Spatial variation in the bacterial and denitrifying bacterial community in a biofilter treating subsurface agricultural drainage.

PubMed

Andrus, J Malia; Porter, Matthew D; Rodríguez, Luis F; Kuehlhorn, Timothy; Cooke, Richard A C; Zhang, Yuanhui; Kent, Angela D; Zilles, Julie L

2014-02-01

Denitrifying biofilters can remove agricultural nitrates from subsurface drainage, reducing nitrate pollution that contributes to coastal hypoxic zones. The performance and reliability of natural and engineered systems dependent upon microbially mediated processes, such as the denitrifying biofilters, can be affected by the spatial structure of their microbial communities. Furthermore, our understanding of the relationship between microbial community composition and function is influenced by the spatial distribution of samples.In this study we characterized the spatial structure of bacterial communities in a denitrifying biofilter in central Illinois. Bacterial communities were assessed using automated ribosomal intergenic spacer analysis for bacteria and terminal restriction fragment length polymorphism of nosZ for denitrifying bacteria.Non-metric multidimensional scaling and analysis of similarity (ANOSIM) analyses indicated that bacteria showed statistically significant spatial structure by depth and transect,while denitrifying bacteria did not exhibit significant spatial structure. For determination of spatial patterns, we developed a package of automated functions for the R statistical environment that allows directional analysis of microbial community composition data using either ANOSIM or Mantel statistics.Applying this package to the biofilter data, the flow path correlation range for the bacterial community was 6.4 m at the shallower, periodically in undated depth and 10.7 m at the deeper, continually submerged depth. These spatial structures suggest a strong influence of hydrology on the microbial community composition in these denitrifying biofilters. Understanding such spatial structure can also guide optimal sample collection strategies for microbial community analyses.

Data-Driven Hierarchical Structure Kernel for Multiscale Part-Based Object Recognition

PubMed Central

Wang, Botao; Xiong, Hongkai; Jiang, Xiaoqian; Zheng, Yuan F.

2017-01-01

Detecting generic object categories in images and videos are a fundamental issue in computer vision. However, it faces the challenges from inter and intraclass diversity, as well as distortions caused by viewpoints, poses, deformations, and so on. To solve object variations, this paper constructs a structure kernel and proposes a multiscale part-based model incorporating the discriminative power of kernels. The structure kernel would measure the resemblance of part-based objects in three aspects: 1) the global similarity term to measure the resemblance of the global visual appearance of relevant objects; 2) the part similarity term to measure the resemblance of the visual appearance of distinctive parts; and 3) the spatial similarity term to measure the resemblance of the spatial layout of parts. In essence, the deformation of parts in the structure kernel is penalized in a multiscale space with respect to horizontal displacement, vertical displacement, and scale difference. Part similarities are combined with different weights, which are optimized efficiently to maximize the intraclass similarities and minimize the interclass similarities by the normalized stochastic gradient ascent algorithm. In addition, the parameters of the structure kernel are learned during the training process with regard to the distribution of the data in a more discriminative way. With flexible part sizes on scale and displacement, it can be more robust to the intraclass variations, poses, and viewpoints. Theoretical analysis and experimental evaluations demonstrate that the proposed multiscale part-based representation model with structure kernel exhibits accurate and robust performance, and outperforms state-of-the-art object classification approaches. PMID:24808345

Comparison of Multivariate Spatial Dependence Structures of DPIL and Flowmeter Hydraulic Conductivity Data Sets at the MADE Site

NASA Astrophysics Data System (ADS)

Xiao, B.; Haslauer, C. P.; Bohling, G. C.; Bárdossy, A.

2017-12-01

The spatial arrangement of hydraulic conductivity (K) determines water flow and solute transport behaviour in groundwater systems. This presentation demonstrates three advances over commonly used geostatistical methods by integrating measurements from novel measurement techniques and novel multivariate non-Gaussian dependence models: The spatial dependence structure of K was analysed using both data sets of K. Previously encountered similarities were confirmed in low-dimensional dependence. These similarities become less stringent and deviate more from symmetric Gaussian dependence in dimensions larger than two. Measurements of small and large K values are more uncertain than medium K values due to decreased sensitivity of the measurement devices at both ends of the K scale. Nevertheless, these measurements contain useful information that we include in the estimation of the marginal distribution and the spatial dependence structure as ``censored measurements'' that are estimated jointly without the common assumption of independence. The spatial dependence structure of the two data sets and their cross-covariances are used to infer the spatial dependence and the amount of the bias between the two data sets. By doing so, one spatial model for K is constructed that is used for simulation and that reflects the characteristics of both measurement techniques. The concept of the presented methodology is to use all available information for the estimation of a stochastic model of the primary parameter (K) at the highly heterogeneous Macrodispersion Experiment (MADE) site. The primary parameter has been measured by two independent measurement techniques whose sets of locations do not overlap. This site offers the unique opportunity of large quantities of measurements of K (31123 direct push injection logging based measurements and 2611 flowmeter based measurements). This improved dependence structure of K will be included into the estimated non-Gaussian dependence models and is expected to reproduce observed solute concentrations at the site better than existing dependence models of K.

Spatial embedding of structural similarity in the cerebral cortex

PubMed Central

Song, H. Francis; Kennedy, Henry; Wang, Xiao-Jing

2014-01-01

Recent anatomical tracing studies have yielded substantial amounts of data on the areal connectivity underlying distributed processing in cortex, yet the fundamental principles that govern the large-scale organization of cortex remain unknown. Here we show that functional similarity between areas as defined by the pattern of shared inputs or outputs is a key to understanding the areal network of cortex. In particular, we report a systematic relation in the monkey, human, and mouse cortex between the occurrence of connections from one area to another and their similarity distance. This characteristic relation is rooted in the wiring distance dependence of connections in the brain. We introduce a weighted, spatially embedded random network model that robustly gives rise to this structure, as well as many other spatial and topological properties observed in cortex. These include features that were not accounted for in any previous model, such as the wide range of interareal connection weights. Connections in the model emerge from an underlying distribution of spatially embedded axons, thereby integrating the two scales of cortical connectivity—individual axons and interareal pathways—into a common geometric framework. These results provide insights into the origin of large-scale connectivity in cortex and have important implications for theories of cortical organization. PMID:25368200

A discrepancy within primate spatial vision and its bearing on the definition of edge detection processes in machine vision

NASA Technical Reports Server (NTRS)

Jobson, Daniel J.

1990-01-01

The visual perception of form information is considered to be based on the functioning of simple and complex neurons in the primate striate cortex. However, a review of the physiological data on these brain cells cannot be harmonized with either the perceptual spatial frequency performance of primates or the performance which is necessary for form perception in humans. This discrepancy together with recent interest in cortical-like and perceptual-like processing in image coding and machine vision prompted a series of image processing experiments intended to provide some definition of the selection of image operators. The experiments were aimed at determining operators which could be used to detect edges in a computational manner consistent with the visual perception of structure in images. Fundamental issues were the selection of size (peak spatial frequency) and circular versus oriented operators (or some combination). In a previous study, circular difference-of-Gaussian (DOG) operators, with peak spatial frequency responses at about 11 and 33 cyc/deg were found to capture the primary structural information in images. Here larger scale circular DOG operators were explored and led to severe loss of image structure and introduced spatial dislocations (due to blur) in structure which is not consistent with visual perception. Orientation sensitive operators (akin to one class of simple cortical neurons) introduced ambiguities of edge extent regardless of the scale of the operator. For machine vision schemes which are functionally similar to natural vision form perception, two circularly symmetric very high spatial frequency channels appear to be necessary and sufficient for a wide range of natural images. Such a machine vision scheme is most similar to the physiological performance of the primate lateral geniculate nucleus rather than the striate cortex.

A graph-based approach for the retrieval of multi-modality medical images.

PubMed

Kumar, Ashnil; Kim, Jinman; Wen, Lingfeng; Fulham, Michael; Feng, Dagan

2014-02-01

In this paper, we address the retrieval of multi-modality medical volumes, which consist of two different imaging modalities, acquired sequentially, from the same scanner. One such example, positron emission tomography and computed tomography (PET-CT), provides physicians with complementary functional and anatomical features as well as spatial relationships and has led to improved cancer diagnosis, localisation, and staging. The challenge of multi-modality volume retrieval for cancer patients lies in representing the complementary geometric and topologic attributes between tumours and organs. These attributes and relationships, which are used for tumour staging and classification, can be formulated as a graph. It has been demonstrated that graph-based methods have high accuracy for retrieval by spatial similarity. However, naïvely representing all relationships on a complete graph obscures the structure of the tumour-anatomy relationships. We propose a new graph structure derived from complete graphs that structurally constrains the edges connected to tumour vertices based upon the spatial proximity of tumours and organs. This enables retrieval on the basis of tumour localisation. We also present a similarity matching algorithm that accounts for different feature sets for graph elements from different imaging modalities. Our method emphasises the relationships between a tumour and related organs, while still modelling patient-specific anatomical variations. Constraining tumours to related anatomical structures improves the discrimination potential of graphs, making it easier to retrieve similar images based on tumour location. We evaluated our retrieval methodology on a dataset of clinical PET-CT volumes. Our results showed that our method enabled the retrieval of multi-modality images using spatial features. Our graph-based retrieval algorithm achieved a higher precision than several other retrieval techniques: gray-level histograms as well as state-of-the-art methods such as visual words using the scale- invariant feature transform (SIFT) and relational matrices representing the spatial arrangements of objects. Copyright © 2013 Elsevier B.V. All rights reserved.

HESS Opinions: Functional units: a novel framework to explore the link between spatial organization and hydrological functioning of intermediate scale catchments

NASA Astrophysics Data System (ADS)

Zehe, E.; Ehret, U.; Pfister, L.; Blume, T.; Schröder, B.; Westhoff, M.; Jackisch, C.; Schymanski, S. J.; Weiler, M.; Schulz, K.; Allroggen, N.; Tronicke, J.; Dietrich, P.; Scherer, U.; Eccard, J.; Wulfmeyer, V.; Kleidon, A.

2014-03-01

This opinion paper proposes a novel framework for exploring how spatial organization alongside with spatial heterogeneity controls functioning of intermediate scale catchments of organized complexity. Key idea is that spatial organization in landscapes implies that functioning of intermediate scale catchments is controlled by a hierarchy of functional units: hillslope scale lead topologies and embedded elementary functional units (EFUs). We argue that similar soils and vegetation communities and thus also soil structures "co-developed" within EFUs in an adaptive, self-organizing manner as they have been exposed to similar flows of energy, water and nutrients from the past to the present. Class members of the same EFU (class) are thus deemed to belong to the same ensemble with respect to controls of the energy balance and related vertical flows of capillary bounded soil water and heat. Class members of superordinate lead topologies are characterized by the same spatially organized arrangement of EFUs along the gradient driving lateral flows of free water as well as a similar surface and bedrock topography. We hence postulate that they belong to the same ensemble with respect to controls on rainfall runoff transformation and related vertical and lateral fluxes of free water. We expect class members of these functional units to have a distinct way how their architecture controls the interplay of state dynamics and integral flows, which is typical for all members of one class but dissimilar among the classes. This implies that we might infer on the typical dynamic behavior of the most important classes of EFU and lead topologies in a catchment, by thoroughly characterizing a few members of each class. A major asset of the proposed framework, which steps beyond the concept of hydrological response units, is that it can be tested experimentally. In this respect, we reflect on suitable strategies based on stratified observations drawing from process hydrology, soil physics, geophysics, ecology and remote sensing which are currently conducted in replicates of candidate functional units in the Attert basin (Luxembourg), to search for typical and similar functional and structural characteristics. A second asset of this framework is that it blueprints a way towards a structurally more adequate model concept for water and energy cycles in intermediate scale catchments, which balances necessary complexity with falsifiability. This is because EFU and lead topologies are deemed to mark a hierarchy of "scale breaks" where simplicity with respect to the energy balance and stream flow generation emerges from spatially organized process-structure interactions. This offers the opportunity for simplified descriptions of these processes that are nevertheless physically and thermodynamically consistent. In this respect we reflect on a candidate model structure that (a) may accommodate distributed observations of states and especially terrestrial controls on driving gradients to constrain the space of feasible model structures and (b) allows testing the possible added value of organizing principles to understand the role of spatial organization from an optimality perspective.

THE EVOLUTION OF RESTRAINT IN BACTERIAL BIOFILMS UNDER NONTRANSITIVE COMPETITION

PubMed Central

Prado, Federico; Kerr, Benjamin

2009-01-01

Theoretical and empirical evidence indicates that competing species can coexist if dispersal, migration, and competitive interactions occur over relatively small spatial scales. In particular, spatial structure appears to be critical to certain communities with nontransitive competition. A typical nontransitive system involves three competing species that satisfy a relationship similar to the children’s game of rock–paper–scissors. Although the ecological dynamics of nontransitive systems in spatially structured communities have received some attention, fewer studies have incorporated evolutionary change. Here we investigate evolution within toxic bacterial biofilms using an agent-based simulation that represents a nontransitive community containing three populations of Escherichia coli. In structured, nontransitive communities, strains evolve that do not maximize their competitive ability: They do not reduce their probability of death to a minimum or increase their toxicity to a maximum. That is, types evolve that exercise restraint. We show that nontransitivity and spatial structure (in the form of localized interactions) are both necessary for the evolution of restraint in these biofilms. PMID:18039324

The evolution of restraint in bacterial biofilms under nontransitive competition.

PubMed

Prado, Federico; Kerr, Benjamin

2008-03-01

Theoretical and empirical evidence indicates that competing species can coexist if dispersal, migration, and competitive interactions occur over relatively small spatial scales. In particular, spatial structure appears to be critical to certain communities with nontransitive competition. A typical nontransitive system involves three competing species that satisfy a relationship similar to the children's game of rock-paper-scissors. Although the ecological dynamics of nontransitive systems in spatially structured communities have received some attention, fewer studies have incorporated evolutionary change. Here we investigate evolution within toxic bacterial biofilms using an agent-based simulation that represents a nontransitive community containing three populations of Escherichia coli. In structured, nontransitive communities, strains evolve that do not maximize their competitive ability: They do not reduce their probability of death to a minimum or increase their toxicity to a maximum. That is, types evolve that exercise restraint. We show that nontransitivity and spatial structure (in the form of localized interactions) are both necessary for the evolution of restraint in these biofilms.

The Use of Carcasses for the Analysis of Cetacean Population Genetic Structure: A Comparative Study in Two Dolphin Species

PubMed Central

Bilgmann, Kerstin; Möller, Luciana M.; Harcourt, Robert G.; Kemper, Catherine M.; Beheregaray, Luciano B.

2011-01-01

Advances in molecular techniques have enabled the study of genetic diversity and population structure in many different contexts. Studies that assess the genetic structure of cetacean populations often use biopsy samples from free-ranging individuals and tissue samples from stranded animals or individuals that became entangled in fishery or aquaculture equipment. This leads to the question of how representative the location of a stranded or entangled animal is with respect to its natural range, and whether similar results would be obtained when comparing carcass samples with samples from free-ranging individuals in studies of population structure. Here we use tissue samples from carcasses of dolphins that stranded or died as a result of bycatch in South Australia to investigate spatial population structure in two species: coastal bottlenose (Tursiops sp.) and short-beaked common dolphins (Delphinus delphis). We compare these results with those previously obtained from biopsy sampled free-ranging dolphins in the same area to test whether carcass samples yield similar patterns of genetic variability and population structure. Data from dolphin carcasses were gathered using seven microsatellite markers and a fragment of the mitochondrial DNA control region. Analyses based on carcass samples alone failed to detect genetic structure in Tursiops sp., a species previously shown to exhibit restricted dispersal and moderate genetic differentiation across a small spatial scale in this region. However, genetic structure was correctly inferred in D. delphis, a species previously shown to have reduced genetic structure over a similar geographic area. We propose that in the absence of corroborating data, and when population structure is assessed over relatively small spatial scales, the sole use of carcasses may lead to an underestimate of genetic differentiation. This can lead to a failure in identifying management units for conservation. Therefore, this risk should be carefully assessed when planning population genetic studies of cetaceans. PMID:21655285

Representing spatial structure through maps and language: Lord of the Rings encodes the spatial structure of middle Earth.

PubMed

Louwerse, Max M; Benesh, Nick

2012-01-01

Spatial mental representations can be derived from linguistic and non-linguistic sources of information. This study tested whether these representations could be formed from statistical linguistic frequencies of city names, and to what extent participants differed in their performance when they estimated spatial locations from language or maps. In a computational linguistic study, we demonstrated that co-occurrences of cities in Tolkien's Lord of the Rings trilogy and The Hobbit predicted the authentic longitude and latitude of those cities in Middle Earth. In a human study, we showed that human spatial estimates of the location of cities were very similar regardless of whether participants read Tolkien's texts or memorized a map of Middle Earth. However, text-based location estimates obtained from statistical linguistic frequencies better predicted the human text-based estimates than the human map-based estimates. These findings suggest that language encodes spatial structure of cities, and that human cognitive map representations can come from implicit statistical linguistic patterns, from explicit non-linguistic perceptual information, or from both. Copyright © 2012 Cognitive Science Society, Inc.

Influence of the initial parameters of the magnetic field and plasma on the spatial structure of the electric current and electron density in current sheets formed in helium

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ostrovskaya, G. V., E-mail: galya-ostr@mail.ru; Markov, V. S.; Frank, A. G., E-mail: annfrank@fpl.gpi.ru

The influence of the initial parameters of the magnetic field and plasma on the spatial structure of the electric current and electron density in current sheets formed in helium plasma in 2D and 3D magnetic configurations with X-type singular lines is studied by the methods of holographic interferometry and magnetic measurements. Significant differences in the structures of plasma and current sheets formed at close parameters of the initial plasma and similar configurations of the initial magnetic fields are revealed.

Mapping soil landscape as spatial continua: The Neural Network Approach

NASA Astrophysics Data System (ADS)

Zhu, A.-Xing

2000-03-01

A neural network approach was developed to populate a soil similarity model that was designed to represent soil landscape as spatial continua for hydroecological modeling at watersheds of mesoscale size. The approach employs multilayer feed forward neural networks. The input to the network was data on a set of soil formative environmental factors; the output from the network was a set of similarity values to a set of prescribed soil classes. The network was trained using a conjugate gradient algorithm in combination with a simulated annealing technique to learn the relationships between a set of prescribed soils and their environmental factors. Once trained, the network was used to compute for every location in an area the similarity values of the soil to the set of prescribed soil classes. The similarity values were then used to produce detailed soil spatial information. The approach also included a Geographic Information System procedure for selecting representative training and testing samples and a process of determining the network internal structure. The approach was applied to soil mapping in a watershed, the Lubrecht Experimental Forest, in western Montana. The case study showed that the soil spatial information derived using the neural network approach reveals much greater spatial detail and has a higher quality than that derived from the conventional soil map. Implications of this detailed soil spatial information for hydroecological modeling at the watershed scale are also discussed.

Market structure in U.S. southern pine roundwood

Treesearch

Matthew F. Bingham; Jeffrey P. Prestemon; Douglas J. MacNair; Robert C. Abt

2003-01-01

Time series of commodity prices from multiple locations can behave as if responding to forces of spatial arbitrage. cvcn while such prices may instead be responding similarly to common factors aside from spatial arbitrage. Hence, while the Law of One Price may hold as a statistical concept, its acceptance is not sufficient to conclude market integration. We tested...

Significant demographic and fine-scale genetic structure in expanding and senescing populations of the terrestrial orchid Cymbidium goeringii (Orchidaceae).

PubMed

Chung, Mi Yoon; Nason, John D; Chung, Myong Gi

2011-12-01

Fine-scale genetic structure (FSGS) in plants is influenced by variation in spatial and temporal demographic processes. To determine how demographic structure and FSGS change with stages of population succession, we studied replicate expanding and senescing populations of the Asian terrestrial orchid Cymbidium goeringii. We used spatial autocorrelation methods (O-ring and kinship statistics) to quantify spatial demographic structure and FSGS in two expanding and two senescing populations, also measuring genetic diversity and inbreeding in each. All populations exhibited significant aggregation of individuals and FSGS at short spatial scales. In expanding populations, this finding was associated with high recruitment rates, suggesting restricted seed dispersal. In senescing populations, recruitment was minimal, suggesting alternative mechanisms of aggregation, perhaps including spatial associations with mycorrhizal fungi. All populations had significant evidence of genetic bottlenecks, and inbreeding levels were consistently high. Our results indicate that different successional stages can generate similar patterns of spatial demographic and genetic structure, but as a consequence of different processes. These results contrast with the only other study of senescence effects on population genetic structure in an herbaceous perennial, which found little to no FSGS in senescing populations. With the exception of populations subject to mass collection by orchid sellers, significant FSGS is characteristic of the 16 terrestrial orchid species examined to date. From a conservation perspective, this result suggests that inference of orchid population history will benefit from analyses of both FSGS and demographic structure in combination with other ecological field data.

The “unreasonable effectiveness” of stratigraphic and geomorphic experiments

NASA Astrophysics Data System (ADS)

Paola, Chris; Straub, Kyle; Mohrig, David; Reinhardt, Liam

2009-12-01

The growth of quantitative analysis and prediction in Earth-surface science has been accompanied by growth in experimental stratigraphy and geomorphology. Experimenters have grown increasingly bold in targeting landscape elements from channel reaches up to the entire erosional networks and depositional basins, often using very small facilities. The experiments produce spatial structure and kinematics that, although imperfect, compare well with natural systems despite differences of spatial scale, time scale, material properties, and number of active processes. Experiments have been particularly useful in studying a wide range of forms of self-organized (autogenic) complexity that occur in morphodynamic systems. Autogenic dynamics creates much of the spatial structure we see in the landscape and in preserved strata, and is strongly associated with sediment storage and release. The observed consistency between experimental and field systems despite large differences in governing dimensionless numbers is what we mean by "unreasonable effectiveness". We suggest that unreasonable experimental effectiveness arises from natural scale independence. We generalize existing ideas to relate internal similarity, in which a small part of a system is similar to the larger system, to external similarity, in which a small copy of a system is similar to the larger system. We propose that internal similarity implies external similarity, though not the converse. The external similarity of landscape experiments to natural landscapes suggests that natural scale independence may be even more characteristic of morphodynamics than it is of better studied cases such as turbulence. We urge a shift in emphasis in experimental stratigraphy and geomorphology away from classical dynamical scaling and towards a quantitative understanding of the origins and limits of scale independence. Other research areas with strong growth potential in experimental surface dynamics include physical-biotic interactions, cohesive effects, stochastic processes, the interplay of structural and geomorphic self-organization, extraction of quantitative process information from landscape and stratigraphic records, and closer interaction between experimentation and theory.

Chromosome organizaton in simple and complex unicellular organisms.

PubMed

O'Sullivan, Justin M

2011-01-01

The genomes of unicellular organisms form complex 3-dimensional structures. This spatial organization is hypothesized to have a significant role in genomic function. Spatial organization is not limited solely to the three-dimensional folding of the chromosome(s) in genomes but also includes genome positioning, and the folding and compartmentalization of any additional genetic material (e.g. episomes) present within complex genomes. In this comment, I will highlight similarities in the spatial organization of eukaryotic and prokaryotic unicellular genomes.

Rotation is visualisation, 3D is 2D: using a novel measure to investigate the genetics of spatial ability

PubMed Central

Shakeshaft, Nicholas G.; Rimfeld, Kaili; Schofield, Kerry L.; Selzam, Saskia; Malanchini, Margherita; Rodic, Maja; Kovas, Yulia; Plomin, Robert

2016-01-01

Spatial abilities–defined broadly as the capacity to manipulate mental representations of objects and the relations between them–have been studied widely, but with little agreement reached concerning their nature or structure. Two major putative spatial abilities are “mental rotation” (rotating mental models) and “visualisation” (complex manipulations, such as identifying objects from incomplete information), but inconsistent findings have been presented regarding their relationship to one another. Similarly inconsistent findings have been reported for the relationship between two- and three-dimensional stimuli. Behavioural genetic methods offer a largely untapped means to investigate such relationships. 1,265 twin pairs from the Twins Early Development Study completed the novel “Bricks” test battery, designed to tap these abilities in isolation. The results suggest substantial genetic influence unique to spatial ability as a whole, but indicate that dissociations between the more specific constructs (rotation and visualisation, in 2D and 3D) disappear when tested under identical conditions: they are highly correlated phenotypically, perfectly correlated genetically (indicating that the same genetic influences underpin performance), and are related similarly to other abilities. This has important implications for the structure of spatial ability, suggesting that the proliferation of apparent sub-domains may sometimes reflect idiosyncratic tasks rather than meaningful dissociations. PMID:27476554

Insights from Modelling the Spatial Dependence Structure of Hydraulic Conductivity at the MADE Site Using Spatial Copulas

NASA Astrophysics Data System (ADS)

Haslauer, Claus; Bohling, Geoff

2013-04-01

Hydraulic conductivity (K) is a fundamental parameter that influences groundwater flow and solute transport. Measurements of K are limited and uncertain. Moreover, the spatial structure of K, which impacts the groundwater velocity field and hence directly influences the advective spreading of a solute migrating in the subsurface, is commonly described by approaches using second order moments. Spatial copulas have in the recent past been applied successfully to model the spatial dependence structure of heterogeneous subsurface datasets. At the MADE site, hydraulic conductivity (K) has been measured in exceptional detail. Two independently collected data-sets were used for this study: (1) ~2000 flowmeter based K measurements, and (2) ~20,000 direct-push based K measurements. These datasets exhibit a very heterogeneous (Var[ln(K)]>2) spatially distributed K field. A copula analysis reveals that the spatial dependence structure of the flowmeter and direct-push datasets are essentially the same. A spatial copula analysis factors out the influence of the marginal distribution of the property under investigation. This independence from the marginal distributions allows the copula analysis to reveal the underlying similarity between the spatial dependence structures of the flowmeter and direct-push datasets despite two complicating factors: 1) an overall offset between the datasets, with direct-push K values being, on average, roughly a factor of five lower than flowmeter K values, due at least in part to opposite biases between the two measurement techniques, and 2) the presence of some anomalously high K values in the direct-push dataset due to a lower limit on accurately measureable pressure responses in high-K zones. In addition, the vertical resolution of the direct-push dataset is ten times finer than that of the flowmeter dataset. Upscaling the direct-push data to compensate for this difference resulted in little change to the spatial structure. The objective of the presented work is to use multidimensional spatial copulas to describe and model the spatial dependence of the spatial structure of K at the heterogeneous MADE site, and evaluate the effects of this multidimensional description on solute transport.

A spatial length scale analysis of turbulent temperature and velocity fluctuations within and above an orchard canopy

USGS Publications Warehouse

Wang, Y.S.; Miller, D.R.; Anderson, D.E.; Cionco, R.M.; Lin, J.D.

1992-01-01

Turbulent flow within and above an almond orchard was measured with three-dimensional wind sensors and fine-wire thermocouple sensors arranged in a horizontal array. The data showed organized turbulent structures as indicated by coherent asymmetric ramp patterns in the time series traces across the sensor array. Space-time correlation analysis indicated that velocity and temperature fluctuations were significantly correlated over a transverse distance more than 4m. Integral length scales of velocity and temperature fluctuations were substantially greater in unstable conditions than those in stable conditions. The coherence spectral analysis indicated that Davenport's geometric similarity hypothesis was satisfied in the lower frequency region. From the geometric similarity hypothesis, the spatial extents of large ramp structures were also estimated with the coherence functions.

Modeling Spatial Dependencies and Semantic Concepts in Data Mining

DOE Office of Scientific and Technical Information (OSTI.GOV)

Vatsavai, Raju

Data mining is the process of discovering new patterns and relationships in large datasets. However, several studies have shown that general data mining techniques often fail to extract meaningful patterns and relationships from the spatial data owing to the violation of fundamental geospatial principles. In this tutorial, we introduce basic principles behind explicit modeling of spatial and semantic concepts in data mining. In particular, we focus on modeling these concepts in the widely used classification, clustering, and prediction algorithms. Classification is the process of learning a structure or model (from user given inputs) and applying the known model to themore » new data. Clustering is the process of discovering groups and structures in the data that are ``similar,'' without applying any known structures in the data. Prediction is the process of finding a function that models (explains) the data with least error. One common assumption among all these methods is that the data is independent and identically distributed. Such assumptions do not hold well in spatial data, where spatial dependency and spatial heterogeneity are a norm. In addition, spatial semantics are often ignored by the data mining algorithms. In this tutorial we cover recent advances in explicitly modeling of spatial dependencies and semantic concepts in data mining.« less

Local overfishing may be avoided by examining parameters of a spatio-temporal model

PubMed Central

Shackell, Nancy; Mills Flemming, Joanna

2017-01-01

Spatial erosion of stock structure through local overfishing can lead to stock collapse because fish often prefer certain locations, and fisheries tend to focus on those locations. Fishery managers are challenged to maintain the integrity of the entire stock and require scientific approaches that provide them with sound advice. Here we propose a Bayesian hierarchical spatio-temporal modelling framework for fish abundance data to estimate key parameters that define spatial stock structure: persistence (similarity of spatial structure over time), connectivity (coherence of temporal pattern over space), and spatial variance (variation across the seascape). The consideration of these spatial parameters in the stock assessment process can help identify the erosion of structure and assist in preventing local overfishing. We use Atlantic cod (Gadus morhua) in eastern Canada as a case study an examine the behaviour of these parameters from the height of the fishery through its collapse. We identify clear signals in parameter behaviour under circumstances of destructive stock erosion as well as for recovery of spatial structure even when combined with a non-recovery in abundance. Further, our model reveals the spatial pattern of areas of high and low density persists over the 41 years of available data and identifies the remnant patches. Models of this sort are crucial to recovery plans if we are to identify and protect remaining sources of recolonization for Atlantic cod. Our method is immediately applicable to other exploited species. PMID:28886179

Local overfishing may be avoided by examining parameters of a spatio-temporal model.

PubMed

Carson, Stuart; Shackell, Nancy; Mills Flemming, Joanna

2017-01-01

Spatial erosion of stock structure through local overfishing can lead to stock collapse because fish often prefer certain locations, and fisheries tend to focus on those locations. Fishery managers are challenged to maintain the integrity of the entire stock and require scientific approaches that provide them with sound advice. Here we propose a Bayesian hierarchical spatio-temporal modelling framework for fish abundance data to estimate key parameters that define spatial stock structure: persistence (similarity of spatial structure over time), connectivity (coherence of temporal pattern over space), and spatial variance (variation across the seascape). The consideration of these spatial parameters in the stock assessment process can help identify the erosion of structure and assist in preventing local overfishing. We use Atlantic cod (Gadus morhua) in eastern Canada as a case study an examine the behaviour of these parameters from the height of the fishery through its collapse. We identify clear signals in parameter behaviour under circumstances of destructive stock erosion as well as for recovery of spatial structure even when combined with a non-recovery in abundance. Further, our model reveals the spatial pattern of areas of high and low density persists over the 41 years of available data and identifies the remnant patches. Models of this sort are crucial to recovery plans if we are to identify and protect remaining sources of recolonization for Atlantic cod. Our method is immediately applicable to other exploited species.

The Structure of Cognitive Abilities in Youths with Manic Symptoms: A Factorial Invariance Study

ERIC Educational Resources Information Center

Beaujean, A. Alexander; Freeman, Megan Joseph; Youngstrom, Eric; Carlson, Gabrielle

2012-01-01

This study compared the structure of cognitive ability (specifically, verbal/crystallized ["Gc"] and visual-spatial ability ["Gv"]), as measured in the Wechsler Intelligence Scale for Children, in youth with manic symptoms with a nationally representative group of similarly aged youth. Multigroup confirmatory factor analysis…

Quantifying seascape structure: Extending terrestrial spatial pattern metrics to the marine realm

USGS Publications Warehouse

Wedding, L.M.; Christopher, L.A.; Pittman, S.J.; Friedlander, A.M.; Jorgensen, S.

2011-01-01

Spatial pattern metrics have routinely been applied to characterize and quantify structural features of terrestrial landscapes and have demonstrated great utility in landscape ecology and conservation planning. The important role of spatial structure in ecology and management is now commonly recognized, and recent advances in marine remote sensing technology have facilitated the application of spatial pattern metrics to the marine environment. However, it is not yet clear whether concepts, metrics, and statistical techniques developed for terrestrial ecosystems are relevant for marine species and seascapes. To address this gap in our knowledge, we reviewed, synthesized, and evaluated the utility and application of spatial pattern metrics in the marine science literature over the past 30 yr (1980 to 2010). In total, 23 studies characterized seascape structure, of which 17 quantified spatial patterns using a 2-dimensional patch-mosaic model and 5 used a continuously varying 3-dimensional surface model. Most seascape studies followed terrestrial-based studies in their search for ecological patterns and applied or modified existing metrics. Only 1 truly unique metric was found (hydrodynamic aperture applied to Pacific atolls). While there are still relatively few studies using spatial pattern metrics in the marine environment, they have suffered from similar misuse as reported for terrestrial studies, such as the lack of a priori considerations or the problem of collinearity between metrics. Spatial pattern metrics offer great potential for ecological research and environmental management in marine systems, and future studies should focus on (1) the dynamic boundary between the land and sea; (2) quantifying 3-dimensional spatial patterns; and (3) assessing and monitoring seascape change. ?? Inter-Research 2011.

Congruence between morphological and molecular markers inferred from the analysis of the intra-morphotype genetic diversity and the spatial structure of Oxalis tuberosa Mol.

PubMed

Pissard, Audrey; Arbizu, Carlos; Ghislain, Marc; Faux, Anne-Michèle; Paulet, Sébastien; Bertin, Pierre

2008-01-01

Oxalis tuberosa is an important crop cultivated in the highest Andean zones. A germplasm collection is maintained ex situ by CIP, which has developed a morphological markers system to classify the accessions into morphotypes, i.e. groups of morphologically identical accessions. However, their genetic uniformity is currently unknown. The ISSR technique was used in two experiments to determine the relationships between both morphological and molecular markers systems. The intra-morphotype genetic diversity, the spatial structures of the diversity and the congruence between both markers systems were determined. In the first experience, 44 accessions representing five morphotypes, clearly distinct from each other, were analyzed. At the molecular level, the accessions exactly clustered according to their morphotypes. However, a genetic variability was observed inside each morphotype. In the second experiment, 34 accessions gradually differing from each other on morphological base were analyzed. The morphological clustering showed no geographical structure. On the opposite, the molecular analysis showed that the genetic structure was slightly related to the collection site. The correlation between both markers systems was weak but significant. The lack of perfect congruence between morphological and molecular data suggests that the morphological system may be useful for the morphotypes management but is not appropriate to study the genetic structure of the oca. The spatial structure of the genetic diversity can be related to the evolution of the species and the discordance between the morphological and molecular structures may result from similar selection pressures at different places leading to similar forms with a different genetic background.

Structure Mapping in Autism Spectrum Disorder: Levels of Information Processing and Relations to Executive Functions

ERIC Educational Resources Information Center

Hetzroni, Orit E.; Shalahevich, Kiril

2018-01-01

Analogical reasoning was investigated among children with autism spectrum disorders (ASD) without intellectual disabilities and typical development (TD). Children were asked to select one of two targets in two conditions: (1) with and without spatial structure similarity; (2) with and without a perceptual distractor. Results demonstrate that…

Better Safe than Sorry - Socio-Spatial Group Structure Emerges from Individual Variation in Fleeing, Avoidance or Velocity in an Agent-Based Model

PubMed Central

Evers, Ellen; de Vries, Han; Spruijt, Berry M.; Sterck, Elisabeth H. M.

2011-01-01

In group-living animals, such as primates, the average spatial group structure often reflects the dominance hierarchy, with central dominants and peripheral subordinates. This central-peripheral group structure can arise by self-organization as a result of subordinates fleeing from dominants after losing a fight. However, in real primates, subordinates often avoid interactions with potentially aggressive group members, thereby preventing aggression and subsequent fleeing. Using agent-based modeling, we investigated which spatial and encounter structures emerge when subordinates also avoid known potential aggressors at a distance as compared with the model which only included fleeing after losing a fight (fleeing model). A central-peripheral group structure emerged in most conditions. When avoidance was employed at small or intermediate distances, centrality of dominants emerged similar to the fleeing model, but in a more pronounced way. This result was also found when fleeing after a fight was made independent of dominance rank, i.e. occurred randomly. Employing avoidance at larger distances yielded more spread out groups. This provides a possible explanation of larger group spread in more aggressive species. With avoidance at very large distances, spatially and socially distinct subgroups emerged. We also investigated how encounters were distributed amongst group members. In the fleeing model all individuals encountered all group members equally often, whereas in the avoidance model encounters occurred mostly among similar-ranking individuals. Finally, we also identified a very general and simple mechanism causing a central-peripheral group structure: when individuals merely differed in velocity, faster individuals automatically ended up at the periphery. In summary, a central-peripheral group pattern can easily emerge from individual variation in different movement properties in general, such as fleeing, avoidance or velocity. Moreover, avoidance behavior also affects the encounter structure and can lead to subgroup formation. PMID:22125595

Using temporal ICA to selectively remove global noise while preserving global signal in functional MRI data.

PubMed

Glasser, Matthew F; Coalson, Timothy S; Bijsterbosch, Janine D; Harrison, Samuel J; Harms, Michael P; Anticevic, Alan; Van Essen, David C; Smith, Stephen M

2018-06-02

Temporal fluctuations in functional Magnetic Resonance Imaging (fMRI) have been profitably used to study brain activity and connectivity for over two decades. Unfortunately, fMRI data also contain structured temporal "noise" from a variety of sources, including subject motion, subject physiology, and the MRI equipment. Recently, methods have been developed to automatically and selectively remove spatially specific structured noise from fMRI data using spatial Independent Components Analysis (ICA) and machine learning classifiers. Spatial ICA is particularly effective at removing spatially specific structured noise from high temporal and spatial resolution fMRI data of the type acquired by the Human Connectome Project and similar studies. However, spatial ICA is mathematically, by design, unable to separate spatially widespread "global" structured noise from fMRI data (e.g., blood flow modulations from subject respiration). No methods currently exist to selectively and completely remove global structured noise while retaining the global signal from neural activity. This has left the field in a quandary-to do or not to do global signal regression-given that both choices have substantial downsides. Here we show that temporal ICA can selectively segregate and remove global structured noise while retaining global neural signal in both task-based and resting state fMRI data. We compare the results before and after temporal ICA cleanup to those from global signal regression and show that temporal ICA cleanup removes the global positive biases caused by global physiological noise without inducing the network-specific negative biases of global signal regression. We believe that temporal ICA cleanup provides a "best of both worlds" solution to the global signal and global noise dilemma and that temporal ICA itself unlocks interesting neurobiological insights from fMRI data. Copyright © 2018 Elsevier Inc. All rights reserved.

Species composition and morphologic variation of Porites in the Gulf of California

NASA Astrophysics Data System (ADS)

López-Pérez, R. A.

2013-09-01

Morphometric analysis of corallite calices confirmed that from the late Miocene to the Recent, four species of Porites have inhabited the Gulf of California: the extinct Porites carrizensis, the locally extirpated Porites lobata and the extant Porites sverdrupi and Porites panamensis. Furthermore, large-scale spatial and temporal phenotypic plasticity was observed in the dominant species P. panamensis. Canonical discriminant analysis and ANOVA demonstrated that the calice structures of P. panamensis experienced size reduction between the late Pleistocene and Recent. Similarly, PERMANOVA, regression and correlation analyses demonstrated that across the 800 km north to south in the gulf, P. panamensis populations displayed a similar reduction in calice structures. Based on correlation analysis with environmental data, these large spatial changes are likely related to changes in nutrient concentration and sea surface temperature. As such, the large-scale spatial and temporal phenotypic variation recorded in populations of P. panamensis in the Gulf of California is likely related to optimization of corallite performance (energy acquisition) within various environmental scenarios. These findings may have relevance to modern conservation efforts within this ecological dominant genus.

Research Update: Spatially resolved mapping of electronic structure on atomic level by multivariate statistical analysis

NASA Astrophysics Data System (ADS)

Belianinov, Alex; Ganesh, Panchapakesan; Lin, Wenzhi; Sales, Brian C.; Sefat, Athena S.; Jesse, Stephen; Pan, Minghu; Kalinin, Sergei V.

2014-12-01

Atomic level spatial variability of electronic structure in Fe-based superconductor FeTe0.55Se0.45 (Tc = 15 K) is explored using current-imaging tunneling-spectroscopy. Multivariate statistical analysis of the data differentiates regions of dissimilar electronic behavior that can be identified with the segregation of chalcogen atoms, as well as boundaries between terminations and near neighbor interactions. Subsequent clustering analysis allows identification of the spatial localization of these dissimilar regions. Similar statistical analysis of modeled calculated density of states of chemically inhomogeneous FeTe1-xSex structures further confirms that the two types of chalcogens, i.e., Te and Se, can be identified by their electronic signature and differentiated by their local chemical environment. This approach allows detailed chemical discrimination of the scanning tunneling microscopy data including separation of atomic identities, proximity, and local configuration effects and can be universally applicable to chemically and electronically inhomogeneous surfaces.

Universal scaling of the distribution of land in urban areas

NASA Astrophysics Data System (ADS)

Riascos, A. P.

2017-09-01

In this work, we explore the spatial structure of built zones and green areas in diverse western cities by analyzing the probability distribution of areas and a coefficient that characterize their respective shapes. From the analysis of diverse datasets describing land lots in urban areas, we found that the distribution of built-up areas and natural zones in cities obey inverse power laws with a similar scaling for the cities explored. On the other hand, by studying the distribution of shapes of lots in urban regions, we are able to detect global differences in the spatial structure of the distribution of land. Our findings introduce information about spatial patterns that emerge in the structure of urban settlements; this knowledge is useful for the understanding of urban growth, to improve existing models of cities, in the context of sustainability, in studies about human mobility in urban areas, among other applications.

An Examination of the Structure of Leisure Interests of College Students, Working-Age Adults, and Retirees

ERIC Educational Resources Information Center

Hansen, Jo-Ida C.; Dik, Bryan J.; Zhou, Shuangmei

2008-01-01

In this study, the authors investigated the extent to which factor and spatial structures of leisure interests (a) are similar to or distinct from the structure of vocational interests and (b) differ across 3 cohorts: college students (M[subscript age] = 19.6 years, SD = 1.23), working-age adults (M[subscript age] = 29.7, SD = 1.18), and retirees…

Emergent spatial synaptic structure from diffusive plasticity.

PubMed

Sweeney, Yann; Clopath, Claudia

2017-04-01

Some neurotransmitters can diffuse freely across cell membranes, influencing neighbouring neurons regardless of their synaptic coupling. This provides a means of neural communication, alternative to synaptic transmission, which can influence the way in which neural networks process information. Here, we ask whether diffusive neurotransmission can also influence the structure of synaptic connectivity in a network undergoing plasticity. We propose a form of Hebbian synaptic plasticity which is mediated by a diffusive neurotransmitter. Whenever a synapse is modified at an individual neuron through our proposed mechanism, similar but smaller modifications occur in synapses connecting to neighbouring neurons. The effects of this diffusive plasticity are explored in networks of rate-based neurons. This leads to the emergence of spatial structure in the synaptic connectivity of the network. We show that this spatial structure can coexist with other forms of structure in the synaptic connectivity, such as with groups of strongly interconnected neurons that form in response to correlated external drive. Finally, we explore diffusive plasticity in a simple feedforward network model of receptive field development. We show that, as widely observed across sensory cortex, the preferred stimulus identity of neurons in our network become spatially correlated due to diffusion. Our proposed mechanism of diffusive plasticity provides an efficient mechanism for generating these spatial correlations in stimulus preference which can flexibly interact with other forms of synaptic organisation. © 2016 Federation of European Neuroscience Societies and John Wiley & Sons Ltd.

Spatial variability of isoproturon mineralizing activity within an agricultural field: geostatistical analysis of simple physicochemical and microbiological soil parameters.

PubMed

El Sebai, T; Lagacherie, B; Soulas, G; Martin-Laurent, F

2007-02-01

We assessed the spatial variability of isoproturon mineralization in relation to that of physicochemical and biological parameters in fifty soil samples regularly collected along a sampling grid delimited across a 0.36 ha field plot (40 x 90 m). Only faint relationships were observed between isoproturon mineralization and the soil pH, microbial C biomass, and organic nitrogen. Considerable spatial variability was observed for six of the nine parameters tested (isoproturon mineralization rates, organic nitrogen, genetic structure of the microbial communities, soil pH, microbial biomass and equivalent humidity). The map of isoproturon mineralization rates distribution was similar to that of soil pH, microbial biomass, and organic nitrogen but different from those of structure of the microbial communities and equivalent humidity. Geostatistics revealed that the spatial heterogeneity in the rate of degradation of isoproturon corresponded to that of soil pH and microbial biomass.

Shared memories reveal shared structure in neural activity across individuals

PubMed Central

Chen, J.; Leong, Y.C.; Honey, C.J.; Yong, C.H.; Norman, K.A.; Hasson, U.

2016-01-01

Our lives revolve around sharing experiences and memories with others. When different people recount the same events, how similar are their underlying neural representations? Participants viewed a fifty-minute movie, then verbally described the events during functional MRI, producing unguided detailed descriptions lasting up to forty minutes. As each person spoke, event-specific spatial patterns were reinstated in default-network, medial-temporal, and high-level visual areas. Individual event patterns were both highly discriminable from one another and similar between people, suggesting consistent spatial organization. In many high-order areas, patterns were more similar between people recalling the same event than between recall and perception, indicating systematic reshaping of percept into memory. These results reveal the existence of a common spatial organization for memories in high-level cortical areas, where encoded information is largely abstracted beyond sensory constraints; and that neural patterns during perception are altered systematically across people into shared memory representations for real-life events. PMID:27918531

Taxonomic and functional patterns of macrobenthic communities on a high-Arctic shelf: A case study from the Laptev Sea

NASA Astrophysics Data System (ADS)

Kokarev, V. N.; Vedenin, A. A.; Basin, A. B.; Azovsky, A. I.

2017-11-01

The studies of functional structure of high-Arctic Ecosystems are scarce. We used data on benthic macrofauna from 500-km latitudinal transect in the eastern Laptev Sea, from the Lena delta to the continental shelf break, to describe spatial patterns in species composition, taxonomic and functional structure in relation to environmental factors. Both taxonomy-based approach and Biological Trait analysis yielded similar results and showed general depth-related gradient in benthic diversity and composition. This congruence between taxonomical and functional dimensions of community organization suggests that the same environmental factors (primarily riverine input and regime of sedimentation) have similar effect on both community structure and functioning. BTA also revealed a distinct functional structure of stations situated at the Eastern Lena valley, with dominance of motile, burrowing sub-surface deposit-feeders and absence of sedentary tube-dwelling forms. The overall spatial distribution of benthic assemblages corresponds well to that described there in preceding decades, evidencing the long-term stability of bottom ecosystem. Strong linear relationship between species and traits diversity, however, indicates low functional redundancy, which potentially makes the ecosystem susceptible to a species loss or structural shifts.

The parietal cortex in sensemaking: the dissociation of multiple types of spatial information.

PubMed

Sun, Yanlong; Wang, Hongbin

2013-01-01

According to the data-frame theory, sensemaking is a macrocognitive process in which people try to make sense of or explain their observations by processing a number of explanatory structures called frames until the observations and frames become congruent. During the sensemaking process, the parietal cortex has been implicated in various cognitive tasks for the functions related to spatial and temporal information processing, mathematical thinking, and spatial attention. In particular, the parietal cortex plays important roles by extracting multiple representations of magnitudes at the early stages of perceptual analysis. By a series of neural network simulations, we demonstrate that the dissociation of different types of spatial information can start early with a rather similar structure (i.e., sensitivity on a common metric), but accurate representations require specific goal-directed top-down controls due to the interference in selective attention. Our results suggest that the roles of the parietal cortex rely on the hierarchical organization of multiple spatial representations and their interactions. The dissociation and interference between different types of spatial information are essentially the result of the competition at different levels of abstraction.

