang, Y.

    The topic of this survey article has seen a renaissance during the past couple of years. Here we present and extend the results for various phenomena which we have published from 2012-2014, with gratitude to our coauthors. The new phenomena include (a) the first reduced nuclear flux densities in vibrating diatomic molecules or ions which have been deduced from experimental pump-probe spectra; these "experimental" nuclear flux densities reveal several quantum effects including (b) the "quantum accordion", i.e., during the turn from bond stretch to bond compression, the diatomic system never stands still — instead, various parts of it with different bond lengths flow into opposite directions. (c) Wavepacket interferometry has been extended from nuclear densities to flux densities, again revealing new phenomena: For example, (d) a vibrating nuclear wave function with compact initial shape may split into two partial waves which run into opposite directions, thus causing interfering flux densities. (e) Tunneling in symmetric 1-dimensional double-well systems yields maximum values of the associated nuclear flux density just below the potential barrier; this is in marked contrast with negligible values of the nuclear density just below the barrier. (f) Nuclear flux densities of pseudorotating nuclei may induce huge magnetic fields. A common methodologic theme of all topics is the continuity equation which connects the time derivative of the nuclear density to the divergence of the flux density, subject to the proper boundary conditions. (g) Nearly identical nuclear densities with different boundary conditions may be related to entirely different flux densities, e.g., during tunneling in cyclic versus non-cyclic systems. The original continuity equation, density and flux density of all nuclei, or of all nuclear degrees of freedom, may be reduced to the corresponding quantities for just a single nucleus, or just a single degree of freedom.

  18. The genomics of organismal diversification illuminated by adaptive radiations.

    PubMed

    Berner, Daniel; Salzburger, Walter

    2015-09-01

    Adaptive radiation is the rapid and extensive ecological diversification of an organismal lineage to generate both phenotypic disparity (divergence) and similarity (convergence). Demonstrating particularly clear evidence of the power of natural selection, adaptive radiations serve as outstanding systems for studying the mechanisms of evolution. We review how the first wave of genomic investigation across major archetypal adaptive radiations has started to shed light on the molecular basis of adaptive diversification. Notably, these efforts have not yet identified consistent features of genomic architecture that promote diversification. However, access to a pool of ancient