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At least 19 records

ALPS: The Age-Layered Population Structure for Reducing the Problem of Premature Convergence

To reduce the problem of premature convergence we define a new attribute of an individual, its age, and propose the Age-Layered Population Structure (ALPS), in which age is used to restrict competition and breeding between members of the population. ALPS differs from a typical EA by segregating individuals into different age-layers by their age - a measure of how long the genetic material has been in the population - and by regularly replacing all individuals in the bottom layer with randomly generated ones. The introduction of new, randomly generated individuals at regular intervals results in an EA that is never completely converged and is always looking at new parts of the fitness landscape. By using age to restrict competition and breeding search is able to develop promising young individuals without them being dominated by older ones. We demonstrate the effectiveness of the ALPS algorithm on an antenna design problem in which evolution with ALPS produces antennas more than twice as good as does evolution with two other types of EAs. Further analysis shows that the ALPS model does allow the offspring of newly generated individuals to move the population out of mediocre local-optima to better parts of the fitness landscape.

Hornby, Gregory S.↗

Population dynamics of transgenic strain Escherichia coli Z905/pPHL7 in freshwater and saline lake water microcosms with differing microbial community structures

Populations of Escherichia coli Z905/pPHL7, a transgenic microorganism, were heterogenic in the expression of plasmid genes when adapting to the conditions of water microcosms of various mineralization levels and structure of microbial community. This TM has formed two subpopulations (ampicillin-resistant and ampicillin-sensitive) in every microcosm. Irrespective of mineralization level of a microcosm, when E. coli Z905/pPHL7 alone was introduced, the ampicillin-resistant subpopulation prevailed, while introduction of the TM together with indigenous bacteria led to the dominance of the ampicillin-sensitive subpopulation. A high level of lux gene expression maintained longer in the freshwater microcosms than in sterile saline lake water microcosms. A horizontal gene transfer has been revealed between the jointly introduced TM and Micrococcus sp. 9/pSH1 in microcosms with the Lake Shira sterile water. c2005 COSPAR. Published by Elsevier Ltd. All rights reserved.

Ecosystem↗

Impulsive radio discharges near Saturn

Nonthermal radio emissions from the Saturn system were first detected by the Voyager planetary radio astronomy (PRA) experiment on board Voyager 1 in January 1980. Since then emission between 100 kHz and 1 MHz from the planet, termed Saturn kilometric radiation (SKR), has been received almost continuously. A description is presented of eight characteristics which have been fairly well defined by the Voyager 1 encounter. These include a very flat broadband frequency spectrum, a period of approximately 10 h 10 min, a change in the envelope shape of episodes between pre and postencounter, an intensity population structure typical of plural populations, and an episodic structure of a width of approximately 180 deg. It was found that postencounter episodes continue for about three times as long as preencounter ones, and that postencounter bursts are left-circularly polarized at high frequencies. At least one episode shows the onset of high frequency events some time before that of lower frequency ones.

Evans, D. R.↗

Plasmaspheric Plume Turbulence: Signature of an Electrostatic Corotation Convection Shear-Layer Instability

As demonstrated by IMAGE-EUV observations, plasmaspheric drainage plumes are a common feature emanating from the plasmasphere during periods of enhanced convection. Concurrent IMAGE-EUV and LANL-MPA observations reveal that plasmaspheric plumes are not a uniform density structure that extends out to geosynchronous orbit and beyond. Instead, in–situ observations reveal a large spatial-scale structure populated by small-scale density structures suggestive of the presence of a turbulent process. Here, we investigate the occurrence and nature of plasmaspheric drainage plumes as observed by concurrent EUV-MPA observations, as well as explore the possibility that the in–situ observed small-scale density structures are the signature of an instability produced by the sheared velocity found within the plasmaspheric layers separating the corotation of the main plasmasphere from the convection-driven flow generating the plume. Particle-in-cell simulations indicate that the generation of shear-flow driven instabilities is possible under plasmaspheric plasma conditions. The initial results of these simulations indicate that the plasmaspheric instabilities generated are electrostatic in nature, consist with in–situ plume observations.

Mark L Adrian↗

American Alligator Research on the Kennedy Space Center

This slide presentation reviews the research conducted at the Kennedy Space Center on the American Alligator. The objectives of the research were to establish life history baseline at the Kennedy Space Center and at the Merit Island National Wildlife Reserve (MINWR). Some of the factors that were examined are: nesting success, movement patterns, and population structure. Another objective was to determine the overall health of the alligator population, by analyzing blood and tissue chemistry, and urine analysis. A third objective was to compare alligators at KSC/MINWR to the statewide population. Some of the results are shown in charts and graphs.