The Parietal Cortex in Sensemaking: The Dissociation of Multiple Types of Spatial Information

PubMed Central

Sun, Yanlong; Wang, Hongbin

2013-01-01

According to the data-frame theory, sensemaking is a macrocognitive process in which people try to make sense of or explain their observations by processing a number of explanatory structures called frames until the observations and frames become congruent. During the sensemaking process, the parietal cortex has been implicated in various cognitive tasks for the functions related to spatial and temporal information processing, mathematical thinking, and spatial attention. In particular, the parietal cortex plays important roles by extracting multiple representations of magnitudes at the early stages of perceptual analysis. By a series of neural network simulations, we demonstrate that the dissociation of different types of spatial information can start early with a rather similar structure (i.e., sensitivity on a common metric), but accurate representations require specific goal-directed top-down controls due to the interference in selective attention. Our results suggest that the roles of the parietal cortex rely on the hierarchical organization of multiple spatial representations and their interactions. The dissociation and interference between different types of spatial information are essentially the result of the competition at different levels of abstraction. PMID:23710165

The spatial study of unplanned settlements on the coastal of Belawan Medan fishermen village

NASA Astrophysics Data System (ADS)

Marpaung, B. O. Y.; Winny Silaban, Nadia

2018-03-01

One of the determining factors that formed informal settlements is the high demand for homes that are not comparable with the homes that were provided by the government. The settlement of Fisherman Village in Belawan Medan was built without a plan by settlers and was not involve government interference so that the spatial pattern formed uncontrollable. The shape of space that stretches represents the distribution of unplanned space. The purpose of this study is to find the structure of settlement and the relationship between the space structures with the spatial pattern in Belawan Medan Fishermen Village. In the process of collecting data, the researcher makes the maps of the observation area, the structure of the space, and the relationship between one space function with the other space functions. Also, the researchers identify the spacing pattern and the effect of one spatial element against the other. This study found a similar spatial pattern between one unplanned settlement and another unplanned settlement and there are also some tendencies of Belawan Medan Fishermen Village settlers when building the built environment in the relationship between building masses and the road network.

Visualizing spatial population structure with estimated effective migration surfaces

PubMed Central

Petkova, Desislava; Novembre, John; Stephens, Matthew

2015-01-01

Genetic data often exhibit patterns broadly consistent with “isolation by distance” – a phenomenon where genetic similarity decays with geographic distance. In a heterogeneous habitat this may occur more quickly in some regions than others: for example, barriers to gene flow can accelerate differentiation between neighboring groups. We use the concept of “effective migration” to model the relationship between genetics and geography: in this paradigm, effective migration is low in regions where genetic similarity decays quickly. We present a method to visualize variation in effective migration across the habitat from geographically indexed genetic data. Our approach uses a population genetic model to relate effective migration rates to expected genetic dissimilarities. We illustrate its potential and limitations using simulations and data from elephant, human and A. thaliana populations. The resulting visualizations highlight important spatial features of population structure that are difficult to discern using existing methods for summarizing genetic variation. PMID:26642242

Ancient sedimentary structures in the <3.7 Ga Gillespie Lake Member, Mars, that resemble macroscopic morphology, spatial associations, and temporal succession in terrestrial microbialites.

PubMed

Noffke, Nora

2015-02-01

Sandstone beds of the <3.7 Ga Gillespie Lake Member on Mars have been interpreted as evidence of an ancient playa lake environment. On Earth, such environments have been sites of colonization by microbial mats from the early Archean to the present time. Terrestrial microbial mats in playa lake environments form microbialites known as microbially induced sedimentary structures (MISS). On Mars, three lithofacies of the Gillespie Lake Member sandstone display centimeter- to meter-scale structures similar in macroscopic morphology to terrestrial MISS that include "erosional remnants and pockets," "mat chips," "roll-ups," "desiccation cracks," and "gas domes." The microbially induced sedimentary-like structures identified in Curiosity rover mission images do not have a random distribution. Rather, they were found to be arranged in spatial associations and temporal successions that indicate they changed over time. On Earth, if such MISS occurred with this type of spatial association and temporal succession, they would be interpreted as having recorded the growth of a microbially dominated ecosystem that thrived in pools that later dried completely: erosional pockets, mat chips, and roll-ups resulted from water eroding an ancient microbial mat-covered sedimentary surface; during the course of subsequent water recess, channels would have cut deep into the microbial mats, leaving erosional remnants behind; desiccation cracks and gas domes would have occurred during a final period of subaerial exposure of the microbial mats. In this paper, the similarities of the macroscopic morphologies, spatial associations, and temporal succession of sedimentary structures on Mars to MISS preserved on Earth has led to the following hypothesis: The sedimentary structures in the <3.7 Ga Gillespie Lake Member on Mars are ancient MISS produced by interactions between microbial mats and their environment. Proposed here is a strategy for detecting, identifying, confirming, and differentiating possible MISS during current and future Mars missions.

Detection of forest stand-level spatial structure in ectomycorrhizal fungal communities.

PubMed

Lilleskov, Erik A; Bruns, Thomas D; Horton, Thomas R; Taylor, D; Grogan, Paul

2004-08-01

Ectomycorrhizal fungal (EMF) communities are highly diverse at the stand level. To begin to understand what might lead to such diversity, and to improve sampling designs, we investigated the spatial structure of these communities. We used EMF community data from a number of studies carried out in seven mature and one recently fire-initiated forest stand. We applied various measures of spatial pattern to characterize distributions at EMF community and species levels: Mantel tests, Mantel correlograms, variance/mean and standardized variograms. Mantel tests indicated that in four of eight sites community similarity decreased with distance, whereas Mantel correlograms also found spatial autocorrelation in those four plus two additional sites. In all but one of these sites elevated similarity was evident only at relatively small spatial scales (< 2.6 m), whereas one exhibited a larger scale pattern ( approximately 25 m). Evenness of biomass distribution among cores varied widely among taxa. Standardized variograms indicated that most of the dominant taxa showed patchiness at a scale of less than 3 m, with a range from 0 to < or =17 m. These results have implications for both sampling scale and intensity to achieve maximum efficiency of community sampling. In the systems we examined, cores should be at least 3 m apart to achieve the greatest sampling efficiency for stand-level community analysis. In some cases even this spacing may result in reduced sampling efficiency arising from patterns of spatial autocorrelation. Interpretation of the causes and significance of these patterns requires information on the genetic identity of individuals in the communities.

Climate and Human Pressure Constraints Co-Explain Regional Plant Invasion at Different Spatial Scales

PubMed Central

García-Baquero, Gonzalo; Caño, Lidia; Biurrun, Idoia; García-Mijangos, Itziar; Loidi, Javier; Herrera, Mercedes

2016-01-01

Alien species invasion represents a global threat to biodiversity and ecosystems. Explaining invasion patterns in terms of environmental constraints will help us to assess invasion risks and plan control strategies. We aim to identify plant invasion patterns in the Basque Country (Spain), and to determine the effects of climate and human pressure on that pattern. We modeled the regional distribution of 89 invasive plant species using two approaches. First, distance-based Moran’s eigenvector maps were used to partition variation in the invasive species richness, S, into spatial components at broad and fine scales; redundancy analysis was then used to explain those components on the basis of climate and human pressure descriptors. Second, we used generalized additive mixed modeling to fit species-specific responses to the same descriptors. Climate and human pressure descriptors have different effects on S at different spatial scales. Broad-scale spatially structured temperature and precipitation, and fine-scale spatially structured human population density and percentage of natural and semi-natural areas, explained altogether 38.7% of the total variance. The distribution of 84% of the individually tested species was related to either temperature, precipitation or both, and 68% was related to either population density or natural and semi-natural areas, displaying similar responses. The spatial pattern of the invasive species richness is strongly environmentally forced, mainly by climate factors. Since individual species responses were proved to be both similarly constrained in shape and explained variance by the same environmental factors, we conclude that the pattern of invasive species richness results from individual species’ environmental preferences. PMID:27741276

Temporal and spatial structure in a daily wildfire-start data set from the western United States (198696)

USGS Publications Warehouse

Bartlein, P.J.; Hostetler, S.W.; Shafer, S.L.; Holman, J.O.; Solomon, A.M.

2008-01-01

The temporal and spatial structure of 332 404 daily fire-start records from the western United States for the period 1986 through 1996 is illustrated using several complimentary visualisation techniques. We supplement maps and time series plots with Hovmo??ller diagrams that reduce the spatial dimensionality of the daily data in order to reveal the underlying space?time structure. The mapped distributions of all lightning- and human-started fires during the 11-year interval show similar first-order patterns that reflect the broad-scale distribution of vegetation across the West and the annual cycle of climate. Lightning-started fires are concentrated in the summer half-year and occur in widespread outbreaks that last a few days and reflect coherent weather-related controls. In contrast, fires started by humans occur throughout the year and tend to be concentrated in regions surrounding large-population centres or intensive-agricultural areas. Although the primary controls of human-started fires are their location relative to burnable fuel and the level of human activity, spatially coherent, weather-related variations in their incidence can also be noted. ?? IAWF 2008.

Spatial variability of the Black Sea surface temperature from high resolution modeling and satellite measurements

NASA Astrophysics Data System (ADS)

Mizyuk, Artem; Senderov, Maxim; Korotaev, Gennady

2016-04-01

Large number of numerical ocean models were implemented for the Black Sea basin during last two decades. They reproduce rather similar structure of synoptical variability of the circulation. Since 00-s numerical studies of the mesoscale structure are carried out using high performance computing (HPC). With the growing capacity of computing resources it is now possible to reconstruct the Black Sea currents with spatial resolution of several hundreds meters. However, how realistic these results can be? In the proposed study an attempt is made to understand which spatial scales are reproduced by ocean model in the Black Sea. Simulations are made using parallel version of NEMO (Nucleus for European Modelling of the Ocean). A two regional configurations with spatial resolutions 5 km and 2.5 km are described. Comparison of the SST from simulations with two spatial resolutions shows rather qualitative difference of the spatial structures. Results of high resolution simulation are compared also with satellite observations and observation-based products from Copernicus using spatial correlation and spectral analysis. Spatial scales of correlations functions for simulated and observed SST are rather close and differs much from satellite SST reanalysis. Evolution of spectral density for modelled SST and reanalysis showed agreed time periods of small scales intensification. Using of the spectral analysis for satellite measurements is complicated due to gaps. The research leading to this results has received funding from Russian Science Foundation (project № 15-17-20020)

Relative importance of local habitat complexity and regional factors for assemblages of oribatid mites (Acari: Oribatida) in Sphagnum peat bogs.

PubMed

Minor, M A; Ermilov, S G; Philippov, D A; Prokin, A A

2016-11-01

We investigated communities of oribatid mites in five peat bogs in the north-west of the East European plain. We aimed to determine the extent to which geographic factors (latitude, separation distance), local environment (Sphagnum moss species, ground water level, biogeochemistry) and local habitat complexity (diversity of vascular plants and bryophytes in the surrounding plant community) influence diversity and community composition of Oribatida. There was a significant north-to-south increase in Oribatida abundance. In the variance partitioning, spatial factors explained 33.1 % of variability in abundance across samples; none of the environmental factors were significant. Across all bogs, Oribatida species richness and community composition were similar in Sphagnum rubellum and Sphagnum magellanicum, but significantly different and less diverse in Sphagnum cuspidatum. Sphagnum microhabitat explained 52.2 % of variability in Oribatida species richness, whereas spatial variables explained only 8.7 %. There was no distance decay in community similarity between bogs with increased geographical distance. The environmental variables explained 34.9 % of the variance in community structure, with vascular plants diversity, bryophytes diversity, and ground water level all contributing significantly; spatial variables explained 15.1 % of the total variance. Overall, only 50 % of the Oribatida community variance was explained by the spatial structure and environmental variables. We discuss relative importance of spatial and local environmental factors, and make general inferences about the formation of fauna in Sphagnum bogs.

Cholera and shigellosis in Bangladesh: similarities and differences in population dynamics under climate forcing

NASA Astrophysics Data System (ADS)

Pascual, M.; Cash, B.; Reiner, R.; King, A.; Emch, M.; Yunus, M.; Faruque, A. S.

2012-12-01

The influence of climate variability on the population dynamics of infectious diseases is considered a large scale, regional, phenomenon, and as such, has been previously addressed for cholera with temporal models that do not incorporate fine-scale spatial structure. In our previous work, evidence for a role of ENSO (El Niño Southern Oscillation) on cholera in Bangladesh was elucidated, and shown to influence the regional climate through precipitation. With a probabilistic spatial model for cholera dynamics in the megacity of Dhaka, we found that the action of climate variability (ENSO and flooding) is localized: there is a climate-sensitive urban core that acts to propagate risk to the rest of the city. Here, we consider long-term surveillance data for shigellosis, another diarrheal disease that coexists with cholera in Bangladesh. We compare the patterns of association with climate variables for these two diseases in a rural setting, as well as the spatial structure in their spatio-temporal dynamics in an urban one. Evidence for similar patterns is presented, and discussed in the context of the differences in the routes of transmission of the two diseases and the proposed role of an environmental reservoir in cholera. The similarities provide evidence for a more general influence of hydrology and of socio-economic factors underlying human susceptibility and sanitary conditions.

Multi-scale variation in spatial heterogeneity for microbial community structure in an eastern Virginia agricultural field

NASA Technical Reports Server (NTRS)

Franklin, Rima B.; Mills, Aaron L.

2003-01-01

To better understand the distribution of soil microbial communities at multiple spatial scales, a survey was conducted to examine the spatial organization of community structure in a wheat field in eastern Virginia (USA). Nearly 200 soil samples were collected at a variety of separation distances ranging from 2.5 cm to 11 m. Whole-community DNA was extracted from each sample, and community structure was compared using amplified fragment length polymorphism (AFLP) DNA fingerprinting. Relative similarity was calculated between each pair of samples and compared using geostatistical variogram analysis to study autocorrelation as a function of separation distance. Spatial autocorrelation was found at scales ranging from 30 cm to more than 6 m, depending on the sampling extent considered. In some locations, up to four different correlation length scales were detected. The presence of nested scales of variability suggests that the environmental factors regulating the development of the communities in this soil may operate at different scales. Kriging was used to generate maps of the spatial organization of communities across the plot, and the results demonstrated that bacterial distributions can be highly structured, even within a habitat that appears relatively homogeneous at the plot and field scale. Different subsets of the microbial community were distributed differently across the plot, and this is thought to be due to the variable response of individual populations to spatial heterogeneity associated with soil properties. c2003 Federation of European Microbiological Societies. Published by Elsevier Science B.V. All rights reserved.

Finer parcellation reveals detailed correlational structure of resting-state fMRI signals.

PubMed

Dornas, João V; Braun, Jochen

2018-01-15

Even in resting state, the human brain generates functional signals (fMRI) with complex correlational structure. To simplify this structure, it is common to parcellate a standard brain into coarse chunks. Finer parcellations are considered less reproducible and informative, due to anatomical and functional variability of individual brains. Grouping signals with similar local correlation profiles, restricted to each anatomical region (Tzourio-Mazoyer et al., 2002), we divide a standard brain into 758 'functional clusters' averaging 1.7cm 3 gray matter volume ('MD758' parcellation). We compare 758 'spatial clusters' of similar size ('S758'). 'Functional clusters' are spatially contiguous and cluster quality (integration and segregation of temporal variance) is far superior to 'spatial clusters', comparable to multi-modal parcellations of half the resolution (Craddock et al., 2012; Glasser et al., 2016). Moreover, 'functional clusters' capture many long-range functional correlations, with O(10 5 ) reproducibly correlated cluster pairs in different anatomical regions. The pattern of functional correlations closely mirrors long-range anatomical connectivity established by fibre tracking. MD758 is comparable to coarser parcellations (Craddock et al., 2012; Glasser et al., 2016) in terms of cluster quality, correlational structure (54% relative mutual entropy vs 60% and 61%), and sparseness (35% significant pairwise correlations vs 36% and 44%). We describe and evaluate a simple path to finer functional parcellations of the human brain. Detailed correlational structure is surprisingly consistent between individuals, opening new possibilities for comparing functional correlations between cognitive conditions, states of health, or pharmacological interventions. Copyright © 2017 The Author(s). Published by Elsevier B.V. All rights reserved.

Flexible spatial perspective-taking: conversational partners weigh multiple cues in collaborative tasks.

PubMed

Galati, Alexia; Avraamides, Marios N

2013-01-01

Research on spatial perspective-taking often focuses on the cognitive processes of isolated individuals as they adopt or maintain imagined perspectives. Collaborative studies of spatial perspective-taking typically examine speakers' linguistic choices, while overlooking their underlying processes and representations. We review evidence from two collaborative experiments that examine the contribution of social and representational cues to spatial perspective choices in both language and the organization of spatial memory. Across experiments, speakers organized their memory representations according to the convergence of various cues. When layouts were randomly configured and did not afford intrinsic cues, speakers encoded their partner's viewpoint in memory, if available, but did not use it as an organizing direction. On the other hand, when the layout afforded an intrinsic structure, speakers organized their spatial memories according to the person-centered perspective reinforced by the layout's structure. Similarly, in descriptions, speakers considered multiple cues whether available a priori or at the interaction. They used partner-centered expressions more frequently (e.g., "to your right") when the partner's viewpoint was misaligned by a small offset or coincided with the layout's structure. Conversely, they used egocentric expressions more frequently when their own viewpoint coincided with the intrinsic structure or when the partner was misaligned by a computationally difficult, oblique offset. Based on these findings we advocate for a framework for flexible perspective-taking: people weigh multiple cues (including social ones) to make attributions about the relative difficulty of perspective-taking for each partner, and adapt behavior to minimize their collective effort. This framework is not specialized for spatial reasoning but instead emerges from the same principles and memory-depended processes that govern perspective-taking in non-spatial tasks.

Flexible spatial perspective-taking: conversational partners weigh multiple cues in collaborative tasks

PubMed Central

Galati, Alexia; Avraamides, Marios N.

2013-01-01

Research on spatial perspective-taking often focuses on the cognitive processes of isolated individuals as they adopt or maintain imagined perspectives. Collaborative studies of spatial perspective-taking typically examine speakers' linguistic choices, while overlooking their underlying processes and representations. We review evidence from two collaborative experiments that examine the contribution of social and representational cues to spatial perspective choices in both language and the organization of spatial memory. Across experiments, speakers organized their memory representations according to the convergence of various cues. When layouts were randomly configured and did not afford intrinsic cues, speakers encoded their partner's viewpoint in memory, if available, but did not use it as an organizing direction. On the other hand, when the layout afforded an intrinsic structure, speakers organized their spatial memories according to the person-centered perspective reinforced by the layout's structure. Similarly, in descriptions, speakers considered multiple cues whether available a priori or at the interaction. They used partner-centered expressions more frequently (e.g., “to your right”) when the partner's viewpoint was misaligned by a small offset or coincided with the layout's structure. Conversely, they used egocentric expressions more frequently when their own viewpoint coincided with the intrinsic structure or when the partner was misaligned by a computationally difficult, oblique offset. Based on these findings we advocate for a framework for flexible perspective-taking: people weigh multiple cues (including social ones) to make attributions about the relative difficulty of perspective-taking for each partner, and adapt behavior to minimize their collective effort. This framework is not specialized for spatial reasoning but instead emerges from the same principles and memory-depended processes that govern perspective-taking in non-spatial tasks. PMID:24133432

Population genomic analysis suggests strong influence of river network on spatial distribution of genetic variation in invasive saltcedar across the southwestern United States

USGS Publications Warehouse

Lee, Soo-Rang; Jo, Yeong-Seok; Park, Chan-Ho; Friedman, Jonathan M.; Olson, Matthew S.

2018-01-01

Understanding the complex influences of landscape and anthropogenic elements that shape the population genetic structure of invasive species provides insight into patterns of colonization and spread. The application of landscape genomics techniques to these questions may offer detailed, previously undocumented insights into factors influencing species invasions. We investigated the spatial pattern of genetic variation and the influences of landscape factors on population similarity in an invasive riparian shrub, saltcedar (Tamarix L.) by analysing 1,997 genomewide SNP markers for 259 individuals from 25 populations collected throughout the southwestern United States. Our results revealed a broad-scale spatial genetic differentiation of saltcedar populations between the Colorado and Rio Grande river basins and identified potential barriers to population similarity along both river systems. River pathways most strongly contributed to population similarity. In contrast, low temperature and dams likely served as barriers to population similarity. We hypothesize that large-scale geographic patterns in genetic diversity resulted from a combination of early introductions from distinct populations, the subsequent influence of natural selection, dispersal barriers and founder effects during range expansion.

Influence of Interspecific Competition and Landscape Structure on Spatial Homogenization of Avian Assemblages

PubMed Central

Robertson, Oliver J.; McAlpine, Clive; House, Alan; Maron, Martine

2013-01-01

Human-induced biotic homogenization resulting from landscape change and increased competition from widespread generalists or ‘winners’, is widely recognized as a global threat to biodiversity. However, it remains unclear what aspects of landscape structure influence homogenization. This paper tests the importance of interspecific competition and landscape structure, for the spatial homogeneity of avian assemblages within a fragmented agricultural landscape of eastern Australia. We used field observations of the density of 128 diurnal bird species to calculate taxonomic and functional similarity among assemblages. We then examined whether taxonomic and functional similarity varied with patch type, the extent of woodland habitat, land-use intensity, habitat subdivision, and the presence of Manorina colonies (a competitive genus of honeyeaters). We found the presence of a Manorina colony was the most significant factor positively influencing both taxonomic and functional similarity of bird assemblages. Competition from members of this widespread genus of native honeyeater, rather than landscape structure, was the main cause of both taxonomic and functional homogenization. These species have not recently expanded their range, but rather have increased in density in response to agricultural landscape change. The negative impacts of Manorina honeyeaters on assemblage similarity were most pronounced in landscapes of moderate land-use intensity. We conclude that in these human-modified landscapes, increased competition from dominant native species, or ‘winners’, can result in homogeneous avian assemblages and the loss of specialist species. These interacting processes make biotic homogenization resulting from land-use change a global threat to biodiversity in modified agro-ecosystems. PMID:23724136

The Spatial and the Visual in Mental Spatial Reasoning: An Ill-Posed Distinction

NASA Astrophysics Data System (ADS)

Schultheis, Holger; Bertel, Sven; Barkowsky, Thomas; Seifert, Inessa

It is an ongoing and controversial debate in cognitive science which aspects of knowledge humans process visually and which ones they process spatially. Similarly, artificial intelligence (AI) and cognitive science research, in building computational cognitive systems, tended to use strictly spatial or strictly visual representations. The resulting systems, however, were suboptimal both with respect to computational efficiency and cognitive plau sibility. In this paper, we propose that the problems in both research strands stem from a mis conception of the visual and the spatial in mental spatial knowl edge pro cessing. Instead of viewing the visual and the spatial as two clearly separable categories, they should be conceptualized as the extremes of a con tinuous dimension of representation. Regarding psychology, a continuous di mension avoids the need to exclusively assign processes and representations to either one of the cate gories and, thus, facilitates a more unambiguous rating of processes and rep resentations. Regarding AI and cognitive science, the con cept of a continuous spatial / visual dimension provides the possibility of rep re sentation structures which can vary continuously along the spatial / visual di mension. As a first step in exploiting these potential advantages of the pro posed conception we (a) introduce criteria allowing for a non-dichotomic judgment of processes and representations and (b) present an approach towards rep re sentation structures that can flexibly vary along the spatial / visual dimension.

Spatial variability structure of soil CO2 emission and soil physical and chemical properties characterized by fractal dimension in sugarcane areas

NASA Astrophysics Data System (ADS)

Bicalho, E. S.; Teixeira, D. B.; Panosso, A. R.; Perillo, L. I.; Iamaguti, J. L.; Pereira, G. T.; La Scala, N., Jr.

2012-04-01

Soil CO2 emission (FCO2) is influenced by chemical, physical and biological factors that affect the production of CO2 in the soil and its transport to the atmosphere, varying in time and space depending on environmental conditions, including the management of agricultural area. The aim of this study was to investigate the structure of spatial variability of FCO2 and soil properties by using fractal dimension (DF), derived from isotropic variograms at different scales, and construction of fractograms. The experimental area consisted of a regular grid of 60 × 60 m on sugarcane area under green management, containing 141 points spaced at minimum distances ranging from 0.5 to 10 m. Soil CO2 emission, soil temperature and soil moisture were evaluated over a period of 7 days, and soil chemical and physical properties were determined by sampling at a depth of 0.0 to 0.1 m. FCO2 showed an overall average of 1.51 µmol m-2 s-1, correlated significantly (p < 0.05) with soil physical factors such as soil bulk density, air-filled pore space, macroporosity and microporosity. Significant DF values were obtained in the characterization of FCO2 in medium and large scales (from 20 m). Variations in DF with the scale, which is the fractogram, indicate that the structure of FCO2 variability is similar to that observed for the soil temperature and total pore volume, and reverse for the other soil properties, except for macroporosity, sand content, soil organic matter, carbon stock, C/N ratio and CEC, which fractograms were not significantly correlated to the FCO2 fractogram. Thus, the structure of spatial variability for most soil properties, characterized by fractogram, presents a significant relationship with the structure of spatial variability of FCO2, generally with similar or dissimilar behavior, indicating the possibility of using the fractogram as tool to better observe the behavior of the spatial dependence of the variables along the scale.

Fine-scale genetic structure and cryptic associations reveal evidence of kin-based sociality in the African forest elephant.

PubMed

Schuttler, Stephanie G; Philbrick, Jessica A; Jeffery, Kathryn J; Eggert, Lori S

2014-01-01

Spatial patterns of relatedness within animal populations are important in the evolution of mating and social systems, and have the potential to reveal information on species that are difficult to observe in the wild. This study examines the fine-scale genetic structure and connectivity of groups within African forest elephants, Loxodonta cyclotis, which are often difficult to observe due to forest habitat. We tested the hypothesis that genetic similarity will decline with increasing geographic distance, as we expect kin to be in closer proximity, using spatial autocorrelation analyses and Tau K(r) tests. Associations between individuals were investigated through a non-invasive genetic capture-recapture approach using network models, and were predicted to be more extensive than the small groups found in observational studies, similar to fission-fusion sociality found in African savanna (Loxodonta africana) and Asian (Elephas maximus) species. Dung samples were collected in Lopé National Park, Gabon in 2008 and 2010 and genotyped at 10 microsatellite loci, genetically sexed, and sequenced at the mitochondrial DNA control region. We conducted analyses on samples collected at three different temporal scales: a day, within six-day sampling sessions, and within each year. Spatial autocorrelation and Tau K(r) tests revealed genetic structure, but results were weak and inconsistent between sampling sessions. Positive spatial autocorrelation was found in distance classes of 0-5 km, and was strongest for the single day session. Despite weak genetic structure, individuals within groups were significantly more related to each other than to individuals between groups. Social networks revealed some components to have large, extensive groups of up to 22 individuals, and most groups were composed of individuals of the same matriline. Although fine-scale population genetic structure was weak, forest elephants are typically found in groups consisting of kin and based on matrilines, with some individuals having more associates than observed from group sizes alone.

On the role of spatial phase and phase correlation in vision, illusion, and cognition

PubMed Central

Gladilin, Evgeny; Eils, Roland

2015-01-01

Numerous findings indicate that spatial phase bears an important cognitive information. Distortion of phase affects topology of edge structures and makes images unrecognizable. In turn, appropriately phase-structured patterns give rise to various illusions of virtual image content and apparent motion. Despite a large body of phenomenological evidence not much is known yet about the role of phase information in neural mechanisms of visual perception and cognition. Here, we are concerned with analysis of the role of spatial phase in computational and biological vision, emergence of visual illusions and pattern recognition. We hypothesize that fundamental importance of phase information for invariant retrieval of structural image features and motion detection promoted development of phase-based mechanisms of neural image processing in course of evolution of biological vision. Using an extension of Fourier phase correlation technique, we show that the core functions of visual system such as motion detection and pattern recognition can be facilitated by the same basic mechanism. Our analysis suggests that emergence of visual illusions can be attributed to presence of coherently phase-shifted repetitive patterns as well as the effects of acuity compensation by saccadic eye movements. We speculate that biological vision relies on perceptual mechanisms effectively similar to phase correlation, and predict neural features of visual pattern (dis)similarity that can be used for experimental validation of our hypothesis of “cognition by phase correlation.” PMID:25954190

On the role of spatial phase and phase correlation in vision, illusion, and cognition.

PubMed

Gladilin, Evgeny; Eils, Roland

2015-01-01

Numerous findings indicate that spatial phase bears an important cognitive information. Distortion of phase affects topology of edge structures and makes images unrecognizable. In turn, appropriately phase-structured patterns give rise to various illusions of virtual image content and apparent motion. Despite a large body of phenomenological evidence not much is known yet about the role of phase information in neural mechanisms of visual perception and cognition. Here, we are concerned with analysis of the role of spatial phase in computational and biological vision, emergence of visual illusions and pattern recognition. We hypothesize that fundamental importance of phase information for invariant retrieval of structural image features and motion detection promoted development of phase-based mechanisms of neural image processing in course of evolution of biological vision. Using an extension of Fourier phase correlation technique, we show that the core functions of visual system such as motion detection and pattern recognition can be facilitated by the same basic mechanism. Our analysis suggests that emergence of visual illusions can be attributed to presence of coherently phase-shifted repetitive patterns as well as the effects of acuity compensation by saccadic eye movements. We speculate that biological vision relies on perceptual mechanisms effectively similar to phase correlation, and predict neural features of visual pattern (dis)similarity that can be used for experimental validation of our hypothesis of "cognition by phase correlation."

Analysis of stratocumulus cloud fields using LANDSAT imagery: Size distributions and spatial separations

NASA Technical Reports Server (NTRS)

Welch, R. M.; Sengupta, S. K.; Chen, D. W.

1990-01-01

Stratocumulus cloud fields in the FIRE IFO region are analyzed using LANDSAT Thematic Mapper imagery. Structural properties such as cloud cell size distribution, cell horizontal aspect ratio, fractional coverage and fractal dimension are determined. It is found that stratocumulus cloud number densities are represented by a power law. Cell horizontal aspect ratio has a tendency to increase at large cell sizes, and cells are bi-fractal in nature. Using LANDSAT Multispectral Scanner imagery for twelve selected stratocumulus scenes acquired during previous years, similar structural characteristics are obtained. Cloud field spatial organization also is analyzed. Nearest-neighbor spacings are fit with a number of functions, with Weibull and Gamma distributions providing the best fits. Poisson tests show that the spatial separations are not random. Second order statistics are used to examine clustering.

Single-photon-level quantum image memory based on cold atomic ensembles

PubMed Central

Ding, Dong-Sheng; Zhou, Zhi-Yuan; Shi, Bao-Sen; Guo, Guang-Can

2013-01-01

A quantum memory is a key component for quantum networks, which will enable the distribution of quantum information. Its successful development requires storage of single-photon light. Encoding photons with spatial shape through higher-dimensional states significantly increases their information-carrying capability and network capacity. However, constructing such quantum memories is challenging. Here we report the first experimental realization of a true single-photon-carrying orbital angular momentum stored via electromagnetically induced transparency in a cold atomic ensemble. Our experiments show that the non-classical pair correlation between trigger photon and retrieved photon is retained, and the spatial structure of input and retrieved photons exhibits strong similarity. More importantly, we demonstrate that single-photon coherence is preserved during storage. The ability to store spatial structure at the single-photon level opens the possibility for high-dimensional quantum memories. PMID:24084711

Crystal Structure of the Nipah Virus Phosphoprotein Tetramerization Domain

PubMed Central

Bruhn, Jessica F.; Barnett, Katherine C.; Bibby, Jaclyn; Thomas, Jens M. H.; Keegan, Ronan M.; Rigden, Daniel J.; Bornholdt, Zachary A.

2014-01-01

The Nipah virus phosphoprotein (P) is multimeric and tethers the viral polymerase to the nucleocapsid. We present the crystal structure of the multimerization domain of Nipah virus P: a long, parallel, tetrameric, coiled coil with a small, α-helical cap structure. Across the paramyxoviruses, these domains share little sequence identity yet are similar in length and structural organization, suggesting a common requirement for scaffolding or spatial organization of the functions of P in the virus life cycle. PMID:24155387

Temporal and spatial variation of hyperiid amphipod assemblages in response to hydrographic processes in the Panama Bight, eastern tropical Pacific

NASA Astrophysics Data System (ADS)

Valencia, Bellineth; Lavaniegos, Bertha; Giraldo, Alan; Rodríguez-Rubio, Efraín

2013-03-01

The variability of hyperiid amphipod assemblages was analyzed based on seasonal (dry vs. wet) and spatial differences (neritic vs. oceanic) in the Panama Bight. Four oceanographic cruises were carried out during 2007-2008, two during the dry season (Feb. 2007 and Mar. 2008) and two during the wet season (Sep. 2007 and Sep. 2008). Cooler (<20 °C) and saltier waters (>34 psu) at 30 m were observed during the dry season, while the opposite pattern occurred during the wet season (>25 °C,<33 psu). Seventy hyperiids species were found, with Hyperioides sibaginis and Lestrigonus bengalensis being the most abundant (76%). The structure of the hyperiids assemblages was similar between seasons; this may be due to the interannual variability associated with two ENSO processes (El Niño: Feb. 2007; La Niña: Sep. 2007 and Mar. 2008). Spatially, the structure of the hyperiids assemblages changed during the wet season, as a consequence of the strong neritic-oceanic contrast in salinity, while it was spatially similar during the dry season, as a consequence of species penetration toward the coast promoted by colder and saltier waters. The abundance of hyperiids was significantly correlated with the abundance of gelatinous zooplankton (siphonophores, ctenophores, doliolids and salps), which are commonly used as hosts by this group.

Finding faults: analogical comparison supports spatial concept learning in geoscience.

PubMed

Jee, Benjamin D; Uttal, David H; Gentner, Dedre; Manduca, Cathy; Shipley, Thomas F; Sageman, Bradley

2013-05-01

A central issue in education is how to support the spatial thinking involved in learning science, technology, engineering, and mathematics (STEM). We investigated whether and how the cognitive process of analogical comparison supports learning of a basic spatial concept in geoscience, fault. Because of the high variability in the appearance of faults, it may be difficult for students to learn the category-relevant spatial structure. There is abundant evidence that comparing analogous examples can help students gain insight into important category-defining features (Gentner in Cogn Sci 34(5):752-775, 2010). Further, comparing high-similarity pairs can be especially effective at revealing key differences (Sagi et al. 2012). Across three experiments, we tested whether comparison of visually similar contrasting examples would help students learn the fault concept. Our main findings were that participants performed better at identifying faults when they (1) compared contrasting (fault/no fault) cases versus viewing each case separately (Experiment 1), (2) compared similar as opposed to dissimilar contrasting cases early in learning (Experiment 2), and (3) viewed a contrasting pair of schematic block diagrams as opposed to a single block diagram of a fault as part of an instructional text (Experiment 3). These results suggest that comparison of visually similar contrasting cases helped distinguish category-relevant from category-irrelevant features for participants. When such comparisons occurred early in learning, participants were more likely to form an accurate conceptual representation. Thus, analogical comparison of images may provide one powerful way to enhance spatial learning in geoscience and other STEM disciplines.

Membrane Driven Spatial Organization of GPCRs

NASA Astrophysics Data System (ADS)

Mondal, Sayan; Johnston, Jennifer M.; Wang, Hao; Khelashvili, George; Filizola, Marta; Weinstein, Harel

2013-10-01

Spatial organization of G-protein coupled receptors (GPCRs) into dimers and higher order oligomers has been demonstrated in vitro and in vivo. The pharmacological readout was shown to depend on the specific interfaces, but why particular regions of the GPCR structure are involved, and how ligand-determined states change them remains unknown. Here we show why protein-membrane hydrophobic matching is attained upon oligomerization at specific interfaces from an analysis of coarse-grained molecular dynamics simulations of the spontaneous diffusion-interaction of the prototypical beta2-adrenergic (β2AR) receptors in a POPC lipid bilayer. The energy penalty from mismatch is significantly reduced in the spontaneously emerging oligomeric arrays, making the spatial organization of the GPCRs dependent on the pattern of mismatch in the monomer. This mismatch pattern is very different for β2AR compared to the highly homologous and structurally similar β1AR, consonant with experimentally observed oligomerization patterns of β2AR and β1AR. The results provide a mechanistic understanding of the structural context of oligomerization.

Research Update: Spatially resolved mapping of electronic structure on atomic level by multivariate statistical analysis

DOE PAGES

Belianinov, Alex; Panchapakesan, G.; Lin, Wenzhi; ...

2014-12-02

Atomic level spatial variability of electronic structure in Fe-based superconductor FeTe0.55Se0.45 (Tc = 15 K) is explored using current-imaging tunneling-spectroscopy. Multivariate statistical analysis of the data differentiates regions of dissimilar electronic behavior that can be identified with the segregation of chalcogen atoms, as well as boundaries between terminations and near neighbor interactions. Subsequent clustering analysis allows identification of the spatial localization of these dissimilar regions. Similar statistical analysis of modeled calculated density of states of chemically inhomogeneous FeTe1 x Sex structures further confirms that the two types of chalcogens, i.e., Te and Se, can be identified by their electronic signaturemore » and differentiated by their local chemical environment. This approach allows detailed chemical discrimination of the scanning tunneling microscopy data including separation of atomic identities, proximity, and local configuration effects and can be universally applicable to chemically and electronically inhomogeneous surfaces.« less

Research Update: Spatially resolved mapping of electronic structure on atomic level by multivariate statistical analysis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Belianinov, Alex, E-mail: belianinova@ornl.gov; Ganesh, Panchapakesan; Lin, Wenzhi

2014-12-01

Atomic level spatial variability of electronic structure in Fe-based superconductor FeTe{sub 0.55}Se{sub 0.45} (T{sub c} = 15 K) is explored using current-imaging tunneling-spectroscopy. Multivariate statistical analysis of the data differentiates regions of dissimilar electronic behavior that can be identified with the segregation of chalcogen atoms, as well as boundaries between terminations and near neighbor interactions. Subsequent clustering analysis allows identification of the spatial localization of these dissimilar regions. Similar statistical analysis of modeled calculated density of states of chemically inhomogeneous FeTe{sub 1−x}Se{sub x} structures further confirms that the two types of chalcogens, i.e., Te and Se, can be identified bymore » their electronic signature and differentiated by their local chemical environment. This approach allows detailed chemical discrimination of the scanning tunneling microscopy data including separation of atomic identities, proximity, and local configuration effects and can be universally applicable to chemically and electronically inhomogeneous surfaces.« less

City rats: insight from rat spatial behavior into human cognition in urban environments.

PubMed

Yaski, Osnat; Portugali, Juval; Eilam, David

2011-09-01

The structure and shape of the urban environment influence our ability to find our way about in the city. Understanding how the physical properties of the environment affect spatial behavior and cognition is therefore a necessity. However, there are inherent difficulties in empirically studying complex and large-scale urban environments. These include the need to isolate the impact of specific urban features and to acquire data on the physical activity of individuals. In the present study, we attempted to overcome the above obstacles and examine the relation between urban environments and spatial cognition by testing the spatial behavior of rats. This idea originated from the resemblance in the operative brain functions and in the mechanisms and strategies employed by humans and other animals when acquiring spatial information and establishing an internal representation, as revealed in past studies. Accordingly, we tested rats in arenas that simulated a grid urban layout (e.g. Manhattan streets) and an irregular urban layout (e.g. Jerusalem streets). We found that in the grid layout, rat movement was more structured and extended over a greater area compared with their restricted movement in the irregular layout. These movement patterns recall those of humans in respective urban environments, illustrating that the structure and shape of the environment affect spatial behavior similarly in humans and rats. Overall, testing rats in environments that simulate facets of urban environments can provide new insights into human spatial cognition in urban environments.

Environmental filtering structures tree functional traits combination and lineages across space in tropical tree assemblages.

PubMed

Asefa, Mengesha; Cao, Min; Zhang, Guocheng; Ci, Xiuqin; Li, Jie; Yang, Jie

2017-03-09

Environmental filtering consistently shapes the functional and phylogenetic structure of species across space within diverse forests. However, poor descriptions of community functional and lineage distributions across space hamper the accurate understanding of coexistence mechanisms. We combined environmental variables and geographic space to explore how traits and lineages are filtered by environmental factors using extended RLQ and fourth-corner analyses across different spatial scales. The dispersion patterns of traits and lineages were also examined in a 20-ha tropical rainforest dynamics plot in southwest China. We found that environmental filtering was detected across all spatial scales except the largest scale (100 × 100 m). Generally, the associations between functional traits and environmental variables were more or less consistent across spatial scales. Species with high resource acquisition-related traits were associated with the resource-rich part of the plot across the different spatial scales, whereas resource-conserving functional traits were distributed in limited-resource environments. Furthermore, we found phylogenetic and functional clustering at all spatial scales. Similar functional strategies were also detected among distantly related species, suggesting that phylogenetic distance is not necessarily a proxy for functional distance. In summary, environmental filtering considerably structured the trait and lineage assemblages in this species-rich tropical rainforest.

The Structure of Working Memory Abilities across the Adult Life Span

PubMed Central

Hale, Sandra; Rose, Nathan S.; Myerson, Joel; Strube, Michael J; Sommers, Mitchell; Tye-Murray, Nancy; Spehar, Brent

2010-01-01

The present study addresses three questions regarding age differences in working memory: (1) whether performance on complex span tasks decreases as a function of age at a faster rate than performance on simple span tasks; (2) whether spatial working memory decreases at a faster rate than verbal working memory; and (3) whether the structure of working memory abilities is different for different age groups. Adults, ages 20–89 (n=388), performed three simple and three complex verbal span tasks and three simple and three complex spatial memory tasks. Performance on the spatial tasks decreased at faster rates as a function of age than performance on the verbal tasks, but within each domain, performance on complex and simple span tasks decreased at the same rates. Confirmatory factor analyses revealed that domain-differentiated models yielded better fits than models involving domain-general constructs, providing further evidence of the need to distinguish verbal and spatial working memory abilities. Regardless of which domain-differentiated model was examined, and despite the faster rates of decrease in the spatial domain, age group comparisons revealed that the factor structure of working memory abilities was highly similar in younger and older adults and showed no evidence of age-related dedifferentiation. PMID:21299306

Characterizing the spatial structure of endangered species habitat using geostatistical analysis of IKONOS imagery

USGS Publications Warehouse

Wallace, C.S.A.; Marsh, S.E.

2005-01-01

Our study used geostatistics to extract measures that characterize the spatial structure of vegetated landscapes from satellite imagery for mapping endangered Sonoran pronghorn habitat. Fine spatial resolution IKONOS data provided information at the scale of individual trees or shrubs that permitted analysis of vegetation structure and pattern. We derived images of landscape structure by calculating local estimates of the nugget, sill, and range variogram parameters within 25 ?? 25-m image windows. These variogram parameters, which describe the spatial autocorrelation of the 1-m image pixels, are shown in previous studies to discriminate between different species-specific vegetation associations. We constructed two independent models of pronghorn landscape preference by coupling the derived measures with Sonoran pronghorn sighting data: a distribution-based model and a cluster-based model. The distribution-based model used the descriptive statistics for variogram measures at pronghorn sightings, whereas the cluster-based model used the distribution of pronghorn sightings within clusters of an unsupervised classification of derived images. Both models define similar landscapes, and validation results confirm they effectively predict the locations of an independent set of pronghorn sightings. Such information, although not a substitute for field-based knowledge of the landscape and associated ecological processes, can provide valuable reconnaissance information to guide natural resource management efforts. ?? 2005 Taylor & Francis Group Ltd.

Comparison of the Cloud Morphology Spatial Structure Between Jupiter and Saturn Using JunoCam and Cassini ISS

NASA Astrophysics Data System (ADS)

Garland, Justin; Sayanagi, Kunio M.; Blalock, John J.; Gunnarson, Jacob; McCabe, Ryan M.; Gallego, Angelina; Hansen, Candice; Orton, Glenn S.

2017-10-01

We present an analysis of the spatial-scales contained in the cloud morphology of Jupiter’s southern high latitudes using images captured by JunoCam in 2016 and 2017, and compare them to those on Saturn using images captured using the Imaging Science Subsystem (ISS) on board the Cassini orbiter. For Jupiter, the characteristic spatial scale of cloud morphology as a function of latitude is calculated from images taken in three visual (600-800, 500-600, 420-520 nm) bands and a near-infrared (880- 900 nm) band. In particular, we analyze the transition from the banded structure characteristic of Jupiter’s mid-latitudes to the chaotic structure of the polar region. We apply similar analysis to Saturn using images captured using Cassini ISS. In contrast to Jupiter, Saturn maintains its zonally organized cloud morphology from low latitudes up to the poles, culminating in the cyclonic polar vortices centered at each of the poles. By quantifying the differences in the spatial scales contained in the cloud morphology, our analysis will shed light on the processes that control the banded structures on Jupiter and Saturn. Our work has been supported by the following grants: NASA PATM NNX14AK07G, NASA MUREP NNX15AQ03A, and NSF AAG 1212216.

Evaluation of Deep Learning Representations of Spatial Storm Data

NASA Astrophysics Data System (ADS)

Gagne, D. J., II; Haupt, S. E.; Nychka, D. W.

2017-12-01

The spatial structure of a severe thunderstorm and its surrounding environment provide useful information about the potential for severe weather hazards, including tornadoes, hail, and high winds. Statistics computed over the area of a storm or from the pre-storm environment can provide descriptive information but fail to capture structural information. Because the storm environment is a complex, high-dimensional space, identifying methods to encode important spatial storm information in a low-dimensional form should aid analysis and prediction of storms by statistical and machine learning models. Principal component analysis (PCA), a more traditional approach, transforms high-dimensional data into a set of linearly uncorrelated, orthogonal components ordered by the amount of variance explained by each component. The burgeoning field of deep learning offers two potential approaches to this problem. Convolutional Neural Networks are a supervised learning method for transforming spatial data into a hierarchical set of feature maps that correspond with relevant combinations of spatial structures in the data. Generative Adversarial Networks (GANs) are an unsupervised deep learning model that uses two neural networks trained against each other to produce encoded representations of spatial data. These different spatial encoding methods were evaluated on the prediction of severe hail for a large set of storm patches extracted from the NCAR convection-allowing ensemble. Each storm patch contains information about storm structure and the near-storm environment. Logistic regression and random forest models were trained using the PCA and GAN encodings of the storm data and were compared against the predictions from a convolutional neural network. All methods showed skill over climatology at predicting the probability of severe hail. However, the verification scores among the methods were very similar and the predictions were highly correlated. Further evaluations are being performed to determine how the choice of input variables affects the results.

Snowpack spatial and temporal variability assessment using SMP high-resolution penetrometer

NASA Astrophysics Data System (ADS)

Komarov, Anton; Seliverstov, Yuriy; Sokratov, Sergey; Grebennikov, Pavel

2017-04-01

This research is focused on study of spatial and temporal variability of structure and characteristics of snowpack, quick identification of layers based on hardness and dispersion values received from snow micro penetrometer (SMP). We also discuss the detection of weak layers and definition of their parameters in non-alpine terrain. As long as it is the first SMP tool available in Russia, our intent is to test it in different climate and weather conditions. During two separate snowpack studies in plain and mountain landscapes, we derived density and grain size profiles by comparing snow density and grain size from snowpits and SMP measurements. The first case study was MSU meteorological observatory test site in Moscow. SMP data was obtained by 6 consecutive measurements along 10 m transects with a horizontal resolution of approximately 50 cm. The detailed description of snowpack structure, density, grain size, air and snow temperature was also performed. By comparing this information, the detailed scheme of snowpack evolution was created. The second case study was in Khibiny mountains. One 10-meter-long transect was made. SMP, density, grain size and snow temperature data was obtained with horizontal resolution of approximately 50 cm. The high-definition profile of snowpack density variation was acquired using received data. The analysis of data reveals high spatial and temporal variability in snow density and layer structure in both horizontal and vertical dimensions. It indicates that the spatial variability is exhibiting similar spatial patterns as surface topology. This suggests a strong influence from such factors as wind and liquid water pressure on the temporal and spatial evolution of snow structure. It was also defined, that spatial variation of snowpack characteristics is substantial even within homogeneous plain landscape, while in high-latitude mountain regions it grows significantly.

Effects of Weaning and Spatial Enrichment on Behavior of Turkish Saanen Goat Kids.

PubMed

Tölü, Cemil; Göktürk, Semra; Sava, Türker

2016-06-01

As is in all economic activities, the highest yield per unit area is the main goal in animal production, while addressing the temperamental needs of animals often is ignored. Animal welfare is not only an ethical fact; it also has an economic value. Spatial environmental enrichment contributes positively to animal welfare by addressing their behavioral and mental requirements. The present study was conducted to determine the effects of weaning and spatial environmental arrangements on behaviors of goat-kids. Experimental groups were arranged in structured and unstructured spatial environments. Roughage feeder, semi-automatic concentrate feeder, bunk, bridge, and wood block were placed in the structured environment. No equipment was placed in the unstructured environment and paddock sides were enclosed with an iron sheet to prevent bipedal stance and to provide environmental isolation. In the study 10 male and 10 female Turkish Saanen goat kids were used in each group. Spatial environmental arrangements did not have significant impacts on the growth performance of kids (p>0.05). All objects in the structured group were accepted by the kids. Average use ratios of roughage feeder, semi-automatic concentrate feeder, bunk, bridge and wood block were observed as 19.3%, 14.0%, 12.6%, 3.8%, and 0.7%, respectively. There were significant differences between before- and after-weaning in use of all objects except for underneath bridge (p≤0.05). Concentrate feed consumption, locomotion, and resting behaviors in kids showed significant differences by structural group and growth period. Roughage consumption was similar between groups, while it differed by growth period (p≤0.05). Interaction frequency was significantly higher in structured group (p = 0.0023). Playing behavior significantly differentiated based on the growth period rather than on groups (p≤0.05). Playing behavior significantly decreased after weaning. Abnormal oral activity was significantly higher in the structured group before weaning (p≤0.05). Despite there being no installations facilitating climbing and bipedal stance, the kids of the unstructured group were able to exhibit 1/3 as much bipedal stance behavior as the kids of the structured group through leaning over slippery paddock wall or over their groupmates. Bipedal stance behavior of unstructured group was similar before and after weaning, while bipedal stance behavior before weaning was about 2 times that of after weaning in structured group. It was concluded that unstructured environmental arrangement limited the behavior repertoire of the goat kids.

Effects of Weaning and Spatial Enrichment on Behavior of Turkish Saanen Goat Kids

PubMed Central

Tölü, Cemil; Göktürk, Semra; Sava, Türker

2016-01-01

As is in all economic activities, the highest yield per unit area is the main goal in animal production, while addressing the temperamental needs of animals often is ignored. Animal welfare is not only an ethical fact; it also has an economic value. Spatial environmental enrichment contributes positively to animal welfare by addressing their behavioral and mental requirements. The present study was conducted to determine the effects of weaning and spatial environmental arrangements on behaviors of goat-kids. Experimental groups were arranged in structured and unstructured spatial environments. Roughage feeder, semi-automatic concentrate feeder, bunk, bridge, and wood block were placed in the structured environment. No equipment was placed in the unstructured environment and paddock sides were enclosed with an iron sheet to prevent bipedal stance and to provide environmental isolation. In the study 10 male and 10 female Turkish Saanen goat kids were used in each group. Spatial environmental arrangements did not have significant impacts on the growth performance of kids (p>0.05). All objects in the structured group were accepted by the kids. Average use ratios of roughage feeder, semi-automatic concentrate feeder, bunk, bridge and wood block were observed as 19.3%, 14.0%, 12.6%, 3.8%, and 0.7%, respectively. There were significant differences between before- and after-weaning in use of all objects except for underneath bridge (p≤0.05). Concentrate feed consumption, locomotion, and resting behaviors in kids showed significant differences by structural group and growth period. Roughage consumption was similar between groups, while it differed by growth period (p≤0.05). Interaction frequency was significantly higher in structured group (p = 0.0023). Playing behavior significantly differentiated based on the growth period rather than on groups (p≤0.05). Playing behavior significantly decreased after weaning. Abnormal oral activity was significantly higher in the structured group before weaning (p≤0.05). Despite there being no installations facilitating climbing and bipedal stance, the kids of the unstructured group were able to exhibit 1/3 as much bipedal stance behavior as the kids of the structured group through leaning over slippery paddock wall or over their groupmates. Bipedal stance behavior of unstructured group was similar before and after weaning, while bipedal stance behavior before weaning was about 2 times that of after weaning in structured group. It was concluded that unstructured environmental arrangement limited the behavior repertoire of the goat kids. PMID:26954169

Determinants of fish assemblage structure in Northwestern Great Plains streams

USGS Publications Warehouse

Mullen, J.A.; Bramblett, R.G.; Guy, C.S.; Zale, A.V.; Roberts, D.W.

2011-01-01

Prairie streams are known for their harsh and stochastic physical conditions, and the fish assemblages therein have been shown to be temporally variable. We assessed the spatial and temporal variation in fish assemblage structure in five intermittent, adventitious northwestern Great Plains streams representing a gradient of watershed areas. Fish assemblages and abiotic conditions varied more spatially than temporally. The most important variables explaining fish assemblage structure were longitudinal position and the proportion of fine substrates. The proportion of fine substrates increased proceeding upstream, approaching 100% in all five streams, and species richness declined upstream with increasing fine substrates. High levels of fine substrate in the upper reaches appeared to limit the distribution of obligate lithophilic fish species to reaches further downstream. Species richness and substrates were similar among all five streams at the lowermost and uppermost sites. However, in the middle reaches, species richness increased, the amount of fine substrate decreased, and connectivity increased as watershed area increased. Season and some dimensions of habitat (including thalweg depth, absolute distance to the main-stem river, and watershed size) were not essential in explaining the variation in fish assemblages. Fish species richness varied more temporally than overall fish assemblage structure did because common species were consistently abundant across seasons, whereas rare species were sometimes absent or perhaps not detected by sampling. The similarity in our results among five streams varying in watershed size and those from other studies supports the generalization that spatial variation exceeds temporal variation in the fish assemblages of prairie and warmwater streams. Furthermore, given longitudinal position, substrate, and stream size, general predictions regarding fish assemblage structure and function in prairie streams are possible. ?? American Fisheries Society 2011.

Three-dimensional co-culture process

NASA Technical Reports Server (NTRS)

Wolf, David A. (Inventor); Goodwin, Thomas J. (Inventor)

1992-01-01

The present invention relates to a 3-dimensional co-culture process, more particularly to methods or co-culturing at least two types of cells in a culture environment, either in space or in unit gravity, with minimum shear stress, freedom for 3-dimensional spatial orientation of the suspended particles and localization of particles with differing or similar sedimentation properties in a similar spatial region to form 3-dimensional tissue-like structures. Several examples of multicellular 3-dimensional experiences are included. The protocol and procedure are also set forth. The process allows simultaneous culture of multiple cell types and supporting substrates in a manner which does not disrupt the 3-dimensional spatial orientation of these components. The co-cultured cells cause a mutual induction effect which mimics the natural hormonal signals and cell interactions found in the intact organism. This causes the tissues to differentiate and form higher 3-dimensional structures such as glands, junctional complexes polypoid geometries, and microvilli which represent the corresponding in-vitro structures to a greater degree than when the cell types are cultured individually or by conventional processes. This process was clearly demonstrated for the case of two epithelial derived colon cancer lines, each co-cultured with normal human fibroblasts and with microcarrier bead substrates. The results clearly demonstrate increased 3-dimensional tissue-like structure and biochemical evidence of an increased differentiation state. With the present invention a variety of cells may be co-cultured to produce tissue which has 3-dimensionality and has some of the characteristics of in-vitro tissue. The process provides enhanced 3-dimensional tissue which create a multicellular organoid differentiation model.

Discovering Structural Regularity in 3D Geometry

PubMed Central

Pauly, Mark; Mitra, Niloy J.; Wallner, Johannes; Pottmann, Helmut; Guibas, Leonidas J.

2010-01-01

We introduce a computational framework for discovering regular or repeated geometric structures in 3D shapes. We describe and classify possible regular structures and present an effective algorithm for detecting such repeated geometric patterns in point- or mesh-based models. Our method assumes no prior knowledge of the geometry or spatial location of the individual elements that define the pattern. Structure discovery is made possible by a careful analysis of pairwise similarity transformations that reveals prominent lattice structures in a suitable model of transformation space. We introduce an optimization method for detecting such uniform grids specifically designed to deal with outliers and missing elements. This yields a robust algorithm that successfully discovers complex regular structures amidst clutter, noise, and missing geometry. The accuracy of the extracted generating transformations is further improved using a novel simultaneous registration method in the spatial domain. We demonstrate the effectiveness of our algorithm on a variety of examples and show applications to compression, model repair, and geometry synthesis. PMID:21170292

Probing multi-scale self-similarity of tissue structures using light scattering spectroscopy: prospects in pre-cancer detection

NASA Astrophysics Data System (ADS)

Chatterjee, Subhasri; Das, Nandan K.; Kumar, Satish; Mohapatra, Sonali; Pradhan, Asima; Panigrahi, Prasanta K.; Ghosh, Nirmalya

2013-02-01

Multi-resolution analysis on the spatial refractive index inhomogeneities in the connective tissue regions of human cervix reveals clear signature of multifractality. We have thus developed an inverse analysis strategy for extraction and quantification of the multifractality of spatial refractive index fluctuations from the recorded light scattering signal. The method is based on Fourier domain pre-processing of light scattering data using Born approximation, and its subsequent analysis through Multifractal Detrended Fluctuation Analysis model. The method has been validated on several mono- and multi-fractal scattering objects whose self-similar properties are user controlled and known a-priori. Following successful validation, this approach has initially been explored for differentiating between different grades of precancerous human cervical tissues.

Dual energy CT with one full scan and a second sparse-view scan using structure preserving iterative reconstruction (SPIR)

NASA Astrophysics Data System (ADS)

Wang, Tonghe; Zhu, Lei

2016-09-01

Conventional dual-energy CT (DECT) reconstruction requires two full-size projection datasets with two different energy spectra. In this study, we propose an iterative algorithm to enable a new data acquisition scheme which requires one full scan and a second sparse-view scan for potential reduction in imaging dose and engineering cost of DECT. A bilateral filter is calculated as a similarity matrix from the first full-scan CT image to quantify the similarity between any two pixels, which is assumed unchanged on a second CT image since DECT scans are performed on the same object. The second CT image from reduced projections is reconstructed by an iterative algorithm which updates the image by minimizing the total variation of the difference between the image and its filtered image by the similarity matrix under data fidelity constraint. As the redundant structural information of the two CT images is contained in the similarity matrix for CT reconstruction, we refer to the algorithm as structure preserving iterative reconstruction (SPIR). The proposed method is evaluated on both digital and physical phantoms, and is compared with the filtered-backprojection (FBP) method, the conventional total-variation-regularization-based algorithm (TVR) and prior-image-constrained-compressed-sensing (PICCS). SPIR with a second 10-view scan reduces the image noise STD by a factor of one order of magnitude with same spatial resolution as full-view FBP image. SPIR substantially improves over TVR on the reconstruction accuracy of a 10-view scan by decreasing the reconstruction error from 6.18% to 1.33%, and outperforms TVR at 50 and 20-view scans on spatial resolution with a higher frequency at the modulation transfer function value of 10% by an average factor of 4. Compared with the 20-view scan PICCS result, the SPIR image has 7 times lower noise STD with similar spatial resolution. The electron density map obtained from the SPIR-based DECT images with a second 10-view scan has an average error of less than 1%.

How to compare movement? A review of physical movement similarity measures in geographic information science and beyond.

PubMed

Ranacher, Peter; Tzavella, Katerina

2014-05-27

In geographic information science, a plethora of different approaches and methods is used to assess the similarity of movement. Some of these approaches term two moving objects similar if they share akin paths. Others require objects to move at similar speed and yet others consider movement similar if it occurs at the same time. We believe that a structured and comprehensive classification of movement comparison measures is missing. We argue that such a classification not only depicts the status quo of qualitative and quantitative movement analysis, but also allows for identifying those aspects of movement for which similarity measures are scarce or entirely missing. In this review paper we, first, decompose movement into its spatial, temporal, and spatiotemporal movement parameters. A movement parameter is a physical quantity of movement, such as speed, spatial path, or temporal duration. For each of these parameters we then review qualitative and quantitative methods of how to compare movement. Thus, we provide a systematic and comprehensive classification of different movement similarity measures used in geographic information science. This classification is a valuable first step toward a GIS toolbox comprising all relevant movement comparison methods.

How to compare movement? A review of physical movement similarity measures in geographic information science and beyond

PubMed Central

Ranacher, Peter; Tzavella, Katerina

2014-01-01

In geographic information science, a plethora of different approaches and methods is used to assess the similarity of movement. Some of these approaches term two moving objects similar if they share akin paths. Others require objects to move at similar speed and yet others consider movement similar if it occurs at the same time. We believe that a structured and comprehensive classification of movement comparison measures is missing. We argue that such a classification not only depicts the status quo of qualitative and quantitative movement analysis, but also allows for identifying those aspects of movement for which similarity measures are scarce or entirely missing. In this review paper we, first, decompose movement into its spatial, temporal, and spatiotemporal movement parameters. A movement parameter is a physical quantity of movement, such as speed, spatial path, or temporal duration. For each of these parameters we then review qualitative and quantitative methods of how to compare movement. Thus, we provide a systematic and comprehensive classification of different movement similarity measures used in geographic information science. This classification is a valuable first step toward a GIS toolbox comprising all relevant movement comparison methods. PMID:27019646

Variability in vegetation effects on density and nesting success of grassland birds

USGS Publications Warehouse

Winter, Maiken; Johnson, Douglas H.; Shaffer, Jill A.

2005-01-01

The structure of vegetation in grassland systems, unlike that in forest systems, varies dramatically among years on the same sites, and among regions with similar vegetation. The role of this variation in vegetation structure on bird density and nesting success of grassland birds is poorly understood, primarily because few studies have included sufficiently large temporal and spatial scales to capture the variation in vegetation structure, bird density, or nesting success. To date, no large-scale study on grassland birds has been conducted to investigate whether grassland bird density and nesting success respond similarly to changes in vegetation structure. However, reliable management recommendations require investigations into the distribution and nesting success of grassland birds over larger temporal and spatial scales. In addition, studies need to examine whether bird density and nesting success respond similarly to changing environmental conditions. We investigated the effect of vegetation structure on the density and nesting success of 3 grassland-nesting birds: clay-colored sparrow (Spizella pallida), Savannah sparrow (Passerculus sandwichensis), and bobolink (Dolichonyx oryzivorus) in 3 regions of the northern tallgrass prairie in 1998-2001. Few vegetation features influenced the densities of our study species, and each species responded differently to those vegetation variables. We could identify only 1 variable that clearly influenced nesting success of 1 species: clay-colored sparrow nesting success increased with increasing percentage of nest cover from the surrounding vegetation. Because responses of avian density and nesting success to vegetation measures varied among regions, years, and species, land managers at all times need to provide grasslands with different types of vegetation structure. Management guidelines developed from small-scale, short-term studies may lead to misrepresentations of the needs of grassland-nesting birds.

Time Crystal Platform: From Quasicrystal Structures in Time to Systems with Exotic Interactions.

PubMed

Giergiel, Krzysztof; Miroszewski, Artur; Sacha, Krzysztof

2018-04-06

Time crystals are quantum many-body systems that, due to interactions between particles, are able to spontaneously self-organize their motion in a periodic way in time by analogy with the formation of crystalline structures in space in condensed matter physics. In solid state physics properties of space crystals are often investigated with the help of external potentials that are spatially periodic and reflect various crystalline structures. A similar approach can be applied for time crystals, as periodically driven systems constitute counterparts of spatially periodic systems, but in the time domain. Here we show that condensed matter problems ranging from single particles in potentials of quasicrystal structure to many-body systems with exotic long-range interactions can be realized in the time domain with an appropriate periodic driving. Moreover, it is possible to create molecules where atoms are bound together due to destructive interference if the atomic scattering length is modulated in time.

Time Crystal Platform: From Quasicrystal Structures in Time to Systems with Exotic Interactions

NASA Astrophysics Data System (ADS)

Giergiel, Krzysztof; Miroszewski, Artur; Sacha, Krzysztof

2018-04-01

Time crystals are quantum many-body systems that, due to interactions between particles, are able to spontaneously self-organize their motion in a periodic way in time by analogy with the formation of crystalline structures in space in condensed matter physics. In solid state physics properties of space crystals are often investigated with the help of external potentials that are spatially periodic and reflect various crystalline structures. A similar approach can be applied for time crystals, as periodically driven systems constitute counterparts of spatially periodic systems, but in the time domain. Here we show that condensed matter problems ranging from single particles in potentials of quasicrystal structure to many-body systems with exotic long-range interactions can be realized in the time domain with an appropriate periodic driving. Moreover, it is possible to create molecules where atoms are bound together due to destructive interference if the atomic scattering length is modulated in time.

Optical signal processing of spatially distributed sensor data in smart structures

NASA Technical Reports Server (NTRS)

Bennett, K. D.; Claus, R. O.; Murphy, K. A.; Goette, A. M.

1989-01-01

Smart structures which contain dense two- or three-dimensional arrays of attached or embedded sensor elements inherently require signal multiplexing and processing capabilities to permit good spatial data resolution as well as the adequately short calculation times demanded by real time active feedback actuator drive circuitry. This paper reports the implementation of an in-line optical signal processor and its application in a structural sensing system which incorporates multiple discrete optical fiber sensor elements. The signal processor consists of an array of optical fiber couplers having tailored s-parameters and arranged to allow gray code amplitude scaling of sensor inputs. The use of this signal processor in systems designed to indicate the location of distributed strain and damage in composite materials, as well as to quantitatively characterize that damage, is described. Extension of similar signal processing methods to more complicated smart materials and structures applications are discussed.

Earliest evidence for the structure of Homo sapiens populations in Africa

NASA Astrophysics Data System (ADS)

Scerri, Eleanor M. L.; Drake, Nick A.; Jennings, Richard; Groucutt, Huw S.

2014-10-01

Understanding the structure and variation of Homo sapiens populations in Africa is critical for interpreting multiproxy evidence of their subsequent dispersals into Eurasia. However, there is no consensus on early H. sapiens demographic structure, or its effects on intra-African dispersals. Here, we show how a patchwork of ecological corridors and bottlenecks triggered a successive budding of populations across the Sahara. Using a temporally and spatially explicit palaeoenvironmental model, we found that the Sahara was not uniformly ameliorated between ∼130 and 75 thousand years ago (ka), as has been stated. Model integration with multivariate analyses of corresponding stone tools then revealed several spatially defined technological clusters which correlated with distinct palaeobiomes. Similarities between technological clusters were such that they decreased with distance except where connected by palaeohydrological networks. These results indicate that populations at the Eurasian gateway were strongly structured, which has implications for refining the demographic parameters of dispersals out of Africa.

Nutritional deficits during early development affect hippocampal structure and spatial memory later in life.

PubMed

Pravosudov, Vladimir V; Lavenex, Pierre; Omanska, Alicja

2005-10-01

Development rates vary among individuals, often as a result of direct competition for food. Survival of young might depend on their learning abilities, but it remains unclear whether learning abilities are affected by nutrition during development. The authors demonstrated that compared with controls, 1-year-old Western scrub jays (Aphelocoma californica) that experienced nutritional deficits during early posthatching development had smaller hippocampi with fewer neurons and performed worse in a cache recovery task and in a spatial version of an associative learning task. In contrast, performance of nutritionally deprived birds was similar to that of controls in 2 color versions of an associative learning task. These findings suggest that nutritional deficits during early development have long-term consequences for hippocampal structure and spatial memory, which, in turn, are likely to have a strong impact on animals' future fitness.

On The Cusp of the New Spatial Challenges - The Thermal Waste Processing Plant as an Element of Urban Space

NASA Astrophysics Data System (ADS)

Wójtowicz-Wróbel, Agnieszka

2017-10-01

The goal of this paper is to answer the question about the current importance of structures associated with the thermal processing of waste within the space of Polish cities and what status can they have in the functional and spatial structure of Polish cities in the future. The construction of thermal waste processing plants in Poland is currently a new and important problem, with numerous structures of this type being built due to increasing care for the natural environment, with the introduction of legal regulations, as well as due to the possibility of obtaining large external funding for the purposes of undertaking pro-environmental spatial initiatives, etc. For this reason, the paper contains research on the increase in the number of thermal waste processing plants in Poland in recent years. The abovementioned data was compared with similar information from other European Union member states. In the group containing Polish thermal waste processing plants, research was performed regarding the stage of the construction of a plant (operating plant, plant under construction, design in a construction phase, etc.). The paper also contains a listing of the functions other than the basic form of use, which is the incineration of waste - similarly to numerous foreign examples - that the environmentally friendly waste incineration plants fulfil in Poland, dividing the additional forms of use into "hard" elements (at the design level, requiring the expansion of a building featuring new elements that are not directly associated with the basic purpose of waste processing) and soft (social, educational, promotional actions, as well as other endeavours that require human involvement, but that do not entail significant design work on the buildings itself, expanding its form of use, etc.) as well as mixed activity, which required design work, but on a relatively small scale. Research was also conducted regarding the placement of thermal waste processing plants within the spatial structures of cities (a city’s outer zone, central zone, etc.) and their placement in relation to the more important urban units, in addition to specifying what type of urban structure they are located in. On the basis of the research, we can observe that the construction of environmentally friendly thermal waste processing plants is a valid and new problem in Poland, and the potential that lies in the construction of a new environmentally friendly structure and the possibility of using it to improve the quality of an urban space is often left untapped, bringing the construction of such a structure down to nothing but its technological function. The research can serve as a comparative study for similar experiences in other countries, or for studies related to urban structures and their elements.

The blind men meet the elephant at the dam: Alternative spatial and taxonomic components reveal different insights about how low-head dams impact fish biodiversity

USGS Publications Warehouse

Fencl, Jane S.; Mather, Martha E.; Smith, Joseph M.; Hitchman, Sean M.

2017-01-01

Dams are ubiquitous environmental impacts that threaten aquatic ecosystems. The ability to compare across research studies is essential to conserve the native biodiversity that is impacted by the millions of low‐head dams that currently fragment streams and rivers. Here, we identify a previously unaddressed obstacle that impedes this generalization. Specifically, divergent spatial and taxonomic approaches that result from different conceptualizations of the dam‐biodiversity problem can produce conflicting science‐based conclusions about the same dam impact. In this research, using the same dammed and undammed sites, we evaluated the scientific generality of different conceptualizations of the dam‐biodiversity problem. We compared two different but commonly used spatial approaches—(1) above dam–below dam vs. (2) undammed–dammed comparisons—and 11 different, commonly used taxonomic approaches (three assemblage summaries, eight guilds). Sites above the dam structure had less diverse fish assemblages than sites below dams, whereas sites below the dam structure were similar to undammed sites. Thus, spatial approach 1 detected a large dam effect and spatial approach 2 detected a small dam effect. Similarly, some taxonomic responses (species richness, diversity, abundance, and number of guilds) detected large dam effects; other responses detected small (riffle specialist guild) or no dam effects (pool generalists). In summary, our results showed that how the problem was framed altered scientific conclusions and created different dam realities. The metaphor of how individual blind men disagree about the structure of an elephant, based on examinations of different body parts, reinforces the need for a coordinated, holistic perspective on dam research. Although no single approach is adequate for all problems, identifying the form, consequences of, and relationships among different research conceptualizations will set the stage for future syntheses of dam‐biodiversity research to advance science‐based conservation.

Metacommunity ecology meets biogeography: effects of geographical region, spatial dynamics and environmental filtering on community structure in aquatic organisms.

PubMed

Heino, Jani; Soininen, Janne; Alahuhta, Janne; Lappalainen, Jyrki; Virtanen, Risto

2017-01-01

Metacommunity patterns and underlying processes in aquatic organisms have typically been studied within a drainage basin. We examined variation in the composition of six freshwater organismal groups across various drainage basins in Finland. We first modelled spatial structures within each drainage basin using Moran eigenvector maps. Second, we partitioned variation in community structure among three groups of predictors using constrained ordination: (1) local environmental variables, (2) spatial variables, and (3) dummy variable drainage basin identity. Third, we examined turnover and nestedness components of multiple-site beta diversity, and tested the best fit patterns of our datasets using the "elements of metacommunity structure" analysis. Our results showed that basin identity and local environmental variables were significant predictors of community structure, whereas within-basin spatial effects were typically negligible. In half of the organismal groups (diatoms, bryophytes, zooplankton), basin identity was a slightly better predictor of community structure than local environmental variables, whereas the opposite was true for the remaining three organismal groups (insects, macrophytes, fish). Both pure basin and local environmental fractions were, however, significant after accounting for the effects of the other predictor variable sets. All organismal groups exhibited high levels of beta diversity, which was mostly attributable to the turnover component. Our results showed consistent Clementsian-type metacommunity structures, suggesting that subgroups of species responded similarly to environmental factors or drainage basin limits. We conclude that aquatic communities across large scales are mostly determined by environmental and basin effects, which leads to high beta diversity and prevalence of Clementsian community types.

Building structural similarity database for metric learning

NASA Astrophysics Data System (ADS)

Jin, Guoxin; Pappas, Thrasyvoulos N.

2015-03-01

We propose a new approach for constructing databases for training and testing similarity metrics for structurally lossless image compression. Our focus is on structural texture similarity (STSIM) metrics and the matched-texture compression (MTC) approach. We first discuss the metric requirements for structurally lossless compression, which differ from those of other applications such as image retrieval, classification, and understanding. We identify "interchangeability" as the key requirement for metric performance, and partition the domain of "identical" textures into three regions, of "highest," "high," and "good" similarity. We design two subjective tests for data collection, the first relies on ViSiProG to build a database of "identical" clusters, and the second builds a database of image pairs with the "highest," "high," "good," and "bad" similarity labels. The data for the subjective tests is generated during the MTC encoding process, and consist of pairs of candidate and target image blocks. The context of the surrounding image is critical for training the metrics to detect lighting discontinuities, spatial misalignments, and other border artifacts that have a noticeable effect on perceptual quality. The identical texture clusters are then used for training and testing two STSIM metrics. The labelled image pair database will be used in future research.

Hierarchical Bayesian spatial models for multispecies conservation planning and monitoring.

PubMed

Carroll, Carlos; Johnson, Devin S; Dunk, Jeffrey R; Zielinski, William J

2010-12-01

Biologists who develop and apply habitat models are often familiar with the statistical challenges posed by their data's spatial structure but are unsure of whether the use of complex spatial models will increase the utility of model results in planning. We compared the relative performance of nonspatial and hierarchical Bayesian spatial models for three vertebrate and invertebrate taxa of conservation concern (Church's sideband snails [Monadenia churchi], red tree voles [Arborimus longicaudus], and Pacific fishers [Martes pennanti pacifica]) that provide examples of a range of distributional extents and dispersal abilities. We used presence-absence data derived from regional monitoring programs to develop models with both landscape and site-level environmental covariates. We used Markov chain Monte Carlo algorithms and a conditional autoregressive or intrinsic conditional autoregressive model framework to fit spatial models. The fit of Bayesian spatial models was between 35 and 55% better than the fit of nonspatial analogue models. Bayesian spatial models outperformed analogous models developed with maximum entropy (Maxent) methods. Although the best spatial and nonspatial models included similar environmental variables, spatial models provided estimates of residual spatial effects that suggested how ecological processes might structure distribution patterns. Spatial models built from presence-absence data improved fit most for localized endemic species with ranges constrained by poorly known biogeographic factors and for widely distributed species suspected to be strongly affected by unmeasured environmental variables or population processes. By treating spatial effects as a variable of interest rather than a nuisance, hierarchical Bayesian spatial models, especially when they are based on a common broad-scale spatial lattice (here the national Forest Inventory and Analysis grid of 24 km(2) hexagons), can increase the relevance of habitat models to multispecies conservation planning. Journal compilation © 2010 Society for Conservation Biology. No claim to original US government works.

Uniform functional structure across spatial scales in an intertidal benthic assemblage.

PubMed

Barnes, R S K; Hamylton, Sarah

2015-05-01

To investigate the causes of the remarkable similarity of emergent assemblage properties that has been demonstrated across disparate intertidal seagrass sites and assemblages, this study examined whether their emergent functional-group metrics are scale related by testing the null hypothesis that functional diversity and the suite of dominant functional groups in seagrass-associated macrofauna are robust structural features of such assemblages and do not vary spatially across nested scales within a 0.4 ha area. This was carried out via a lattice of 64 spatially referenced stations. Although densities of individual components were patchily dispersed across the locality, rank orders of importance of the 14 functional groups present, their overall functional diversity and evenness, and the proportions of the total individuals contained within each showed, in contrast, statistically significant spatial uniformity, even at areal scales <2 m(2). Analysis of the proportional importance of the functional groups in their geospatial context also revealed weaker than expected levels of spatial autocorrelation, and then only at the smaller scales and amongst the most dominant groups, and only a small number of negative correlations occurred between the proportional importances of the individual groups. In effect, such patterning was a surface veneer overlying remarkable stability of assemblage functional composition across all spatial scales. Although assemblage species composition is known to be homogeneous in some soft-sediment marine systems over equivalent scales, this combination of patchy individual components yet basically constant functional-group structure seems as yet unreported. Copyright © 2015 Elsevier Ltd. All rights reserved.

Contrasting spatial patterns in active-fire and fire-suppressed Mediterranean climate old-growth mixed conifer forests.

PubMed

Fry, Danny L; Stephens, Scott L; Collins, Brandon M; North, Malcolm P; Franco-Vizcaíno, Ernesto; Gill, Samantha J

2014-01-01

In Mediterranean environments in western North America, historic fire regimes in frequent-fire conifer forests are highly variable both temporally and spatially. This complexity influenced forest structure and spatial patterns, but some of this diversity has been lost due to anthropogenic disruption of ecosystem processes, including fire. Information from reference forest sites can help management efforts to restore forests conditions that may be more resilient to future changes in disturbance regimes and climate. In this study, we characterize tree spatial patterns using four-ha stem maps from four old-growth, Jeffrey pine-mixed conifer forests, two with active-fire regimes in northwestern Mexico and two that experienced fire exclusion in the southern Sierra Nevada. Most of the trees were in patches, averaging six to 11 trees per patch at 0.007 to 0.014 ha(-1), and occupied 27-46% of the study areas. Average canopy gap sizes (0.04 ha) covering 11-20% of the area were not significantly different among sites. The putative main effects of fire exclusion were higher densities of single trees in smaller size classes, larger proportion of trees (≥ 56%) in large patches (≥ 10 trees), and decreases in spatial complexity. While a homogenization of forest structure has been a typical result from fire exclusion, some similarities in patch, single tree, and gap attributes were maintained at these sites. These within-stand descriptions provide spatially relevant benchmarks from which to manage for structural heterogeneity in frequent-fire forest types.

Turbulent Flow Over Large Roughness Elements: Effect of Frontal and Plan Solidity on Turbulence Statistics and Structure

NASA Astrophysics Data System (ADS)

Placidi, M.; Ganapathisubramani, B.

2018-04-01

Wind-tunnel experiments were carried out on fully-rough boundary layers with large roughness (δ /h ≈ 10, where h is the height of the roughness elements and δ is the boundary-layer thickness). Twelve different surface conditions were created by using LEGO™ bricks of uniform height. Six cases are tested for a fixed plan solidity (λ _P) with variations in frontal density (λ _F), while the other six cases have varying λ _P for fixed λ _F. Particle image velocimetry and floating-element drag-balance measurements were performed. The current results complement those contained in Placidi and Ganapathisubramani (J Fluid Mech 782:541-566, 2015), extending the previous analysis to the turbulence statistics and spatial structure. Results indicate that mean velocity profiles in defect form agree with Townsend's similarity hypothesis with varying λ _F, however, the agreement is worse for cases with varying λ _P. The streamwise and wall-normal turbulent stresses, as well as the Reynolds shear stresses, show a lack of similarity across most examined cases. This suggests that the critical height of the roughness for which outer-layer similarity holds depends not only on the height of the roughness, but also on the local wall morphology. A new criterion based on shelter solidity, defined as the sheltered plan area per unit wall-parallel area, which is similar to the `effective shelter area' in Raupach and Shaw (Boundary-Layer Meteorol 22:79-90, 1982), is found to capture the departure of the turbulence statistics from outer-layer similarity. Despite this lack of similarity reported in the turbulence statistics, proper orthogonal decomposition analysis, as well as two-point spatial correlations, show that some form of universal flow structure is present, as all cases exhibit virtually identical proper orthogonal decomposition mode shapes and correlation fields. Finally, reduced models based on proper orthogonal decomposition reveal that the small scales of the turbulence play a significant role in assessing outer-layer similarity.

Coastal Upwelling Drives Intertidal Assemblage Structure and Trophic Ecology.

PubMed

Reddin, Carl J; Docmac, Felipe; O'Connor, Nessa E; Bothwell, John H; Harrod, Chris

2015-01-01

Similar environmental driving forces can produce similarity among geographically distant ecosystems. Coastal oceanic upwelling, for example, has been associated with elevated biomass and abundance patterns of certain functional groups, e.g., corticated macroalgae. In the upwelling system of Northern Chile, we examined measures of intertidal macrobenthic composition, structure and trophic ecology across eighteen shores varying in their proximity to two coastal upwelling centres, in a hierarchical sampling design (spatial scales of >1 and >10 km). The influence of coastal upwelling on intertidal communities was confirmed by the stable isotope values (δ13C and δ15N) of consumers, including a dominant suspension feeder, grazers, and their putative resources of POM, epilithic biofilm, and macroalgae. We highlight the utility of muscle δ15N from the suspension feeding mussel, Perumytilus purpuratus, as a proxy for upwelling, supported by satellite data and previous studies. Where possible, we used corrections for broader-scale trends, spatial autocorrelation, ontogenetic dietary shifts and spatial baseline isotopic variation prior to analysis. Our results showed macroalgal assemblage composition, and benthic consumer assemblage structure, varied significantly with the intertidal influence of coastal upwelling, especially contrasting bays and coastal headlands. Coastal topography also separated differences in consumer resource use. This suggested that coastal upwelling, itself driven by coastline topography, influences intertidal communities by advecting nearshore phytoplankton populations offshore and cooling coastal water temperatures. We recommend the isotopic values of benthic organisms, specifically long-lived suspension feeders, as in situ alternatives to offshore measurements of upwelling influence.

Coastal Upwelling Drives Intertidal Assemblage Structure and Trophic Ecology

PubMed Central

Reddin, Carl J.; Docmac, Felipe; O’Connor, Nessa E.; Bothwell, John H.; Harrod, Chris

2015-01-01

Similar environmental driving forces can produce similarity among geographically distant ecosystems. Coastal oceanic upwelling, for example, has been associated with elevated biomass and abundance patterns of certain functional groups, e.g., corticated macroalgae. In the upwelling system of Northern Chile, we examined measures of intertidal macrobenthic composition, structure and trophic ecology across eighteen shores varying in their proximity to two coastal upwelling centres, in a hierarchical sampling design (spatial scales of >1 and >10 km). The influence of coastal upwelling on intertidal communities was confirmed by the stable isotope values (δ13C and δ15N) of consumers, including a dominant suspension feeder, grazers, and their putative resources of POM, epilithic biofilm, and macroalgae. We highlight the utility of muscle δ15N from the suspension feeding mussel, Perumytilus purpuratus, as a proxy for upwelling, supported by satellite data and previous studies. Where possible, we used corrections for broader-scale trends, spatial autocorrelation, ontogenetic dietary shifts and spatial baseline isotopic variation prior to analysis. Our results showed macroalgal assemblage composition, and benthic consumer assemblage structure, varied significantly with the intertidal influence of coastal upwelling, especially contrasting bays and coastal headlands. Coastal topography also separated differences in consumer resource use. This suggested that coastal upwelling, itself driven by coastline topography, influences intertidal communities by advecting nearshore phytoplankton populations offshore and cooling coastal water temperatures. We recommend the isotopic values of benthic organisms, specifically long-lived suspension feeders, as in situ alternatives to offshore measurements of upwelling influence. PMID:26214806

Circulation controls of the spatial structure of maximum daily precipitation over Poland

NASA Astrophysics Data System (ADS)

Stach, Alfred

2015-04-01

Among forecasts made on the basis of global and regional climatic models is one of a high probability of an increase in the frequency and intensity of extreme precipitation events. Learning the regularities underlying the recurrence and spatial extent of extreme precipitation is obviously of great importance, both economic and social. The main goal of the study was to analyse regularities underlying spatial and temporal variations in monthly Maximum Daily Precipitation Totals (MDPTs) observed in Poland over the years 1956-1980. These data are specific because apart from being spatially discontinuous, which is typical of precipitation, they are also non-synchronic. The main aim of the study was accomplished via several detailed goals: • identification and typology of the spatial structure of monthly MDPTs, • determination of the character and probable origin of events generating MDPTs, and • quantitative assessment of the contribution of the particular events to the overall MDPT figures. The analysis of the spatial structure of MDPTs was based on 300 models of spatial structure, one for each of the analysed sets of monthly MDPTs. The models were built on the basis of empirical anisotropic semivariograms of normalised data. In spite of their spatial discontinuity and asynchronicity, the MDPT data from Poland display marked regularities in their spatial pattern that yield readily to mathematical modelling. The MDPT field in Poland is usually the sum of the outcomes of three types of processes operating at various spatial scales: local (<10-20 km), regional (50-150 km), and supra-regional (>200 km). The spatial scales are probably connected with a convective/ orographic, a frontal and a 'planetary waves' genesis of high precipitation. Their contributions are highly variable. Generally predominant, however, are high daily precipitation totals with a spatial extent of 50 to 150 km connected with mesoscale phenomena and the migration of atmospheric fronts (35-38%). The spatial extent of areas of high local-scale precipitation usually varies at random, especially in the warm season. At supra-local scales, structures of repetitive size predominate. Eight types of anisotropic structures of monthly MDPTs were distinguished. To identify them, an analysis was made of semivariance surface similarities. The types differ not only in the level and direction of anisotropy, but also in the number and type of elementary components, which is evidence of genetic differences in precipitation. Their appearance shows a significant seasonal variability, so the most probable supposition was that temporal variations in the MDPT pattern were connected with circulation conditions: the type and direction of inflow of air masses. This hypothesis was validated by testing differences in the frequency of occurrence of Grosswetterlagen circulation situations in the months belonging to the distinguished types of the spatial MDPT pattern.

Discrimination performance in aging is vulnerable to interference and dissociable from spatial memory

PubMed Central

Johnson, Sarah A.; Sacks, Patricia K.; Turner, Sean M.; Gaynor, Leslie S.; Ormerod, Brandi K.; Maurer, Andrew P.; Bizon, Jennifer L.

2016-01-01

Hippocampal-dependent episodic memory and stimulus discrimination abilities are both compromised in the elderly. The reduced capacity to discriminate between similar stimuli likely contributes to multiple aspects of age-related cognitive impairment; however, the association of these behaviors within individuals has never been examined in an animal model. In the present study, young and aged F344×BN F1 hybrid rats were cross-characterized on the Morris water maze test of spatial memory and a dentate gyrus-dependent match-to-position test of spatial discrimination ability. Aged rats showed overall impairments relative to young in spatial learning and memory on the water maze task. Although young and aged learned to apply a match-to-position response strategy in performing easy spatial discriminations within a similar number of trials, a majority of aged rats were impaired relative to young in performing difficult spatial discriminations on subsequent tests. Moreover, all aged rats were susceptible to cumulative interference during spatial discrimination tests, such that error rate increased on later trials of test sessions. These data suggest that when faced with difficult discriminations, the aged rats were less able to distinguish current goal locations from those of previous trials. Increasing acetylcholine levels with donepezil did not improve aged rats’ abilities to accurately perform difficult spatial discriminations or reduce their susceptibility to interference. Interestingly, better spatial memory abilities were not significantly associated with higher performance on difficult spatial discriminations. This observation, along with the finding that aged rats made more errors under conditions in which interference was high, suggests that match-to-position spatial discrimination performance may rely on extra-hippocampal structures such as the prefrontal cortex, in addition to the dentate gyrus. PMID:27317194

Flight and echolocation behaviour of three vespertilionid bat species while commuting on flyways.

PubMed

Schaub, Andrea; Schnitzler, Hans-Ulrich

2007-12-01

This study compares the flight and echolocation behaviour of three vespertilionid bat species while they commute on flyways. We measured the bats' spatial position relative to vertical background contours and relative to the ground while recording their echolocation behaviour. In Myotis daubentonii, we found a significant influence of spatial context on the position and dimensions of flyways as well as on echolocation behaviour. In gap situations, flyways tended to be narrower and located closer to background structures, flight speeds were lower and the bandwidth of echolocation signals was larger than in edge situations. Differences in background structure did not affect flight and echolocation behaviour. When commuting in the same gap situation flyway positions and dimensions for M. daubentonii and Myotis brandtii were similar but differed from those of Pipistrellus pipistrellus, which were slightly higher and further out than those used by the Myotis species. In M. brandtii, flyway positions and dimensions remained constant over 3 years. We found species-dependent differences in signal structure, but pulse interval and flight speed were similar across all species. The influence of available space on the position of flyways, on flight speed and on echolocation behaviour is discussed.

Self-Similarity of Plasmon Edge Modes on Koch Fractal Antennas.

PubMed

Bellido, Edson P; Bernasconi, Gabriel D; Rossouw, David; Butet, Jérémy; Martin, Olivier J F; Botton, Gianluigi A

2017-11-28

We investigate the plasmonic behavior of Koch snowflake fractal geometries and their possible application as broadband optical antennas. Lithographically defined planar silver Koch fractal antennas were fabricated and characterized with high spatial and spectral resolution using electron energy loss spectroscopy. The experimental data are supported by numerical calculations carried out with a surface integral equation method. Multiple surface plasmon edge modes supported by the fractal structures have been imaged and analyzed. Furthermore, by isolating and reproducing self-similar features in long silver strip antennas, the edge modes present in the Koch snowflake fractals are identified. We demonstrate that the fractal response can be obtained by the sum of basic self-similar segments called characteristic edge units. Interestingly, the plasmon edge modes follow a fractal-scaling rule that depends on these self-similar segments formed in the structure after a fractal iteration. As the size of a fractal structure is reduced, coupling of the modes in the characteristic edge units becomes relevant, and the symmetry of the fractal affects the formation of hybrid modes. This analysis can be utilized not only to understand the edge modes in other planar structures but also in the design and fabrication of fractal structures for nanophotonic applications.

Downscaling remotely sensed imagery using area-to-point cokriging and multiple-point geostatistical simulation

NASA Astrophysics Data System (ADS)

Tang, Yunwei; Atkinson, Peter M.; Zhang, Jingxiong

2015-03-01

A cross-scale data integration method was developed and tested based on the theory of geostatistics and multiple-point geostatistics (MPG). The goal was to downscale remotely sensed images while retaining spatial structure by integrating images at different spatial resolutions. During the process of downscaling, a rich spatial correlation model in the form of a training image was incorporated to facilitate reproduction of similar local patterns in the simulated images. Area-to-point cokriging (ATPCK) was used as locally varying mean (LVM) (i.e., soft data) to deal with the change of support problem (COSP) for cross-scale integration, which MPG cannot achieve alone. Several pairs of spectral bands of remotely sensed images were tested for integration within different cross-scale case studies. The experiment shows that MPG can restore the spatial structure of the image at a fine spatial resolution given the training image and conditioning data. The super-resolution image can be predicted using the proposed method, which cannot be realised using most data integration methods. The results show that ATPCK-MPG approach can achieve greater accuracy than methods which do not account for the change of support issue.

Seasonal Differences in Spatial Scales of Chlorophyll-A Concentration in Lake TAIHU，CHINA

NASA Astrophysics Data System (ADS)

Bao, Y.; Tian, Q.; Sun, S.; Wei, H.; Tian, J.

2012-08-01

Spatial distribution of chlorophyll-a (chla) concentration in Lake Taihu is non-uniform and seasonal variability. Chla concentration retrieval algorithms were separately established using measured data and remote sensing images (HJ-1 CCD and MODIS data) in October 2010, March 2011, and September 2011. Then parameters of semi- variance were calculated on the scale of 30m, 250m and 500m for analyzing spatial heterogeneity in different seasons. Finally, based on the definitions of Lumped chla (chlaL) and Distributed chla (chlaD), seasonal model of chla concentration scale error was built. The results indicated that: spatial distribution of chla concentration in spring was more uniform. In summer and autumn, chla concentration in the north of the lake such as Meiliang Bay and Zhushan Bay was higher than that in the south of Lake Taihu. Chla concentration on different scales showed the similar structure in the same season, while it had different structure in different seasons. And inversion chla concentration from MODIS 500m had a greater scale error. The spatial scale error changed with seasons. It was higher in summer and autumn than that in spring. The maximum relative error can achieve 23%.

Effects of Spatial and Feature Attention on Disparity-Rendered Structure-From-Motion Stimuli in the Human Visual Cortex

PubMed Central

Ip, Ifan Betina; Bridge, Holly; Parker, Andrew J.

2014-01-01

An important advance in the study of visual attention has been the identification of a non-spatial component of attention that enhances the response to similar features or objects across the visual field. Here we test whether this non-spatial component can co-select individual features that are perceptually bound into a coherent object. We combined human psychophysics and functional magnetic resonance imaging (fMRI) to demonstrate the ability to co-select individual features from perceptually coherent objects. Our study used binocular disparity and visual motion to define disparity structure-from-motion (dSFM) stimuli. Although the spatial attention system induced strong modulations of the fMRI response in visual regions, the non-spatial system’s ability to co-select features of the dSFM stimulus was less pronounced and variable across subjects. Our results demonstrate that feature and global feature attention effects are variable across participants, suggesting that the feature attention system may be limited in its ability to automatically select features within the attended object. Careful comparison of the task design suggests that even minor differences in the perceptual task may be critical in revealing the presence of global feature attention. PMID:24936974

Fast protein tertiary structure retrieval based on global surface shape similarity.

PubMed

Sael, Lee; Li, Bin; La, David; Fang, Yi; Ramani, Karthik; Rustamov, Raif; Kihara, Daisuke

2008-09-01

Characterization and identification of similar tertiary structure of proteins provides rich information for investigating function and evolution. The importance of structure similarity searches is increasing as structure databases continue to expand, partly due to the structural genomics projects. A crucial drawback of conventional protein structure comparison methods, which compare structures by their main-chain orientation or the spatial arrangement of secondary structure, is that a database search is too slow to be done in real-time. Here we introduce a global surface shape representation by three-dimensional (3D) Zernike descriptors, which represent a protein structure compactly as a series expansion of 3D functions. With this simplified representation, the search speed against a few thousand structures takes less than a minute. To investigate the agreement between surface representation defined by 3D Zernike descriptor and conventional main-chain based representation, a benchmark was performed against a protein classification generated by the combinatorial extension algorithm. Despite the different representation, 3D Zernike descriptor retrieved proteins of the same conformation defined by combinatorial extension in 89.6% of the cases within the top five closest structures. The real-time protein structure search by 3D Zernike descriptor will open up new possibility of large-scale global and local protein surface shape comparison. 2008 Wiley-Liss, Inc.

Riboswitches: emerging themes in RNA structure and function.

PubMed

Montange, Rebecca K; Batey, Robert T

2008-01-01

Riboswitches are RNAs capable of binding cellular metabolites using a diverse array of secondary and tertiary structures to modulate gene expression. The recent determination of the three-dimensional structures of parts of six different riboswitches illuminates common features that allow riboswitches to be grouped into one of two types. Type I riboswitches, as exemplified by the purine riboswitch, are characterized by a single, localized binding pocket supported by a largely pre-established global fold. This arrangement limits ligand-induced conformational changes in the RNA to a small region. In contrast, Type II riboswitches, such as the thiamine pyrophosphate riboswitch, contain binding pockets split into at least two spatially distinct sites. As a result, binding induces both local changes to the binding pocket and global architecture. Similar organizational themes are found in other noncoding RNAs, making it possible to begin to build a hierarchical classification of RNA structure based on the spatial organization of their active sites and associated secondary structural elements.