Lowers, Russell H.↗

Steady-State ALPS for Real-Valued Problems

The two objectives of this paper are to describe a steady-state version of the Age-Layered Population Structure (ALPS) Evolutionary Algorithm (EA) and to compare it against other GAs on real-valued problems. Motivation for this work comes from our previous success in demonstrating that a generational version of ALPS greatly improves search performance on a Genetic Programming problem. In making steady-state ALPS some modifications were made to the method for calculating age and the method for moving individuals up layers. To demonstrate that ALPS works well on real-valued problems we compare it against CMA-ES and Differential Evolution (DE) on five challenging, real-valued functions and on one real-world problem. While CMA-ES and DE outperform ALPS on the two unimodal test functions, ALPS is much better on the three multimodal test problems and on the real-world problem. Further examination shows that, unlike the other GAs, ALPS maintains a genotypically diverse population throughout the entire search process. These findings strongly suggest that the ALPS paradigm is better able to avoid premature convergence then the other GAs.

Hornby, Gregory S.↗

Studies of extreme-ultraviolet emission from Rydberg series of H2 by electron impact

Calibrated laboratory measurements of H2 bands in the 70-170-nm region using crossed neutral and electron beams have allowed the estimation of the cross sections for H2 bands which account for virtually all of the H2 EUV band emission. It is found, in general, that the internal population structure of the directly excited EUV band systems, B-X, B'-X, C-X, D-X, and D'-X, is modeled accurately by theoretical collision strengths. Moreover, the analysis of the measurements indicates that the same constant factor at a given electron energy at or above 100 eV, relates the theoretical oscillator strengths of the systems to the cross sections to within about 15 percent. The higher-Rydberg series band systems measured have been found to be a significant factor in the analysis of EUV planetary spectra. The prominence of the E,F-B contribution at low electron impact energies is also of astrophysical importance and further work is recommended to better define the excitation parameters of the E,F system.

Ajello, J. M.↗

Hydrogen Biogeochemistry in Anaerobic and Photosynthetic Ecosystems

The simple biochemistry of molecular hydrogen is central to a large number of microbial processes, affecting the interaction of organisms with each other and with the environment. In anoxic sediments, a great majority of microbial redox processes involve hydrogen as a reactant, product or potential by-product. Accordingly, the energetics (thermodynamics) of each of these processes is affected by variations in local H2 concentrations. It has long been established that this effect is important in governing microbe-microbe interactions and there are multiple demonstrations that "interspecies hydrogen transfer" can alter the products of, inhibit/stimulate, or even reverse microbial metabolic reactions. In anoxic sediments, H2 concentrations themselves are thought to be controlled by the thermodynamics of the predominant H2-consuming microbial process. In sediments from Cape Lookout Bight, this relationship quantitatively describes the co-variation of H2 concentrations with temperature (for methanogens and sulfate reducers) and with sulfate concentration (for sulfate reducers). The quantitative aspect is import= for two reasons: 1) it permits the modeling of H2-sensitive biogeochemistry, such as anaerobic methane oxidation or pathways of organic matter remineralization, as a function of environmental controls; 2) for such a relationship to be observed requires that intracellular biochemistry and bioenergetics are being directly expressed in a component of the extracellular medium. H2 could therefore be utilized a non-invasive probe of cellular energetic function in intact microbial ecosystems. Based on the latter principle we have measured down-core profiles of H2 and other relevant physico-chemical parameters in order to calculate the metabolic energy yields (DG) that support microbial metabolism in Cape Lookout Bight sediments. Methanogens in this system apparently function with energy yields significantly smaller than the minimum requirements suggested by pure culture studies. Our recent work has extended the study of hydrogen to cyanobacterial mat communities. The large amounts of reducing power generated during photosynthetic activity carry the potential to contribute a swamping term to the H2 economy of the anaerobic microbial populations within the mat - and thereby to alter the population structure and biogeochemical function of the mat as a whole. In hypersaline microbial mats, we observe a distinct diel cycle in H2 production and a substantial corresponding flux. On an early Earth dominated by microbial mats, this transmission of photosynthetic reducing power may have carried important implications for both biospheric and atmospheric evolution.

Hoehler, Tori M.↗

The Value of SysML Modeling During System Operations: A Case Study

System models are often touted as engineering tools that promote better understanding of systems, but these models are typically created during system design. The Ground Data System (GDS) team for the Dawn spacecraft took on a case study to see if benefits could be achieved by starting a model of a system already in operations. This paper focuses on the four steps the team undertook in modeling the Dawn GDS: defining a model structure, populating model elements, verifying that the model represented reality, and using the model to answer system-level questions and simplify day-to-day tasks. Throughout this paper the team outlines our thought processes and the system insights the model provided.