The geography of solar energy in the United States: Market definition, industry structure, and choice in solar PV adoption

DOE PAGES

O’Shaughnessy, Eric; Nemet, Gregory F.; Darghouth, Naïm

2018-01-30

The solar photovoltaic (PV) installation industry comprises thousands of firms around the world who collectively installed nearly 200 million panels in 2015. Spatial analysis of the emerging industry has received considerable attention from the literature, especially on the demand side concerning peer effects and adopter clustering. However this research area does not include similarly sophisticated spatial analysis on the supply side of the installation industry. The lack of understanding of the spatial structure of the PV installation industry leaves PV market research to rely on jurisdictional lines, such as counties, to define geographic PV markets. We develop an approach thatmore » uses the spatial distribution of installers' activity to define geographic boundaries for PV markets. Our method is useful for PV market research and applicable in the contexts of other industries. We use our approach to demonstrate that the PV industry in the United States is spatially heterogeneous. Despite the emergence of some national-scale PV installers, installers are largely local and installer communities are unique from one region to the next. The social implications of the spatial heterogeneity of the emerging PV industry involve improving understanding of issues such as market power, industry consolidation, and how much choice potential adopters have.« less

The geography of solar energy in the United States: Market definition, industry structure, and choice in solar PV adoption

DOE Office of Scientific and Technical Information (OSTI.GOV)

O’Shaughnessy, Eric; Nemet, Gregory F.; Darghouth, Naïm

The solar photovoltaic (PV) installation industry comprises thousands of firms around the world who collectively installed nearly 200 million panels in 2015. Spatial analysis of the emerging industry has received considerable attention from the literature, especially on the demand side concerning peer effects and adopter clustering. However this research area does not include similarly sophisticated spatial analysis on the supply side of the installation industry. The lack of understanding of the spatial structure of the PV installation industry leaves PV market research to rely on jurisdictional lines, such as counties, to define geographic PV markets. We develop an approach thatmore » uses the spatial distribution of installers' activity to define geographic boundaries for PV markets. Our method is useful for PV market research and applicable in the contexts of other industries. We use our approach to demonstrate that the PV industry in the United States is spatially heterogeneous. Despite the emergence of some national-scale PV installers, installers are largely local and installer communities are unique from one region to the next. The social implications of the spatial heterogeneity of the emerging PV industry involve improving understanding of issues such as market power, industry consolidation, and how much choice potential adopters have.« less

The macro-structural variability of the human neocortex.

PubMed

Kruggel, Frithjof

2018-05-15

The human neocortex shows a considerable individual structural variability. While primary gyri and sulci are found in all normally developed brains and bear clear-cut gross structural descriptions, secondary structures are highly variable and not present in all brains. The blend of common and individual structures poses challenges when comparing structural and functional results from quantitative neuroimaging studies across individuals, and sets limits on the precision of location information much above the spatial resolution of current neuroimaging methods. This work aimed at quantifying structural variability on the neocortex, and at assessing the spatial relationship between regions common to all brains and their individual structural variants. Based on structural MRI data provided as the "900 Subjects Release" of the Human Connectome Project, a data-driven analytic approach was employed here from which the definition of seven cortical "communities" emerged. Apparently, these communities comprise common regions of structural features, while the individual variability is confined within a community. Similarities between the community structure and the state of the brain development at gestation week 32 lead suggest that communities are segregated early. Subdividing the neocortex into communities is suggested as anatomically more meaningful than the traditional lobar structure. Copyright © 2018 Elsevier Inc. All rights reserved.

Frequency conversion of structured light.

PubMed

Steinlechner, Fabian; Hermosa, Nathaniel; Pruneri, Valerio; Torres, Juan P

2016-02-15

Coherent frequency conversion of structured light, i.e. the ability to manipulate the carrier frequency of a wave front without distorting its spatial phase and intensity profile, provides the opportunity for numerous novel applications in photonic technology and fundamental science. In particular, frequency conversion of spatial modes carrying orbital angular momentum can be exploited in sub-wavelength resolution nano-optics and coherent imaging at a wavelength different from that used to illuminate an object. Moreover, coherent frequency conversion will be crucial for interfacing information stored in the high-dimensional spatial structure of single and entangled photons with various constituents of quantum networks. In this work, we demonstrate frequency conversion of structured light from the near infrared (803 nm) to the visible (527 nm). The conversion scheme is based on sum-frequency generation in a periodically poled lithium niobate crystal pumped with a 1540-nm Gaussian beam. We observe frequency-converted fields that exhibit a high degree of similarity with the input field and verify the coherence of the frequency-conversion process via mode projection measurements with a phase mask and a single-mode fiber. Our results demonstrate the suitability of exploiting the technique for applications in quantum information processing and coherent imaging.

Social and spatial effects on genetic variation between foraging flocks in a wild bird population.

PubMed

Radersma, Reinder; Garroway, Colin J; Santure, Anna W; de Cauwer, Isabelle; Farine, Damien R; Slate, Jon; Sheldon, Ben C

2017-10-01

Social interactions are rarely random. In some instances, animals exhibit homophily or heterophily, the tendency to interact with similar or dissimilar conspecifics, respectively. Genetic homophily and heterophily influence the evolutionary dynamics of populations, because they potentially affect sexual and social selection. Here, we investigate the link between social interactions and allele frequencies in foraging flocks of great tits (Parus major) over three consecutive years. We constructed co-occurrence networks which explicitly described the splitting and merging of 85,602 flocks through time (fission-fusion dynamics), at 60 feeding sites. Of the 1,711 birds in those flocks, we genotyped 962 individuals at 4,701 autosomal single nucleotide polymorphisms (SNPs). By combining genomewide genotyping with repeated field observations of the same individuals, we were able to investigate links between social structure and allele frequencies at a much finer scale than was previously possible. We explicitly accounted for potential spatial effects underlying genetic structure at the population level. We modelled social structure and spatial configuration of great tit fission-fusion dynamics with eigenvector maps. Variance partitioning revealed that allele frequencies were strongly affected by group fidelity (explaining 27%-45% of variance) as individuals tended to maintain associations with the same conspecifics. These conspecifics were genetically more dissimilar than expected, shown by genomewide heterophily for pure social (i.e., space-independent) grouping preferences. Genomewide homophily was linked to spatial configuration, indicating spatial segregation of genotypes. We did not find evidence for homophily or heterophily for putative socially relevant candidate genes or any other SNP markers. Together, these results demonstrate the importance of distinguishing social and spatial processes in determining population structure. © 2017 John Wiley & Sons Ltd.

Network of Spaces and Interaction-Related Behaviors in Adult Intensive Care Units

PubMed Central

Rashid, Mahbub; Boyle, Diane K.; Crosser, Michael

2014-01-01

Using three spatial network measures of “space syntax”, this correlational study describes four interaction-related behaviors among three groups of users in relation to visibility and accessibility of spaces in four adult intensive care units (ICUs) of different size, geometry, and specialty. Systematic field observations of interaction-related behaviors show significant differences in spatial distribution of interaction-related behaviors in the ICUs. Despite differences in unit characteristics and interaction-related behaviors, the study finds that when nurses and physicians “interact while sitting” they prefer spaces that help maintain a high level of environmental awareness; that when nurses “walk” and “interact while walking” they avoid spaces with better global access and visibility; and that everyone in ICUs “walk” more in spaces with higher control over neighboring spaces. It is argued that such consistent behavioral patterns occur due to the structural similarities of spatial networks over and above the more general functional similarities of ICUs. PMID:25469838

Linking Spatial Structure and Community-Level Biotic Interactions through Cooccurrence and Time Series Modeling of the Human Intestinal Microbiota.

PubMed

de Muinck, Eric J; Lundin, Knut E A; Trosvik, Pål

2017-01-01

The gastrointestinal (GI) microbiome is a densely populated ecosystem where dynamics are determined by interactions between microbial community members, as well as host factors. The spatial organization of this system is thought to be important in human health, yet this aspect of our resident microbiome is still poorly understood. In this study, we report significant spatial structure of the GI microbiota, and we identify general categories of spatial patterning in the distribution of microbial taxa along a healthy human GI tract. We further estimate the biotic interaction structure in the GI microbiota, both through time series and cooccurrence modeling of microbial community data derived from a large number of sequentially collected fecal samples. Comparison of these two approaches showed that species pairs involved in significant negative interactions had strong positive contemporaneous correlations and vice versa, while for species pairs without significant interactions, contemporaneous correlations were distributed around zero. We observed similar patterns when comparing these models to the spatial correlations between taxa identified in the adherent microbiota. This suggests that colocalization of microbial taxon pairs, and thus the spatial organization of the GI microbiota, is driven, at least in part, by direct or indirect biotic interactions. Thus, our study can provide a basis for an ecological interpretation of the biogeography of the human gut. IMPORTANCE The human gut microbiome is the subject of intense study due to its importance in health and disease. The majority of these studies have been based on the analysis of feces. However, little is known about how the microbial composition in fecal samples relates to the spatial distribution of microbial taxa along the gastrointestinal tract. By characterizing the microbial content both in intestinal tissue samples and in fecal samples obtained daily, we provide a conceptual framework for how the spatial structure relates to biotic interactions on the community level. We further describe general categories of spatial distribution patterns and identify taxa conforming to these categories. To our knowledge, this is the first study combining spatial and temporal analyses of the human gut microbiome. This type of analysis can be used for identifying candidate probiotics and designing strategies for clinical intervention.

How color, regularity, and good Gestalt determine backward masking.

PubMed

Sayim, Bilge; Manassi, Mauro; Herzog, Michael

2014-06-18

The strength of visual backward masking depends on the stimulus onset asynchrony (SOA) between target and mask. Recently, it was shown that the conjoint spatial layout of target and mask is as crucial as SOA. Particularly, masking strength depends on whether target and mask group with each other. The same is true in crowding where the global spatial layout of the flankers and target-flanker grouping determine crowding strength. Here, we presented a vernier target followed by different flanker configurations at varying SOAs. Similar to crowding, masking of a red vernier target was strongly reduced for arrays of 10 green compared with 10 red flanking lines. Unlike crowding, single green lines flanking the red vernier showed strong masking. Irregularly arranged flanking lines yielded stronger masking than did regularly arranged lines, again similar to crowding. While cuboid flankers reduced crowding compared with single lines, this was not the case in masking. We propose that, first, masking is reduced when the flankers are part of a larger spatial structure. Second, spatial factors counteract color differences between the target and the flankers. Third, complex Gestalts, such as cuboids, seem to need longer processing times to show ungrouping effects as observed in crowding. Strong parallels between masking and crowding suggest similar underlying mechanism; however, temporal factors in masking additionally modulate performance, acting as an additional grouping cue. © 2014 ARVO.

A geostatistical analysis of small-scale spatial variability in bacterial abundance and community structure in salt marsh creek bank sediments

NASA Technical Reports Server (NTRS)

Franklin, Rima B.; Blum, Linda K.; McComb, Alison C.; Mills, Aaron L.

2002-01-01

Small-scale variations in bacterial abundance and community structure were examined in salt marsh sediments from Virginia's eastern shore. Samples were collected at 5 cm intervals (horizontally) along a 50 cm elevation gradient, over a 215 cm horizontal transect. For each sample, bacterial abundance was determined using acridine orange direct counts and community structure was analyzed using randomly amplified polymorphic DNA fingerprinting of whole-community DNA extracts. A geostatistical analysis was used to determine the degree of spatial autocorrelation among the samples, for each variable and each direction (horizontal and vertical). The proportion of variance in bacterial abundance that could be accounted for by the spatial model was quite high (vertical: 60%, horizontal: 73%); significant autocorrelation was found among samples separated by 25 cm in the vertical direction and up to 115 cm horizontally. In contrast, most of the variability in community structure was not accounted for by simply considering the spatial separation of samples (vertical: 11%, horizontal: 22%), and must reflect variability from other parameters (e.g., variation at other spatial scales, experimental error, or environmental heterogeneity). Microbial community patch size based upon overall similarity in community structure varied between 17 cm (vertical) and 35 cm (horizontal). Overall, variability due to horizontal position (distance from the creek bank) was much smaller than that due to vertical position (elevation) for both community properties assayed. This suggests that processes more correlated with elevation (e.g., drainage and redox potential) vary at a smaller scale (therefore producing smaller patch sizes) than processes controlled by distance from the creek bank. c2002 Federation of European Microbiological Societies. Published by Elsevier Science B.V. All rights reserved.

Characteristic-eddy decomposition of turbulence in a channel

NASA Technical Reports Server (NTRS)

Moin, Parviz; Moser, Robert D.

1989-01-01

Lumley's proper orthogonal decomposition technique is applied to the turbulent flow in a channel. Coherent structures are extracted by decomposing the velocity field into characteristic eddies with random coefficients. A generalization of the shot-noise expansion is used to determine the characteristic eddies in homogeneous spatial directions. Three different techniques are used to determine the phases of the Fourier coefficients in the expansion: (1) one based on the bispectrum, (2) a spatial compactness requirement, and (3) a functional continuity argument. Similar results are found from each of these techniques.

Structure and Spatial Distribution of the Chironomidae Community in Mesohabitats in a First Order Stream at the Poço D'Anta Municipal Biological Reserve in Brazil

PubMed Central

Vescovi Rosa, Beatriz Figueiraujo Jabour; de Oliveira, Vívian Campos; Alves, Roberto da Gama

2011-01-01

The Chironomidae occupy different habitats along the lotic system with their distribution determined by different factors such as the substrate characteristics and water speed. The input of vegetable material from the riparian forest allows a higher habitat diversity and food to the benthic fauna. The main aim of this paper is to verify the structure and spatial distribution of the Chironomidae fauna in different mesohabitats in a first order stream located at a Biological Reserve in the southeast of Brazil. In the months of July, August, and September 2007, and in January, February, and March 2008, samples were collected with a hand net (250 µm) in the following mesohabitats: litter from riffles, litter from pools, and sediment from pools. The community structure of each mesohabitat was analyzed through the abundance of organisms, taxa richness, Pielou's evenness, Shannon's diversity, and taxa dominance. Similarity among the mesohabitats was obtained by Cluster analysis, and Chironomidae larvae distribution through the Correspondence analysis. Indicator species analysis was used to identify possible taxa preference for a determined mesohabitat. The analyzed mesohabitats showed high species richness and diversity favored by the large environmental heterogeneity. Some taxa were indicators of the type of mesohabitat. The substrate was the main factor that determined taxa distribution in relation to water flow differences (riffle and pool). Stream characteristics such as low water speed and the presence of natural mechanisms of retention may have provided a higher faunistic similarity between the areas with different flows. The results showed that the physical characteristics of each environment presented a close relationship with the structure and spatial distribution of the Chironomidae fauna in lotic systems. PMID:21529258

Evolution of spatially structured host-parasite interactions.

PubMed

Lion, S; Gandon, S

2015-01-01

Spatial structure has dramatic effects on the demography and the evolution of species. A large variety of theoretical models have attempted to understand how local dispersal may shape the coevolution of interacting species such as host-parasite interactions. The lack of a unifying framework is a serious impediment for anyone willing to understand current theory. Here, we review previous theoretical studies in the light of a single epidemiological model that allows us to explore the effects of both host and parasite migration rates on the evolution and coevolution of various life-history traits. We discuss the impact of local dispersal on parasite virulence, various host defence strategies and local adaptation. Our analysis shows that evolutionary and coevolutionary outcomes crucially depend on the details of the host-parasite life cycle and on which life-history trait is involved in the interaction. We also discuss experimental studies that support the effects of spatial structure on the evolution of host-parasite interactions. This review highlights major similarities between some theoretical results, but it also reveals an important gap between evolutionary and coevolutionary models. We discuss possible ways to bridge this gap within a more unified framework that would reconcile spatial epidemiology, evolution and coevolution. © 2014 European Society For Evolutionary Biology. Journal of Evolutionary Biology © 2014 European Society For Evolutionary Biology.

Spatial heterogeneity of within-stream methane concentrations

NASA Astrophysics Data System (ADS)

Crawford, John T.; Loken, Luke C.; West, William E.; Crary, Benjamin; Spawn, Seth A.; Gubbins, Nicholas; Jones, Stuart E.; Striegl, Robert G.; Stanley, Emily H.

2017-05-01

Streams, rivers, and other freshwater features may be significant sources of CH4 to the atmosphere. However, high spatial and temporal variabilities hinder our ability to understand the underlying processes of CH4 production and delivery to streams and also challenge the use of scaling approaches across large areas. We studied a stream having high geomorphic variability to assess the underlying scale of CH4 spatial variability and to examine whether the physical structure of a stream can explain the variation in surface CH4. A combination of high-resolution CH4 mapping, a survey of groundwater CH4 concentrations, quantitative analysis of methanogen DNA, and sediment CH4 production potentials illustrates the spatial and geomorphic controls on CH4 emissions to the atmosphere. We observed significant spatial clustering with high CH4 concentrations in organic-rich stream reaches and lake transitions. These sites were also enriched in the methane-producing mcrA gene and had highest CH4 production rates in the laboratory. In contrast, mineral-rich reaches had significantly lower concentrations and had lesser abundances of mcrA. Strong relationships between CH4 and the physical structure of this aquatic system, along with high spatial variability, suggest that future investigations will benefit from viewing streams as landscapes, as opposed to ecosystems simply embedded in larger terrestrial mosaics. In light of such high spatial variability, we recommend that future workers evaluate stream networks first by using similar spatial tools in order to build effective sampling programs.

Image understanding systems based on the unifying representation of perceptual and conceptual information and the solution of mid-level and high-level vision problems

NASA Astrophysics Data System (ADS)

Kuvychko, Igor

2001-10-01

Vision is a part of a larger information system that converts visual information into knowledge structures. These structures drive vision process, resolving ambiguity and uncertainty via feedback, and provide image understanding, that is an interpretation of visual information in terms of such knowledge models. A computer vision system based on such principles requires unifying representation of perceptual and conceptual information. Computer simulation models are built on the basis of graphs/networks. The ability of human brain to emulate similar graph/networks models is found. That means a very important shift of paradigm in our knowledge about brain from neural networks to the cortical software. Starting from the primary visual areas, brain analyzes an image as a graph-type spatial structure. Primary areas provide active fusion of image features on a spatial grid-like structure, where nodes are cortical columns. The spatial combination of different neighbor features cannot be described as a statistical/integral characteristic of the analyzed region, but uniquely characterizes such region itself. Spatial logic and topology naturally present in such structures. Mid-level vision processes like clustering, perceptual grouping, multilevel hierarchical compression, separation of figure from ground, etc. are special kinds of graph/network transformations. They convert low-level image structure into the set of more abstract ones, which represent objects and visual scene, making them easy for analysis by higher-level knowledge structures. Higher-level vision phenomena like shape from shading, occlusion, etc. are results of such analysis. Such approach gives opportunity not only to explain frequently unexplainable results of the cognitive science, but also to create intelligent computer vision systems that simulate perceptional processes in both what and where visual pathways. Such systems can open new horizons for robotic and computer vision industries.

Effects of species' similarity and dominance on the functional and phylogenetic structure of a plant meta-community.

PubMed

Chalmandrier, L; Münkemüller, T; Lavergne, S; Thuiller, W

2015-01-01

Different assembly processes drive the spatial structure of meta-communities (beta-diversity). Recently, functional and phylogenetic diversities have been suggested as indicators of these assembly processes. Assuming that diversity is a good proxy for niche overlap, high beta-diversity along environmental gradients should be the result of environmental filtering while low beta-diversity should stem from competitive interactions. So far, studies trying to disentangle the relative importance of these assembly processes have provided mixed results. One reason for this may be that these studies often rely on a single measure of diversity and thus implicitly make a choice on how they account for species relative abundances and how species similarities are captured by functional traits or phylogeny. Here, we tested the effect of gradually scaling the importance of dominance (the weight given to dominant vs. rare species) and species similarity (the weight given to small vs. large similarities) on resulting beta-diversity patterns of an alpine plant meta-community. To this end, we combined recent extensions of the Hill numbers framework with Pagel's phylogenetic tree transformation approach. We included functional (based on the leaf-height-seed spectrum) and phylogenetic facets of beta-diversity in our analysis and explicitly accounted for effects of environmental and spatial covariates. We found that functional beta-diversity, was high when the same weight was given to dominant vs. rare species and to large vs. small species' similarities. In contrast, phylogenetic beta-diversity was low when greater weight was given to dominant species and small species' similarities. Those results suggested that different environments along the gradients filtered different species according to their functional traits, while, the same competitive lineages dominated communities across the gradients. Our results highlight that functional vs. phylogenetic facets, presence-absence vs. abundance structure and different weights of species' dissimilarity provide complementary and important information on the drivers of meta-community structure. By utilizing the full extent of information provided by the flexible frameworks of Hill numbers and Pagel's tree transformation, we propose a new approach to disentangle the patterns resulting from different assembly processes.

Can Retinal Ganglion Cell Dipoles Seed Iso-Orientation Domains in the Visual Cortex?

PubMed Central

Schottdorf, Manuel; Eglen, Stephen J.; Wolf, Fred; Keil, Wolfgang

2014-01-01

It has been argued that the emergence of roughly periodic orientation preference maps (OPMs) in the primary visual cortex (V1) of carnivores and primates can be explained by a so-called statistical connectivity model. This model assumes that input to V1 neurons is dominated by feed-forward projections originating from a small set of retinal ganglion cells (RGCs). The typical spacing between adjacent cortical orientation columns preferring the same orientation then arises via Moiré-Interference between hexagonal ON/OFF RGC mosaics. While this Moiré-Interference critically depends on long-range hexagonal order within the RGC mosaics, a recent statistical analysis of RGC receptive field positions found no evidence for such long-range positional order. Hexagonal order may be only one of several ways to obtain spatially repetitive OPMs in the statistical connectivity model. Here, we investigate a more general requirement on the spatial structure of RGC mosaics that can seed the emergence of spatially repetitive cortical OPMs, namely that angular correlations between so-called RGC dipoles exhibit a spatial structure similar to that of OPM autocorrelation functions. Both in cat beta cell mosaics as well as primate parasol receptive field mosaics we find that RGC dipole angles are spatially uncorrelated. To help assess the level of these correlations, we introduce a novel point process that generates mosaics with realistic nearest neighbor statistics and a tunable degree of spatial correlations of dipole angles. Using this process, we show that given the size of available data sets, the presence of even weak angular correlations in the data is very unlikely. We conclude that the layout of ON/OFF ganglion cell mosaics lacks the spatial structure necessary to seed iso-orientation domains in the primary visual cortex. PMID:24475081

Can retinal ganglion cell dipoles seed iso-orientation domains in the visual cortex?

PubMed

Schottdorf, Manuel; Eglen, Stephen J; Wolf, Fred; Keil, Wolfgang

2014-01-01

It has been argued that the emergence of roughly periodic orientation preference maps (OPMs) in the primary visual cortex (V1) of carnivores and primates can be explained by a so-called statistical connectivity model. This model assumes that input to V1 neurons is dominated by feed-forward projections originating from a small set of retinal ganglion cells (RGCs). The typical spacing between adjacent cortical orientation columns preferring the same orientation then arises via Moiré-Interference between hexagonal ON/OFF RGC mosaics. While this Moiré-Interference critically depends on long-range hexagonal order within the RGC mosaics, a recent statistical analysis of RGC receptive field positions found no evidence for such long-range positional order. Hexagonal order may be only one of several ways to obtain spatially repetitive OPMs in the statistical connectivity model. Here, we investigate a more general requirement on the spatial structure of RGC mosaics that can seed the emergence of spatially repetitive cortical OPMs, namely that angular correlations between so-called RGC dipoles exhibit a spatial structure similar to that of OPM autocorrelation functions. Both in cat beta cell mosaics as well as primate parasol receptive field mosaics we find that RGC dipole angles are spatially uncorrelated. To help assess the level of these correlations, we introduce a novel point process that generates mosaics with realistic nearest neighbor statistics and a tunable degree of spatial correlations of dipole angles. Using this process, we show that given the size of available data sets, the presence of even weak angular correlations in the data is very unlikely. We conclude that the layout of ON/OFF ganglion cell mosaics lacks the spatial structure necessary to seed iso-orientation domains in the primary visual cortex.

Slow-theta power decreases during item-place encoding predict spatial accuracy of subsequent context recall.

PubMed

Crespo-García, Maité; Zeiller, Monika; Leupold, Claudia; Kreiselmeyer, Gernot; Rampp, Stefan; Hamer, Hajo M; Dalal, Sarang S

2016-11-15

Human hippocampal theta oscillations play a key role in accurate spatial coding. Associative encoding involves similar hippocampal networks but, paradoxically, is also characterized by theta power decreases. Here, we investigated how theta activity relates to associative encoding of place contexts resulting in accurate navigation. Using MEG, we found that slow-theta (2-5Hz) power negatively correlated with subsequent spatial accuracy for virtual contextual locations in posterior hippocampus and other cortical structures involved in spatial cognition. A rare opportunity to simultaneously record MEG and intracranial EEG in an epilepsy patient provided crucial insights: during power decreases, slow-theta in right anterior hippocampus and left inferior frontal gyrus phase-led the left temporal cortex and predicted spatial accuracy. Our findings indicate that decreased slow-theta activity reflects local and long-range neural mechanisms that encode accurate spatial contexts, and strengthens the view that local suppression of low-frequency activity is essential for more efficient processing of detailed information. Copyright © 2016 Elsevier Inc. All rights reserved.

Contrasting Spatial Patterns in Active-Fire and Fire-Suppressed Mediterranean Climate Old-Growth Mixed Conifer Forests

PubMed Central

Fry, Danny L.; Stephens, Scott L.; Collins, Brandon M.; North, Malcolm P.; Franco-Vizcaíno, Ernesto; Gill, Samantha J.

2014-01-01

In Mediterranean environments in western North America, historic fire regimes in frequent-fire conifer forests are highly variable both temporally and spatially. This complexity influenced forest structure and spatial patterns, but some of this diversity has been lost due to anthropogenic disruption of ecosystem processes, including fire. Information from reference forest sites can help management efforts to restore forests conditions that may be more resilient to future changes in disturbance regimes and climate. In this study, we characterize tree spatial patterns using four-ha stem maps from four old-growth, Jeffrey pine-mixed conifer forests, two with active-fire regimes in northwestern Mexico and two that experienced fire exclusion in the southern Sierra Nevada. Most of the trees were in patches, averaging six to 11 trees per patch at 0.007 to 0.014 ha−1, and occupied 27–46% of the study areas. Average canopy gap sizes (0.04 ha) covering 11–20% of the area were not significantly different among sites. The putative main effects of fire exclusion were higher densities of single trees in smaller size classes, larger proportion of trees (≥56%) in large patches (≥10 trees), and decreases in spatial complexity. While a homogenization of forest structure has been a typical result from fire exclusion, some similarities in patch, single tree, and gap attributes were maintained at these sites. These within-stand descriptions provide spatially relevant benchmarks from which to manage for structural heterogeneity in frequent-fire forest types. PMID:24586472

Image/video understanding systems based on network-symbolic models

NASA Astrophysics Data System (ADS)

Kuvich, Gary

2004-03-01

Vision is a part of a larger information system that converts visual information into knowledge structures. These structures drive vision process, resolve ambiguity and uncertainty via feedback projections, and provide image understanding that is an interpretation of visual information in terms of such knowledge models. Computer simulation models are built on the basis of graphs/networks. The ability of human brain to emulate similar graph/network models is found. Symbols, predicates and grammars naturally emerge in such networks, and logic is simply a way of restructuring such models. Brain analyzes an image as a graph-type relational structure created via multilevel hierarchical compression of visual information. Primary areas provide active fusion of image features on a spatial grid-like structure, where nodes are cortical columns. Spatial logic and topology naturally present in such structures. Mid-level vision processes like perceptual grouping, separation of figure from ground, are special kinds of network transformations. They convert primary image structure into the set of more abstract ones, which represent objects and visual scene, making them easy for analysis by higher-level knowledge structures. Higher-level vision phenomena are results of such analysis. Composition of network-symbolic models combines learning, classification, and analogy together with higher-level model-based reasoning into a single framework, and it works similar to frames and agents. Computational intelligence methods transform images into model-based knowledge representation. Based on such principles, an Image/Video Understanding system can convert images into the knowledge models, and resolve uncertainty and ambiguity. This allows creating intelligent computer vision systems for design and manufacturing.

The Strong Ring: A Basic Interest Model of Occupational Structure

ERIC Educational Resources Information Center

Armstrong, Patrick Ian; Smith, Thomas J.; Donnay, David A. C.; Rounds, James

2004-01-01

A classification system and spatial map of occupations were developed using the Basic Interest Scale profiles of 198 occupational incumbent samples (31,010 women; 32,421 men) from the Strong Interest Inventory. Profile shape was found to be similar for incumbents of both genders, allowing for an analysis of combined-gender samples. Using…

Direct Patlak Reconstruction From Dynamic PET Data Using the Kernel Method With MRI Information Based on Structural Similarity.

PubMed

Gong, Kuang; Cheng-Liao, Jinxiu; Wang, Guobao; Chen, Kevin T; Catana, Ciprian; Qi, Jinyi

2018-04-01

Positron emission tomography (PET) is a functional imaging modality widely used in oncology, cardiology, and neuroscience. It is highly sensitive, but suffers from relatively poor spatial resolution, as compared with anatomical imaging modalities, such as magnetic resonance imaging (MRI). With the recent development of combined PET/MR systems, we can improve the PET image quality by incorporating MR information into image reconstruction. Previously, kernel learning has been successfully embedded into static and dynamic PET image reconstruction using either PET temporal or MRI information. Here, we combine both PET temporal and MRI information adaptively to improve the quality of direct Patlak reconstruction. We examined different approaches to combine the PET and MRI information in kernel learning to address the issue of potential mismatches between MRI and PET signals. Computer simulations and hybrid real-patient data acquired on a simultaneous PET/MR scanner were used to evaluate the proposed methods. Results show that the method that combines PET temporal information and MRI spatial information adaptively based on the structure similarity index has the best performance in terms of noise reduction and resolution improvement.

Spatial variation in the parasite communities and genomic structure of urban rats in New York City.

PubMed

Angley, L P; Combs, M; Firth, C; Frye, M J; Lipkin, I; Richardson, J L; Munshi-South, J

2018-02-01

Brown rats (Rattus norvegicus) are a globally distributed pest. Urban habitats can support large infestations of rats, posing a potential risk to public health from the parasites and pathogens they carry. Despite the potential influence of rodent-borne zoonotic diseases on human health, it is unclear how urban habitats affect the structure and transmission dynamics of ectoparasite and microbial communities (all referred to as "parasites" hereafter) among rat colonies. In this study, we use ecological data on parasites and genomic sequencing of their rat hosts to examine associations between spatial proximity, genetic relatedness and the parasite communities associated with 133 rats at five sites in sections of New York City with persistent rat infestations. We build on previous work showing that rats in New York carry a wide variety of parasites and report that these communities differ significantly among sites, even across small geographical distances. Ectoparasite community similarity was positively associated with geographical proximity; however, there was no general association between distance and microbial communities of rats. Sites with greater overall parasite diversity also had rats with greater infection levels and parasite species richness. Parasite community similarity among sites was not linked to genetic relatedness of rats, suggesting that these communities are not associated with genetic similarity among host individuals or host dispersal among sites. Discriminant analysis identified site-specific associations of several parasite species, suggesting that the presence of some species within parasite communities may allow researchers to determine the sites of origin for newly sampled rats. The results of our study help clarify the roles that colony structure and geographical proximity play in determining the ecology of R. norvegicus as a significant urban reservoir of zoonotic diseases. Our study also highlights the spatial variation present in urban rat parasite communities, indicating that rats across New York City are not reservoirs for a homogenous set of parasites and pathogens. As a result, the epidemiological risks may be similarly heterogeneous for people in urban habitats. © 2017 Blackwell Verlag GmbH.

Fuzzy Similarity and Fuzzy Inclusion Measures in Polyline Matching: A Case Study of Potential Streams Identification for Archaeological Modelling in GIS

NASA Astrophysics Data System (ADS)

Ďuračiová, Renata; Rášová, Alexandra; Lieskovský, Tibor

2017-12-01

When combining spatial data from various sources, it is often important to determine similarity or identity of spatial objects. Besides the differences in geometry, representations of spatial objects are inevitably more or less uncertain. Fuzzy set theory can be used to address both modelling of the spatial objects uncertainty and determining the identity, similarity, and inclusion of two sets as fuzzy identity, fuzzy similarity, and fuzzy inclusion. In this paper, we propose to use fuzzy measures to determine the similarity or identity of two uncertain spatial object representations in geographic information systems. Labelling the spatial objects by the degree of their similarity or inclusion measure makes the process of their identification more efficient. It reduces the need for a manual control. This leads to a more simple process of spatial datasets update from external data sources. We use this approach to get an accurate and correct representation of historical streams, which is derived from contemporary digital elevation model, i.e. we identify the segments that are similar to the streams depicted on historical maps.

Optimal use of resources structures home ranges and spatial distribution of black bears

USGS Publications Warehouse

Mitchell, M.S.; Powell, R.A.

2007-01-01

Research has shown that territories of animals are economical. Home ranges should be similarly efficient with respect to spatially distributed resources and this should structure their distribution on a landscape, although neither has been demonstrated empirically. To test these hypotheses, we used home range models that optimize resource use according to resource-maximizing and area-minimizing strategies to evaluate the home ranges of female black bears, Ursus americanus, living in the southern Appalachian Mountains. We tested general predictions of our models using 104 home ranges of adult female bears studied in the Pisgah Bear Sanctuary, North Carolina, U.S.A., from 1981 to 2001. We also used our models to estimate home ranges for each real home range under a variety of strategies and constraints and compared similarity of simulated to real home ranges. We found that home ranges of female bears were efficient with respect to the spatial distribution of resources and were best explained by an area-minimizing strategy with moderate resource thresholds and low levels of resource depression. Although resource depression probably influenced the spatial distribution of home ranges on the landscape, levels of resource depression were too low to quantify accurately. Home ranges of lactating females had higher resource thresholds and were more susceptible to resource depression than those of breeding females. We conclude that home ranges of animals, like territories, are economical with respect to resources, and that resource depression may be the mechanism behind ideal free or ideal preemptive distributions on complex, heterogeneous landscapes. ?? 2007 The Association for the Study of Animal Behaviour.

Effect of ancient population structure on the degree of polymorphism shared between modern human populations and ancient hominins.

PubMed

Eriksson, Anders; Manica, Andrea

2012-08-28

Recent comparisons between anatomically modern humans and ancient genomes of other hominins have raised the tantalizing, and hotly debated, possibility of hybridization. Although several tests of hybridization have been devised, they all rely on the degree to which different modern populations share genetic polymorphisms with the ancient genomes of other hominins. However, spatial population structure is expected to generate genetic patterns similar to those that might be attributed to hybridization. To investigate this problem, we take Neanderthals as a case study, and build a spatially explicit model of the shared history of anatomically modern humans and this hominin. We show that the excess polymorphism shared between Eurasians and Neanderthals is compatible with scenarios in which no hybridization occurred, and is strongly linked to the strength of population structure in ancient populations. Thus, we recommend caution in inferring admixture from geographic patterns of shared polymorphisms, and argue that future attempts to investigate ancient hybridization between humans and other hominins should explicitly account for population structure.

High spatial and temporal resolution cell manipulation techniques in microchannels.

PubMed

Novo, Pedro; Dell'Aica, Margherita; Janasek, Dirk; Zahedi, René P

2016-03-21

The advent of microfluidics has enabled thorough control of cell manipulation experiments in so called lab on chips. Lab on chips foster the integration of actuation and detection systems, and require minute sample and reagent amounts. Typically employed microfluidic structures have similar dimensions as cells, enabling precise spatial and temporal control of individual cells and their local environments. Several strategies for high spatio-temporal control of cells in microfluidics have been reported in recent years, namely methods relying on careful design of the microfluidic structures (e.g. pinched flow), by integration of actuators (e.g. electrodes or magnets for dielectro-, acousto- and magneto-phoresis), or integrations thereof. This review presents the recent developments of cell experiments in microfluidics divided into two parts: an introduction to spatial control of cells in microchannels followed by special emphasis in the high temporal control of cell-stimulus reaction and quenching. In the end, the present state of the art is discussed in line with future perspectives and challenges for translating these devices into routine applications.

Retrieved Products from Simulated Hyperspectral Observations of a Hurricane

NASA Technical Reports Server (NTRS)

Susskind, Joel; Kouvaris, Louis; Iredell, Lena; Blaisdell, John

2015-01-01

Retrievals were run using the AIRS Science Team Version-6 AIRS Only retrieval algorithm, which generates a Neural-Net first guess (T(sub s))(sup 0), (T(p))(sup 0), and (q(p))(sup 0) as a function of observed AIRS radiances. AIRS Science Team Neural-Net coefficients performed very well beneath 300 mb using the simulated radiances. This means the simulated radiances are very realistic. First guess and retrieved values of T(p) above 300 mb were biased cold, but both represented the model spatial structure very well. QC'd T(p) and q(p) retrievals for all experiments had similar accuracies compared to their own truth fields, and were roughly consistent with results obtained using real data. Spatial coverage of retrievals, as well as the representativeness of the spatial structure of the storm, improved dramatically with decreasing size of the instrument's FOV. We sent QC'd values of T(p) and q(p) to Bob Atlas at AOML for use as input to OSSE Data Assimilation experiments.

Nanoscale infrared spectroscopy as a non-destructive probe of extraterrestrial samples.

PubMed

Dominguez, Gerardo; Mcleod, A S; Gainsforth, Zack; Kelly, P; Bechtel, Hans A; Keilmann, Fritz; Westphal, Andrew; Thiemens, Mark; Basov, D N

2014-12-09

Advances in the spatial resolution of modern analytical techniques have tremendously augmented the scientific insight gained from the analysis of natural samples. Yet, while techniques for the elemental and structural characterization of samples have achieved sub-nanometre spatial resolution, infrared spectral mapping of geochemical samples at vibrational 'fingerprint' wavelengths has remained restricted to spatial scales >10 μm. Nevertheless, infrared spectroscopy remains an invaluable contactless probe of chemical structure, details of which offer clues to the formation history of minerals. Here we report on the successful implementation of infrared near-field imaging, spectroscopy and analysis techniques capable of sub-micron scale mineral identification within natural samples, including a chondrule from the Murchison meteorite and a cometary dust grain (Iris) from NASA's Stardust mission. Complementary to scanning electron microscopy, energy-dispersive X-ray spectroscopy and transmission electron microscopy probes, this work evidences a similarity between chondritic and cometary materials, and inaugurates a new era of infrared nano-spectroscopy applied to small and invaluable extraterrestrial samples.

Numerical examination of like-honeycomb structures

NASA Astrophysics Data System (ADS)

John, Małgorzata; John, Antoni; Skarka, Wojciech

2018-01-01

In the paper based on the analogy with the biological tissue of bones, it was decided to examine more homogenous structure and also a heterogeneous structure too. Here, a new approach is proposed based on results from literature obtained using topology optimization 2D and 3D structures like beam, girder and cantilever. Proposed model of structure is similar to spatial trusses with honeycomb-shape porous. Parameters varied not only uniformly throughout the volume of the sample, but also be modified depending on various factors. They underwent a change in cell dimensions, among other things, the thickness of the wall. The obtained results were compared with those obtained previously for homogeneous samples.

Graph Theoretic Foundations of Multibody Dynamics Part I: Structural Properties

PubMed Central

Jain, Abhinandan

2011-01-01

This is the first part of two papers that use concepts from graph theory to obtain a deeper understanding of the mathematical foundations of multibody dynamics. The key contribution is the development of a unifying framework that shows that key analytical results and computational algorithms in multibody dynamics are a direct consequence of structural properties and require minimal assumptions about the specific nature of the underlying multibody system. This first part focuses on identifying the abstract graph theoretic structural properties of spatial operator techniques in multibody dynamics. The second part paper exploits these structural properties to develop a broad spectrum of analytical results and computational algorithms. Towards this, we begin with the notion of graph adjacency matrices and generalize it to define block-weighted adjacency (BWA) matrices and their 1-resolvents. Previously developed spatial operators are shown to be special cases of such BWA matrices and their 1-resolvents. These properties are shown to hold broadly for serial and tree topology multibody systems. Specializations of the BWA and 1-resolvent matrices are referred to as spatial kernel operators (SKO) and spatial propagation operators (SPO). These operators and their special properties provide the foundation for the analytical and algorithmic techniques developed in the companion paper. We also use the graph theory concepts to study the topology induced sparsity structure of these operators and the system mass matrix. Similarity transformations of these operators are also studied. While the detailed development is done for the case of rigid-link multibody systems, the extension of these techniques to a broader class of systems (e.g. deformable links) are illustrated. PMID:22102790

An fMRI Study of the Impact of Block Building and Board Games on Spatial Ability

PubMed Central

Newman, Sharlene D.; Hansen, Mitchell T.; Gutierrez, Arianna

2016-01-01

Previous studies have found that block play, board games, and puzzles result in better spatial ability. This study focused on examining the differential impact of structured block play and board games on spatial processing. Two groups of 8-year-old children were studied. One group participated in a five session block play training paradigm and the second group had a similar training protocol but played a word/spelling board game. A mental rotation task was assessed before and after training. The mental rotation task was performed during fMRI to observe the neural changes associated with the two play protocols. Only the block play group showed effects of training for both behavioral measures and fMRI measured brain activation. Behaviorally, the block play group showed improvements in both reaction time and accuracy. Additionally, the block play group showed increased involvement of regions that have been linked to spatial working memory and spatial processing after training. The board game group showed non-significant improvements in mental rotation performance, likely related to practice effects, and no training related brain activation differences. While the current study is preliminary, it does suggest that different “spatial” play activities have differential impacts on spatial processing with structured block play but not board games showing a significant impact on mental rotation performance. PMID:27621714

Stellar Stream Candidates in the Solar Neighborhood Found in the LAMOST DR3 and TGAS

NASA Astrophysics Data System (ADS)

Liang, X. L.; Zhao, J. K.; Oswalt, T. D.; Chen, Y. Q.; Zhang, L.; Zhao, G.

2017-08-01

We have cross-matched the LAMOST DR3 with the Gaia DR1 TGAS catalogs and obtained a sample of 166,827 stars with reliable kinematics. A technique based on the wavelet transform was applied to detect significant overdensities in velocity space among five subsamples divided by spatial position. In total, 16 significant overdensities of stars with very similar kinematics were identified. Among these, four are new stream candidates and the rest are previously known groups. Both the U-V velocity and metallicity distributions of the local sample show a clear gap between the Hercules structure and the Hyades-Pleiades structure. The U-V positions of these peaks shift with the spatial position. Following a description of our analysis, we speculate on possible origins of our stream candidates.

Dynamic order in a surface process

NASA Astrophysics Data System (ADS)

Eiswirth, M.; Ertl, G.

1988-09-01

Under certain well-defined conditions ( p co,p_{{text{O}}_{text{2}} } , T) the rate of catalytic oxidation of CO on a Pt(110) surface may exhibit sustained temporal oscillations with an autonomous frequency v 0. Small amplitude modulation ofp_{{text{O}}_{text{2}} } with frequency v p causes a variety of phenomena characteristic for systems of nonlinear dynamics which may be identified with temporal order and show formal similarities to spatial order of surface phases: Periodic behavior for certain rational numbers of v p/v0 — corresponding to commensurate surface structures; quasiperiodic behavior characterized by an irrational ratio of the periods of perturbation and response — corresponding to incommensurate structures; and critical slowing down near the boundary of a transition to quasiperiodicity which has its counterpart in the critical fluctuations near a (spatial) phase transition.

Consistent patterns of high alpha and low beta diversity in tropical parasitic and free-living protists.

PubMed

Lentendu, Guillaume; Mahé, Frédéric; Bass, David; Rueckert, Sonja; Stoeck, Thorsten; Dunthorn, Micah

2018-05-30

Tropical animals and plants are known to have high alpha diversity within forests, but low beta diversity between forests. By contrast, it is unknown whether microbes inhabiting the same ecosystems exhibit similar biogeographic patterns. To evaluate the biogeographies of tropical protists, we used metabarcoding data of species sampled in the soils of three lowland Neotropical rainforests. Taxa-area and distance-decay relationships for three of the dominant protist taxa and their subtaxa were estimated at both the OTU and phylogenetic levels, with presence-absence and abundance-based measures. These estimates were compared to null models. High local alpha and low regional beta diversity patterns were consistently found for both the parasitic Apicomplexa and the largely free-living Cercozoa and Ciliophora. Similar to animals and plants, the protists showed spatial structures between forests at the OTU and phylogenetic levels, and only at the phylogenetic level within forests. These results suggest that the biogeographies of macro- and micro-organismal eukaryotes in lowland Neotropical rainforests are partially structured by the same general processes. However, and unlike the animals and plants, the protist OTUs did not exhibit spatial structures within forests, which hinders our ability to estimate the local and regional diversity of protists in tropical forests. © 2018 John Wiley & Sons Ltd.

Dynamics of Vegetatin Indices in Tropical and Subtropical Savannas Defined by Ecoregions and Moderate Resolution Imaging Spectoradiometer (MODIS) Land Cover

NASA Technical Reports Server (NTRS)

Hill, Michael J.; Roman, Miguel O.; Schaaf, Crytal B.

2011-01-01

In this study, we explored the capacity of vegetation indices derived from the Moderate Resolution Imaging Spectroradiometer (MODIS) reflectance products to characterize global savannas in Australia, Africa and South America. The savannas were spatially defined and subdivided using the World Wildlife Fund (WWF) global ecoregions and MODIS land cover classes. Average annual profiles of Normalized Difference Vegetation Index, shortwave infrared ratio (SWIR32), White Sky Albedo (WSA) and the Structural Scattering Index (SSI) were created. Metrics derived from average annual profiles of vegetation indices were used to classify savanna ecoregions. The response spaces between vegetation indices were used to examine the potential to derive structural and fractional cover measures. The ecoregions showed distinct temporal profiles and formed groups with similar structural properties, including higher levels of woody vegetation, similar forest savanna mixtures and similar grassland predominance. The potential benefits from the use of combinations of indices to characterize savannas are discussed.

Spatial Genetic Structure of the Abundant and Widespread Peatmoss Sphagnum magellanicum Brid.

PubMed Central

Kyrkjeeide, Magni Olsen; Hassel, Kristian; Flatberg, Kjell Ivar; Shaw, A. Jonathan; Yousefi, Narjes; Stenøien, Hans K.

2016-01-01

Spore-producing organisms have small dispersal units enabling them to become widespread across continents. However, barriers to gene flow and cryptic speciation may exist. The common, haploid peatmoss Sphagnum magellanicum occurs in both the Northern and Southern hemisphere, and is commonly used as a model in studies of peatland ecology and peatmoss physiology. Even though it will likely act as a rich source in functional genomics studies in years to come, surprisingly little is known about levels of genetic variability and structuring in this species. Here, we assess for the first time how genetic variation in S. magellanicum is spatially structured across its full distribution range (Northern Hemisphere and South America). The morphologically similar species S. alaskense was included for comparison. In total, 195 plants were genotyped at 15 microsatellite loci. Sequences from two plastid loci (trnG and trnL) were obtained from 30 samples. Our results show that S. alaskense and almost all plants of S. magellanicum in the northern Pacific area are diploids and share the same gene pool. Haploid plants occur in South America, Europe, eastern North America, western North America, and southern Asia, and five genetically differentiated groups with different distribution ranges were found. Our results indicate that S. magellanicum consists of several distinct genetic groups, seemingly with little or no gene flow among them. Noteworthy, the geographical separation of diploids and haploids is strikingly similar to patterns found within other haploid Sphagnum species spanning the Northern Hemisphere. Our results confirm a genetic division between the Beringian and the Atlantic that seems to be a general pattern in Sphagnum taxa. The pattern of strong genetic population structuring throughout the distribution range of morphologically similar plants need to be considered in future functional genomic studies of S. magellanicum. PMID:26859563

Spatial Genetic Structure of the Abundant and Widespread Peatmoss Sphagnum magellanicum Brid.

PubMed

Kyrkjeeide, Magni Olsen; Hassel, Kristian; Flatberg, Kjell Ivar; Shaw, A Jonathan; Yousefi, Narjes; Stenøien, Hans K

2016-01-01

Spore-producing organisms have small dispersal units enabling them to become widespread across continents. However, barriers to gene flow and cryptic speciation may exist. The common, haploid peatmoss Sphagnum magellanicum occurs in both the Northern and Southern hemisphere, and is commonly used as a model in studies of peatland ecology and peatmoss physiology. Even though it will likely act as a rich source in functional genomics studies in years to come, surprisingly little is known about levels of genetic variability and structuring in this species. Here, we assess for the first time how genetic variation in S. magellanicum is spatially structured across its full distribution range (Northern Hemisphere and South America). The morphologically similar species S. alaskense was included for comparison. In total, 195 plants were genotyped at 15 microsatellite loci. Sequences from two plastid loci (trnG and trnL) were obtained from 30 samples. Our results show that S. alaskense and almost all plants of S. magellanicum in the northern Pacific area are diploids and share the same gene pool. Haploid plants occur in South America, Europe, eastern North America, western North America, and southern Asia, and five genetically differentiated groups with different distribution ranges were found. Our results indicate that S. magellanicum consists of several distinct genetic groups, seemingly with little or no gene flow among them. Noteworthy, the geographical separation of diploids and haploids is strikingly similar to patterns found within other haploid Sphagnum species spanning the Northern Hemisphere. Our results confirm a genetic division between the Beringian and the Atlantic that seems to be a general pattern in Sphagnum taxa. The pattern of strong genetic population structuring throughout the distribution range of morphologically similar plants need to be considered in future functional genomic studies of S. magellanicum.

Environmental and Spatial Influences on Biogeography and Community Structure of Benthic Diatoms

NASA Astrophysics Data System (ADS)

Plante, C.; Hill-Spanik, K.; Lowry, J.

2016-02-01

Several theoretical and practical reasons suggest that benthic microalgae could be useful bioindicators. For instance, an ideal indicator species or community would be associated with a given habitat due to local physical conditions or biotic interactions (i.e., `environmental filtering'), not due to dispersal limitation. Due to their small size, immense abundances, and reliance on passive dispersal, the popular notion about micro-organisms is that `Everything is everywhere, but, the environment selects' (Baas-Becking 1934). Although much recent research concerning planktonic bacteria and dispersal limitation has been conducted, very little in this regard is known about microeukaryotes, especially benthic microbes. The purpose of our study was to identify and compare spatial and environmental influences on benthic diatom community structure and biogeography. In summer 2015, sediment was sampled at various spatial scales from four barrier island beaches in South Carolina, USA, and high-throughput (Ion Torrent) DNA sequencing was used to characterize diatom assemblages. ANOSIM and principal coordinates analysis revealed that communities were statistically distinct on the four islands. Community dissimilarity was compared to both spatial distance and environmental differences to determine potential influences of these variables on community structure. We found that geographic distance had the strongest correlation with community similarity, with and without one anomalous location, while differences in temperature (air, water, and sediment), nutrients, organic matter, and turbidity also had significant but weaker relationships with community structure. Surprisingly, air temperature, which changes on very short time scales, appeared to be the environmental factor most strongly related to diatom species composition, potentially implicating some unmeasured variable (e.g., cloud cover). However, we also found that temperature and geographic distance were strongly correlated. Future research will expand the spatial scope of this preliminary study and employ techniques (partial Mantel tests) to control for co-variation among variables.

Hydrological networks and associated topographic variation as templates for the spatial organization of tropical forest vegetation.

PubMed

Detto, Matteo; Muller-Landau, Helene C; Mascaro, Joseph; Asner, Gregory P

2013-01-01

An understanding of the spatial variability in tropical forest structure and biomass, and the mechanisms that underpin this variability, is critical for designing, interpreting, and upscaling field studies for regional carbon inventories. We investigated the spatial structure of tropical forest vegetation and its relationship to the hydrological network and associated topographic structure across spatial scales of 10-1000 m using high-resolution maps of LiDAR-derived mean canopy profile height (MCH) and elevation for 4930 ha of tropical forest in central Panama. MCH was strongly associated with the hydrological network: canopy height was highest in areas of positive convexity (valleys, depressions) close to channels draining 1 ha or more. Average MCH declined strongly with decreasing convexity (transition to ridges, hilltops) and increasing distance from the nearest channel. Spectral analysis, performed with wavelet decomposition, showed that the variance in MCH had fractal similarity at scales of ∼30-600 m, and was strongly associated with variation in elevation, with peak correlations at scales of ∼250 m. Whereas previous studies of topographic correlates of tropical forest structure conducted analyses at just one or a few spatial grains, our study found that correlations were strongly scale-dependent. Multi-scale analyses of correlations of MCH with slope, aspect, curvature, and Laplacian convexity found that MCH was most strongly related to convexity measured at scales of 20-300 m, a topographic variable that is a good proxy for position with respect to the hydrological network. Overall, our results support the idea that, even in these mesic forests, hydrological networks and associated topographical variation serve as templates upon which vegetation is organized over specific ranges of scales. These findings constitute an important step towards a mechanistic understanding of these patterns, and can guide upscaling and downscaling.

Collagen Organization in Facet Capsular Ligaments Varies With Spinal Region and With Ligament Deformation.

PubMed

Ban, Ehsan; Zhang, Sijia; Zarei, Vahhab; Barocas, Victor H; Winkelstein, Beth A; Picu, Catalin R

2017-07-01

The spinal facet capsular ligament (FCL) is primarily comprised of heterogeneous arrangements of collagen fibers. This complex fibrous structure and its evolution under loading play a critical role in determining the mechanical behavior of the FCL. A lack of analytical tools to characterize the spatial anisotropy and heterogeneity of the FCL's microstructure has limited the current understanding of its structure-function relationships. Here, the collagen organization was characterized using spatial correlation analysis of the FCL's optically obtained fiber orientation field. FCLs from the cervical and lumbar spinal regions were characterized in terms of their structure, as was the reorganization of collagen in stretched cervical FCLs. Higher degrees of intra- and intersample heterogeneity were found in cervical FCLs than in lumbar specimens. In the cervical FCLs, heterogeneity was manifested in the form of curvy patterns formed by collections of collagen fibers or fiber bundles. Tensile stretch, a common injury mechanism for the cervical FCL, significantly increased the spatial correlation length in the stretch direction, indicating an elongation of the observed structural features. Finally, an affine estimation for the change of correlation length under loading was performed which gave predictions very similar to the actual values. These findings provide structural insights for multiscale mechanical analyses of the FCLs from various spinal regions and also suggest methods for quantitative characterization of complex tissue patterns.

High spatial resolution PEELS characterization of FeAl nanograins prepared by mechanical alloying

DOE Office of Scientific and Technical Information (OSTI.GOV)

Valdre, G.; Botton, G.A.; Brown, L.M.

The authors investigate the nanograin ``chemical`` structure in a nanostructured material of possible industrial application (Fe-Al system) prepared by conventional mechanical alloying via ball milling in argon atmosphere. They restrict themselves to the structural and nanochemical behavior of ball-milled nanocrystalline Fe-Al powders with atomic composition Fe{sub 3}Al, corresponding to a well-known intermetallic compound of the Fe-Al system. Scanning transmission electron microscopy (STEM) equipped with a parallel detection electron energy loss spectrometer (PEELS) has provided an insight on the ``chemical`` structure of both nanograins and their surface at a spatial resolution of better than 1 nm. The energy loss near edgemore » structure of the Al L loss reveals that the Al coordination is similar to a B2 compound and the oxidation of the powder during processing may play a significant role in the stabilization of the intermetallic phases. Conventional transmission electron microscopy (TEM) was used for the structural characterization of the material after the ball milling; powder X-ray diffraction (XRD) aided the investigation.« less

Impact of Acoustic Standing Waves on Structural Responses: Reverberant Acoustic Testing (RAT) vs. Direct Field Acoustic Testing (DFAT)

NASA Technical Reports Server (NTRS)

Kolaini, Ali R.; Doty, Benjamin; Chang, Zensheu

2012-01-01

Loudspeakers have been used for acoustic qualification of spacecraft, reflectors, solar panels, and other acoustically responsive structures for more than a decade. Limited measurements from some of the recent speaker tests used to qualify flight hardware have indicated significant spatial variation of the acoustic field within the test volume. Also structural responses have been reported to differ when similar tests were performed using reverberant chambers. To address the impact of non-uniform acoustic field on structural responses, a series of acoustic tests were performed using a flat panel and a 3-ft cylinder exposed to the field controlled by speakers and repeated in a reverberant chamber. The speaker testing was performed using multi-input-single-output (MISO) and multi-input-multi-output (MIMO) control schemes with and without the test articles. In this paper the spatial variation of the acoustic field due to acoustic standing waves and their impacts on the structural responses in RAT and DFAT (both using MISO and MIMO controls for DFAT) are discussed in some detail.

Feel the Burn: What accounts for spatial variations in coronal heating?

NASA Astrophysics Data System (ADS)

Atwood, Shane; Kankelborg, Charles C.

2016-05-01

The coronal volume is filled with magnetic field, yet only part of that volume has sufficient heating to exhibit hot x-ray loops. How does the Sun decide where the heat goes? Using XRT and AIA images and HMI magnetograms, we identify footpoints of hot coronal loops, and magnetically similar regions underlying relatively unheated corona. We then use IRIS rasters and sit-and-stare observations to compare the spatial, temporal, and spectral structure of these relatively ``heated’’ and ``unheated’’ regions. We seek a signature of upward propagating energy that could be associated with hot active region loops.

Spatial heterogeneity of within-stream methane concentrations

USGS Publications Warehouse

Crawford, John T.; Loken, Luke C.; West, William E.; Crary, Benjamin; Spawn, Seth A.; Gubbins, Nicholas; Jones, Stuart E.; Striegl, Robert G.; Stanley, Emily H.

2017-01-01

Streams, rivers, and other freshwater features may be significant sources of CH4 to the atmosphere. However, high spatial and temporal variabilities hinder our ability to understand the underlying processes of CH4 production and delivery to streams and also challenge the use of scaling approaches across large areas. We studied a stream having high geomorphic variability to assess the underlying scale of CH4 spatial variability and to examine whether the physical structure of a stream can explain the variation in surface CH4. A combination of high-resolution CH4 mapping, a survey of groundwater CH4 concentrations, quantitative analysis of methanogen DNA, and sediment CH4 production potentials illustrates the spatial and geomorphic controls on CH4 emissions to the atmosphere. We observed significant spatial clustering with high CH4 concentrations in organic-rich stream reaches and lake transitions. These sites were also enriched in the methane-producing mcrA gene and had highest CH4 production rates in the laboratory. In contrast, mineral-rich reaches had significantly lower concentrations and had lesser abundances of mcrA. Strong relationships between CH4and the physical structure of this aquatic system, along with high spatial variability, suggest that future investigations will benefit from viewing streams as landscapes, as opposed to ecosystems simply embedded in larger terrestrial mosaics. In light of such high spatial variability, we recommend that future workers evaluate stream networks first by using similar spatial tools in order to build effective sampling programs.

Gene genealogies in geographically structured populations

Treesearch

Bryan K. Epperson

1999-01-01

Population genetics theory has dealt only with the spatial or geographic pattern of degrees of relatedness or genetic similarity separately for each point in time. However, a frequent goal of experimental studies is to infer migration patterns that occurred in the past or over extended periods of time. To fully understand how a present geographic pattern of genetic...

Patterns of genetic diversity in the polymorphic ground snake (Sonora semiannulata).

PubMed

Cox, Christian L; Chippindale, Paul T

2014-08-01

We evaluated the genetic diversity of a snake species with color polymorphism to understand the evolutionary processes that drive genetic structure across a large geographic region. Specifically, we analyzed genetic structure of the highly polymorphic ground snake, Sonora semiannulata, (1) among populations, (2) among color morphs (3) at regional and local spatial scales, using an amplified fragment length polymorphism dataset and multiple population genetic analyses, including FST-based and clustering analytical techniques. Based upon these methods, we found that there was moderate to low genetic structure among populations. However, this diversity was not associated with geographic locality at either spatial scale. Similarly, we found no evidence for genetic divergence among color morphs at either spatial scale. These results suggest that despite dramatic color polymorphism, this phenotypic diversity is not a major driver of genetic diversity within or among populations of ground snakes. We suggest that there are two mechanisms that could explain existing genetic diversity in ground snakes: recent range expansion from a genetically diverse founder population and current or recent gene flow among populations. Our findings have further implications for the types of color polymorphism that may generate genetic diversity in snakes.

Self-dissimilar landscapes: Revealing the signature of geologic constraints on landscape dissection via topologic and multi-scale analysis

NASA Astrophysics Data System (ADS)

Danesh-Yazdi, Mohammad; Tejedor, Alejandro; Foufoula-Georgiou, Efi

2017-10-01

Climatic or geologic controls, such as tectonics or glacial drainage, might impose constraints on landscape self-organization resulting in spatial patterns of rivers and valleys which do not obey the typical self-similar relationships found in most landscapes. The goal of this study is to quantify how such geologic constraints express themselves on channel network topology, spatial heterogeneity of drainage patterns, and emergence of preferred scales of landscape dissection. We use as an example a basin located in the Upper Midwestern United States where successive glaciations over the past thousand years have led to a pronounced spatially anisotropic channel network structure which defeats most scaling laws of fluvial landscapes. This is contrasted with another river basin in the North-Central U.S. which has been organized under the absence of major geologic influences and follows a typical self-similar channel network organization. We show how the geologic constraints have imposed a competition for space which is captured in the slope-local drainage density probabilistic structure, in the failure of self-similarity in basin-wide river network topology, and in the length-area scaling relationship being not typical of fluvial landscapes. Via a two-dimensional wavelet analysis and synthesis, we demonstrate the occurrence of a gap in the power spectrum which corresponds to the presence of preferred scales of organization, and characterize them through multi-scale detrending. The developed methodologies can be useful in advancing our geomorphologic understanding of how external controls might manifest themselves in creating a landscape dissection that is outside the norm and how this dissection can be studied objectively for understanding cause and effect.

Midlatitude sporadic-E episodes viewed by L-band split-spectrum InSAR

NASA Astrophysics Data System (ADS)

Furuya, Masato; Suzuki, Takato; Maeda, Jun; Heki, Kosuke

2017-12-01

Sporadic-E (Es) is a layer of ionization that irregularly appears within the E region of the ionosphere and is known to generate an unusual propagation of very high frequency waves over long distances. The detailed spatial structure of Es remains unclear due to the limited spatial resolution in the conventional ionosonde observations. We detect midlatitude Es by interferometric synthetic aperture radar (InSAR), which can clarify the spatial structure of Es with unprecedented resolution. Moreover, we use the range split-spectrum method (SSM) to separate dispersive and nondispersive components in the InSAR image. While InSAR SSM largely succeeds in decomposing into dispersive and nondispersive signals, our results indicate that small-scale dispersive signals due to the total electron content anomalies are accompanied by nondispersive signals with similar spatial scale at the same locations. We also examine the effects of higher-order terms in the refractive index for dispersive media. Both of these detected Es episodes indicate that smaller-scale dispersive effects originate from higher-order effects. We interpret that the smaller-scale nondispersive signals could indicate the emergence of nitric oxide (NO) generated by the reactions of metals, Mg and Fe, with nitric oxide ion (NO+) during the Es.

Patterns of fish community composition along a river affected by agricultural and urban disturbance in south-central Chile

DOE Office of Scientific and Technical Information (OSTI.GOV)

Orrego, Rodrigo; Barra, Ricardo; Chiang, Gustavo

2008-03-01

Patterns of fish community composition in a south-central Chile river were investigated along the altitudinal-spatial and environmental gradient and as a function of anthropogenic factors. The spatial pattern of fish communities in different biocoenotic zones of the Chillan River is influenced by both natural factors such a hydrologic features, habitat, and feeding types, and also by water quality variables which can reduce the diversity and abundance of sensitive species. A principal component analysis incorporating both water quality parameters and biomarker responses of representative fish species was used to evaluate the status of fish communities along the spatial gradient of themore » stream. The abundance and diversity of the fish community changed from a low in the upper reaches where the low pollution-tolerant species such as salmonid dominated, to a reduced diversity in the lower reaches of the river where tolerant browser species such as cypriniformes dominated. Even though the spatial pattern of fish community structure is similar to that found for the Chilean Rivers, the structure of these communities is highly influenced by human disturbance, particularly along the lower reaches of the river.« less

Community structure of aquatic insects in the Esparza River, Costa Rica.

PubMed

Herrera-Vásquez, Jonathan

2009-01-01

This study focused on the structure of the aquatic insect community in spatial and temporal scales in the Esparza River. The river was sampled for one full year throughout 2007. During the dry season low flow months, five sampling points were selected in two different habitats (currents and pools), with five replicates per sample site. During the wet season with peak rain, only the data in the "current habitat" were sampled at each site. Specimens present in the different substrates were collected and preserved in situ. A nested ANOVA was then applied to the data to determine richness and density as the response variables. The variations in temporal and spatial scales were analyzed using width, depth and discharge of the river, and then analyzed using a nested ANOVA. Only a correlation of 51% similarity in richness was found, while in spatial scale, richness showed significant variation between sampling sites, but not between habitats. However, the temporal scale showed significant differences between habitats. Density showed differences between sites and habitats during the dry season in the spatial scale, while in the temporal scale significant variation was found between sampling sites. Width varied between habitats during the dry season, but not between sampling points. Depth showed differences between sampling sites and season. This work studies the importance of community structure of aquatic insects in rivers, and its relevance for the quality of water in rivers and streams.

RNA Bricks—a database of RNA 3D motifs and their interactions

PubMed Central

Chojnowski, Grzegorz; Waleń, Tomasz; Bujnicki, Janusz M.

2014-01-01

The RNA Bricks database (http://iimcb.genesilico.pl/rnabricks), stores information about recurrent RNA 3D motifs and their interactions, found in experimentally determined RNA structures and in RNA–protein complexes. In contrast to other similar tools (RNA 3D Motif Atlas, RNA Frabase, Rloom) RNA motifs, i.e. ‘RNA bricks’ are presented in the molecular environment, in which they were determined, including RNA, protein, metal ions, water molecules and ligands. All nucleotide residues in RNA bricks are annotated with structural quality scores that describe real-space correlation coefficients with the electron density data (if available), backbone geometry and possible steric conflicts, which can be used to identify poorly modeled residues. The database is also equipped with an algorithm for 3D motif search and comparison. The algorithm compares spatial positions of backbone atoms of the user-provided query structure and of stored RNA motifs, without relying on sequence or secondary structure information. This enables the identification of local structural similarities among evolutionarily related and unrelated RNA molecules. Besides, the search utility enables searching ‘RNA bricks’ according to sequence similarity, and makes it possible to identify motifs with modified ribonucleotide residues at specific positions. PMID:24220091

Structural covariance of brain region volumes is associated with both structural connectivity and transcriptomic similarity.

PubMed

Yee, Yohan; Fernandes, Darren J; French, Leon; Ellegood, Jacob; Cahill, Lindsay S; Vousden, Dulcie A; Spencer Noakes, Leigh; Scholz, Jan; van Eede, Matthijs C; Nieman, Brian J; Sled, John G; Lerch, Jason P

2018-05-18

An organizational pattern seen in the brain, termed structural covariance, is the statistical association of pairs of brain regions in their anatomical properties. These associations, measured across a population as covariances or correlations usually in cortical thickness or volume, are thought to reflect genetic and environmental underpinnings. Here, we examine the biological basis of structural volume covariance in the mouse brain. We first examined large scale associations between brain region volumes using an atlas-based approach that parcellated the entire mouse brain into 318 regions over which correlations in volume were assessed, for volumes obtained from 153 mouse brain images via high-resolution MRI. We then used a seed-based approach and determined, for 108 different seed regions across the brain and using mouse gene expression and connectivity data from the Allen Institute for Brain Science, the variation in structural covariance data that could be explained by distance to seed, transcriptomic similarity to seed, and connectivity to seed. We found that overall, correlations in structure volumes hierarchically clustered into distinct anatomical systems, similar to findings from other studies and similar to other types of networks in the brain, including structural connectivity and transcriptomic similarity networks. Across seeds, this structural covariance was significantly explained by distance (17% of the variation, up to a maximum of 49% for structural covariance to the visceral area of the cortex), transcriptomic similarity (13% of the variation, up to maximum of 28% for structural covariance to the primary visual area) and connectivity (15% of the variation, up to a maximum of 36% for structural covariance to the intermediate reticular nucleus in the medulla) of covarying structures. Together, distance, connectivity, and transcriptomic similarity explained 37% of structural covariance, up to a maximum of 63% for structural covariance to the visceral area. Additionally, this pattern of explained variation differed spatially across the brain, with transcriptomic similarity playing a larger role in the cortex than subcortex, while connectivity explains structural covariance best in parts of the cortex, midbrain, and hindbrain. These results suggest that both gene expression and connectivity underlie structural volume covariance, albeit to different extents depending on brain region, and this relationship is modulated by distance. Copyright © 2018. Published by Elsevier Inc.

Transforming Spatial Reasoning Skills in the Undergraduate Geoscience Classroom Through Interventions Based on Cognitive Science Research

NASA Astrophysics Data System (ADS)

Ormand, C. J.; Shipley, T. F.; Tikoff, B.; Manduca, C. A.; Dutrow, B. L.; Goodwin, L. B.; Hickson, T.; Atit, K.; Gagnier, K. M.; Resnick, I.

2013-12-01

Spatial visualization is an essential skill in many, if not all, STEM disciplines. It is a prerequisite for understanding subjects as diverse as fluid flow through 3D fault systems, magnetic and gravitational fields, atmospheric and oceanic circulation patterns, cellular and molecular structures, engineering design, topology, and much, much more. Undergraduate geoscience students, in both introductory and upper-level courses, bring a wide range of spatial skill levels to the classroom. However, spatial thinking improves with practice, and can improve more rapidly with intentional training. As a group of geoscience faculty members and cognitive psychologists, we are collaborating to apply the results of cognitive science research to the development of teaching materials to improve undergraduate geology majors' spatial thinking skills. This approach has the potential to transform undergraduate STEM education by removing one significant barrier to success in the STEM disciplines. Two promising teaching strategies have emerged from recent cognitive science research into spatial thinking: gesturing and predictive sketching. Studies show that students who gesture about spatial relationships perform better on spatial tasks than students who don't gesture, perhaps because gesture provides a mechanism for cognitive offloading. Similarly, students who sketch their predictions about the interiors of geologic block diagrams perform better on penetrative thinking tasks than students who make predictions without sketching. We are developing new teaching materials for Mineralogy, Structural Geology, and Sedimentology & Stratigraphy courses using these two strategies. Our data suggest that the research-based teaching materials we are developing may boost students' spatial thinking skills beyond the baseline gains we have measured in the same courses without the new curricular materials.

The Spatial Distribution of Attention within and across Objects

PubMed Central

Hollingworth, Andrew; Maxcey-Richard, Ashleigh M.; Vecera, Shaun P.

2011-01-01

Attention operates to select both spatial locations and perceptual objects. However, the specific mechanism by which attention is oriented to objects is not well understood. We examined the means by which object structure constrains the distribution of spatial attention (i.e., a “grouped array”). Using a modified version of the Egly et al. object cuing task, we systematically manipulated within-object distance and object boundaries. Four major findings are reported: 1) spatial attention forms a gradient across the attended object; 2) object boundaries limit the distribution of this gradient, with the spread of attention constrained by a boundary; 3) boundaries within an object operate similarly to across-object boundaries: we observed object-based effects across a discontinuity within a single object, without the demand to divide or switch attention between discrete object representations; and 4) the gradient of spatial attention across an object directly modulates perceptual sensitivity, implicating a relatively early locus for the grouped array representation. PMID:21728455

A map of abstract relational knowledge in the human hippocampal-entorhinal cortex.

PubMed

Garvert, Mona M; Dolan, Raymond J; Behrens, Timothy Ej

2017-04-27

The hippocampal-entorhinal system encodes a map of space that guides spatial navigation. Goal-directed behaviour outside of spatial navigation similarly requires a representation of abstract forms of relational knowledge. This information relies on the same neural system, but it is not known whether the organisational principles governing continuous maps may extend to the implicit encoding of discrete, non-spatial graphs. Here, we show that the human hippocampal-entorhinal system can represent relationships between objects using a metric that depends on associative strength. We reconstruct a map-like knowledge structure directly from a hippocampal-entorhinal functional magnetic resonance imaging adaptation signal in a situation where relationships are non-spatial rather than spatial, discrete rather than continuous, and unavailable to conscious awareness. Notably, the measure that best predicted a behavioural signature of implicit knowledge and blood oxygen level-dependent adaptation was a weighted sum of future states, akin to the successor representation that has been proposed to account for place and grid-cell firing patterns.

Infrared Spectroscopy of Pa-beta and [Fe II] Emission in NGC 4151

NASA Technical Reports Server (NTRS)

Knop, R. A.; Armus, L.; Larkin, J. E.; Matthews, K.; Shupe, D. L.; Soifer, B. T.

1996-01-01

We present spatially resolved 1.24-1.30 micron spectroscopy with a resolution of 240 km/s of the Seyfert 1.5 galaxy NGC 4151. Broad Pa-beta, narrow Pa-beta, and narrow [Fe II] (lambda = 1.2567 micron) emission lines are identified in the spectrum. Additionally, a spatially unresolved narrow component probably due to [S ix] (lambda = 1.25235 micron) is observed on the nucleus. The narrow Pa-beta and [Fe II] lines are observed to be extended over a scale of 5 sec. The spatial variation of the velocity centers of the Pa-beta and [Fe II] lines show remarkable similarity, and additionally show similarities to the velocity structure previously observed in ground based spectroscopy of [O III] emission in NGC 4151. This leads to the conclusion that the [Fe II] emission arises in clouds in the Seyfert narrow line region that are physically correlated with those narrow line clouds responsible for the optical emission. The [Fe II] emission line, however, is significantly wider than the Pa-beta emission line along the full spatial extent of the observed emission. This result suggests that despite the correlation between the bulk kinematics of Pa-beta and [Fe II], there is an additional process, perhaps fast shocks from a wind in the Seyfert nucleus, contributing to the [Fe II] emission.

Oscillatory interfacial instability between miscible fluids

NASA Astrophysics Data System (ADS)

Shevtsova, Valentina; Gaponenko, Yuri; Mialdun, Aliaksandr; Torregrosa, Marita; Yasnou, Viktar

Interfacial instabilities occurring between two fluids are of fundamental interest in fluid dynamics, biological systems and engineering applications such as liquid storage, solvent extraction, oil recovery and mixing. Horizontal vibrations applied to stratified layers of immiscible liquids may generate spatially periodic waving of the interface, stationary in the reference frame of the vibrated cell, referred to as a "frozen wave". We present experimental evidence that frozen wave instability exists between two ordinary miscible liquids of similar densities and viscosities. At the experiments and at the numerical model, two superimposed layers of ordinary liquids, water-alcohol of different concentrations, are placed in a closed cavity in a gravitationally stable configuration. The density and viscosity of these fluids are somewhat similar. Similar to the immiscible fluids this instability has a threshold. When the value of forcing is increased the amplitudes of perturbations grow continuously displaying a saw-tooth structure. The decrease of gravity drastically changes the structure of frozen waves.

K-shuff: A Novel Algorithm for Characterizing Structural and Compositional Diversity in Gene Libraries.

PubMed

Jangid, Kamlesh; Kao, Ming-Hung; Lahamge, Aishwarya; Williams, Mark A; Rathbun, Stephen L; Whitman, William B

2016-01-01

K-shuff is a new algorithm for comparing the similarity of gene sequence libraries, providing measures of the structural and compositional diversity as well as the significance of the differences between these measures. Inspired by Ripley's K-function for spatial point pattern analysis, the Intra K-function or IKF measures the structural diversity, including both the richness and overall similarity of the sequences, within a library. The Cross K-function or CKF measures the compositional diversity between gene libraries, reflecting both the number of OTUs shared as well as the overall similarity in OTUs. A Monte Carlo testing procedure then enables statistical evaluation of both the structural and compositional diversity between gene libraries. For 16S rRNA gene libraries from complex bacterial communities such as those found in seawater, salt marsh sediments, and soils, K-shuff yields reproducible estimates of structural and compositional diversity with libraries greater than 50 sequences. Similarly, for pyrosequencing libraries generated from a glacial retreat chronosequence and Illumina® libraries generated from US homes, K-shuff required >300 and 100 sequences per sample, respectively. Power analyses demonstrated that K-shuff is sensitive to small differences in Sanger or Illumina® libraries. This extra sensitivity of K-shuff enabled examination of compositional differences at much deeper taxonomic levels, such as within abundant OTUs. This is especially useful when comparing communities that are compositionally very similar but functionally different. K-shuff will therefore prove beneficial for conventional microbiome analysis as well as specific hypothesis testing.

[Soil and forest structure in the Colombian Amazon].

PubMed

Calle-Rendón, Bayron R; Moreno, Flavio; Cárdenas López, Dairon

2011-09-01

Forests structural differences could result of environmental variations at different scales. Because soils are an important component of plant's environment, it is possible that edaphic and structural variables are associated and that, in consequence, spatial autocorrelation occurs. This paper aims to answer two questions: (1) are structural and edaphic variables associated at local scale in a terra firme forest of Colombian Amazonia? and (2) are these variables regionalized at the scale of work? To answer these questions we analyzed the data of a 6ha plot established in a terra firme forest of the Amacayacu National Park. Structural variables included basal area and density of large trees (diameter > or = 10cm) (Gdos and Ndos), basal area and density of understory individuals (diameter < 10cm) (Gsot and Nsot) and number of species of large trees (sp). Edaphic variables included were pH, organic matter, P, Mg, Ca, K, Al, sand, silt and clay. Structural and edaphic variables were reduced through a principal component analysis (PCA); then, the association between edaphic and structural components from PCA was evaluated by multiple regressions. The existence of regionalization of these variables was studied through isotropic variograms, and autocorrelated variables were spatially mapped. PCA found two significant components for structure, corresponding to the structure of large trees (G, Gdos, Ndos and sp) and of small trees (N, Nsot and Gsot), which explained 43.9% and 36.2% of total variance, respectively. Four components were identified for edaphic variables, which globally explained 81.9% of total variance and basically represent drainage and soil fertility. Regression analyses were significant (p < 0.05) and showed that the structure of both large and small trees is associated with greater sand contents and low soil fertility, though they explained a low proportion of total variability (R2 was 4.9% and 16.5% for the structure of large trees and small tress, respectively). Variables with spatial autocorrelation were the structure of small trees, Al, silt, and sand. Among them, Nsot and sand content showed similar patterns of spatial distribution inside the plot.

Spatial and temporal changes in household structure locations using high-resolution satellite imagery for population assessment: an analysis in southern Zambia, 2006-2011.

PubMed

Shields, Timothy; Pinchoff, Jessie; Lubinda, Jailos; Hamapumbu, Harry; Searle, Kelly; Kobayashi, Tamaki; Thuma, Philip E; Moss, William J; Curriero, Frank C

2016-05-31

Satellite imagery is increasingly available at high spatial resolution and can be used for various purposes in public health research and programme implementation. Comparing a census generated from two satellite images of the same region in rural southern Zambia obtained four and a half years apart identified patterns of household locations and change over time. The length of time that a satellite image-based census is accurate determines its utility. Households were enumerated manually from satellite images obtained in 2006 and 2011 of the same area. Spatial statistics were used to describe clustering, cluster detection, and spatial variation in the location of households. A total of 3821 household locations were enumerated in 2006 and 4256 in 2011, a net change of 435 houses (11.4% increase). Comparison of the images indicated that 971 (25.4%) structures were added and 536 (14.0%) removed. Further analysis suggested similar household clustering in the two images and no substantial difference in concentration of households across the study area. Cluster detection analysis identified a small area where significantly more household structures were removed than expected; however, the amount of change was of limited practical significance. These findings suggest that random sampling of households for study participation would not induce geographic bias if based on a 4.5-year-old image in this region. Application of spatial statistical methods provides insights into the population distribution changes between two time periods and can be helpful in assessing the accuracy of satellite imagery.

Analysis of spatial and temporal spectra of liquid film surface in annular gas-liquid flow

NASA Astrophysics Data System (ADS)

Alekseenko, Sergey; Cherdantsev, Andrey; Heinz, Oksana; Kharlamov, Sergey; Markovich, Dmitriy

2013-09-01

Wavy structure of liquid film in annular gas-liquid flow without liquid entrainment consists of fast long-living primary waves and slow short-living secondary waves. In present paper, results of spectral analysis of this wavy structure are presented. Application of high-speed LIF technique allowed us to perform such analysis in both spatial and temporal domains. Power spectra in both domains are characterized by one-humped shape with long exponential tail. Influence of gas velocity, liquid Reynolds number, liquid viscosity and pipe diameter on frequency of the waves is investigated. When gravity effect is much lesser than the shear stress, similarity of power spectra at different gas velocities is observed. Using combination of spectral analysis and identification of characteristic lines of primary waves, frequency of generation of secondary waves by primary waves is measured.

Scale-Dependence of Processes Structuring Dung Beetle Metacommunities Using Functional Diversity and Community Deconstruction Approaches

PubMed Central

da Silva, Pedro Giovâni; Hernández, Malva Isabel Medina

2015-01-01

Community structure is driven by mechanisms linked to environmental, spatial and temporal processes, which have been successfully addressed using metacommunity framework. The relative importance of processes shaping community structure can be identified using several different approaches. Two approaches that are increasingly being used are functional diversity and community deconstruction. Functional diversity is measured using various indices that incorporate distinct community attributes. Community deconstruction is a way to disentangle species responses to ecological processes by grouping species with similar traits. We used these two approaches to determine whether they are improvements over traditional measures (e.g., species composition, abundance, biomass) for identification of the main processes driving dung beetle (Scarabaeinae) community structure in a fragmented mainland-island landscape in southern Brazilian Atlantic Forest. We sampled five sites in each of four large forest areas, two on the mainland and two on the island. Sampling was performed in 2012 and 2013. We collected abundance and biomass data from 100 sampling points distributed over 20 sampling sites. We studied environmental, spatial and temporal effects on dung beetle community across three spatial scales, i.e., between sites, between areas and mainland-island. The γ-diversity based on species abundance was mainly attributed to β-diversity as a consequence of the increase in mean α- and β-diversity between areas. Variation partitioning on abundance, biomass and functional diversity showed scale-dependence of processes structuring dung beetle metacommunities. We identified two major groups of responses among 17 functional groups. In general, environmental filters were important at both local and regional scales. Spatial factors were important at the intermediate scale. Our study supports the notion of scale-dependence of environmental, spatial and temporal processes in the distribution and functional organization of Scarabaeinae beetles. We conclude that functional diversity may be used as a complementary approach to traditional measures, and that community deconstruction allows sufficient disentangling of responses of different trait-based groups. PMID:25822150

Partitioning the impact of environment and spatial structure on alpha and beta components of taxonomic, functional, and phylogenetic diversity in European ants.

PubMed

Arnan, Xavier; Cerdá, Xim; Retana, Javier

2015-01-01

We analyze the relative contribution of environmental and spatial variables to the alpha and beta components of taxonomic (TD), phylogenetic (PD), and functional (FD) diversity in ant communities found along different climate and anthropogenic disturbance gradients across western and central Europe, in order to assess the mechanisms structuring ant biodiversity. To this aim we calculated alpha and beta TD, PD, and FD for 349 ant communities, which included a total of 155 ant species; we examined 10 functional traits and phylogenetic relatedness. Variation partitioning was used to examine how much variation in ant diversity was explained by environmental and spatial variables. Autocorrelation in diversity measures and each trait's phylogenetic signal were also analyzed. We found strong autocorrelation in diversity measures. Both environmental and spatial variables significantly contributed to variation in TD, PD, and FD at both alpha and beta scales; spatial structure had the larger influence. The different facets of diversity showed similar patterns along environmental gradients. Environment explained a much larger percentage of variation in FD than in TD or PD. All traits demonstrated strong phylogenetic signals. Our results indicate that environmental filtering and dispersal limitations structure all types of diversity in ant communities. Strong dispersal limitations appear to have led to clustering of TD, PD, and FD in western and central Europe, probably because different historical and evolutionary processes generated different pools of species. Remarkably, these three facets of diversity showed parallel patterns along environmental gradients. Trait-mediated species sorting and niche conservatism appear to structure ant diversity, as evidenced by the fact that more variation was explained for FD and that all traits had strong phylogenetic signals. Since environmental variables explained much more variation in FD than in PD, functional diversity should be a better indicator of community assembly processes than phylogenetic diversity.

Rapid divergence of mussel populations despite incomplete barriers to dispersal.

PubMed

Maas, Diede L; Prost, Stefan; Bi, Ke; Smith, Lydia L; Armstrong, Ellie E; Aji, Ludi P; Toha, Abdul Hamid A; Gillespie, Rosemary G; Becking, Leontine E

2018-04-01

Striking genetic structure among marine populations at small spatial scales is becoming evident with extensive molecular studies. Such observations suggest isolation at small scales may play an important role in forming patterns of genetic diversity within species. Isolation-by-distance, isolation-by-environment and historical priority effects are umbrella terms for a suite of processes that underlie genetic structure, but their relative importance at different spatial and temporal scales remains elusive. Here, we use marine lakes in Indonesia to assess genetic structure and assess the relative roles of the processes in shaping genetic differentiation in populations of a bivalve mussel (Brachidontes sp.). Marine lakes are landlocked waterbodies of similar age (6,000-10,000 years), but with heterogeneous environments and varying degrees of connection to the sea. Using a population genomic approach (double-digest restriction-site-associated DNA sequencing), we show strong genetic structuring across populations (range F ST : 0.07-0.24) and find limited gene flow through admixture plots. At large spatial scales (>1,400 km), a clear isolation-by-distance pattern was detected. At smaller spatial scales (<200 km), this pattern is maintained, but accompanied by an association of genetic divergence with degree of connection. We hypothesize that (incomplete) dispersal barriers can cause initial isolation, allowing priority effects to give the numerical advantage necessary to initiate strong genetic structure. Priority effects may be strengthened by local adaptation, which the data may corroborate by showing a high correlation between mussel genotypes and temperature. Our study indicates an often-neglected role of (evolution-mediated) priority effects in shaping population divergence. © 2018 The Authors. Molecular Ecology published by John Wiley & Sons Ltd.

Molecular structure of dextran sulphate sodium in aqueous environment

NASA Astrophysics Data System (ADS)

Yu, Miao; Every, Hayley A.; Jiskoot, Wim; Witkamp, Geert-Jan; Buijs, Wim

2018-03-01

Here we propose a 3D-molecular structural model for dextran sulphate sodium (DSS) in a neutral aqueous environment based on the results of a molecular modelling study. The DSS structure is dominated by the stereochemistry of the 1,6-linked α-glucose units and the presence of two sulphate groups on each α-glucose unit. The structure of DSS can be best described as a helix with various patterns of di-sulphate substitution on the glucose rings. The presence of a side chain does not alter the 3D-structure of the linear main chain much, but affects the overall spatial dimension of the polymer. The simulated polymers have a diameter similar to or in some cases even larger than model α-hemolysin nano-pores for macromolecule transport in many biological processes, indicating a size-limited translocation through such pores. All results of the molecular modelling study are in line with previously reported experimental data. This study establishes the three-dimensional structure of DSS and summarizes the spatial dimension of the polymer, serving as the basis for a better understanding on the molecular level of DSS-involved electrostatic interaction processes with biological components like proteins and cell pores.

Single image super-resolution via regularized extreme learning regression for imagery from microgrid polarimeters

NASA Astrophysics Data System (ADS)

Sargent, Garrett C.; Ratliff, Bradley M.; Asari, Vijayan K.

2017-08-01

The advantage of division of focal plane imaging polarimeters is their ability to obtain temporally synchronized intensity measurements across a scene; however, they sacrifice spatial resolution in doing so due to their spatially modulated arrangement of the pixel-to-pixel polarizers and often result in aliased imagery. Here, we propose a super-resolution method based upon two previously trained extreme learning machines (ELM) that attempt to recover missing high frequency and low frequency content beyond the spatial resolution of the sensor. This method yields a computationally fast and simple way of recovering lost high and low frequency content from demosaicing raw microgrid polarimetric imagery. The proposed method outperforms other state-of-the-art single-image super-resolution algorithms in terms of structural similarity and peak signal-to-noise ratio.

Evaporation and transpiration from forests in Central Europe - relevance of patch-level studies for spatial scaling

NASA Astrophysics Data System (ADS)

Köstner, B.

Spatial scaling from patch to the landscape level requires knowledge on the effects of vegetation structure on maximum surface conductances and evaporation rates. The following paper summarizes results on atmospheric, edaphic, and structural controls on forest evaporation and transpiration observed in stands of Norway spruce (Picea abies), Scots pine (Pinus sylvestris) and European beech (Fagus sylvatica). Forest canopy transpiration (Ec) was determined by tree sapflow measurements scaled to the stand level. Estimates of understory transpiration and forest floor evaporation were derived from lysimeter and chamber measurements. Strong reduction of Ec due to soil drought was only observed at a Scots pine stand when soil water content dropped below 16% v/v. Although relative responses of Ec on atmospheric conditions were similar, daily maximum rates of could differ more than 100% between forest patches of different structure (1.5-3.0mmd-1 and 2.6-6.4mmd-1 for spruce and beech, respectively). A significant decrease of Ecmax per leaf area index with increasing stand age was found for monocultures of Norway spruce, whereas no pronounced changes in were observed for beech stands. It is concluded that structural effects on Ecmax can be specified and must be considered for spatial scaling from forest stands to landscapes. Hereby, in conjunction with LAI, age-related structural parameters are important for Norway spruce stands. Although compensating effects of tree canopy layers and understory on total evaporation of forests were observed, more information is needed to quantify structure-function relationships in forests of heterogenous structure.

Quantitative phase and texture angularity analysis of brain white matter lesions in multiple sclerosis

NASA Astrophysics Data System (ADS)

Baxandall, Shalese; Sharma, Shrushrita; Zhai, Peng; Pridham, Glen; Zhang, Yunyan

2018-03-01

Structural changes to nerve fiber tracts are extremely common in neurological diseases such as multiple sclerosis (MS). Accurate quantification is vital. However, while nerve fiber damage is often seen as multi-focal lesions in magnetic resonance imaging (MRI), measurement through visual perception is limited. Our goal was to characterize the texture pattern of the lesions in MRI and determine how texture orientation metrics relate to lesion structure using two new methods: phase congruency and multi-resolution spatial-frequency analysis. The former aims to optimize the detection of the `edges and corners' of a structure, and the latter evaluates both the radial and angular distributions of image texture associated with the various forming scales of a structure. The radial texture spectra were previously confirmed to measure the severity of nerve fiber damage, and were thus included for validation. All measures were also done in the control brain white matter for comparison. Using clinical images of MS patients, we found that both phase congruency and weighted mean phase detected invisible lesion patterns and were significantly greater in lesions, suggesting higher structure complexity, than the control tissue. Similarly, multi-angular spatial-frequency analysis detected much higher texture across the whole frequency spectrum in lesions than the control areas. Such angular complexity was consistent with findings from radial texture. Analysis of the phase and texture alignment may prove to be a useful new approach for assessing invisible changes in lesions using clinical MRI and thereby lead to improved management of patients with MS and similar disorders.

Exploring changes in the spatial distribution of stream baseflow generation during a seasonal recession

USGS Publications Warehouse

Payn, R.A.; Gooseff, M.N.; McGlynn, B.L.; Bencala, K.E.; Wondzell, S.M.

2012-01-01

Relating watershed structure to streamflow generation is a primary focus of hydrology. However, comparisons of longitudinal variability in stream discharge with adjacent valley structure have been rare, resulting in poor understanding of the distribution of the hydrologic mechanisms that cause variability in streamflow generation along valleys. This study explores detailed surveys of stream base flow across a gauged, 23 km2 mountain watershed. Research objectives were (1) to relate spatial variability in base flow to fundamental elements of watershed structure, primarily topographic contributing area, and (2) to assess temporal changes in the spatial patterns of those relationships during a seasonal base flow recession. We analyzed spatiotemporal variability in base flow using (1) summer hydrographs at the study watershed outlet and 5 subwatershed outlets and (2) longitudinal series of discharge measurements every ~100 m along the streams of the 3 largest subwatersheds (1200 to 2600 m in valley length), repeated 2 to 3 times during base flow recession. Reaches within valley segments of 300 to 1200 m in length tended to demonstrate similar streamflow generation characteristics. Locations of transitions between these segments were consistent throughout the recession, and tended to be collocated with abrupt longitudinal transitions in valley slope or hillslope-riparian characteristics. Both within and among subwatersheds, correlation between the spatial distributions of streamflow and topographic contributing area decreased during the recession, suggesting a general decrease in the influence of topography on stream base flow contributions. As topographic controls on base flow evidently decreased, multiple aspects of subsurface structure were likely to have gained influence.

Characterizing spatial structure of sediment E. coli populations to inform sampling design.

PubMed

Piorkowski, Gregory S; Jamieson, Rob C; Hansen, Lisbeth Truelstrup; Bezanson, Greg S; Yost, Chris K

2014-01-01

Escherichia coli can persist in streambed sediments and influence water quality monitoring programs through their resuspension into overlying waters. This study examined the spatial patterns in E. coli concentration and population structure within streambed morphological features during baseflow and following stormflow to inform sampling strategies for representative characterization of E. coli populations within a stream reach. E. coli concentrations in bed sediments were significantly different (p = 0.002) among monitoring sites during baseflow, and significant interactive effects (p = 0.002) occurred among monitoring sites and morphological features following stormflow. Least absolute shrinkage and selection operator (LASSO) regression revealed that water velocity and effective particle size (D 10) explained E. coli concentration during baseflow, whereas sediment organic carbon, water velocity and median particle diameter (D 50) were important explanatory variables following stormflow. Principle Coordinate Analysis illustrated the site-scale differences in sediment E. coli populations between disconnected stream segments. Also, E. coli populations were similar among depositional features within a reach, but differed in relation to high velocity features (e.g., riffles). Canonical correspondence analysis resolved that E. coli population structure was primarily explained by spatial (26.9–31.7 %) over environmental variables (9.2–13.1 %). Spatial autocorrelation existed among monitoring sites and morphological features for both sampling events, and gradients in mean particle diameter and water velocity influenced E. coli population structure for the baseflow and stormflow sampling events, respectively. Representative characterization of streambed E. coli requires sampling of depositional and high velocity environments to accommodate strain selectivity among these features owing to sediment and water velocity heterogeneity.

Human and ecological determinants of the spatial structure of local breed diversity.

PubMed

Colino-Rabanal, Victor J; Rodríguez-Díaz, Roberto; Blanco-Villegas, María José; Peris, Salvador J; Lizana, Miguel

2018-04-24

Since domestication, a large number of livestock breeds adapted to local conditions have been created by natural and artificial selection, representing one of the most powerful ways in which human groups have constructed niches to meet their need. Although many authors have described local breeds as the result of culturally and environmentally mediated processes, this study, located in mainland Spain, is the first aimed at identifying and quantifying the environmental and human contributions to the spatial structure of local breed diversity, which we refer to as livestock niche. We found that the more similar two provinces were in terms of human population, ecological characteristics, historical ties, and geographic distance, the more similar the composition of local breeds in their territories. Isolation by human population distance showed the strongest effect, followed by isolation by the environment, thus supporting the view of livestock niche as a socio-cultural product adapted to the local environment, in whose construction humans make good use of their ecological and cultural inheritances. These findings provide a useful framework to understand and to envisage the effects of climate change and globalization on local breeds and their livestock niches.