Dutenhoffer, Chelsea↗

Shortsighted Evolution Constrains the Efficacy of Long-Term Bet Hedging

To survive unpredictable environmental change, many organisms adopt bet-hedging strategies that are initially costly but provide a long-term fitness benefit. The temporal extent of these deferred fitness benefits determines whether bet-hedging organisms can survive long enough to realize them. In this article, we examine a model of microbial bet hedging in which there are two paths to extinction: unpredictable environmental change and demographic stochasticity. In temporally correlated environments, these drivers of extinction select for different switching strategies. Rapid phenotype switching ensures survival in the face of unpredictable environmental change, while slower-switching organisms become extinct. However, when both switching strategies are present in the same population, then demographic stochasticity—enforced by a limited population size—leads to extinction of the faster-switching organism. As a result, we find a novel form of evolutionary suicide whereby selection in a fluctuating environment can favor bet-hedging strategies that ultimately increase the risk of extinction. Population structures with multiple subpopulations and dispersal can reduce the risk of extinction from unpredictable environmental change and shift the balance so as to facilitate the evolution of slower-switching organisms.

Bet hedging↗

Highly ordered vertical structure of Synechococcus populations within the one-millimeter-thick photic zone of a hot spring cyanobacterial mat

A variety of contemporary techniques were used to investigate the vertical distribution of thermophilic unicellular cyanobacteria, Synechococcus spp., and their activity within the upper 1-mm-thick photic zone of the mat community found in an alkaline siliceous hot spring in Yellowstone National Park in Wyoming. Detailed measurements were made over a diel cycle at a 61 degrees C site. Net oxygenic photosynthesis measured with oxygen microelectrodes was highest within the uppermost 100- to 200-microm-thick layer until midmorning, but as the day progressed, the peak of net activity shifted to deeper layers, stabilizing at a depth of 300 microm from midday throughout the afternoon. Examination of vertical thin sections by bright-field and autofluorescence microscopy revealed the existence of different populations of Synechococcus which form discrete bands at different vertical positions. Denaturing gradient gel electrophoresis analysis of PCR-amplified 16S rRNA gene segments from horizontal cryosections obtained at 100-microm-thick vertical intervals also suggested vertical stratification of cyanobacterial, green sulfur bacterium-like, and green nonsulfur bacterium-like populations. There was no evidence of diel migration. However, image analysis of vertical thin sections revealed the presence of a narrow band of rod-shaped Synechococcus cells in which the cells assumed an upright position. These upright cells, located 400 to 800 microm below the surface, were observed only in mat samples obtained around noon. In mat samples obtained at other time points, the cells were randomly oriented throughout the mat. These combined observations reveal the existence of a highly ordered structure within the very thin photic zone of this hot spring microbial mat, consisting of morphologically similar Synechococcus populations that are likely to be differentially adapted, some co-occurring with green sulfur bacterium-like populations, and all overlying green nonsulfur bacterium-like populations.

Non-NASA Center↗

Complex Spatial Structure in a Population of Didymopanax pittieri, A Tree of Wind-Exposed Lower Montane Rain Forest

Didymopanax pittieri is a common shade-intolerant tree colonizing treefall gaps in the elfin forests on windswept ridgecrests in the lower montane rain forests of the Cordillera de Tilarain, Costa Rica. All D. pittieri taller than > 0.5 m in a 5.2-ha elfin forested portion of a gridded study watershed in the Monteverde Cloud Forest Preserve were located, mapped, and measured. This local population of D. pittieri is spatially inhomogeneous, in that density increases with increasing wind exposure; D. pittieri are more abundant near ridge crests than lower on windward slopes. The important and ubiquitous phenomenon of spatial inhomogeneity in population density is addressed and corrected for in spatial analyses by the application of the inhomogeneous version of Ripley's K. The spatial patterns of four size classes of D. pittieri (<5 cm dbh, 5-10 cm dbh, 10-20 cm dbh, and> 20 cm dbh) were investigated. Within the large-scale trend in density driven by wind exposure, D. pittieri saplings are clumped at the scale of treefall gaps and at the scale of patches of aggregated gaps. D. pittieri 5-10 cm dbh are randomly distributed, apparently due to competitive thinning of sapling clumps during the early stages of gap-phase regeneration. D. pittieri larger than 10 cm dbh are overdispersed at a scale larger than that of patches of gaps. Natural disturbance can influence the distribution of shade intolerant tree populations at several different spatial scales, and can have discordant effects at different life history stages.