Accuracy improvement in laser stripe extraction for large-scale triangulation scanning measurement system

NASA Astrophysics Data System (ADS)

Zhang, Yang; Liu, Wei; Li, Xiaodong; Yang, Fan; Gao, Peng; Jia, Zhenyuan

2015-10-01

Large-scale triangulation scanning measurement systems are widely used to measure the three-dimensional profile of large-scale components and parts. The accuracy and speed of the laser stripe center extraction are essential for guaranteeing the accuracy and efficiency of the measuring system. However, in the process of large-scale measurement, multiple factors can cause deviation of the laser stripe center, including the spatial light intensity distribution, material reflectivity characteristics, and spatial transmission characteristics. A center extraction method is proposed for improving the accuracy of the laser stripe center extraction based on image evaluation of Gaussian fitting structural similarity and analysis of the multiple source factors. First, according to the features of the gray distribution of the laser stripe, evaluation of the Gaussian fitting structural similarity is estimated to provide a threshold value for center compensation. Then using the relationships between the gray distribution of the laser stripe and the multiple source factors, a compensation method of center extraction is presented. Finally, measurement experiments for a large-scale aviation composite component are carried out. The experimental results for this specific implementation verify the feasibility of the proposed center extraction method and the improved accuracy for large-scale triangulation scanning measurements.

Joint spatial-spectral hyperspectral image clustering using block-diagonal amplified affinity matrix

NASA Astrophysics Data System (ADS)

Fan, Lei; Messinger, David W.

2018-03-01

The large number of spectral channels in a hyperspectral image (HSI) produces a fine spectral resolution to differentiate between materials in a scene. However, difficult classes that have similar spectral signatures are often confused while merely exploiting information in the spectral domain. Therefore, in addition to spectral characteristics, the spatial relationships inherent in HSIs should also be considered for incorporation into classifiers. The growing availability of high spectral and spatial resolution of remote sensors provides rich information for image clustering. Besides the discriminating power in the rich spectrum, contextual information can be extracted from the spatial domain, such as the size and the shape of the structure to which one pixel belongs. In recent years, spectral clustering has gained popularity compared to other clustering methods due to the difficulty of accurate statistical modeling of data in high dimensional space. The joint spatial-spectral information could be effectively incorporated into the proximity graph for spectral clustering approach, which provides a better data representation by discovering the inherent lower dimensionality from the input space. We embedded both spectral and spatial information into our proposed local density adaptive affinity matrix, which is able to handle multiscale data by automatically selecting the scale of analysis for every pixel according to its neighborhood of the correlated pixels. Furthermore, we explored the "conductivity method," which aims at amplifying the block diagonal structure of the affinity matrix to further improve the performance of spectral clustering on HSI datasets.

The impact of mating systems and dispersal on fine-scale genetic structure at maternally, paternally and biparentally inherited markers.

PubMed

Shaw, Robyn E; Banks, Sam C; Peakall, Rod

2018-01-01

For decades, studies have focused on how dispersal and mating systems influence genetic structure across populations or social groups. However, we still lack a thorough understanding of how these processes and their interaction shape spatial genetic patterns over a finer scale (tens-hundreds of metres). Using uniparentally inherited markers may help answer these questions, yet their potential has not been fully explored. Here, we use individual-level simulations to investigate the effects of dispersal and mating system on fine-scale genetic structure at autosomal, mitochondrial and Y chromosome markers. Using genetic spatial autocorrelation analysis, we found that dispersal was the major driver of fine-scale genetic structure across maternally, paternally and biparentally inherited markers. However, when dispersal was restricted (mean distance = 100 m), variation in mating behaviour created strong differences in the comparative level of structure detected at maternally and paternally inherited markers. Promiscuity reduced spatial genetic structure at Y chromosome loci (relative to monogamy), whereas structure increased under polygyny. In contrast, mitochondrial and autosomal markers were robust to differences in the specific mating system, although genetic structure increased across all markers when reproductive success was skewed towards fewer individuals. Comparing males and females at Y chromosome vs. mitochondrial markers, respectively, revealed that some mating systems can generate similar patterns to those expected under sex-biased dispersal. This demonstrates the need for caution when inferring ecological and behavioural processes from genetic results. Comparing patterns between the sexes, across a range of marker types, may help us tease apart the processes shaping fine-scale genetic structure. © 2017 John Wiley & Sons Ltd.

Smooth- and rough-wall boundary layer structure from high spatial range particle image velocimetry

NASA Astrophysics Data System (ADS)

Squire, D. T.; Morrill-Winter, C.; Hutchins, N.; Marusic, I.; Schultz, M. P.; Klewicki, J. C.

2016-10-01

Two particle image velocimetry arrangements are used to make true spatial comparisons between smooth- and rough-wall boundary layers at high Reynolds numbers across a very wide range of streamwise scales. Together, the arrangements resolve scales ranging from motions on the order of the Kolmogorov microscale to those longer than twice the boundary layer thickness. The rough-wall experiments were obtained above a continuous sandpaper sheet, identical to that used by Squire et al. [J. Fluid Mech. 795, 210 (2016), 10.1017/jfm.2016.196], and cover a range of friction and equivalent sand-grain roughness Reynolds numbers (12 000 ≲δ+≲ 18000, 62 ≲ks+≲104 ). The smooth-wall experiments comprise new and previously published data spanning 6500 ≲δ+≲17 000 . Flow statistics from all experiments show similar Reynolds number trends and behaviors to recent, well-resolved hot-wire anemometry measurements above the same rough surface. Comparisons, at matched δ+, between smooth- and rough-wall two-point correlation maps and two-point magnitude-squared coherence maps demonstrate that spatially the outer region of the boundary layer is the same between the two flows. This is apparently true even at wall-normal locations where the total (inner-normalized) energy differs between the smooth and rough wall. Generally, the present results provide strong support for Townsend's [The Structure of Turbulent Shear Flow (Cambridge University Press, Cambridge, 1956), Vol. 1] wall-similarity hypothesis in high Reynolds number fully rough boundary layer flows.

Ecosystem Processes at the Watershed Scale: Stability and Resilience of Catchment Spatial Structure and Function to Disturbance

NASA Astrophysics Data System (ADS)

Baron, J.; Mast, A.; Clow, D. W.; Wetherbee, G. A.

2014-12-01

Ecohydrological systems evolve spontaneously in response to geologic, hydroclimate and biodiversity drivers. The stability and resilience of these systems to multiple disturbances can be addressed over specific temporal extents, potentially embedded within long term transience in response to geologic or climate change. The limits of ecohydrological resilience of system state in terms of vegetation canopy and soil catenae and the space/time distribution of water, carbon and nutrient cycling is determined by a set of critical feedbacks and potential substitutions of plant functional forms in response to disturbance. The ability of forest systems to return to states functionally similar to states prior to major disturbance, or combinations of multiple disturbances, is a critical question given increasing hydroclimate extremes, biological invasions, and human disturbance. Over the past century, forest landscape ecological patterns appear to have the ability to recover from significant disturbance and re-establish similar hydrological and ecological function in humid, biodiverse regions such as the southern Appalachians, and potentially drier forest ecosystems. Understanding and prediction of past and future long term dynamics requires explicit representation of spatial and temporal feedbacks and dependencies between hydrological, ecosystem and geomorphic processes, and the spatial pattern of species or plant functional type (PFT). Comprehensive models of watershed ecohydrological resilience requires careful balance between the level of process and parameter detail between the interacting components, relative to the structure, organization, space and time scales of the landscape.

Optimization method of superpixel analysis for multi-contrast Jones matrix tomography (Conference Presentation)

NASA Astrophysics Data System (ADS)

Miyazawa, Arata; Hong, Young-Joo; Makita, Shuichi; Kasaragod, Deepa K.; Miura, Masahiro; Yasuno, Yoshiaki

2017-02-01

Local statistics are widely utilized for quantification and image processing of OCT. For example, local mean is used to reduce speckle, local variation of polarization state (degree-of-polarization-uniformity (DOPU)) is used to visualize melanin. Conventionally, these statistics are calculated in a rectangle kernel whose size is uniform over the image. However, the fixed size and shape of the kernel result in a tradeoff between image sharpness and statistical accuracy. Superpixel is a cluster of pixels which is generated by grouping image pixels based on the spatial proximity and similarity of signal values. Superpixels have variant size and flexible shapes which preserve the tissue structure. Here we demonstrate a new superpixel method which is tailored for multifunctional Jones matrix OCT (JM-OCT). This new method forms the superpixels by clustering image pixels in a 6-dimensional (6-D) feature space (spatial two dimensions and four dimensions of optical features). All image pixels were clustered based on their spatial proximity and optical feature similarity. The optical features are scattering, OCT-A, birefringence and DOPU. The method is applied to retinal OCT. Generated superpixels preserve the tissue structures such as retinal layers, sclera, vessels, and retinal pigment epithelium. Hence, superpixel can be utilized as a local statistics kernel which would be more suitable than a uniform rectangle kernel. Superpixelized image also can be used for further image processing and analysis. Since it reduces the number of pixels to be analyzed, it reduce the computational cost of such image processing.

Changes in hippocampal volume and neuron number co-occur with memory decline in old homing pigeons (Columba livia).

PubMed

Coppola, Vincent J; Kanyok, Nate; Schreiber, Austin J; Flaim, Mary E; Bingman, Verner P

2016-05-01

The mammalian hippocampus is particularly susceptible to age-related structural changes, which have been used to explain, in part, age-related memory decline. These changes are generally characterized by atrophy (e.g., a decrease in volume and number of synaptic contacts). Recent studies have reported age-related spatial memory deficits in older pigeons similar to those seen in older mammals. However, to date, little is known about any co-occurring changes in the aging avian hippocampal formation (HF). In the current study, it was found that the HF of older pigeons was actually larger and contained more neurons than the HF of younger pigeons, a finding that suggests that the pattern of structural changes during aging in the avian HF is different from that seen in the mammalian hippocampus. A working hypothesis for relating the observed structural changes with spatial-cognitive decline is offered. Copyright © 2016 Elsevier Inc. All rights reserved.

High resolution multi-facies realizations of sedimentary reservoir and aquifer analogs

PubMed Central

Bayer, Peter; Comunian, Alessandro; Höyng, Dominik; Mariethoz, Gregoire

2015-01-01

Geological structures are by nature inaccessible to direct observation. This can cause difficulties in applications where a spatially explicit representation of such structures is required, in particular when modelling fluid migration in geological formations. An increasing trend in recent years has been to use analogs to palliate this lack of knowledge, i.e., exploiting the spatial information from sites where the geology is accessible (outcrops, quarry sites) and transferring the observed properties to a study site deemed geologically similar. While this approach is appealing, it is difficult to put in place because of the lack of access to well-documented analog data. In this paper we present comprehensive analog data sets which characterize sedimentary structures from important groundwater hosting formations in Germany and Brazil. Multiple 2-D outcrop faces are described in terms of hydraulic, thermal and chemical properties and interpolated in 3-D using stochastic techniques. These unique data sets can be used by the wider community to implement analog approaches for characterizing reservoir and aquifer formations. PMID:26175910

The spatial configuration of ordered polynucleotide chains. II. The poly(rA) helix.

PubMed Central

Olson, W K

1975-01-01

Approximate details of the spatial configuration of the ordered single-stranded poly(rA) molecule in dilute solution have been obtained in a combined theoretical analysis of base stacking and chain flexibility. Only those regularly repeating structures which fulfill the criterion of conformational flexibility (based upon all available experimental and theoretical evidence of preferred bond rotations) and which also exhibit the right-handed base stacking pattern observed in nmr investigations of poly(rA) are deemed suitable single-stranded helices. In addition, the helical geometry of the stacked structures is required to be consistent with the experimentally observed dimensions of both completely ordered and partially ordered poly(rA) chains. Only a single category of poly(rA) helices (very similar in all conformational details to the individual chains of the poly(rA) double-stranded X-ray structure) is thus obtained. Other conformationally feasible polynucleotide helices characterized simply by a parallel and overlapping base stacking arrangement are also discussed. PMID:1052529

A crowdful of letters: disentangling the role of similarity, eccentricity and spatial frequencies in letter crowding.

PubMed

Zahabi, Sacha; Arguin, Martin

2014-04-01

The present study investigated the joint impact of target-flanker similarity and of spatial frequency content on the crowding effect in letter identification. We presented spatial frequency filtered letters to neurologically intact non-dyslexic readers while manipulating target-flanker distance, target eccentricity and target-flanker confusability (letter similarity metric based on published letter confusion matrices). The results show that high target-flanker confusability magnifies crowding. They also reveal an intricate pattern of interactions of the spatial frequency content of the stimuli with target eccentricity, flanker distance and similarity. The findings are congruent with the notion that crowding results from the inappropriate pooling of target and flanker features and that this integration is more likely to match a response template at a subsequent decision stage with similar than dissimilar flankers. In addition, the evidence suggests that crowding from similar flankers is biased towards relatively high spatial frequencies and that crowding shifts towards lower spatial frequencies as target eccentricity is increased. Copyright © 2014 Elsevier B.V. All rights reserved.

Stanley Corrsin Award Talk: The role of singularities in hydrodynamics

NASA Astrophysics Data System (ADS)

Eggers, Jens

2017-11-01

If a tap is opened slowly, a drop will form. The separation of the drop is described by a singularity of the Navier-Stokes equation with a free surface. Shock waves are singular solutions of the equations of ideal, compressible hydrodynamics. These examples show that singularities are characteristic for the tendency of the hydrodynamic equations to develop small scale features spontaneously, starting from smooth initial conditions. As a result, new structures are created, which form the building blocks of more complicated flows. The mathematical structure of singularities is self-similar, and their characteristics are fixed by universal properties. This will be illustrated by physical examples, as well as by applications to engineering problems such as printing, coating, or air entrainment. Finally, more recent developments will be discussed: the increasing complexity underlying the self-similar behavior of some singularities, and the spatial structure of shock waves.

Spatial working memory in Wistar rats: brain sex differences in metabolic activity.

PubMed

Méndez-López, Magdalena; Méndez, Marta; López, Laudino; Arias, Jorge L

2009-05-29

Several works have shown that males and females differ in the ability to learn spatial locations in mazes. In this study, we used the Morris water maze to assess the acquisition of a spatial working memory (WM) task in adult male and female Wistar rats. The task consisted of a paired sample procedure made up of two daily identical trials, sample and retention. To study the oxidative metabolic activity of some brain limbic system regions after the WM task, we applied the cytochrome oxidase (COx) histochemistry. In addition to the experimental groups, free swimming control groups and untrained naïve groups were added to explore the COx changes not specific to the learning process. Similar spatial performances were found between sexes as only one more sample and retention trials were needed in males to reduce the escape latencies significantly. Males showed decreased COx activity as compared to control groups in the medial prefrontal cortex (prelimbic and infralimbic regions) as well as in the lateral septum and dentate gyrus. Regarding females, an increase in COx activity was found in nucleus accumbens, ventral tegmental area and supramammillary region in relation to control groups. Overall, these findings suggest that the acquisition of the spatial WM task is mediated by different subsystems in a sex-dependent manner that points to the hippocampus as the central structure in males whereas other structures would be central in females.

Mapping the Centimeter-Scale Spatial Variability of PAHs and Microbial Populations in the Rhizosphere of Two Plants

PubMed Central

Bourceret, Amélia; Leyval, Corinne; de Fouquet, Chantal; Cébron, Aurélie

2015-01-01

Rhizoremediation uses root development and exudation to favor microbial activity. Thus it can enhance polycyclic aromatic hydrocarbon (PAH) biodegradation in contaminated soils. Spatial heterogeneity of rhizosphere processes, mainly linked to the root development stage and to the plant species, could explain the contrasted rhizoremediation efficiency levels reported in the literature. Aim of the present study was to test if spatial variability in the whole plant rhizosphere, explored at the centimetre-scale, would influence the abundance of microorganisms (bacteria and fungi), and the abundance and activity of PAH-degrading bacteria, leading to spatial variability in PAH concentrations. Two contrasted rhizospheres were compared after 37 days of alfalfa or ryegrass growth in independent rhizotron devices. Almost all spiked PAHs were degraded, and the density of the PAH-degrading bacterial populations increased in both rhizospheres during the incubation period. Mapping of multiparametric data through geostatistical estimation (kriging) revealed that although root biomass was spatially structured, PAH distribution was not. However a greater variability of the PAH content was observed in the rhizosphere of alfalfa. Yet, in the ryegrass-planted rhizotron, the Gram-positive PAH-degraders followed a reverse depth gradient to root biomass, but were positively correlated to the soil pH and carbohydrate concentrations. The two rhizospheres structured the microbial community differently: a fungus-to-bacterium depth gradient similar to the root biomass gradient only formed in the alfalfa rhizotron. PMID:26599438

Similar Processes but Different Environmental Filters for Soil Bacterial and Fungal Community Composition Turnover on a Broad Spatial Scale

PubMed Central

Chemidlin Prévost-Bouré, Nicolas; Dequiedt, Samuel; Thioulouse, Jean; Lelièvre, Mélanie; Saby, Nicolas P. A.; Jolivet, Claudy; Arrouays, Dominique; Plassart, Pierre; Lemanceau, Philippe; Ranjard, Lionel

2014-01-01

Spatial scaling of microorganisms has been demonstrated over the last decade. However, the processes and environmental filters shaping soil microbial community structure on a broad spatial scale still need to be refined and ranked. Here, we compared bacterial and fungal community composition turnovers through a biogeographical approach on the same soil sampling design at a broad spatial scale (area range: 13300 to 31000 km2): i) to examine their spatial structuring; ii) to investigate the relative importance of environmental selection and spatial autocorrelation in determining their community composition turnover; and iii) to identify and rank the relevant environmental filters and scales involved in their spatial variations. Molecular fingerprinting of soil bacterial and fungal communities was performed on 413 soils from four French regions of contrasting environmental heterogeneity (Landes

Similar processes but different environmental filters for soil bacterial and fungal community composition turnover on a broad spatial scale.

PubMed

Chemidlin Prévost-Bouré, Nicolas; Dequiedt, Samuel; Thioulouse, Jean; Lelièvre, Mélanie; Saby, Nicolas P A; Jolivet, Claudy; Arrouays, Dominique; Plassart, Pierre; Lemanceau, Philippe; Ranjard, Lionel

2014-01-01

Spatial scaling of microorganisms has been demonstrated over the last decade. However, the processes and environmental filters shaping soil microbial community structure on a broad spatial scale still need to be refined and ranked. Here, we compared bacterial and fungal community composition turnovers through a biogeographical approach on the same soil sampling design at a broad spatial scale (area range: 13300 to 31000 km2): i) to examine their spatial structuring; ii) to investigate the relative importance of environmental selection and spatial autocorrelation in determining their community composition turnover; and iii) to identify and rank the relevant environmental filters and scales involved in their spatial variations. Molecular fingerprinting of soil bacterial and fungal communities was performed on 413 soils from four French regions of contrasting environmental heterogeneity (Landes

Food-web structure of seagrass communities across different spatial scales and human impacts.

PubMed

Coll, Marta; Schmidt, Allison; Romanuk, Tamara; Lotze, Heike K

2011-01-01

Seagrass beds provide important habitat for a wide range of marine species but are threatened by multiple human impacts in coastal waters. Although seagrass communities have been well-studied in the field, a quantification of their food-web structure and functioning, and how these change across space and human impacts has been lacking. Motivated by extensive field surveys and literature information, we analyzed the structural features of food webs associated with Zostera marina across 16 study sites in 3 provinces in Atlantic Canada. Our goals were to (i) quantify differences in food-web structure across local and regional scales and human impacts, (ii) assess the robustness of seagrass webs to simulated species loss, and (iii) compare food-web structure in temperate Atlantic seagrass beds with those of other aquatic ecosystems. We constructed individual food webs for each study site and cumulative webs for each province and the entire region based on presence/absence of species, and calculated 16 structural properties for each web. Our results indicate that food-web structure was similar among low impact sites across regions. With increasing human impacts associated with eutrophication, however, food-web structure show evidence of degradation as indicated by fewer trophic groups, lower maximum trophic level of the highest top predator, fewer trophic links connecting top to basal species, higher fractions of herbivores and intermediate consumers, and higher number of prey per species. These structural changes translate into functional changes with impacted sites being less robust to simulated species loss. Temperate Atlantic seagrass webs are similar to a tropical seagrass web, yet differed from other aquatic webs, suggesting consistent food-web characteristics across seagrass ecosystems in different regions. Our study illustrates that food-web structure and functioning of seagrass habitats change with human impacts and that the spatial scale of food-web analysis is critical for determining results.

Food-Web Structure of Seagrass Communities across Different Spatial Scales and Human Impacts

PubMed Central

Coll, Marta; Schmidt, Allison; Romanuk, Tamara; Lotze, Heike K.

2011-01-01

Seagrass beds provide important habitat for a wide range of marine species but are threatened by multiple human impacts in coastal waters. Although seagrass communities have been well-studied in the field, a quantification of their food-web structure and functioning, and how these change across space and human impacts has been lacking. Motivated by extensive field surveys and literature information, we analyzed the structural features of food webs associated with Zostera marina across 16 study sites in 3 provinces in Atlantic Canada. Our goals were to (i) quantify differences in food-web structure across local and regional scales and human impacts, (ii) assess the robustness of seagrass webs to simulated species loss, and (iii) compare food-web structure in temperate Atlantic seagrass beds with those of other aquatic ecosystems. We constructed individual food webs for each study site and cumulative webs for each province and the entire region based on presence/absence of species, and calculated 16 structural properties for each web. Our results indicate that food-web structure was similar among low impact sites across regions. With increasing human impacts associated with eutrophication, however, food-web structure show evidence of degradation as indicated by fewer trophic groups, lower maximum trophic level of the highest top predator, fewer trophic links connecting top to basal species, higher fractions of herbivores and intermediate consumers, and higher number of prey per species. These structural changes translate into functional changes with impacted sites being less robust to simulated species loss. Temperate Atlantic seagrass webs are similar to a tropical seagrass web, yet differed from other aquatic webs, suggesting consistent food-web characteristics across seagrass ecosystems in different regions. Our study illustrates that food-web structure and functioning of seagrass habitats change with human impacts and that the spatial scale of food-web analysis is critical for determining results. PMID:21811637

Habitat fragmentation effects on the orchid bee communities in remnant forests of southeastern Brazil.

PubMed

Knoll, Fátima do Rosário Naschenveng; Penatti, N C

2012-10-01

The effect of habitat fragmentation on the structure of orchid bee communities was analyzed by the investigation of the existence of a spatial structure in the richness and abundance of Euglossini species and by determining the relationship between these data and environmental factors. The surveys were carried out in four different forest fragments and one university campus. Richness, abundance, and diversity of species were analyzed in relation to abiotic (size of the area, extent of the perimeter, perimeter/area ratio, and shape index) and biotic characteristics (vegetation index of the fragment and of the matrix of each of the locations studied). We observed a highly significant positive correlation between the diversity index and the vegetation index of the fragment, landscape and shape index. Our analysis demonstrated that the observed variation could be explained mainly by the vegetation index and the size of the fragment. Variations in relative abundance showed a tendency toward an aggregated spatial distribution between the fragments studied, as well as between the sampling stations within the same habitat, demonstrating the existence of a spatial structure on a small scale in the populations of Euglossini. This distribution will determine the composition of species that coexist in the area after fragmentation. These data help in understanding the differences and similarities in the structure of communities of Euglossini resulting from forest fragmentation.

Similarity in Spatial Origin of Information Facilitates Cue Competition and Interference

ERIC Educational Resources Information Center

Amundson, Jeffrey C.; Miller, Ralph R.

2007-01-01

Two lick suppression studies were conducted with water-deprived rats to investigate the influence of spatial similarity in cue interaction. Experiment 1 assessed the influence of similarity of the spatial origin of competing cues in a blocking procedure. Greater blocking was observed in the condition in which the auditory blocking cue and the…

Validation of deformable image registration algorithms on CT images of ex vivo porcine bladders with fiducial markers.

PubMed

Wognum, S; Heethuis, S E; Rosario, T; Hoogeman, M S; Bel, A

2014-07-01

The spatial accuracy of deformable image registration (DIR) is important in the implementation of image guided adaptive radiotherapy techniques for cancer in the pelvic region. Validation of algorithms is best performed on phantoms with fiducial markers undergoing controlled large deformations. Excised porcine bladders, exhibiting similar filling and voiding behavior as human bladders, provide such an environment. The aim of this study was to determine the spatial accuracy of different DIR algorithms on CT images of ex vivo porcine bladders with radiopaque fiducial markers applied to the outer surface, for a range of bladder volumes, using various accuracy metrics. Five excised porcine bladders with a grid of 30-40 radiopaque fiducial markers attached to the outer wall were suspended inside a water-filled phantom. The bladder was filled with a controlled amount of water with added contrast medium for a range of filling volumes (100-400 ml in steps of 50 ml) using a luer lock syringe, and CT scans were acquired at each filling volume. DIR was performed for each data set, with the 100 ml bladder as the reference image. Six intensity-based algorithms (optical flow or demons-based) implemented in theMATLAB platform DIRART, a b-spline algorithm implemented in the commercial software package VelocityAI, and a structure-based algorithm (Symmetric Thin Plate Spline Robust Point Matching) were validated, using adequate parameter settings according to values previously published. The resulting deformation vector field from each registration was applied to the contoured bladder structures and to the marker coordinates for spatial error calculation. The quality of the algorithms was assessed by comparing the different error metrics across the different algorithms, and by comparing the effect of deformation magnitude (bladder volume difference) per algorithm, using the Independent Samples Kruskal-Wallis test. The authors found good structure accuracy without dependency on bladder volume difference for all but one algorithm, and with the best result for the structure-based algorithm. Spatial accuracy as assessed from marker errors was disappointing for all algorithms, especially for large volume differences, implying that the deformations described by the registration did not represent anatomically correct deformations. The structure-based algorithm performed the best in terms of marker error for the large volume difference (100-400 ml). In general, for the small volume difference (100-150 ml) the algorithms performed relatively similarly. The structure-based algorithm exhibited the best balance in performance between small and large volume differences, and among the intensity-based algorithms, the algorithm implemented in VelocityAI exhibited the best balance. Validation of multiple DIR algorithms on a novel physiological bladder phantom revealed that the structure accuracy was good for most algorithms, but that the spatial accuracy as assessed from markers was low for all algorithms, especially for large deformations. Hence, many of the available algorithms exhibit sufficient accuracy for contour propagation purposes, but possibly not for accurate dose accumulation.

Multiscale assessment of landscape structure in heterogeneous forested area

NASA Astrophysics Data System (ADS)

Simoniello, T.; Pignatti, S.; Carone, M. T.; Fusilli, L.; Lanfredi, M.; Coppola, R.; Santini, F.

2010-05-01

The characterization of landscape structure in space or time is fundamental to infer ecological processes (Ingegnoli, 2002). Landscape pattern arrangements strongly influence forest ecological functioning and biodiversity, as an example landscape fragmentation can induce habitat degradation reducing forest species populations or limiting their recolonization. Such arrangements are spatially correlated and scale-dependent, therefore they have distinctive operational-scales at which they can be best characterized (Wu, 2004). In addition, the detail of the land cover classification can have substantial influences on resulting pattern quantification (Greenberg et al.2001). In order to evaluate the influence of the observational scales and labelling details, we investigated a forested area (Pollino National Park; southern Italy) by analyzing the patch arrangement derived from three remote sensing sensors having different spectral and spatial resolutions. In particular, we elaborated data from the hyperspectral MIVIS (102 bands; ~7m) and Hyperion (220 bands; 30m), and the multispectral Landsat-TM (7 bands; 30m). Moreover, to assess the landscape evolution we investigated the hierarchical structure of the study area (landscape, class, patch) by elaborating two Landsat-TM acquired in 1987 and 1998. Preprocessed data were classified by adopting a supervised procedure based on the Minimum Distance classifier. The obtained labelling correspond to Corine level 5 for the high resolution MIVIS data, to Corine level 4 for Hyperion and to an intermediate level 4-3 for TM data. The analysis was performed by taking into account patch density, diversity and evenness at landscape level; mean patch size and interdispersion at class level; patch structure and perimeter regularity at patch level. The three sensors described a landscape with a quite high level of richness and distribution. The high spectral and spatial resolution of MIVIS data provided the highest diversity level (SHDI = 2.05), even if the results obtained for TM were not so different (1.93), Hyperion showed the lowest value (1.79). The obtained evenness index was similar for all the landscapes (~ 0.72). At class level, the interdispersion increases as the spatial and spectral resolution power decrease. Due to the low labelling detail, TM classes represent an aggregation of MIVIS and Hyperion classes; therefore they result larger and more diffused over the territory favouring higher interspersion values in the computation. The investigation of the patch structure highlighted the highest MIVIS capability in describing the patch articulation; Hyperion and TM showed quite similar situation. The historical analysis based on TM imagery showed a fragmentation process for some forested patches (mainly beeches): an increase of structure complexity (higher FRACT) is coupled with a higher patch number and an extension reduction. On the whole, the obtained results showed that the multispectral Landsat-TM images represent a good data source for supporting studies on landscape structure of forested areas and that for analyzing the articulation of particular species the high spectral resolution needs to be coupled with a high spatial resolution, i.e. Hyperion sampling is not adequate for such a purpose.

Analysing taxonomic structures and local ecological processes in temperate forests in North Eastern China.

PubMed

Fan, Chunyu; Tan, Lingzhao; Zhang, Chunyu; Zhao, Xiuhai; von Gadow, Klaus

2017-10-30

One of the core issues of forest community ecology is the exploration of how ecological processes affect community structure. The relative importance of different processes is still under debate. This study addresses four questions: (1) how is the taxonomic structure of a forest community affected by spatial scale? (2) does the taxonomic structure reveal effects of local processes such as environmental filtering, dispersal limitation or interspecific competition at a local scale? (3) does the effect of local processes on the taxonomic structure vary with the spatial scale? (4) does the analysis based on taxonomic structures provide similar insights when compared with the use of phylogenetic information? Based on the data collected in two large forest observational field studies, the taxonomic structures of the plant communities were analyzed at different sampling scales using taxonomic ratios (number of genera/number of species, number of families/number of species), and the relationship between the number of higher taxa and the number of species. Two random null models were used and the "standardized effect size" (SES) of taxonomic ratios was calculated, to assess possible differences between the observed and simulated taxonomic structures, which may be caused by specific ecological processes. We further applied a phylogeny-based method to compare results with those of the taxonomic approach. As expected, the taxonomic ratios decline with increasing grain size. The quantitative relationship between genera/families and species, described by a linearized power function, showed a good fit. With the exception of the family-species relationship in the Jiaohe study area, the exponents of the genus/family-species relationships did not show any scale dependent effects. The taxonomic ratios of the observed communities had significantly lower values than those of the simulated random community under the test of two null models at almost all scales. Null Model 2 which considered the spatial dispersion of species generated a taxonomic structure which proved to be more consistent with that in the observed community. As sampling sizes increased from 20 m × 20 m to 50 m × 50 m, the magnitudes of SESs of taxonomic ratios increased. Based on the phylogenetic analysis, we found that the Jiaohe plot was phylogenetically clustered at almost all scales. We detected significant phylogenetically overdispersion at the 20 m × 20 m and 30 m × 30 m scales in the Liangshui plot. The results suggest that the effect of abiotic filtering is greater than the effects of interspecific competition in shaping the local community at almost all scales. Local processes influence the taxonomic structures, but their combined effects vary with the spatial scale. The taxonomic approach provides similar insights as the phylogenetic approach, especially when we applied a more conservative null model. Analysing taxonomic structure may be a useful tool for communities where well-resolved phylogenetic data are not available.

Spatial and temporal variability in the structure of invertebrate assemblages in control stream mesocosms.

PubMed

Wong, Diana C L; Maltby, Lorraine; Whittle, Don; Warren, Philip; Dorn, Philip B

2004-01-01

Outdoor stream mesocosm studies conducted between 1992 and 1996 at two facilities enabled the investigation of structural variability in invertebrate assemblages within and between studies. Temporal variability of benthic invertebrate assemblages between eight replicate streams within a study was assessed in a 28-day mesocosm study without chemical treatment. Cluster analysis, non-metric multidimensional scaling, and principal component analysis each showed the untreated assemblages as structurally distinct groups on the three sampling days. The assemblages between the eight replicate streams showed >88% Bray-Curtis similarity at any one time during the study. In addition, pre-treatment data from a series of four studies conducted at one facility were used to examine structural variability in the starting benthic invertebrate assemblages between studies. Invertebrate assemblages were structurally distinct at the start of each mesocosm study conducted in different years at the same facility and the taxa responsible for differences in the assemblages were also different each year. The implications of temporal and spatial variability in benthic invertebrate assemblages within and between mesocosm studies with regards to species sensitivity and study repeatability should be considered when results of such studies are used in risk assessment.

The Evolution of Galaxies Through the Spatial Distribution of Their Globular Clusters: the Brightest Galaxies in Fornax

NASA Astrophysics Data System (ADS)

Zegeye, David W.

2018-01-01

We present a study of the evolution of the 10 brightest galaxies in the Fornax Cluster, as reconstructed through their Globular Cluster (GC) populations. GCs can be characterized by their projected two-dimensional (2D) spatial distribution. Over- or under-densities in the GC distribution, can be linked to events in the host galaxy assembly history, and used to constrain the properties of their progenitors. With HST/ACS imaging, we identified significant structures in the GC distribution of the 10 galaxies investigated, with some of the galaxies possessing structures with >10-sigma significance. GC over-densities have been found within the galaxies, with significant differences between the red and blue GC population. For elongated galaxies, structures are preferentially to be aligned along the major axis. Fornax Cluster galaxies appear to be more dynamically relaxed than the Virgo Cluster galaxies previously investigated with the same methodology by D'Abrusco et al. (2016). However, from these observations, the evident imprints left in the spatial distribution of GCs in these galaxies suggest a similarly intense history of interactions.The SAO REU program is funded by the National Science Foundation REU and Department of Defense ASSURE programs under NSF Grant AST-1659473, and by the Smithsonian Institution.

The spatial structure of transnational human activity.

PubMed

Deutschmann, Emanuel

2016-09-01

Starting from conflictive predictions of hitherto disconnected debates in the natural and social sciences, this article examines the spatial structure of transnational human activity (THA) worldwide (a) across eight types of mobility and communication and (b) in its development over time. It is shown that the spatial structure of THA is similar to that of animal displacements and local-scale human motion in that it can be approximated by Lévy flights with heavy tails that obey power laws. Scaling exponent and power-law fit differ by type of THA, being highest in refuge-seeking and tourism and lowest in student exchange. Variance in the availability of resources and opportunities for satisfying associated needs appears to explain these differences. Over time (1960-2010), the Lévy-flight pattern remains intact and remarkably stable, contradicting the popular notion that socio-technological trends lead to a "death of distance." Humans have not become more "global" over time, they rather became more mobile in general, i.e. they move and communicate more at all distances. Hence, it would be more adequate to speak of "mobilization" than of "globalization." Longitudinal change occurs only in some types of THA and predominantly at short distances, indicating regional rather than global shifts. Copyright © 2016 Elsevier Inc. All rights reserved.

From chemotaxis to the cognitive map: The function of olfaction

PubMed Central

Jacobs, Lucia F.

2012-01-01

A paradox of vertebrate brain evolution is the unexplained variability in the size of the olfactory bulb (OB), in contrast to other brain regions, which scale predictably with brain size. Such variability appears to be the result of selection for olfactory function, yet there is no obvious concordance that would predict the causal relationship between OB size and behavior. This discordance may derive from assuming the primary function of olfaction is odorant discrimination and acuity. If instead the primary function of olfaction is navigation, i.e., predicting odorant distributions in time and space, variability in absolute OB size could be ascribed and explained by variability in navigational demand. This olfactory spatial hypothesis offers a single functional explanation to account for patterns of olfactory system scaling in vertebrates, the primacy of olfaction in spatial navigation, even in visual specialists, and proposes an evolutionary scenario to account for the convergence in olfactory structure and function across protostomes and deuterostomes. In addition, the unique percepts of olfaction may organize odorant information in a parallel map structure. This could have served as a scaffold for the evolution of the parallel map structure of the mammalian hippocampus, and possibly the arthropod mushroom body, and offers an explanation for similar flexible spatial navigation strategies in arthropods and vertebrates. PMID:22723365

A planktonic diatom displays genetic structure over small spatial scales.

PubMed

Sefbom, Josefin; Kremp, Anke; Rengefors, Karin; Jonsson, Per R; Sjöqvist, Conny; Godhe, Anna

2018-04-03

Marine planktonic microalgae have potentially global dispersal, yet reduced gene flow has been confirmed repeatedly for several species. Over larger distances (>200 km) geographic isolation and restricted oceanographic connectivity have been recognized as instrumental in driving population divergence. Here we investigated whether similar patterns, that is, structured populations governed by geographic isolation and/or oceanographic connectivity, can be observed at smaller (6-152 km) geographic scales. To test this we established 425 clonal cultures of the planktonic diatom Skeletonema marinoi collected from 11 locations in the Archipelago Sea (northern Baltic Sea). The region is characterized by a complex topography, entailing several mixing regions of which four were included in the sampling area. Using eight microsatellite markers and conventional F-statistics, significant genetic differentiation was observed between several sites. Moreover, Bayesian cluster analysis revealed the co-occurrence of two genetic groups spread throughout the area. However, geographic isolation and oceanographic connectivity could not explain the genetic patterns observed. Our data reveal hierarchical genetic structuring whereby despite high dispersal potential, significantly diverged populations have developed over small spatial scales. Our results suggest that biological characteristics and historical events may be more important in generating barriers to gene flow than physical barriers at small spatial scales. © 2018 Society for Applied Microbiology and John Wiley & Sons Ltd.

Modeling Transport of Cesium in Grimsel Granodiorite With Micrometer Scale Heterogeneities and Dynamic Update of Kd

NASA Astrophysics Data System (ADS)

Voutilainen, Mikko; Kekäläinen, Pekka; Siitari-Kauppi, Marja; Sardini, Paul; Muuri, Eveliina; Timonen, Jussi; Martin, Andrew

2017-11-01

Transport and retardation of cesium in Grimsel granodiorite taking into account heterogeneity of mineral and pore structure was studied using rock samples overcored from an in situ diffusion test at the Grimsel Test Site. The field test was part of the Long-Term Diffusion (LTD) project designed to characterize retardation properties (diffusion and distribution coefficients) under in situ conditions. Results of the LTD experiment for cesium showed that in-diffusion profiles and spatial concentration distributions were strongly influenced by the heterogeneous pore structure and mineral distribution. In order to study the effect of heterogeneity on the in-diffusion profile and spatial concentration distribution, a Time Domain Random Walk (TDRW) method was applied along with a feature for modeling chemical sorption in geological materials. A heterogeneous mineral structure of Grimsel granodiorite was constructed using X-ray microcomputed tomography (X-μCT) and the map was linked to previous results for mineral specific porosities and distribution coefficients (Kd) that were determined using C-14-PMMA autoradiography and batch sorption experiments, respectively. After this the heterogeneous structure contains information on local porosity and Kd in 3-D. It was found that the heterogeneity of the mineral structure on the micrometer scale affects significantly the diffusion and sorption of cesium in Grimsel granodiorite at the centimeter scale. Furthermore, the modeled in-diffusion profiles and spatial concentration distributions show similar shape and pattern to those from the LTD experiment. It was concluded that the use of detailed structure characterization and quantitative data on heterogeneity can significantly improve the interpretation and evaluation of transport experiments.

Spatial models reveal the microclimatic buffering capacity of old-growth forests

PubMed Central

Frey, Sarah J. K.; Hadley, Adam S.; Johnson, Sherri L.; Schulze, Mark; Jones, Julia A.; Betts, Matthew G.

2016-01-01

Climate change is predicted to cause widespread declines in biodiversity, but these predictions are derived from coarse-resolution climate models applied at global scales. Such models lack the capacity to incorporate microclimate variability, which is critical to biodiversity microrefugia. In forested montane regions, microclimate is thought to be influenced by combined effects of elevation, microtopography, and vegetation, but their relative effects at fine spatial scales are poorly known. We used boosted regression trees to model the spatial distribution of fine-scale, under-canopy air temperatures in mountainous terrain. Spatial models predicted observed independent test data well (r = 0.87). As expected, elevation strongly predicted temperatures, but vegetation and microtopography also exerted critical effects. Old-growth vegetation characteristics, measured using LiDAR (light detection and ranging), appeared to have an insulating effect; maximum spring monthly temperatures decreased by 2.5°C across the observed gradient in old-growth structure. These cooling effects across a gradient in forest structure are of similar magnitude to 50-year forecasts of the Intergovernmental Panel on Climate Change and therefore have the potential to mitigate climate warming at local scales. Management strategies to conserve old-growth characteristics and to curb current rates of primary forest loss could maintain microrefugia, enhancing biodiversity persistence in mountainous systems under climate warming. PMID:27152339

Similarities and differences between the brain networks underlying allocentric and egocentric spatial learning in rat revealed by cytochrome oxidase histochemistry.

PubMed

Rubio, S; Begega, A; Méndez, M; Méndez-López, M; Arias, J L

2012-10-25

The involvement of different brain regions in place- and response-learning was examined using a water cross-maze. Rats were trained to find the goal from the initial arm by turning left at the choice point (egocentric strategy) or by using environmental cues (allocentric strategy). Although different strategies were required, the same maze and learning conditions were used. Using cytochrome oxidase histochemistry as a marker of cellular activity, the function of the 13 diverse cortical and subcortical regions was assessed in rats performing these two tasks. Our results show that allocentric learning depends on the recruitment of a large functional network, which includes the hippocampal CA3, dentate gyrus, medial mammillary nucleus and supramammillary nucleus. Along with the striatum, these last three structures are also related to egocentric spatial learning. The present study provides evidence for the contribution of these regions to spatial navigation and supports a possible functional interaction between the two memory systems, as their structural convergence may facilitate functional cooperation in the behaviours guided by more than one strategy. In summary, it can be argued that spatial learning is based on dynamic functional systems in which the interaction of brain regions is modulated by task requirements. Copyright © 2012 IBRO. Published by Elsevier Ltd. All rights reserved.

Spatial models reveal the microclimatic buffering capacity of old-growth forests.

PubMed

Frey, Sarah J K; Hadley, Adam S; Johnson, Sherri L; Schulze, Mark; Jones, Julia A; Betts, Matthew G

2016-04-01

Climate change is predicted to cause widespread declines in biodiversity, but these predictions are derived from coarse-resolution climate models applied at global scales. Such models lack the capacity to incorporate microclimate variability, which is critical to biodiversity microrefugia. In forested montane regions, microclimate is thought to be influenced by combined effects of elevation, microtopography, and vegetation, but their relative effects at fine spatial scales are poorly known. We used boosted regression trees to model the spatial distribution of fine-scale, under-canopy air temperatures in mountainous terrain. Spatial models predicted observed independent test data well (r = 0.87). As expected, elevation strongly predicted temperatures, but vegetation and microtopography also exerted critical effects. Old-growth vegetation characteristics, measured using LiDAR (light detection and ranging), appeared to have an insulating effect; maximum spring monthly temperatures decreased by 2.5°C across the observed gradient in old-growth structure. These cooling effects across a gradient in forest structure are of similar magnitude to 50-year forecasts of the Intergovernmental Panel on Climate Change and therefore have the potential to mitigate climate warming at local scales. Management strategies to conserve old-growth characteristics and to curb current rates of primary forest loss could maintain microrefugia, enhancing biodiversity persistence in mountainous systems under climate warming.

Electronic structure, chemical bonding, and geometry of pure and Sr-doped CaCO3.

PubMed

Stashans, Arvids; Chamba, Gaston; Pinto, Henry

2008-02-01

The electronic structure, chemical bonding, geometry, and effects produced by Sr-doping in CaCO(3) have been studied on the basis of density-functional theory using the VASP simulation package and molecular-orbital theory utilizing the CLUSTERD computer code. Two calcium carbonate structures which occur naturally in anhydrous crystalline forms, calcite and aragonite, were considered in the present investigation. The obtained diagrams of density of states show similar patterns for both materials. The spatial structures are computed and analyzed in comparison to the available experimental data. The electronic properties and atomic displacements because of the trace element Sr-incorporation are discussed in a comparative manner for the two crystalline structures. (c) 2007 Wiley Periodicals, Inc.

Structure and Dynamics of Hydroxyl-Functionalized Protic Ammonium Carboxylate Ionic Liquids.

PubMed

Thummuru, Dhileep Nagi Reddy; Mallik, Bhabani S

2017-10-26

We performed classical molecular dynamics simulations to investigate the structure and dynamics of protic ionic liquids, 2-hydroxy ethylammonium acetate, ethylammonium hydroxyacetate, and 2-hydroxyethylammonium hydroxyacetate at ambient conditions. Structural properties such as density, radial distribution functions, spatial distribution functions, and structure factors have been calculated. Dynamic properties such as mean square displacements, as well as residence and hydrogen bond dynamics have also been calculated. Hydrogen bond lifetimes and residence times change with the addition of hydroxyl groups. We observe that when a hydroxyl group is present on the cation, dynamics become very slow and it forms a strong hydrogen bond with carboxylate oxygen atoms of the anion. The hydroxyl functionalized ILs show more dynamic diversity than structurally similar ILs.

A Structure-Based Distance Metric for High-Dimensional Space Exploration with Multi-Dimensional Scaling

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lee, Hyun Jung; McDonnell, Kevin T.; Zelenyuk, Alla

2014-03-01

Although the Euclidean distance does well in measuring data distances within high-dimensional clusters, it does poorly when it comes to gauging inter-cluster distances. This significantly impacts the quality of global, low-dimensional space embedding procedures such as the popular multi-dimensional scaling (MDS) where one can often observe non-intuitive layouts. We were inspired by the perceptual processes evoked in the method of parallel coordinates which enables users to visually aggregate the data by the patterns the polylines exhibit across the dimension axes. We call the path of such a polyline its structure and suggest a metric that captures this structure directly inmore » high-dimensional space. This allows us to better gauge the distances of spatially distant data constellations and so achieve data aggregations in MDS plots that are more cognizant of existing high-dimensional structure similarities. Our MDS plots also exhibit similar visual relationships as the method of parallel coordinates which is often used alongside to visualize the high-dimensional data in raw form. We then cast our metric into a bi-scale framework which distinguishes far-distances from near-distances. The coarser scale uses the structural similarity metric to separate data aggregates obtained by prior classification or clustering, while the finer scale employs the appropriate Euclidean distance.« less

Frugivory and Spatial Patterns of Seed Deposition by Carnivorous Mammals in Anthropogenic Landscapes: A Multi-Scale Approach

PubMed Central

López-Bao, José V.; González-Varo, Juan P.

2011-01-01

Background Knowledge about how frugivory and seed deposition are spatially distributed is valuable to understand the role of dispersers on the structure and dynamics of plant populations. This may be particularly important within anthropogenic areas, where either the patchy distribution of wild plants or the presence of cultivated fleshy-fruits may influence plant-disperser interactions. Methodology/Principal Findings We investigated frugivory and spatial patterns of seed deposition by carnivorous mammals in anthropogenic landscapes considering two spatial scales: ‘landscape’ (∼10 km2) and ‘habitat type’ (∼1–2 km2). We sampled carnivore faeces and plant abundance at three contrasting habitats (chestnut woods, mosaics and scrublands), each replicated within three different landscapes. Sixty-five percent of faeces collected (n = 1077) contained seeds, among which wild and cultivated seeds appeared in similar proportions (58% and 53%) despite that cultivated fruiting plants were much less abundant. Seed deposition was spatially structured among both spatial scales being different between fruit types. Whereas the most important source of spatial variation in deposition of wild seeds was the landscape scale, it was the habitat scale for cultivated seeds. At the habitat scale, seeds of wild species were mostly deposited within mosaics while seeds of cultivated species were within chestnut woods and scrublands. Spatial concordance between seed deposition and plant abundance was found only for wild species. Conclusions/Significance Spatial patterns of seed deposition by carnivores differed between fruit types and seemed to be modulated by the fleshy-fruited plant assemblages and the behaviour of dispersers. Our results suggest that a strong preference for cultivated fruits by carnivores may influence their spatial foraging behaviour and lower their dispersal services to wild species. However, the high amount of seeds removed within and between habitats suggests that carnivores must play an important role – often overlooked – as ‘restorers’ and ‘habitat shapers’ in anthropogenic areas. PMID:21297861

The Long and the Short of It: On the Nature and Origin of Functional Overlap between Representations of Space and Time

ERIC Educational Resources Information Center

Srinivasan, Mahesh; Carey, Susan

2010-01-01

When we describe time, we often use the language of space ("The movie was long"; "The deadline is approaching"). Experiments 1-3 asked whether--as patterns in language suggest--a structural similarity between representations of spatial length and temporal duration is easier to access than one between length and other dimensions of experience, such…

Macroscale patterns of synchrony identify complex relationships among spatial and temporal ecosystem drivers

USGS Publications Warehouse

Lottig, Noah R.; Tan, Pang-Ning; Wagner, Tyler; Cheruvelil, Kendra Spence; Soranno, Patricia A.; Stanley, Emily H.; Scott, Caren E.; Stow, Craig A.; Yuan, Shuai

2017-01-01

Ecology has a rich history of studying ecosystem dynamics across time and space that has been motivated by both practical management needs and the need to develop basic ideas about pattern and process in nature. In situations in which both spatial and temporal observations are available, similarities in temporal behavior among sites (i.e., synchrony) provide a means of understanding underlying processes that create patterns over space and time. We used pattern analysis algorithms and data spanning 22–25 yr from 601 lakes to ask three questions: What are the temporal patterns of lake water clarity at sub‐continental scales? What are the spatial patterns (i.e., geography) of synchrony for lake water clarity? And, what are the drivers of spatial and temporal patterns in lake water clarity? We found that the synchrony of water clarity among lakes is not spatially structured at sub‐continental scales. Our results also provide strong evidence that the drivers related to spatial patterns in water clarity are not related to the temporal patterns of water clarity. This analysis of long‐term patterns of water clarity and possible drivers contributes to understanding of broad‐scale spatial patterns in the geography of synchrony and complex relationships between spatial and temporal patterns across ecosystems.

RADSS: an integration of GIS, spatial statistics, and network service for regional data mining

NASA Astrophysics Data System (ADS)

Hu, Haitang; Bao, Shuming; Lin, Hui; Zhu, Qing

2005-10-01

Regional data mining, which aims at the discovery of knowledge about spatial patterns, clusters or association between regions, has widely applications nowadays in social science, such as sociology, economics, epidemiology, crime, and so on. Many applications in the regional or other social sciences are more concerned with the spatial relationship, rather than the precise geographical location. Based on the spatial continuity rule derived from Tobler's first law of geography: observations at two sites tend to be more similar to each other if the sites are close together than if far apart, spatial statistics, as an important means for spatial data mining, allow the users to extract the interesting and useful information like spatial pattern, spatial structure, spatial association, spatial outlier and spatial interaction, from the vast amount of spatial data or non-spatial data. Therefore, by integrating with the spatial statistical methods, the geographical information systems will become more powerful in gaining further insights into the nature of spatial structure of regional system, and help the researchers to be more careful when selecting appropriate models. However, the lack of such tools holds back the application of spatial data analysis techniques and development of new methods and models (e.g., spatio-temporal models). Herein, we make an attempt to develop such an integrated software and apply it into the complex system analysis for the Poyang Lake Basin. This paper presents a framework for integrating GIS, spatial statistics and network service in regional data mining, as well as their implementation. After discussing the spatial statistics methods involved in regional complex system analysis, we introduce RADSS (Regional Analysis and Decision Support System), our new regional data mining tool, by integrating GIS, spatial statistics and network service. RADSS includes the functions of spatial data visualization, exploratory spatial data analysis, and spatial statistics. The tool also includes some fundamental spatial and non-spatial database in regional population and environment, which can be updated by external database via CD or network. Utilizing this data mining and exploratory analytical tool, the users can easily and quickly analyse the huge mount of the interrelated regional data, and better understand the spatial patterns and trends of the regional development, so as to make a credible and scientific decision. Moreover, it can be used as an educational tool for spatial data analysis and environmental studies. In this paper, we also present a case study on Poyang Lake Basin as an application of the tool and spatial data mining in complex environmental studies. At last, several concluding remarks are discussed.

A weakly-constrained data assimilation approach to address rainfall-runoff model structural inadequacy in streamflow prediction

NASA Astrophysics Data System (ADS)

Lee, Haksu; Seo, Dong-Jun; Noh, Seong Jin

2016-11-01

This paper presents a simple yet effective weakly-constrained (WC) data assimilation (DA) approach for hydrologic models which accounts for model structural inadequacies associated with rainfall-runoff transformation processes. Compared to the strongly-constrained (SC) DA, WC DA adjusts the control variables less while producing similarly or more accurate analysis. Hence the adjusted model states are dynamically more consistent with those of the base model. The inadequacy of a rainfall-runoff model was modeled as an additive error to runoff components prior to routing and penalized in the objective function. Two example modeling applications, distributed and lumped, were carried out to investigate the effects of the WC DA approach on DA results. For distributed modeling, the distributed Sacramento Soil Moisture Accounting (SAC-SMA) model was applied to the TIFM7 Basin in Missouri, USA. For lumped modeling, the lumped SAC-SMA model was applied to nineteen basins in Texas. In both cases, the variational DA (VAR) technique was used to assimilate discharge data at the basin outlet. For distributed SAC-SMA, spatially homogeneous error modeling yielded updated states that are spatially much more similar to the a priori states, as quantified by Earth Mover's Distance (EMD), than spatially heterogeneous error modeling by up to ∼10 times. DA experiments using both lumped and distributed SAC-SMA modeling indicated that assimilating outlet flow using the WC approach generally produce smaller mean absolute difference as well as higher correlation between the a priori and the updated states than the SC approach, while producing similar or smaller root mean square error of streamflow analysis and prediction. Large differences were found in both lumped and distributed modeling cases between the updated and the a priori lower zone tension and primary free water contents for both WC and SC approaches, indicating possible model structural deficiency in describing low flows or evapotranspiration processes for the catchments studied. Also presented are the findings from this study and key issues relevant to WC DA approaches using hydrologic models.

Pattern formation in a class of homogeneous photochemical reactions

NASA Astrophysics Data System (ADS)

Schiller, Robert; Hámori, András

1999-03-01

Based on earlier observations of Avnir et al. [D. Avnir, M.L. Kagan, W. Ross, Chem. Phys. Lett. 135 (1987) 177; D. Avnir, M.L. Kagan, Chaos 5 (1995) 589] we investigated the kinetics of the spatial structures of the precipitate, Turnbull-blue, formed in aqueous mixtures of potassium ferrioxalate plus potassium ferricyanide under continuous laser illumination. Similar structures were observed when ferricyanide was replaced by some other Fe 2+ ions reagent. Spatio-temporal and thermochemical analyses led us to the conclusion that the formation of the dissipative structures is due to convection which, in turn, is greatly affected by the heat of reaction.

K-shuff: A Novel Algorithm for Characterizing Structural and Compositional Diversity in Gene Libraries

PubMed Central

Jangid, Kamlesh; Kao, Ming-Hung; Lahamge, Aishwarya; Williams, Mark A.; Rathbun, Stephen L.; Whitman, William B.

2016-01-01

K-shuff is a new algorithm for comparing the similarity of gene sequence libraries, providing measures of the structural and compositional diversity as well as the significance of the differences between these measures. Inspired by Ripley’s K-function for spatial point pattern analysis, the Intra K-function or IKF measures the structural diversity, including both the richness and overall similarity of the sequences, within a library. The Cross K-function or CKF measures the compositional diversity between gene libraries, reflecting both the number of OTUs shared as well as the overall similarity in OTUs. A Monte Carlo testing procedure then enables statistical evaluation of both the structural and compositional diversity between gene libraries. For 16S rRNA gene libraries from complex bacterial communities such as those found in seawater, salt marsh sediments, and soils, K-shuff yields reproducible estimates of structural and compositional diversity with libraries greater than 50 sequences. Similarly, for pyrosequencing libraries generated from a glacial retreat chronosequence and Illumina® libraries generated from US homes, K-shuff required >300 and 100 sequences per sample, respectively. Power analyses demonstrated that K-shuff is sensitive to small differences in Sanger or Illumina® libraries. This extra sensitivity of K-shuff enabled examination of compositional differences at much deeper taxonomic levels, such as within abundant OTUs. This is especially useful when comparing communities that are compositionally very similar but functionally different. K-shuff will therefore prove beneficial for conventional microbiome analysis as well as specific hypothesis testing. PMID:27911946

Multiscale patterns and drivers of arbuscular mycorrhizal fungal communities in the roots and root-associated soil of a wild perennial herb.

PubMed

Rasmussen, Pil U; Hugerth, Luisa W; Blanchet, F Guillaume; Andersson, Anders F; Lindahl, Björn D; Tack, Ayco J M

2018-03-24

Arbuscular mycorrhizal (AM) fungi form diverse communities and are known to influence above-ground community dynamics and biodiversity. However, the multiscale patterns and drivers of AM fungal composition and diversity are still poorly understood. We sequenced DNA markers from roots and root-associated soil from Plantago lanceolata plants collected across multiple spatial scales to allow comparison of AM fungal communities among neighbouring plants, plant subpopulations, nearby plant populations, and regions. We also measured soil nutrients, temperature, humidity, and community composition of neighbouring plants and nonAM root-associated fungi. AM fungal communities were already highly dissimilar among neighbouring plants (c. 30 cm apart), albeit with a high variation in the degree of similarity at this small spatial scale. AM fungal communities were increasingly, and more consistently, dissimilar at larger spatial scales. Spatial structure and environmental drivers explained a similar percentage of the variation, from 7% to 25%. A large fraction of the variation remained unexplained, which may be a result of unmeasured environmental variables, species interactions and stochastic processes. We conclude that AM fungal communities are highly variable among nearby plants. AM fungi may therefore play a major role in maintaining small-scale variation in community dynamics and biodiversity. © 2018 The Authors New Phytologist © 2018 New Phytologist Trust.

A map of abstract relational knowledge in the human hippocampal–entorhinal cortex

PubMed Central

Garvert, Mona M; Dolan, Raymond J; Behrens, Timothy EJ

2017-01-01

The hippocampal–entorhinal system encodes a map of space that guides spatial navigation. Goal-directed behaviour outside of spatial navigation similarly requires a representation of abstract forms of relational knowledge. This information relies on the same neural system, but it is not known whether the organisational principles governing continuous maps may extend to the implicit encoding of discrete, non-spatial graphs. Here, we show that the human hippocampal–entorhinal system can represent relationships between objects using a metric that depends on associative strength. We reconstruct a map-like knowledge structure directly from a hippocampal–entorhinal functional magnetic resonance imaging adaptation signal in a situation where relationships are non-spatial rather than spatial, discrete rather than continuous, and unavailable to conscious awareness. Notably, the measure that best predicted a behavioural signature of implicit knowledge and blood oxygen level-dependent adaptation was a weighted sum of future states, akin to the successor representation that has been proposed to account for place and grid-cell firing patterns. DOI: http://dx.doi.org/10.7554/eLife.17086.001 PMID:28448253

On the creation of high spatial resolution imaging spectroscopy data from multi-temporal low spatial resolution imagery

NASA Astrophysics Data System (ADS)

Yao, Wei; van Aardt, Jan; Messinger, David

2017-05-01

The Hyperspectral Infrared Imager (HyspIRI) mission aims to provide global imaging spectroscopy data to the benefit of especially ecosystem studies. The onboard spectrometer will collect radiance spectra from the visible to short wave infrared (VSWIR) regions (400-2500 nm). The mission calls for fine spectral resolution (10 nm band width) and as such will enable scientists to perform material characterization, species classification, and even sub-pixel mapping. However, the global coverage requirement results in a relatively low spatial resolution (GSD 30m), which restricts applications to objects of similar scales. We therefore have focused on the assessment of sub-pixel vegetation structure from spectroscopy data in past studies. In this study, we investigate the development or reconstruction of higher spatial resolution imaging spectroscopy data via fusion of multi-temporal data sets to address the drawbacks implicit in low spatial resolution imagery. The projected temporal resolution of the HyspIRI VSWIR instrument is 15 days, which implies that we have access to as many as six data sets for an area over the course of a growth season. Previous studies have shown that select vegetation structural parameters, e.g., leaf area index (LAI) and gross ecosystem production (GEP), are relatively constant in summer and winter for temperate forests; we therefore consider the data sets collected in summer to be from a similar, stable forest structure. The first step, prior to fusion, involves registration of the multi-temporal data. A data fusion algorithm then can be applied to the pre-processed data sets. The approach hinges on an algorithm that has been widely applied to fuse RGB images. Ideally, if we have four images of a scene which all meet the following requirements - i) they are captured with the same camera configurations; ii) the pixel size of each image is x; and iii) at least r2 images are aligned on a grid of x/r - then a high-resolution image, with a pixel size of x/r, can be reconstructed from the multi-temporal set. The algorithm was applied to data from NASA's classic Airborne Visible and Infrared Imaging Spectrometer (AVIRIS-C; GSD 18m), collected between 2013-2015 (summer and fall) over our study area (NEON's Southwest Pacific Domain; Fresno, CA) to generate higher spatial resolution imagery (GSD 9m). The reconstructed data set was validated via comparison to NEON's imaging spectrometer (NIS) data (GSD 1m). The results showed that algorithm worked well with the AVIRIS-C data and could be applied to the HyspIRI data.

One new method for road data shape change detection

NASA Astrophysics Data System (ADS)

Tang, Luliang; Li, Qingquan; Xu, Feng; Chang, Xiaomeng

2009-10-01

Similarity is a psychological cognition; this paper defines the Difference Distance and puts forward the Similarity Measuring Model for linear spatial data (SMM-L) based on the integration of the Distance View and the Feature Set View which are the views for similarity cognition. Based on the study of the relationship between the spatial data change and the similarity, a change detection algorithm for linear spatial data is developed, and a test on road data change detection is realized.

Genus age, provincial area and the taxonomic structure of marine faunas.

PubMed

Harnik, Paul G; Jablonski, David; Krug, Andrew Z; Valentine, James W

2010-11-22

Species are unevenly distributed among genera within clades and regions, with most genera species-poor and few species-rich. At regional scales, this structure to taxonomic diversity is generated via speciation, extinction and geographical range dynamics. Here, we use a global database of extant marine bivalves to characterize the taxonomic structure of climate zones and provinces. Our analyses reveal a general, Zipf-Mandelbrot form to the distribution of species among genera, with faunas from similar climate zones exhibiting similar taxonomic structure. Provinces that contain older taxa and/or encompass larger areas are expected to be more species-rich. Although both median genus age and provincial area correlate with measures of taxonomic structure, these relationships are interdependent, nonlinear and driven primarily by contrasts between tropical and extra-tropical faunas. Provincial area and taxonomic structure are largely decoupled within climate zones. Counter to the expectation that genus age and species richness should positively covary, diverse and highly structured provincial faunas are dominated by young genera. The marked differences between tropical and temperate faunas suggest strong spatial variation in evolutionary rates and invasion frequencies. Such variation contradicts biogeographic models that scale taxonomic diversity to geographical area.

Genus age, provincial area and the taxonomic structure of marine faunas

PubMed Central

Harnik, Paul G.; Jablonski, David; Krug, Andrew Z.; Valentine, James W.

2010-01-01

Species are unevenly distributed among genera within clades and regions, with most genera species-poor and few species-rich. At regional scales, this structure to taxonomic diversity is generated via speciation, extinction and geographical range dynamics. Here, we use a global database of extant marine bivalves to characterize the taxonomic structure of climate zones and provinces. Our analyses reveal a general, Zipf–Mandelbrot form to the distribution of species among genera, with faunas from similar climate zones exhibiting similar taxonomic structure. Provinces that contain older taxa and/or encompass larger areas are expected to be more species-rich. Although both median genus age and provincial area correlate with measures of taxonomic structure, these relationships are interdependent, nonlinear and driven primarily by contrasts between tropical and extra-tropical faunas. Provincial area and taxonomic structure are largely decoupled within climate zones. Counter to the expectation that genus age and species richness should positively covary, diverse and highly structured provincial faunas are dominated by young genera. The marked differences between tropical and temperate faunas suggest strong spatial variation in evolutionary rates and invasion frequencies. Such variation contradicts biogeographic models that scale taxonomic diversity to geographical area. PMID:20534619

A spatially adaptive spectral re-ordering technique for lossless coding of hyper-spectral images

NASA Technical Reports Server (NTRS)

Memon, Nasir D.; Galatsanos, Nikolas

1995-01-01

In this paper, we propose a new approach, applicable to lossless compression of hyper-spectral images, that alleviates some limitations of linear prediction as applied to this problem. According to this approach, an adaptive re-ordering of the spectral components of each pixel is performed prior to prediction and encoding. This re-ordering adaptively exploits, on a pixel-by pixel basis, the presence of inter-band correlations for prediction. Furthermore, the proposed approach takes advantage of spatial correlations, and does not introduce any coding overhead to transmit the order of the spectral bands. This is accomplished by using the assumption that two spatially adjacent pixels are expected to have similar spectral relationships. We thus have a simple technique to exploit spectral and spatial correlations in hyper-spectral data sets, leading to compression performance improvements as compared to our previously reported techniques for lossless compression. We also look at some simple error modeling techniques for further exploiting any structure that remains in the prediction residuals prior to entropy coding.

Chromosome territories reposition during DNA damage-repair response

PubMed Central

2013-01-01

Background Local higher-order chromatin structure, dynamics and composition of the DNA are known to determine double-strand break frequencies and the efficiency of repair. However, how DNA damage response affects the spatial organization of chromosome territories is still unexplored. Results Our report investigates the effect of DNA damage on the spatial organization of chromosome territories within interphase nuclei of human cells. We show that DNA damage induces a large-scale spatial repositioning of chromosome territories that are relatively gene dense. This response is dose dependent, and involves territories moving from the nuclear interior to the periphery and vice versa. Furthermore, we have found that chromosome territory repositioning is contingent upon double-strand break recognition and damage sensing. Importantly, our results suggest that this is a reversible process where, following repair, chromosome territories re-occupy positions similar to those in undamaged control cells. Conclusions Thus, our report for the first time highlights DNA damage-dependent spatial reorganization of whole chromosomes, which might be an integral aspect of cellular damage response. PMID:24330859

Programmed coherent coupling in a synthetic DNA-based excitonic circuit

NASA Astrophysics Data System (ADS)

Boulais, Étienne; Sawaya, Nicolas P. D.; Veneziano, Rémi; Andreoni, Alessio; Banal, James L.; Kondo, Toru; Mandal, Sarthak; Lin, Su; Schlau-Cohen, Gabriela S.; Woodbury, Neal W.; Yan, Hao; Aspuru-Guzik, Alán; Bathe, Mark

2018-02-01

Natural light-harvesting systems spatially organize densely packed chromophore aggregates using rigid protein scaffolds to achieve highly efficient, directed energy transfer. Here, we report a synthetic strategy using rigid DNA scaffolds to similarly program the spatial organization of densely packed, discrete clusters of cyanine dye aggregates with tunable absorption spectra and strongly coupled exciton dynamics present in natural light-harvesting systems. We first characterize the range of dye-aggregate sizes that can be templated spatially by A-tracts of B-form DNA while retaining coherent energy transfer. We then use structure-based modelling and quantum dynamics to guide the rational design of higher-order synthetic circuits consisting of multiple discrete dye aggregates within a DX-tile. These programmed circuits exhibit excitonic transport properties with prominent circular dichroism, superradiance, and fast delocalized exciton transfer, consistent with our quantum dynamics predictions. This bottom-up strategy offers a versatile approach to the rational design of strongly coupled excitonic circuits using spatially organized dye aggregates for use in coherent nanoscale energy transport, artificial light-harvesting, and nanophotonics.

Hydrological Networks and Associated Topographic Variation as Templates for the Spatial Organization of Tropical Forest Vegetation

PubMed Central

Detto, Matteo; Muller-Landau, Helene C.; Mascaro, Joseph; Asner, Gregory P.

2013-01-01

An understanding of the spatial variability in tropical forest structure and biomass, and the mechanisms that underpin this variability, is critical for designing, interpreting, and upscaling field studies for regional carbon inventories. We investigated the spatial structure of tropical forest vegetation and its relationship to the hydrological network and associated topographic structure across spatial scales of 10–1000 m using high-resolution maps of LiDAR-derived mean canopy profile height (MCH) and elevation for 4930 ha of tropical forest in central Panama. MCH was strongly associated with the hydrological network: canopy height was highest in areas of positive convexity (valleys, depressions) close to channels draining 1 ha or more. Average MCH declined strongly with decreasing convexity (transition to ridges, hilltops) and increasing distance from the nearest channel. Spectral analysis, performed with wavelet decomposition, showed that the variance in MCH had fractal similarity at scales of ∼30–600 m, and was strongly associated with variation in elevation, with peak correlations at scales of ∼250 m. Whereas previous studies of topographic correlates of tropical forest structure conducted analyses at just one or a few spatial grains, our study found that correlations were strongly scale-dependent. Multi-scale analyses of correlations of MCH with slope, aspect, curvature, and Laplacian convexity found that MCH was most strongly related to convexity measured at scales of 20–300 m, a topographic variable that is a good proxy for position with respect to the hydrological network. Overall, our results support the idea that, even in these mesic forests, hydrological networks and associated topographical variation serve as templates upon which vegetation is organized over specific ranges of scales. These findings constitute an important step towards a mechanistic understanding of these patterns, and can guide upscaling and downscaling. PMID:24204610

Neural coding of image structure and contrast polarity of Cartesian, hyperbolic, and polar gratings in the primary and secondary visual cortex of the tree shrew.

PubMed

Poirot, Jordan; De Luna, Paolo; Rainer, Gregor

2016-04-01

We comprehensively characterize spiking and visual evoked potential (VEP) activity in tree shrew V1 and V2 using Cartesian, hyperbolic, and polar gratings. Neural selectivity to structure of Cartesian gratings was higher than other grating classes in both visual areas. From V1 to V2, structure selectivity of spiking activity increased, whereas corresponding VEP values tended to decrease, suggesting that single-neuron coding of Cartesian grating attributes improved while the cortical columnar organization of these neurons became less precise from V1 to V2. We observed that neurons in V2 generally exhibited similar selectivity for polar and Cartesian gratings, suggesting that structure of polar-like stimuli might be encoded as early as in V2. This hypothesis is supported by the preference shift from V1 to V2 toward polar gratings of higher spatial frequency, consistent with the notion that V2 neurons encode visual scene borders and contours. Neural sensitivity to modulations of polarity of hyperbolic gratings was highest among all grating classes and closely related to the visual receptive field (RF) organization of ON- and OFF-dominated subregions. We show that spatial RF reconstructions depend strongly on grating class, suggesting that intracortical contributions to RF structure are strongest for Cartesian and polar gratings. Hyperbolic gratings tend to recruit least cortical elaboration such that the RF maps are similar to those generated by sparse noise, which most closely approximate feedforward inputs. Our findings complement previous literature in primates, rodents, and carnivores and highlight novel aspects of shape representation and coding occurring in mammalian early visual cortex. Copyright © 2016 the American Physiological Society.

Integrating spatial and numerical structure in mathematical patterning

NASA Astrophysics Data System (ADS)

Ni’mah, K.; Purwanto; Irawan, E. B.; Hidayanto, E.

2018-03-01

This paper reports a study monitoring the integrating spatial and numerical structure in mathematical patterning skills of 30 students grade 7th of junior high school. The purpose of this research is to clarify the processes by which learners construct new knowledge in mathematical patterning. Findings indicate that: (1) students are unable to organize the structure of spatial and numerical, (2) students were only able to organize the spatial structure, but the numerical structure is still incorrect, (3) students were only able to organize numerical structure, but its spatial structure is still incorrect, (4) students were able to organize both of the spatial and numerical structure.

Network-based spatial clustering technique for exploring features in regional industry

NASA Astrophysics Data System (ADS)

Chou, Tien-Yin; Huang, Pi-Hui; Yang, Lung-Shih; Lin, Wen-Tzu

2008-10-01

In the past researches, industrial cluster mainly focused on single or particular industry and less on spatial industrial structure and mutual relations. Industrial cluster could generate three kinds of spillover effects, including knowledge, labor market pooling, and input sharing. In addition, industrial cluster indeed benefits industry development. To fully control the status and characteristics of district industrial cluster can facilitate to improve the competitive ascendancy of district industry. The related researches on industrial spatial cluster were of great significance for setting up industrial policies and promoting district economic development. In this study, an improved model, GeoSOM, that combines DBSCAN (Density-Based Spatial Clustering of Applications with Noise) and SOM (Self-Organizing Map) was developed for analyzing industrial cluster. Different from former distance-based algorithm for industrial cluster, the proposed GeoSOM model can calculate spatial characteristics between firms based on DBSCAN algorithm and evaluate the similarity between firms based on SOM clustering analysis. The demonstrative data sets, the manufacturers around Taichung County in Taiwan, were analyzed for verifying the practicability of the proposed model. The analyzed results indicate that GeoSOM is suitable for evaluating spatial industrial cluster.

Nonrandom community assembly and high temporal turnover promote regional coexistence in tropics but not temperate zone.

PubMed

Freestone, Amy L; Inouye, Brian D

2015-01-01

A persistent challenge for ecologists is understanding the ecological mechanisms that maintain global patterns of biodiversity, particularly the latitudinal diversity gradient of peak species richness in the tropics. Spatial and temporal variation in community composition contribute to these patterns of biodiversity, but how this variation and its underlying processes change across latitude remains unresolved. Using a model system of sessile marine invertebrates across 25 degrees of latitude, from the temperate zone to the tropics, we tested the prediction that spatial and temporal patterns of taxonomic richness and composition, and the community assembly processes underlying these patterns, will differ across latitude. Specifically, we predicted that high beta diversity (spatial variation in composition) and high temporal turnover contribute to the high species richness of the tropics. Using a standardized experimental approach that controls for several confounding factors that hinder interpretation of prior studies, we present results that support our predictions. In the temperate zone, communities were more similar across spatial scales from centimeters to tens of kilometers and temporal scales up to one year than at lower latitudes. Since the patterns at northern latitudes were congruent with a null model, stochastic assembly processes are implicated. In contrast, the communities in the tropics were a dynamic spatial and temporal mosaic, with low similarity even across small spatial scales and high temporal turnover at both local and regional scales. Unlike the temperate zone, deterministic community assembly processes such as predation likely contributed to the high beta diversity in the tropics. Our results suggest that community assembly processes and temporal dynamics vary across latitude and help structure and maintain latitudinal patterns of diversity.

Improved segmentation of cerebellar structures in children

PubMed Central

Narayanan, Priya Lakshmi; Boonazier, Natalie; Warton, Christopher; Molteno, Christopher D; Joseph, Jesuchristopher; Jacobson, Joseph L; Jacobson, Sandra W; Zöllei, Lilla; Meintjes, Ernesta M

2016-01-01

Background Consistent localization of cerebellar cortex in a standard coordinate system is important for functional studies and detection of anatomical alterations in studies of morphometry. To date, no pediatric cerebellar atlas is available. New method The probabilistic Cape Town Pediatric Cerebellar Atlas (CAPCA18) was constructed in the age-appropriate National Institute of Health Pediatric Database asymmetric template space using manual tracings of 16 cerebellar compartments in 18 healthy children (9–13 years) from Cape Town, South Africa. The individual atlases of the training subjects were also used to implement multi atlas label fusion using multi atlas majority voting (MAMV) and multi atlas generative model (MAGM) approaches. Segmentation accuracy in 14 test subjects was compared for each method to ‘gold standard’ manual tracings. Results Spatial overlap between manual tracings and CAPCA18 automated segmentation was 73% or higher for all lobules in both hemispheres, except VIIb and X. Automated segmentation using MAGM yielded the best segmentation accuracy over all lobules (mean Dice Similarity Coefficient 0.76; range 0.55–0.91). Comparison with existing methods In all lobules, spatial overlap of CAPCA18 segmentations with manual tracings was similar or higher than those obtained with SUIT (spatially unbiased infra-tentorial template), providing additional evidence of the benefits of an age appropriate atlas. MAGM segmentation accuracy was comparable to values reported recently by Park et al. (2014) in adults (across all lobules mean DSC = 0.73, range 0.40–0.89). Conclusions CAPCA18 and the associated multi atlases of the training subjects yield improved segmentation of cerebellar structures in children. PMID:26743973

Biodiversity, molecular ecology and phylogeography of marine sponges: patterns, implications and outlooks.

PubMed

Wörheide, Gert; Solé-Cava, Antonio M; Hooper, John N A

2005-04-01

Marine sponges are an ecologically important and highly diverse component of marine benthic communities, found in all the world's oceans, at all depths. Although their commercial potential and evolutionary importance is increasingly recognized, many pivotal aspects of their basic biology remain enigmatic. Knowledge of historical biogeographic affinities and biodiversity patterns is rudimentary, and there are still few data about genetic variation among sponge populations and spatial patterns of this variation. Biodiversity analyses of tropical Australasian sponges revealed spatial trends not universally reflected in the distributions of other marine phyla within the Indo-West Pacific region. At smaller spatial scales sponges frequently form heterogeneous, spatially patchy assemblages, with some empirical evidence suggesting that environmental variables such as light and/or turbidity strongly contribute to local distributions. There are no apparent latitudinal diversity gradients at larger spatial scales but stochastic processes, such as changing current patterns, the presence or absence of major carbonate platforms and historical biogeography, may determine modern day distributions. Studies on Caribbean oceanic reefs have revealed similar patterns, only weakly correlated with environmental factors. However, several questions remain where molecular approaches promise great potential, e.g., concerning connectivity and biogeographic relationships. Studies to date have helped to reveal that sponge populations are genetically highly structured and that historical processes might play an important role in determining such structure. Increasingly sophisticated molecular tools are now being applied, with results contributing significantly to a better understanding of poriferan microevolutionary processes and molecular ecology.

Using larval fish community structure to guide long-term monitoring of fish spawning activity

USGS Publications Warehouse

Pritt, Jeremy J.; Roseman, Edward F.; Ross, Jason E.; DeBruyne, Robin L.

2015-01-01

Larval fishes provide a direct indication of spawning activity and may therefore be useful for long-term monitoring efforts in relation to spawning habitat restoration. However, larval fish sampling can be time intensive and costly. We sought to understand the spatial and temporal structure of larval fish communities in the St. Clair–Detroit River system, Michigan–Ontario, to determine whether targeted larval fish sampling can be made more efficient for long-term monitoring. We found that larval fish communities were highly nested, with lower river segments and late-spring samples containing the highest genus richness of larval fish. We created four sampling scenarios for each river system: (1) using all available data, (2) limiting temporal sampling to late spring, (3) limiting spatial sampling to lower river segments only, and (4) limiting both spatial and temporal sampling. By limiting the spatial extent of sampling to lower river sites and/or limiting the temporal extent to the late-spring period, we found that effort could be reduced by more than 50% while maintaining over 75% of the observed and estimated total genus richness. Similarly, limiting the sampling effort to lower river sites and/or the late-spring period maintained between 65% and 93% of the observed richness of lithophilic-spawning genera and invasive genera. In general, community composition remained consistent among sampling scenarios. Targeted sampling offers a lower-cost alternative to exhaustive spatial and temporal sampling and may be more readily incorporated into long-term monitoring.

Does Walkability Contribute to Geographic Variation in Psychosocial Distress? A Spatial Analysis of 91,142 Members of the 45 and Up Study in Sydney, Australia

PubMed Central

Morgan, Geoffrey G.; Jalaludin, Bin B.; Bauman, Adrian E.

2018-01-01

Walkability describes the capacity of the built environment to promote walking, and has been proposed as a potential focus for community-level mental health planning. We evaluated this possibility by examining the contribution of area-level walkability to variation in psychosocial distress in a population cohort at spatial scales comparable to those used for regional planning in Sydney, Australia. Data on psychosocial distress were analysed for 91,142 respondents to the 45 and Up Study baseline survey between January 2006 and April 2009. We fit conditional auto regression models at the postal area level to obtain smoothed “disease maps” for psychosocial distress, and assess its association with area-level walkability after adjusting for individual- and area-level factors. Prevalence of psychosocial distress was 7.8%; similar for low (7.9%), low-medium (7.9%), medium-high (8.0%), and high (7.4%) walkability areas; and decreased with reducing postal area socioeconomic disadvantage: 12.2% (most), 9.3%, 7.5%, 5.9%, and 4.7% (least). Unadjusted disease maps indicated strong geographic clustering of psychosocial distress with 99.0% of excess prevalence due to unobserved and spatially structured factors, which was reduced to 55.3% in fully adjusted maps. Spatial and unstructured variance decreased by 97.3% and 39.8% after adjusting for individual-level factors, and another 2.3% and 4.2% with the inclusions of area-level factors. Excess prevalence of psychosocial distress in postal areas was attenuated in adjusted models but remained spatially structured. Postal area prevalence of high psychosocial distress is geographically clustered in Sydney, but is unrelated to postal area walkability. Area-level socioeconomic disadvantage makes a small contribution to this spatial structure; however, community-level mental health planning will likely deliver greatest benefits by focusing on individual-level contributors to disease burden and inequality associated with psychosocial distress. PMID:29415461

Does Walkability Contribute to Geographic Variation in Psychosocial Distress? A Spatial Analysis of 91,142 Members of the 45 and Up Study in Sydney, Australia.

PubMed

Mayne, Darren J; Morgan, Geoffrey G; Jalaludin, Bin B; Bauman, Adrian E

2018-02-06

Walkability describes the capacity of the built environment to promote walking, and has been proposed as a potential focus for community-level mental health planning. We evaluated this possibility by examining the contribution of area-level walkability to variation in psychosocial distress in a population cohort at spatial scales comparable to those used for regional planning in Sydney, Australia. Data on psychosocial distress were analysed for 91,142 respondents to the 45 and Up Study baseline survey between January 2006 and April 2009. We fit conditional auto regression models at the postal area level to obtain smoothed "disease maps" for psychosocial distress, and assess its association with area-level walkability after adjusting for individual- and area-level factors. Prevalence of psychosocial distress was 7.8%; similar for low (7.9%), low-medium (7.9%), medium-high (8.0%), and high (7.4%) walkability areas; and decreased with reducing postal area socioeconomic disadvantage: 12.2% (most), 9.3%, 7.5%, 5.9%, and 4.7% (least). Unadjusted disease maps indicated strong geographic clustering of psychosocial distress with 99.0% of excess prevalence due to unobserved and spatially structured factors, which was reduced to 55.3% in fully adjusted maps. Spatial and unstructured variance decreased by 97.3% and 39.8% after adjusting for individual-level factors, and another 2.3% and 4.2% with the inclusions of area-level factors. Excess prevalence of psychosocial distress in postal areas was attenuated in adjusted models but remained spatially structured. Postal area prevalence of high psychosocial distress is geographically clustered in Sydney, but is unrelated to postal area walkability. Area-level socioeconomic disadvantage makes a small contribution to this spatial structure; however, community-level mental health planning will likely deliver greatest benefits by focusing on individual-level contributors to disease burden and inequality associated with psychosocial distress.

A New Sparse Representation Framework for Reconstruction of an Isotropic High Spatial Resolution MR Volume From Orthogonal Anisotropic Resolution Scans.

PubMed

Jia, Yuanyuan; Gholipour, Ali; He, Zhongshi; Warfield, Simon K

2017-05-01

In magnetic resonance (MR), hardware limitations, scan time constraints, and patient movement often result in the acquisition of anisotropic 3-D MR images with limited spatial resolution in the out-of-plane views. Our goal is to construct an isotropic high-resolution (HR) 3-D MR image through upsampling and fusion of orthogonal anisotropic input scans. We propose a multiframe super-resolution (SR) reconstruction technique based on sparse representation of MR images. Our proposed algorithm exploits the correspondence between the HR slices and the low-resolution (LR) sections of the orthogonal input scans as well as the self-similarity of each input scan to train pairs of overcomplete dictionaries that are used in a sparse-land local model to upsample the input scans. The upsampled images are then combined using wavelet fusion and error backprojection to reconstruct an image. Features are learned from the data and no extra training set is needed. Qualitative and quantitative analyses were conducted to evaluate the proposed algorithm using simulated and clinical MR scans. Experimental results show that the proposed algorithm achieves promising results in terms of peak signal-to-noise ratio, structural similarity image index, intensity profiles, and visualization of small structures obscured in the LR imaging process due to partial volume effects. Our novel SR algorithm outperforms the nonlocal means (NLM) method using self-similarity, NLM method using self-similarity and image prior, self-training dictionary learning-based SR method, averaging of upsampled scans, and the wavelet fusion method. Our SR algorithm can reduce through-plane partial volume artifact by combining multiple orthogonal MR scans, and thus can potentially improve medical image analysis, research, and clinical diagnosis.

Microseismic Event Grouping Based on PageRank Linkage at the Newberry Volcano Geothermal Site

NASA Astrophysics Data System (ADS)

Aguiar, A. C.; Myers, S. C.

2016-12-01

The Newberry Volcano DOE FORGE site in Central Oregon has been stimulated two times using high-pressure fluid injection to study the Enhanced Geothermal Systems (EGS) technology. Several hundred microseismic events were generated during the first stimulation in the fall of 2012. Initial locations of this microseismicity do not show well defined subsurface structure in part because event location uncertainties are large (Foulger and Julian, 2013). We focus on this stimulation to explore the spatial and temporal development of microseismicity, which is key to understanding how subsurface stimulation modifies stress, fractures rock, and increases permeability. We use PageRank, Google's initial search algorithm, to determine connectivity within the events (Aguiar and Beroza, 2014) and assess signal-correlation topology for the micro-earthquakes. We then use this information to create signal families and compare these to the spatial and temporal proximity of associated earthquakes. We relocate events within families (identified by PageRank linkage) using the Bayesloc approach (Myers et al., 2007). Preliminary relocations show tight spatial clustering of event families as well as evidence of events relocating to a different cluster than originally reported. We also find that signal similarity (linkage) at several stations, not just one or two, is needed in order to determine that events are in close proximity to one another. We show that indirect linkage of signals using PageRank is a reliable way to increase the number of events that are confidently determined to be similar to one another, which may lead to efficient and effective grouping of earthquakes with similar physical characteristics, such as focal mechanisms and stress drop. Our ultimate goal is to determine whether changes in the state of stress and/or changes in the generation of subsurface fracture networks can be detected using PageRank topology as well as aid in the event relocation to obtain more accurate subsurface structure. Prepared by LLNL under Contract DE-AC52-07NA27344. LLNL-ABS-699142.

Exploration versus exploitation in space, mind, and society

PubMed Central

Hills, Thomas T.; Todd, Peter M.; Lazer, David; Redish, A. David; Couzin, Iain D.

2015-01-01

Search is a ubiquitous property of life. Although diverse domains have worked on search problems largely in isolation, recent trends across disciplines indicate that the formal properties of these problems share similar structures and, often, similar solutions. Moreover, internal search (e.g., memory search) shows similar characteristics to external search (e.g., spatial foraging), including shared neural mechanisms consistent with a common evolutionary origin across species. Search problems and their solutions also scale from individuals to societies, underlying and constraining problem solving, memory, information search, and scientific and cultural innovation. In summary, search represents a core feature of cognition, with a vast influence on its evolution and processes across contexts and requiring input from multiple domains to understand its implications and scope. PMID:25487706

Cooperation enhanced by indirect reciprocity in spatial prisoner's dilemma games for social P2P systems

NASA Astrophysics Data System (ADS)

Tian, Lin-Lin; Li, Ming-Chu; Wang, Zhen

2016-11-01

With the growing interest in social Peer-to-Peer (P2P) applications, relationships of individuals are further exploited to improve the performances of reputation systems. It is an on-going challenge to investigate how spatial reciprocity aids indirect reciprocity in sustaining cooperation in practical P2P environments. This paper describes the construction of an extended prisoner's dilemma game on square lattice networks with three strategies, i.e., defection, unconditional cooperation, and reciprocal cooperation. Reciprocators discriminate partners according to their reputations based on image scoring, where mistakes in judgment of reputations may occur. The independent structures of interaction and learning neighborhood are discussed, with respect to the situation in which learning environments differ from interaction networks. The simulation results have indicated that the incentive mechanism enhances cooperation better in structured peers than among a well-mixed population. Given the realistic condition of inaccurate reputation scores, defection is still successfully held down when the players interact and learn within the unified neighborhoods. Extensive simulations have further confirmed the positive impact of spatial structure on cooperation with different sizes of lattice neighborhoods. And similar conclusions can also be drawn on regular random networks and scale-free networks. Moreover, for the separated structures of the neighborhoods, the interaction network has a critical effect on the evolution dynamics of cooperation and learning environments only have weaker impacts on the process. Our findings further provide some insights concerning the evolution of collective behaviors in social systems.

Genomic and Resistance Gene Homolog Diversity of the Dominant Tallgrass Prairie Species across the U.S. Great Plains Precipitation Gradient

PubMed Central

Rouse, Matthew N.; Saleh, Amgad A.; Seck, Amadou; Keeler, Kathleen H.; Travers, Steven E.; Hulbert, Scot H.; Garrett, Karen A.

2011-01-01

Background Environmental variables such as moisture availability are often important in determining species prevalence and intraspecific diversity. The population genetic structure of dominant plant species in response to a cline of these variables has rarely been addressed. We evaluated the spatial genetic structure and diversity of Andropogon gerardii populations across the U.S. Great Plains precipitation gradient, ranging from approximately 48 cm/year to 105 cm/year. Methodology/Principal Findings Genomic diversity was evaluated with AFLP markers and diversity of a disease resistance gene homolog was evaluated by PCR-amplification and digestion with restriction enzymes. We determined the degree of spatial genetic structure using Mantel tests. Genomic and resistance gene homolog diversity were evaluated across prairies using Shannon's index and by averaging haplotype dissimilarity. Trends in diversity across prairies were determined using linear regression of diversity on average precipitation for each prairie. We identified significant spatial genetic structure, with genomic similarity decreasing as a function of distance between samples. However, our data indicated that genome-wide diversity did not vary consistently across the precipitation gradient. In contrast, we found that disease resistance gene homolog diversity was positively correlated with precipitation. Significance Prairie remnants differ in the genetic resources they maintain. Selection and evolution in this disease resistance homolog is environmentally dependent. Overall, we found that, though this environmental gradient may not predict genomic diversity, individual traits such as disease resistance genes may vary significantly. PMID:21532756

Electronic structure of polycrystalline CVD-graphene revealed by Nano-ARPES

NASA Astrophysics Data System (ADS)

Chen, Chaoyu; Avila, José; Asensio, Maria C.

2017-06-01

The ability to explore electronic structure and their role in determining material’s macroscopic behaviour is essential to explain and engineer functions of material and device. Since its debut in 2004, graphene has attracted global research interest due to its unique properties. Chemical vapor deposition (CVD) has emerged as an important method for the massive preparation and production of graphene for various applications. Here by employing angle-resolved photoemission spectroscopy with nanoscale spatial resolution ˜ 100 nm (Nano-ARPES), we describe the approach to measure the electronic structure of polycrystalline graphene on copper foils, demonstrating the power of Nano-ARPES to detect the electronic structure of microscopic single crystalline domains, being fully compatible with conventional ARPES. Similar analysis could be employed to other microscopic materials

The multifractal nature of plume structure in high-Rayleigh-number convection

NASA Astrophysics Data System (ADS)

Puthenveettil, Baburaj A.; Ananthakrishna, G.; Arakeri, Jaywant H.

2005-03-01

The geometrically different planforms of near-wall plume structure in turbulent natural convection, visualized by driving the convection using concentration differences across a membrane, are shown to have a common multifractal spectrum of singularities for Rayleigh numbers in the range 1010-1011 at Schmidt number of 602. The scaling is seen for a length scale range of 25 and is independent of the Rayleigh number, the flux, the strength and nature of the large-scale flow, and the aspect ratio. Similar scaling is observed for the plume structures obtained in the presence of a weak flow across the membrane. This common non-trivial spatial scaling is proposed to be due to the same underlying generating process for the near-wall plume structures.

Metabolic principles of river basin organization.

PubMed

Rodriguez-Iturbe, Ignacio; Caylor, Kelly K; Rinaldo, Andrea

2011-07-19

The metabolism of a river basin is defined as the set of processes through which the basin maintains its structure and responds to its environment. Green (or biotic) metabolism is measured via transpiration and blue (or abiotic) metabolism through runoff. A principle of equal metabolic rate per unit area throughout the basin structure is developed and tested in a river basin characterized by large heterogeneities in precipitation, vegetation, soil, and geomorphology. This principle is suggested to have profound implications for the spatial organization of river basin hydrologic dynamics, including the minimization of energy expenditure known to control the scale-invariant characteristics of river networks over several orders of magnitude. Empirically derived, remarkably constant rates of average transpiration per unit area through the basin structure lead to a power law for the probability distribution of transpiration from a randomly chosen subbasin. The average runoff per unit area, evaluated for subbasins of a wide range of topological magnitudes, is also shown to be remarkably constant independently of size. A similar result is found for the rainfall after accounting for canopy interception. Allometric scaling of metabolic rates with size, variously addressed in the biological literature and network theory under the label of Kleiber's law, is similarly derived. The empirical evidence suggests that river basin metabolic activity is linked with the spatial organization that takes place around the drainage network and therefore with the mechanisms responsible for the fractal geometry of the network, suggesting a new coevolutionary framework for biological, geomorphological, and hydrologic dynamics.

Simulation of Vortex Structure in Supersonic Free Shear Layer Using Pse Method

NASA Astrophysics Data System (ADS)

Guo, Xin; Wang, Qiang

The method of parabolized stability equations (PSE) are applied in the analysis of nonlinear stability and the simulation of flow structure in supersonic free shear layer. High accuracy numerical techniques including self-similar basic flow, high order differential method, appropriate transformation and decomposition of nonlinear terms are adopted and developed to solve the PSE effectively for free shear layer. The spatial evolving unstable waves which dominate the flow structure are investigated through nonlinear coupling spatial marching methods. The nonlinear interactions between harmonic waves are further analyzed and instantaneous flow field are obtained by adding the harmonic waves into basic flow. Relevant data agree well with that of DNS. The results demonstrate that T-S wave does not keeping growing exponential as the linear evolution, the energy transfer to high order harmonic modes and finally all harmonic modes get saturation due to the nonlinear interaction; Mean flow distortion is produced by the nonlinear interaction between the harmonic and its conjugate harmonic, makes great change to the average flow and increases the thickness of shear layer; PSE methods can well capture the large scale nonlinear flow structure in the supersonic free shear layer such as vortex roll-up, vortex pairing and nonlinear saturation.

Discovery of a Molecular Collision Front in Interacting Galaxies NGC 4567/4568 with ALMA

NASA Astrophysics Data System (ADS)

Kaneko, Hiroyuki; Kuno, Nario; Saitoh, Takayuki R.

2018-06-01

We present results of 12CO(J = 1–0) imaging observations of NGC 4567/4568, a galaxy pair in a close encounter, with the Atacama Large Millimeter/Submillimeter Array (ALMA). For the first time, we find clear evidence of a molecular collision front with a velocity dispersion that is 16.8 ± 1.4 km s‑1 at the overlapping region, owing to high spatial and velocity resolution. By integrating over the velocity width that corresponds to the molecular collision front, we find a long filamentary structure with a size of 1800 pc × 350 pc at the collision front. This filamentary molecular structure spatially coincides with a dark lane seen in the R-band image. We find four molecular clouds in the filament, each with a radius of 30 pc and mass of 106 M ⊙ the radii matching a typical value for giant molecular clouds (GMCs) and the masses corresponding to those between GMCs and giant molecular associations (GMAs). All four clouds are gravitationally bound. The molecular filamentary structure and its physical conditions are similar to the structure expected via numerical simulation. The filament could be a progenitor of super star clusters.

Speciation in the Derrida-Higgs model with finite genomes and spatial populations

NASA Astrophysics Data System (ADS)

de Aguiar, Marcus A. M.