Lawton, Robert M.↗

Collisional Time Scales in the Kuiper Disk and Their Implications

We explore the rate of collisions among bodies in the present-day Kuiper Disk as a function of the total mass and population size structure of the disk. We find that collisional evolution is an important evolutionary process in the disk as a whole, and indeed, that it is likely the dominant evolutionary process beyond approx. 42 AU, where dynamical instability time scales exceed the age of the solar system. Two key findings we report from this modeling work are: that unless the disk's population structure is sharply truncated for radii smaller than approx. 1-2 km, collisions between comets and smaller debris are occurring so frequently in the disk, and with high enough velocities, that the small body (i.e., KM-class object) population in the disk has probably developed into a collisional cascade, thereby implying that the Kuiper Disk comets may not all be primordial, and that the rate of collisions of smaller bodies with larger 100 less R less 400 km objects (like 1992QB(sub 1) and its cohorts) is so low that there appears to be a dilemma in explaining how QB(sub 1)s could have grown by binary accretion in the disk as we know it. Given these findings, it appears that either the present-day paradigm for the formation of Kuiper Disk is failed in some fundamental respect, or that the present-day disk is no longer representative of the ancient structure from which it evolved. This in turn suggests the intriguing possibility that the present-day Kuiper Disk evolved through a more erosional stage reminiscent of the disks around the stars Beta Pictorus, alpha PsA, and alpha Lyr.

Stern, S. Alan↗

Atmospheric Energy Deposition Modeling and Inference for Varied Meteoroid Structures

Asteroids populations are highly diverse, ranging from coherent monoliths to loosely-bound rubble piles with a broad range of material and compositional properties. These different structures and properties could significantly affect how an asteroid breaks up and deposits energy in the atmosphere, and how much ground damage may occur from resulting blast waves. We have previously developed a fragment-cloud model (FCM) for assessing the atmospheric breakup and energy deposition of asteroids striking Earth. The approach represents ranges of breakup characteristics by combining progressive fragmentation with releases of variable fractions of debris and larger discrete fragments. In this work, we have extended the FCM to also represent asteroids with varied initial structures, such as rubble piles or fractured bodies. We have used the extended FCM to model the Chelyabinsk, Benesov, Kosice, and Tagish Lake meteors, and have obtained excellent matches to energy deposition profiles derived from their light curves. These matches provide validation for the FCM approach, help guide further model refinements, and enable inferences about pre-entry structure and breakup behavior. Results highlight differences in the amount of small debris vs. discrete fragments in matching the various flare characteristics of each meteor. The Chelyabinsk flares were best represented using relatively high debris fractions, while Kosice and Benesov cases were more notably driven by their discrete fragmentation characteristics, perhaps indicating more cohesive initial structures. Tagish Lake exhibited a combination of these characteristics, with lower-debris fragmentation at high altitudes followed by sudden disintegration into small debris in the lower flares. Results from all cases also suggest that lower ablation coefficients and debris spread rates may be more appropriate for the way in which debris clouds are represented in FCM, offering an avenue for future model refinement.

Deposition↗

Mapping Past, Present, and Future Climatic Suitability for Invasive Aedes Aegypti and Aedes Albopictus in the United States: A Process-Based Modeling Approach Using CMIP5 Downscaled Climate Scenarios

The ongoing spread of the mosquitoes, Aedes aegypti and Aedes albopictus, in the continental United States leaves new areas at risk for local transmission of dengue, chikungunya, and Zika viruses. All three viruses have caused major disease outbreaks in the Americas with infected travelers returning regularly to the U.S. The expanding range of these mosquitoes raises questions about whether recent spread has been enabled by climate change or other anthropogenic influences. In this analysis, we used downscaled climate scenarios from the NASA Earth Exchange Global Daily Downscaled Projections (NEX GDDP) dataset to model Ae. aegypti and Ae. albopictus population growth rates across the United States. We used a stage-structured matrix population model to understand past and present climatic suitability for these vectors, and to project future suitability under CMIP5 climate change scenarios. Our results indicate that much of the southern U.S. is suitable for both Ae. aegypti and Ae. albopictus year-round. In addition, a large proportion of the U.S. is seasonally suitable for mosquito population growth, creating the potential for periodic incursions into new areas. Changes in climatic suitability in recent decades for Ae. aegypti and Ae. albopictus have occurred already in many regions of the U.S., and model projections of future climate suggest that climate change will continue to reshape the range of Ae. aegypti and Ae. albopictus in the U.S., and potentially the risk of the viruses they transmit.

process-based modeling↗