2017-02-01

The speciation model proposed by Derrida and Higgs demonstrated that a sexually reproducing population can split into different species in the absence of natural selection or any type of geographic isolation, provided that mating is assortative and the number of genes involved in the process is infinite. Here we revisit this model and simulate it for finite genomes, focusing on the question of how many genes it actually takes to trigger neutral sympatric speciation. We find that, for typical parameters used in the original model, it takes the order of 105 genes. We compare the results with a similar spatially explicit model where about 100 genes suffice for speciation. We show that when the number of genes is small the species that emerge are strongly segregated in space. For a larger number of genes, on the other hand, the spatial structure of the population is less important and the species distribution overlap considerably.

[Life forms of organisms as patterns of organization and spatial ecological factors].

PubMed

Kirpotin, S N

2005-01-01

Tectological and archaetectonical approaches which are conventionally used in morphology are discussed. The similarity of these approaches to some views on the structure and organization of nature systems was shown. These wiews were originated within the framework of the modern system-cybernetic conception. The morphology particularities of natural object of any rank (from organism to biosphere) allow determination of environment influence character. In some cases intensity of the influence can be determined. This, morphological-geometrical approach of nature investigation acquires high prognostic value. The aspects of "pattern organization" concept and its perspectives are discussed. The patterns of organization of organisms could be characterized only in the context of their interactions with environment. Therefore it is necessary to distinguish new group of ecological factors: spatial or chorological one. It was suggested that spatial ecological factors is predominant if all other physical factors have no extreme values.

Temporal evolution of the spatial covariability of rainfall in South America

NASA Astrophysics Data System (ADS)

Ciemer, Catrin; Boers, Niklas; Barbosa, Henrique M. J.; Kurths, Jürgen; Rammig, Anja

2017-10-01

The climate of South America exhibits pronounced differences between rainy and dry seasons, associated with specific synoptic features such as the establishment of the South Atlantic convergence zone. Here, we analyze the spatiotemporal correlation structure and in particular teleconnections of daily rainfall associated with these features by means of evolving complex networks. A modification of Pearson's correlation coefficient is introduced to handle the intricate statistical properties of daily rainfall. On this basis, spatial correlation networks are constructed, and new appropriate network measures are introduced in order to analyze the temporal evolution of the networks' characteristics. We particularly focus on the identification of coherent areas of similar rainfall patterns and previously unknown teleconnection structures between remote areas. We show that the monsoon onset is characterized by an abrupt transition from erratic to organized regional connectivity that prevails during the monsoon season, while only the onset times themselves exhibit anomalous large-scale organization of teleconnections. Furthermore, we reveal that the two mega-droughts in the Amazon basin were already announced in the previous year by an anomalous behavior of the connectivity structure.

The role of landscape-dependent disturbance and dispersal in metapopulation persistence.

PubMed

Elkin, Ché M; Possingham, Hugh

2008-10-01

The fundamental processes that influence metapopulation dynamics (extinction and recolonization) will often depend on landscape structure. Disturbances that increase patch extinction rates will frequently be landscape dependent such that they are spatially aggregated and have an increased likelihood of occurring in some areas. Similarly, landscape structure can influence organism movement, producing asymmetric dispersal between patches. Using a stochastic, spatially explicit model, we examine how landscape-dependent correlations between dispersal and disturbance rates influence metapopulation dynamics. Habitat patches that are situated in areas where the likelihood of disturbance is low will experience lower extinction rates and will function as partial refuges. We discovered that the presence of partial refuges increases metapopulation viability and that the value of partial refuges was contingent on whether dispersal was also landscape dependent. Somewhat counterintuitively, metapopulation viability was reduced when individuals had a preponderance to disperse away from refuges and was highest when there was biased dispersal toward refuges. Our work demonstrates that landscape structure needs to be incorporated into metapopulation models when there is either empirical data or ecological rationale for extinction and/or dispersal rates being landscape dependent.

Spatial and temporal distribution of benthic macroinvertebrates in a Southeastern Brazilian river.

PubMed

Silveira, M P; Buss, D F; Nessimian, J L; Baptista, D F

2006-05-01

Benthic macroinvertebrate assemblages are structured according to physical and chemical parameters that define microhabitats, including food supply, shelter to escape predators, and other biological parameters that influence reproductive success. The aim of this study is to investigate spatial and temporal distribution of macroinvertebrate assemblages at the Macaé river basin, in Rio de Janeiro state, Southeastern Brazil. According to the "Habitat Assessment Field Data Sheet--High Gradient Streams" (Barbour et al., 1999), the five sampling sites are considered as a reference condition. Despite the differences in hydrological parameters (mean width, depth and discharge) among sites, the physicochemical parameters and functional feeding groups' general structure were similar, except for the less impacted area, which showed more shredders. According to the Detrended Correspondence Analysis based on substrates, there is a clear distinction between pool and riffle assemblages. In fact, the riffle litter substrate had higher taxa in terms of richness and abundance, but the pool litter substrate had the greatest number of exclusive taxa. A Cluster Analysis based on sampling sites data showed that temporal variation was the main factor in structuring macroinvertebrate assemblages in the studied habitats.

LFNet: A Novel Bidirectional Recurrent Convolutional Neural Network for Light-Field Image Super-Resolution.

PubMed

Wang, Yunlong; Liu, Fei; Zhang, Kunbo; Hou, Guangqi; Sun, Zhenan; Tan, Tieniu

2018-09-01

The low spatial resolution of light-field image poses significant difficulties in exploiting its advantage. To mitigate the dependency of accurate depth or disparity information as priors for light-field image super-resolution, we propose an implicitly multi-scale fusion scheme to accumulate contextual information from multiple scales for super-resolution reconstruction. The implicitly multi-scale fusion scheme is then incorporated into bidirectional recurrent convolutional neural network, which aims to iteratively model spatial relations between horizontally or vertically adjacent sub-aperture images of light-field data. Within the network, the recurrent convolutions are modified to be more effective and flexible in modeling the spatial correlations between neighboring views. A horizontal sub-network and a vertical sub-network of the same network structure are ensembled for final outputs via stacked generalization. Experimental results on synthetic and real-world data sets demonstrate that the proposed method outperforms other state-of-the-art methods by a large margin in peak signal-to-noise ratio and gray-scale structural similarity indexes, which also achieves superior quality for human visual systems. Furthermore, the proposed method can enhance the performance of light field applications such as depth estimation.

How the morphology of dusts influences packing density in small solar system bodies

NASA Astrophysics Data System (ADS)

Zangmeister, C.; Radney, J. G.; Zachariah, M. R.

2014-12-01

Large planetary seedlings, comets, and nanoscale soot particles are made from rigid, aggregated subunits that are compacted under low compression into larger structures spanning over 10 orders of magnitude in dimensional space. Here, we demonstrate that the packing density (Φf) of compacted rigid aggregates is independent of spatial scale for systems under weak compaction, a regime that includes small solar system bodies. The Φf of rigid aggregated structures across 6 orders of magnitude were measured using nanoscale spherical soot aerosol composed of aggregates with ≈ 17 nm monomeric subunits and aggregates made from uniform monomeric 6 mm spherical subunits at the macroscale. We find Φf = 0.36 ± 0.02 at both the nano- and macroscale. These values are remarkably similar to qf observed for comet nuclei and measured values of other rigid aggregated systems across a wide variety of spatial and formative conditions. We present a packing model that incorporates the aggregate morphology and show that Φf is independent of both monomer and aggregate size. These observations suggest thatqf of rigid aggregates is independent of spatial dimension across varied formative conditions ranging from interstellar space to pharmaceutical manufacturing.

Remote sensing image segmentation using local sparse structure constrained latent low rank representation

NASA Astrophysics Data System (ADS)

Tian, Shu; Zhang, Ye; Yan, Yimin; Su, Nan; Zhang, Junping

2016-09-01

Latent low-rank representation (LatLRR) has been attached considerable attention in the field of remote sensing image segmentation, due to its effectiveness in exploring the multiple subspace structures of data. However, the increasingly heterogeneous texture information in the high spatial resolution remote sensing images, leads to more severe interference of pixels in local neighborhood, and the LatLRR fails to capture the local complex structure information. Therefore, we present a local sparse structure constrainted latent low-rank representation (LSSLatLRR) segmentation method, which explicitly imposes the local sparse structure constraint on LatLRR to capture the intrinsic local structure in manifold structure feature subspaces. The whole segmentation framework can be viewed as two stages in cascade. In the first stage, we use the local histogram transform to extract the texture local histogram features (LHOG) at each pixel, which can efficiently capture the complex and micro-texture pattern. In the second stage, a local sparse structure (LSS) formulation is established on LHOG, which aims to preserve the local intrinsic structure and enhance the relationship between pixels having similar local characteristics. Meanwhile, by integrating the LSS and the LatLRR, we can efficiently capture the local sparse and low-rank structure in the mixture of feature subspace, and we adopt the subspace segmentation method to improve the segmentation accuracy. Experimental results on the remote sensing images with different spatial resolution show that, compared with three state-of-the-art image segmentation methods, the proposed method achieves more accurate segmentation results.

Visual signal detection in structured backgrounds. II. Effects of contrast gain control, background variations, and white noise

NASA Technical Reports Server (NTRS)

Eckstein, M. P.; Ahumada, A. J. Jr; Watson, A. B.

1997-01-01

Studies of visual detection of a signal superimposed on one of two identical backgrounds show performance degradation when the background has high contrast and is similar in spatial frequency and/or orientation to the signal. To account for this finding, models include a contrast gain control mechanism that pools activity across spatial frequency, orientation and space to inhibit (divisively) the response of the receptor sensitive to the signal. In tasks in which the observer has to detect a known signal added to one of M different backgrounds grounds due to added visual noise, the main sources of degradation are the stochastic noise in the image and the suboptimal visual processing. We investigate how these two sources of degradation (contrast gain control and variations in the background) interact in a task in which the signal is embedded in one of M locations in a complex spatially varying background (structured background). We use backgrounds extracted from patient digital medical images. To isolate effects of the fixed deterministic background (the contrast gain control) from the effects of the background variations, we conduct detection experiments with three different background conditions: (1) uniform background, (2) a repeated sample of structured background, and (3) different samples of structured background. Results show that human visual detection degrades from the uniform background condition to the repeated background condition and degrades even further in the different backgrounds condition. These results suggest that both the contrast gain control mechanism and the background random variations degrade human performance in detection of a signal in a complex, spatially varying background. A filter model and added white noise are used to generate estimates of sampling efficiencies, an equivalent internal noise, an equivalent contrast-gain-control-induced noise, and an equivalent noise due to the variations in the structured background.

Validation of deformable image registration algorithms on CT images of ex vivo porcine bladders with fiducial markers

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wognum, S., E-mail: s.wognum@gmail.com; Heethuis, S. E.; Bel, A.

2014-07-15

Purpose: The spatial accuracy of deformable image registration (DIR) is important in the implementation of image guided adaptive radiotherapy techniques for cancer in the pelvic region. Validation of algorithms is best performed on phantoms with fiducial markers undergoing controlled large deformations. Excised porcine bladders, exhibiting similar filling and voiding behavior as human bladders, provide such an environment. The aim of this study was to determine the spatial accuracy of different DIR algorithms on CT images ofex vivo porcine bladders with radiopaque fiducial markers applied to the outer surface, for a range of bladder volumes, using various accuracy metrics. Methods: Fivemore » excised porcine bladders with a grid of 30–40 radiopaque fiducial markers attached to the outer wall were suspended inside a water-filled phantom. The bladder was filled with a controlled amount of water with added contrast medium for a range of filling volumes (100–400 ml in steps of 50 ml) using a luer lock syringe, and CT scans were acquired at each filling volume. DIR was performed for each data set, with the 100 ml bladder as the reference image. Six intensity-based algorithms (optical flow or demons-based) implemented in theMATLAB platform DIRART, a b-spline algorithm implemented in the commercial software package VelocityAI, and a structure-based algorithm (Symmetric Thin Plate Spline Robust Point Matching) were validated, using adequate parameter settings according to values previously published. The resulting deformation vector field from each registration was applied to the contoured bladder structures and to the marker coordinates for spatial error calculation. The quality of the algorithms was assessed by comparing the different error metrics across the different algorithms, and by comparing the effect of deformation magnitude (bladder volume difference) per algorithm, using the Independent Samples Kruskal-Wallis test. Results: The authors found good structure accuracy without dependency on bladder volume difference for all but one algorithm, and with the best result for the structure-based algorithm. Spatial accuracy as assessed from marker errors was disappointing for all algorithms, especially for large volume differences, implying that the deformations described by the registration did not represent anatomically correct deformations. The structure-based algorithm performed the best in terms of marker error for the large volume difference (100–400 ml). In general, for the small volume difference (100–150 ml) the algorithms performed relatively similarly. The structure-based algorithm exhibited the best balance in performance between small and large volume differences, and among the intensity-based algorithms, the algorithm implemented in VelocityAI exhibited the best balance. Conclusions: Validation of multiple DIR algorithms on a novel physiological bladder phantom revealed that the structure accuracy was good for most algorithms, but that the spatial accuracy as assessed from markers was low for all algorithms, especially for large deformations. Hence, many of the available algorithms exhibit sufficient accuracy for contour propagation purposes, but possibly not for accurate dose accumulation.« less

Geometrical appearance and spatial arrangement of structural blocks of the Malan loess in NW China: implications for the formation of loess columns

NASA Astrophysics Data System (ADS)

Li, Yanrong; Zhang, Tao; Zhang, Yongbo; Xu, Qiang

2018-06-01

Loess, as one of the main Quaternary deposits, covers approximately 6% of the land surface of the Earth. Although loess is loose and fragile, loess columns are popular and they can stand stably for hundreds of years, thereby forming a spectacular landform. The formation of such special column-shaped soil structures is puzzling, and the underlying fundamentals remain unclear. The present study focuses on quantifying and examining the geometrical shape and spatial alignment of structural blocks of the Malan loess at different locations in the Loess Plateau of China. The structural blocks under investigation include clay- and silt-sized particles, aggregates, fragments, lumps, and columns, which vary in size from microns to tens of meters. Regardless of their size, the structural blocks of the Malan loess are found to be similar in shape, i.e., elongated with a length-to-width ratio of approximately 2.6. The aggregates, fragments, lumps, columns, and macropores between aggregates exhibit strong concentration in the vertical or subvertical alignment. These phenomena imply that the Malan loess is anisotropic and it is composed of a combination of vertically aligned strong units and vertically aligned weak segments. Based on this, "vertiloess" structure is proposed to denote this combination. The vertiloess structure prevents horizontal erosion, but favors spalling, peeling, toppling, falling and cracking-sliding of vertical loess pieces, thereby forming loess columns.

An unsupervised two-stage clustering approach for forest structure classification based on X-band InSAR data - A case study in complex temperate forest stands

NASA Astrophysics Data System (ADS)

Abdullahi, Sahra; Schardt, Mathias; Pretzsch, Hans

2017-05-01

Forest structure at stand level plays a key role for sustainable forest management, since the biodiversity, productivity, growth and stability of the forest can be positively influenced by managing its structural diversity. In contrast to field-based measurements, remote sensing techniques offer a cost-efficient opportunity to collect area-wide information about forest stand structure with high spatial and temporal resolution. Especially Interferometric Synthetic Aperture Radar (InSAR), which facilitates worldwide acquisition of 3d information independent from weather conditions and illumination, is convenient to capture forest stand structure. This study purposes an unsupervised two-stage clustering approach for forest structure classification based on height information derived from interferometric X-band SAR data which was performed in complex temperate forest stands of Traunstein forest (South Germany). In particular, a four dimensional input data set composed of first-order height statistics was non-linearly projected on a two-dimensional Self-Organizing Map, spatially ordered according to similarity (based on the Euclidean distance) in the first stage and classified using the k-means algorithm in the second stage. The study demonstrated that X-band InSAR data exhibits considerable capabilities for forest structure classification. Moreover, the unsupervised classification approach achieved meaningful and reasonable results by means of comparison to aerial imagery and LiDAR data.

The evolving market structures of gambling: case studies modelling the socioeconomic assignment of gaming machines in Melbourne and Sydney, Australia.

PubMed

Marshall, David C; Baker, Robert G V

2002-01-01

The expansion of gambling industries worldwide is intertwined with the growing government dependence on gambling revenue for fiscal assignments. In Australia, electronic gaming machines (EGMs) have dominated recent gambling industry growth. As EGMs have proliferated, growing recognition has emerged that EGM distribution closely reflects levels of socioeconomic disadvantage. More machines are located in less advantaged regions. This paper analyses time-series socioeconomic distributions of EGMs in Melbourne, Australia, an immature EGM market, and then compares the findings with the mature market in Sydney. Similar findings in both cities suggest that market assignment of EGMs transcends differences in historical and legislative environments. This indicates that similar underlying structures are evident in both markets. Modelling the spatial structures of gambling markets provides an opportunity to identify regions most at risk of gambling related problems. Subsequently, policies can be formulated which ensure fiscal revenue from gambling can be better targeted towards regions likely to be most afflicted by excessive gambling-related problems.

The effect of alloying nickel with iron on the supersonic ballistic stage of high energy displacement cascades

DOE PAGES

Béland, Laurent Karim; Osetsky, Yuri N.; Stoller, Roger E.

2016-06-23

Previous experimental and theoretical studies suggest that the production of extended defect structures by collision cascades is inhibited in equiatomic NiFe, in comparison to pure Ni. It is also known that the production of such extend defect structures results from the formation of subcascades by high-energy recoils and their subsequent interaction. A detailed analysis of the ballistics of 40 keV cascades in Ni and NiFe is performed to identify the formation of such subcascades and to assess their spatial distribution. It is found that subcascades in Ni and NiFe are created with nearly identical energies and distributed similarly in space.more » This suggests that the differences in production of extended defect structures is not related to processes taking place in the ballistic phase of the collision cascade. Lastly, these results can be generalized to other, more chemically complex, concentrated alloys where the elements have similar atomic numbers, such as many high-entropy alloys.« less

The effect of alloying nickel with iron on the supersonic ballistic stage of high energy displacement cascades

DOE Office of Scientific and Technical Information (OSTI.GOV)

Béland, Laurent Karim; Osetsky, Yuri N.; Stoller, Roger E.

Previous experimental and theoretical studies suggest that the production of extended defect structures by collision cascades is inhibited in equiatomic NiFe, in comparison to pure Ni. It is also known that the production of such extend defect structures results from the formation of subcascades by high-energy recoils and their subsequent interaction. A detailed analysis of the ballistics of 40 keV cascades in Ni and NiFe is performed to identify the formation of such subcascades and to assess their spatial distribution. It is found that subcascades in Ni and NiFe are created with nearly identical energies and distributed similarly in space.more » This suggests that the differences in production of extended defect structures is not related to processes taking place in the ballistic phase of the collision cascade. Lastly, these results can be generalized to other, more chemically complex, concentrated alloys where the elements have similar atomic numbers, such as many high-entropy alloys.« less

Spatial correlation analysis of urban traffic state under a perspective of community detection

NASA Astrophysics Data System (ADS)

Yang, Yanfang; Cao, Jiandong; Qin, Yong; Jia, Limin; Dong, Honghui; Zhang, Aomuhan

2018-05-01

Understanding the spatial correlation of urban traffic state is essential for identifying the evolution patterns of urban traffic state. However, the distribution of traffic state always has characteristics of large spatial span and heterogeneity. This paper adapts the concept of community detection to the correlation network of urban traffic state and proposes a new perspective to identify the spatial correlation patterns of traffic state. In the proposed urban traffic network, the nodes represent road segments, and an edge between a pair of nodes is added depending on the result of significance test for the corresponding correlation of traffic state. Further, the process of community detection in the urban traffic network (named GWPA-K-means) is applied to analyze the spatial dependency of traffic state. The proposed method extends the traditional K-means algorithm in two steps: (i) redefines the initial cluster centers by two properties of nodes (the GWPA value and the minimum shortest path length); (ii) utilizes the weight signal propagation process to transfer the topological information of the urban traffic network into a node similarity matrix. Finally, numerical experiments are conducted on a simple network and a real urban road network in Beijing. The results show that GWPA-K-means algorithm is valid in spatial correlation analysis of traffic state. The network science and community structure analysis perform well in describing the spatial heterogeneity of traffic state on a large spatial scale.

Quantifying spatial scaling patterns and their local and regional correlates in headwater streams: Implications for resilience

USGS Publications Warehouse

Gothe, Emma; Sandin, Leonard; Allen, Craig R.; Angeler, David G.

2014-01-01

The distribution of functional traits within and across spatiotemporal scales has been used to quantify and infer the relative resilience across ecosystems. We use explicit spatial modeling to evaluate within- and cross-scale redundancy in headwater streams, an ecosystem type with a hierarchical and dendritic network structure. We assessed the cross-scale distribution of functional feeding groups of benthic invertebrates in Swedish headwater streams during two seasons. We evaluated functional metrics, i.e., Shannon diversity, richness, and evenness, and the degree of redundancy within and across modeled spatial scales for individual feeding groups. We also estimated the correlates of environmental versus spatial factors of both functional composition and the taxonomic composition of functional groups for each spatial scale identified. Measures of functional diversity and within-scale redundancy of functions were similar during both seasons, but both within- and cross-scale redundancy were low. This apparent low redundancy was partly attributable to a few dominant taxa explaining the spatial models. However, rare taxa with stochastic spatial distributions might provide additional information and should therefore be considered explicitly for complementing future resilience assessments. Otherwise, resilience may be underestimated. Finally, both environmental and spatial factors correlated with the scale-specific functional and taxonomic composition. This finding suggests that resilience in stream networks emerges as a function of not only local conditions but also regional factors such as habitat connectivity and invertebrate dispersal.

The Relative Importance of Spatial Versus Temporal Structure in the Perception of Biological Motion: An Event-Related Potential Study

ERIC Educational Resources Information Center

Hirai, Masahiro; Hiraki, Kazuo

2006-01-01

We investigated how the spatiotemporal structure of animations of biological motion (BM) affects brain activity. We measured event-related potentials (ERPs) during the perception of BM under four conditions: normal spatial and temporal structure; scrambled spatial and normal temporal structure; normal spatial and scrambled temporal structure; and…

Soil Texture Often Exerts a Stronger Influence Than Precipitation on Mesoscale Soil Moisture Patterns

NASA Astrophysics Data System (ADS)

Dong, Jingnuo; Ochsner, Tyson E.

2018-03-01

Soil moisture patterns are commonly thought to be dominated by land surface characteristics, such as soil texture, at small scales and by atmospheric processes, such as precipitation, at larger scales. However, a growing body of evidence challenges this conceptual model. We investigated the structural similarity and spatial correlations between mesoscale (˜1-100 km) soil moisture patterns and land surface and atmospheric factors along a 150 km transect using 4 km multisensor precipitation data and a cosmic-ray neutron rover, with a 400 m diameter footprint. The rover was used to measure soil moisture along the transect 18 times over 13 months. Spatial structures of soil moisture, soil texture (sand content), and antecedent precipitation index (API) were characterized using autocorrelation functions and fitted with exponential models. Relative importance of land surface characteristics and atmospheric processes were compared using correlation coefficients (r) between soil moisture and sand content or API. The correlation lengths of soil moisture, sand content, and API ranged from 12-32 km, 13-20 km, and 14-45 km, respectively. Soil moisture was more strongly correlated with sand content (r = -0.536 to -0.704) than with API for all but one date. Thus, land surface characteristics exhibit coherent spatial patterns at scales up to 20 km, and those patterns often exert a stronger influence than do precipitation patterns on mesoscale spatial patterns of soil moisture.

Spatial scaling of bacterial community diversity at shallow hydrothermal vents: a global comparison

NASA Astrophysics Data System (ADS)

Pop Ristova, P.; Hassenrueck, C.; Molari, M.; Fink, A.; Bühring, S. I.

2016-02-01

Marine shallow hydrothermal vents are extreme environments, often characterized by discharge of fluids with e.g. high temperatures, low pH, and laden with elements toxic to higher organisms. They occur at continental margins around the world's oceans, but represent fragmented, isolated habitats of locally small areal coverage. Microorganisms contribute the main biomass at shallow hydrothermal vent ecosystems and build the basis of the food chain by autotrophic fixation of carbon both via chemosynthesis and photosynthesis, occurring simultaneously. Despite their importance and unique capacity to adapt to these extreme environments, little is known about the spatial scales on which the alpha- and beta-diversity of microbial communities vary at shallow vents, and how the geochemical habitat heterogeneity influences shallow vent biodiversity. Here for the first time we investigated the spatial scaling of microbial biodiversity patterns and their interconnectivity at geochemically diverse shallow vents on a global scale. This study presents data on the comparison of bacterial community structures on large (> 1000 km) and small (0.1 - 100 m) spatial scales as derived from ARISA and Illumina sequencing. Despite the fragmented global distribution of shallow hydrothermal vents, similarity of vent bacterial communities decreased with geographic distance, confirming the ubiquity of distance-decay relationship. Moreover, at all investigated vents, pH was the main factor locally structuring these communities, while temperature influenced both the alpha- and beta-diversity.

Mapping 3D plasma structure in the solar wind with the L1 constellation: joint observations from Wind, ACE, DSCOVR, and SoHO

NASA Astrophysics Data System (ADS)

Stevens, M. L.; Kasper, J. C.; Case, A. W.; Korreck, K. E.; Szabo, A.; Biesecker, D. A.; Prchlik, J.

2017-12-01

At this moment in time, four observatories with similar instrumentation- Wind, ACE, DSCOVR, and SoHO- are stationed directly upstream of the Earth and making continuous observations. They are separated by drift-time baselines of seconds to minutes, timescales on which MHD instabilities in the solar wind are known to grow and evolve, and spatial baselines of tens to 200 earth radii, length scales relevant to the Earth's magnetosphere. By comparing measurements of matched solar wind structures from the four vantage points, the form of structures and associated dynamics on these scales is illuminated. Our targets include shocks and MHD discontinuities, stream fronts, locii of reconnection and exhaust flow boundary layers, plasmoids, and solitary structures born of nonlinear instability. We use the tetrahedral quality factors and other conventions adopted for Cluster to identify periods where the WADS constellation is suitably non-degenerate and arranged in such a way as to enable specific types of spatial, temporal, or spatiotemporal inferences. We present here an overview of the geometries accessible to the L1 constellation and timing-based and plasma-based observations of solar wind structures from 2016-17. We discuss the unique potential of the constellation approach for space physics and space weather forecasting at 1 AU.

Differentially categorized structural brain hubs are involved in different microstructural, functional, and cognitive characteristics and contribute to individual identification.

PubMed

Wang, Xindi; Lin, Qixiang; Xia, Mingrui; He, Yong

2018-04-01

Very little is known regarding whether structural hubs of human brain networks that enable efficient information communication may be classified into different categories. Using three multimodal neuroimaging data sets, we construct individual structural brain networks and further identify hub regions based on eight widely used graph-nodal metrics, followed by comprehensive characteristics and reproducibility analyses. We show the three categories of structural hubs in the brain network, namely, aggregated, distributed, and connector hubs. Spatially, these distinct categories of hubs are primarily located in the default-mode system and additionally in the visual and limbic systems for aggregated hubs, in the frontoparietal system for distributed hubs, and in the sensorimotor and ventral attention systems for connector hubs. These categorized hubs exhibit various distinct characteristics to support their differentiated roles, involving microstructural organization, wiring costs, topological vulnerability, functional modular integration, and cognitive flexibility; moreover, these characteristics are better in the hubs than nonhubs. Finally, all three categories of hubs display high across-session spatial similarities and act as structural fingerprints with high predictive rates (100%, 100%, and 84.2%) for individual identification. Collectively, we highlight three categories of brain hubs with differential microstructural, functional and, cognitive associations, which shed light on topological mechanisms of the human connectome. © 2018 Wiley Periodicals, Inc.

Structure-seeking multilinear methods for the analysis of fMRI data.

PubMed

Andersen, Anders H; Rayens, William S

2004-06-01

In comprehensive fMRI studies of brain function, the data structures often contain higher-order ways such as trial, task condition, subject, and group in addition to the intrinsic dimensions of time and space. While multivariate bilinear methods such as principal component analysis (PCA) have been used successfully for extracting information about spatial and temporal features in data from a single fMRI run, the need to unfold higher-order data sets into bilinear arrays has led to decompositions that are nonunique and to the loss of multiway linkages and interactions present in the data. These additional dimensions or ways can be retained in multilinear models to produce structures that are unique and which admit interpretations that are neurophysiologically meaningful. Multiway analysis of fMRI data from multiple runs of a bilateral finger-tapping paradigm was performed using the parallel factor (PARAFAC) model. A trilinear model was fitted to a data cube of dimensions voxels by time by run. Similarly, a quadrilinear model was fitted to a higher-way structure of dimensions voxels by time by trial by run. The spatial and temporal response components were extracted and validated by comparison to results from traditional SVD/PCA analyses based on scenarios of unfolding into lower-order bilinear structures.

Molecule kernels: a descriptor- and alignment-free quantitative structure-activity relationship approach.

PubMed

Mohr, Johannes A; Jain, Brijnesh J; Obermayer, Klaus

2008-09-01

Quantitative structure activity relationship (QSAR) analysis is traditionally based on extracting a set of molecular descriptors and using them to build a predictive model. In this work, we propose a QSAR approach based directly on the similarity between the 3D structures of a set of molecules measured by a so-called molecule kernel, which is independent of the spatial prealignment of the compounds. Predictors can be build using the molecule kernel in conjunction with the potential support vector machine (P-SVM), a recently proposed machine learning method for dyadic data. The resulting models make direct use of the structural similarities between the compounds in the test set and a subset of the training set and do not require an explicit descriptor construction. We evaluated the predictive performance of the proposed method on one classification and four regression QSAR datasets and compared its results to the results reported in the literature for several state-of-the-art descriptor-based and 3D QSAR approaches. In this comparison, the proposed molecule kernel method performed better than the other QSAR methods.

SequenceCEROSENE: a computational method and web server to visualize spatial residue neighborhoods at the sequence level.

PubMed

Heinke, Florian; Bittrich, Sebastian; Kaiser, Florian; Labudde, Dirk

2016-01-01

To understand the molecular function of biopolymers, studying their structural characteristics is of central importance. Graphics programs are often utilized to conceive these properties, but with the increasing number of available structures in databases or structure models produced by automated modeling frameworks this process requires assistance from tools that allow automated structure visualization. In this paper a web server and its underlying method for generating graphical sequence representations of molecular structures is presented. The method, called SequenceCEROSENE (color encoding of residues obtained by spatial neighborhood embedding), retrieves the sequence of each amino acid or nucleotide chain in a given structure and produces a color coding for each residue based on three-dimensional structure information. From this, color-highlighted sequences are obtained, where residue coloring represent three-dimensional residue locations in the structure. This color encoding thus provides a one-dimensional representation, from which spatial interactions, proximity and relations between residues or entire chains can be deduced quickly and solely from color similarity. Furthermore, additional heteroatoms and chemical compounds bound to the structure, like ligands or coenzymes, are processed and reported as well. To provide free access to SequenceCEROSENE, a web server has been implemented that allows generating color codings for structures deposited in the Protein Data Bank or structure models uploaded by the user. Besides retrieving visualizations in popular graphic formats, underlying raw data can be downloaded as well. In addition, the server provides user interactivity with generated visualizations and the three-dimensional structure in question. Color encoded sequences generated by SequenceCEROSENE can aid to quickly perceive the general characteristics of a structure of interest (or entire sets of complexes), thus supporting the researcher in the initial phase of structure-based studies. In this respect, the web server can be a valuable tool, as users are allowed to process multiple structures, quickly switch between results, and interact with generated visualizations in an intuitive manner. The SequenceCEROSENE web server is available at https://biosciences.hs-mittweida.de/seqcerosene.

Patterns in Benthic Biodiversity Link Lake Trophic Status to Structure and Potential Function of Three Large, Deep Lakes

PubMed Central

Hayford, Barbara L.; Caires, Andrea M.; Chandra, Sudeep; Girdner, Scott F.

2015-01-01

Relative to their scarcity, large, deep lakes support a large proportion of the world’s freshwater species. This biodiversity is threatened by human development and is in need of conservation. Direct comparison of biodiversity is the basis of biological monitoring for conservation but is difficult to conduct between large, insular ecosystems. The objective of our study was to conduct such a comparison of benthic biodiversity between three of the world’s largest lakes: Lake Tahoe, USA; Lake Hövsgöl, Mongolia; and Crater Lake, USA. We examined biodiversity of common benthic organism, the non-biting midges (Chironomidae) and determined lake trophic status using chironomid-based lake typology, tested whether community structure was similar between the three lakes despite geographic distance; and tested whether chironomid diversity would show significant variation within and between lakes. Typology analysis indicated that Lake Hövsgöl was ultra-oligotrophic, Crater Lake was oligotrophic, and Lake Tahoe was borderline oligotrophic/mesotrophic. These results were similar to traditional pelagic measures of lake trophic status for Lake Hövsgöl and Crater Lake but differed for Lake Tahoe, which has been designated as ultra-oligotrophic by traditional pelagic measures such as transparency found in the literature. Analysis of similarity showed that Lake Tahoe and Lake Hövsgöl chironomid communities were more similar to each other than either was to Crater Lake communities. Diversity varied between the three lakes and spatially within each lake. This research shows that chironomid communities from these large lakes were sensitive to trophic conditions. Chironomid communities were similar between the deep environments of Lake Hövsgöl and Lake Tahoe, indicating that chironomid communities from these lakes may be useful in comparing trophic state changes in large lakes. Spatial variation in Lake Tahoe’s diversity is indicative of differential response of chironomid communities to nutrient enrichment which may be an indication of changes in trophic state within and across habitats. PMID:25594516

Predator attack rate evolution in space: the role of ecology mediated by complex emergent spatial structure and self-shading.

PubMed

Messinger, Susanna M; Ostling, Annette

2013-11-01

Predation interactions are an important element of ecological communities. Population spatial structure has been shown to influence predator evolution, resulting in the evolution of a reduced predator attack rate; however, the evolutionary role of traits governing predator and prey ecology is unknown. The evolutionary effect of spatial structure on a predator's attack rate has primarily been explored assuming a fixed metapopulation spatial structure, and understood in terms of group selection. But endogenously generated, emergent spatial structure is common in nature. Furthermore, the evolutionary influence of ecological traits may be mediated through the spatial self-structuring process. Drawing from theory on pathogens, the evolutionary effect of emergent spatial structure can be understood in terms of self-shading, where a voracious predator limits its long-term invasion potential by reducing local prey availability. Here we formalize the effects of self-shading for predators using spatial moment equations. Then, through simulations, we show that in a spatial context self-shading leads to relationships between predator-prey ecology and the predator's attack rate that are not expected in a non-spatial context. Some relationships are analogous to relationships already shown for host-pathogen interactions, but others represent new trait dimensions. Finally, since understanding the effects of ecology using existing self-shading theory requires simplifications of the emergent spatial structure that do not apply well here, we also develop metrics describing the complex spatial structure of the predator and prey populations to help us explain the evolutionary effect of predator and prey ecology in the context of self-shading. The identification of these metrics may provide a step towards expansion of the predictive domain of self-shading theory to more complex spatial dynamics. Copyright © 2013 Elsevier Inc. All rights reserved.

Towards a unified study of extreme events using universality concepts and transdisciplinary analysis methods

NASA Astrophysics Data System (ADS)

Balasis, George; Donner, Reik V.; Donges, Jonathan F.; Radebach, Alexander; Eftaxias, Konstantinos; Kurths, Jürgen

2013-04-01

The dynamics of many complex systems is characterized by the same universal principles. In particular, systems which are otherwise quite different in nature show striking similarities in their behavior near tipping points (bifurcations, phase transitions, sudden regime shifts) and associated extreme events. Such critical phenomena are frequently found in diverse fields such as climate, seismology, or financial markets. Notably, the observed similarities include a high degree of organization, persistent behavior, and accelerated energy release, which are common to (among others) phenomena related to geomagnetic variability of the terrestrial magnetosphere (intense magnetic storms), seismic activity (electromagnetic emissions prior to earthquakes), solar-terrestrial physics (solar flares), neurophysiology (epileptic seizures), and socioeconomic systems (stock market crashes). It is an open question whether the spatial and temporal complexity associated with extreme events arises from the system's structural organization (geometry) or from the chaotic behavior inherent to the nonlinear equations governing the dynamics of these phenomena. On the one hand, the presence of scaling laws associated with earthquakes and geomagnetic disturbances suggests understanding these events as generalized phase transitions similar to nucleation and critical phenomena in thermal and magnetic systems. On the other hand, because of the structural organization of the systems (e.g., as complex networks) the associated spatial geometry and/or topology of interactions plays a fundamental role in the emergence of extreme events. Here, a few aspects of the interplay between geometry and dynamics (critical phase transitions) that could result in the emergence of extreme events, which is an open problem, will be discussed.

Physical modeling of the formation and evolution of seismically active fault zones

USGS Publications Warehouse

Ponomarev, A.V.; Zavyalov, A.D.; Smirnov, V.B.; Lockner, D.A.

1997-01-01

Acoustic emission (AE) in rocks is studied as a model of natural seismicity. A special technique for rock loading has been used to help study the processes that control the development of AE during brittle deformation. This technique allows us to extend to hours fault growth which would normally occur very rapidly. In this way, the period of most intense interaction of acoustic events can be studied in detail. Characteristics of the acoustic regime (AR) include the Gutenberg-Richter b-value, spatial distribution of hypocenters with characteristic fractal (correlation) dimension d, Hurst exponent H, and crack concentration parameter Pc. The fractal structure of AR changes with the onset of the drop in differential stress during sample deformation. The change results from the active interaction of microcracks. This transition of the spatial distribution of AE hypocenters is accompanied by a corresponding change in the temporal correlation of events and in the distribution of event amplitudes as signified by a decrease of b-value. The characteristic structure that develops in the low-energy background AE is similar to the sequence of the strongest microfracture events. When the AR fractal structure develops, the variations of d and b are synchronous and d = 3b. This relation which occurs once the fractal structure is formed only holds for average values of d and b. Time variations of d and b are anticorrelated. The degree of temporal correlation of AR has time variations that are similar to d and b variations. The observed variations in laboratory AE experiments are compared with natural seismicity parameters. The close correspondence between laboratory-scale observations and naturally occurring seismicity suggests a possible new approach for understanding the evolution of complex seismicity patterns in nature. ?? 1997 Elsevier Science B.V. All rights reserved.

Hiding in Plain Sight: A Case for Cryptic Metapopulations in Brook Trout (Salvelinus fontinalis)

PubMed Central

Kazyak, David C.; Hilderbrand, Robert H.; King, Tim L.; Keller, Stephen R.; Chhatre, Vikram E.

2016-01-01

A fundamental issue in the management and conservation of biodiversity is how to define a population. Spatially contiguous fish occupying a stream network have often been considered to represent a single, homogenous population. However, they may also represent multiple discrete populations, a single population with genetic isolation-by-distance, or a metapopulation. We used microsatellite DNA and a large-scale mark-recapture study to assess population structure in a spatially contiguous sample of Brook Trout (Salvelinus fontinalis), a species of conservation concern. We found evidence for limited genetic exchange across small spatial scales and in the absence of barriers to physical movement. Mark-recapture and stationary passive integrated transponder antenna records demonstrated that fish from two tributaries very seldom moved into the opposite tributary, but movements between the tributaries and mainstem were more common. Using Bayesian genetic clustering, we identified two genetic groups that exhibited significantly different growth rates over three years of study, yet survival rates were very similar. Our study highlights the importance of considering the possibility of multiple genetically distinct populations occurring within spatially contiguous habitats, and suggests the existence of a cryptic metapopulation: a spatially continuous distribution of organisms exhibiting metapopulation-like behaviors. PMID:26730588

Hiding in Plain Sight: A Case for Cryptic Metapopulations in Brook Trout (Salvelinus fontinalis).

PubMed

Kazyak, David C; Hilderbrand, Robert H; King, Tim L; Keller, Stephen R; Chhatre, Vikram E

2016-01-01

A fundamental issue in the management and conservation of biodiversity is how to define a population. Spatially contiguous fish occupying a stream network have often been considered to represent a single, homogenous population. However, they may also represent multiple discrete populations, a single population with genetic isolation-by-distance, or a metapopulation. We used microsatellite DNA and a large-scale mark-recapture study to assess population structure in a spatially contiguous sample of Brook Trout (Salvelinus fontinalis), a species of conservation concern. We found evidence for limited genetic exchange across small spatial scales and in the absence of barriers to physical movement. Mark-recapture and stationary passive integrated transponder antenna records demonstrated that fish from two tributaries very seldom moved into the opposite tributary, but movements between the tributaries and mainstem were more common. Using Bayesian genetic clustering, we identified two genetic groups that exhibited significantly different growth rates over three years of study, yet survival rates were very similar. Our study highlights the importance of considering the possibility of multiple genetically distinct populations occurring within spatially contiguous habitats, and suggests the existence of a cryptic metapopulation: a spatially continuous distribution of organisms exhibiting metapopulation-like behaviors.

Controlling Energy Radiations of Electromagnetic Waves via Frequency Coding Metamaterials.

PubMed

Wu, Haotian; Liu, Shuo; Wan, Xiang; Zhang, Lei; Wang, Dan; Li, Lianlin; Cui, Tie Jun

2017-09-01

Metamaterials are artificial structures composed of subwavelength unit cells to control electromagnetic (EM) waves. The spatial coding representation of metamaterial has the ability to describe the material in a digital way. The spatial coding metamaterials are typically constructed by unit cells that have similar shapes with fixed functionality. Here, the concept of frequency coding metamaterial is proposed, which achieves different controls of EM energy radiations with a fixed spatial coding pattern when the frequency changes. In this case, not only different phase responses of the unit cells are considered, but also different phase sensitivities are also required. Due to different frequency sensitivities of unit cells, two units with the same phase response at the initial frequency may have different phase responses at higher frequency. To describe the frequency coding property of unit cell, digitalized frequency sensitivity is proposed, in which the units are encoded with digits "0" and "1" to represent the low and high phase sensitivities, respectively. By this merit, two degrees of freedom, spatial coding and frequency coding, are obtained to control the EM energy radiations by a new class of frequency-spatial coding metamaterials. The above concepts and physical phenomena are confirmed by numerical simulations and experiments.

Dissecting the chromatin interactome of microRNA genes.

PubMed

Chen, Dijun; Fu, Liang-Yu; Zhang, Zhao; Li, Guoliang; Zhang, Hang; Jiang, Li; Harrison, Andrew P; Shanahan, Hugh P; Klukas, Christian; Zhang, Hong-Yu; Ruan, Yijun; Chen, Ling-Ling; Chen, Ming

2014-03-01

Our knowledge of the role of higher-order chromatin structures in transcription of microRNA genes (MIRs) is evolving rapidly. Here we investigate the effect of 3D architecture of chromatin on the transcriptional regulation of MIRs. We demonstrate that MIRs have transcriptional features that are similar to protein-coding genes. RNA polymerase II-associated ChIA-PET data reveal that many groups of MIRs and protein-coding genes are organized into functionally compartmentalized chromatin communities and undergo coordinated expression when their genomic loci are spatially colocated. We observe that MIRs display widespread communication in those transcriptionally active communities. Moreover, miRNA-target interactions are significantly enriched among communities with functional homogeneity while depleted from the same community from which they originated, suggesting MIRs coordinating function-related pathways at posttranscriptional level. Further investigation demonstrates the existence of spatial MIR-MIR chromatin interacting networks. We show that groups of spatially coordinated MIRs are frequently from the same family and involved in the same disease category. The spatial interaction network possesses both common and cell-specific subnetwork modules that result from the spatial organization of chromatin within different cell types. Together, our study unveils an entirely unexplored layer of MIR regulation throughout the human genome that links the spatial coordination of MIRs to their co-expression and function.

Super-resolution mapping using multi-viewing CHRIS/PROBA data

NASA Astrophysics Data System (ADS)

Dwivedi, Manish; Kumar, Vinay

2016-04-01

High-spatial resolution Remote Sensing (RS) data provides detailed information which ensures high-definition visual image analysis of earth surface features. These data sets also support improved information extraction capabilities at a fine scale. In order to improve the spatial resolution of coarser resolution RS data, the Super Resolution Reconstruction (SRR) technique has become widely acknowledged which focused on multi-angular image sequences. In this study multi-angle CHRIS/PROBA data of Kutch area is used for SR image reconstruction to enhance the spatial resolution from 18 m to 6m in the hope to obtain a better land cover classification. Various SR approaches like Projection onto Convex Sets (POCS), Robust, Iterative Back Projection (IBP), Non-Uniform Interpolation and Structure-Adaptive Normalized Convolution (SANC) chosen for this study. Subjective assessment through visual interpretation shows substantial improvement in land cover details. Quantitative measures including peak signal to noise ratio and structural similarity are used for the evaluation of the image quality. It was observed that SANC SR technique using Vandewalle algorithm for the low resolution image registration outperformed the other techniques. After that SVM based classifier is used for the classification of SRR and data resampled to 6m spatial resolution using bi-cubic interpolation. A comparative analysis is carried out between classified data of bicubic interpolated and SR derived images of CHRIS/PROBA and SR derived classified data have shown a significant improvement of 10-12% in the overall accuracy. The results demonstrated that SR methods is able to improve spatial detail of multi-angle images as well as the classification accuracy.

Spatio-temporal dynamics of turbulence trapped in geodesic acoustic modes

NASA Astrophysics Data System (ADS)

Sasaki, M.; Kobayashi, T.; Itoh, K.; Kasuya, N.; Kosuga, Y.; Fujisawa, A.; Itoh, S.-I.

2018-01-01

The spatio-temporal dynamics of turbulence with the interaction of geodesic acoustic modes (GAMs) are investigated, focusing on the phase-space structure of turbulence, where the phase-space consists of real-space and wavenumber-space. Based on the wave-kinetic framework, the coupling equation between the GAM and the turbulence is numerically solved. The turbulence trapped by the GAM velocity field is obtained. Due to the trapping effect, the turbulence intensity increases where the second derivative of the GAM velocity (curvature of the GAM) is negative. While, in the positive-curvature region, the turbulence is suppressed. Since the trapped turbulence propagates with the GAMs, this relationship is sustained spatially and temporally. The dynamics of the turbulence in the wavenumber spectrum are converted in the evolution of the frequency spectrum, and the simulation result is compared with the experimental observation in JFT-2M tokamak, where the similar patterns are obtained. The turbulence trapping effect is a key to understand the spatial structure of the turbulence in the presence of sheared flows.

Compressibility effect on thermal coherent structures in spatially-developing turbulent boundary layers via DNS

NASA Astrophysics Data System (ADS)

Araya, Guillermo; Jansen, Kenneth

2017-11-01

DNS of compressible spatially-developing turbulent boundary layers is performed at a Mach number of 2.5 over an isothermal flat plate. Turbulent inflow information is generated by following the concept of the rescaling-recycling approach introduced by Lund et al. (J. Comp. Phys. 140, 233-258, 1998); although, the proposed methodology is extended to compressible flows. Furthermore, a dynamic approach is employed to connect the friction velocities at the inlet and recycle stations (i.e., there is no need of an empirical correlation as in Lund et al.). Additionally, the Morkovin's Strong Reynolds Analogy (SRA) is used in the rescaling process of the thermal fluctuations from the recycle plane. Low/high order flow statistics is compared with direct simulations of an incompressible isothermal ZPG boundary layer at similar Reynolds numbers and temperature regarded as a passive scalar. Focus is given to the effect assessment of flow compressibility on the dynamics of thermal coherent structures. AFOSR #FA9550-17-1-0051.

A hybrid algorithm for selecting head-related transfer function based on similarity of anthropometric structures

NASA Astrophysics Data System (ADS)

Zeng, Xiang-Yang; Wang, Shu-Guang; Gao, Li-Ping

2010-09-01

As the basic data for virtual auditory technology, head-related transfer function (HRTF) has many applications in the areas of room acoustic modeling, spatial hearing and multimedia. How to individualize HRTF fast and effectively has become an opening problem at present. Based on the similarity and relativity of anthropometric structures, a hybrid HRTF customization algorithm, which has combined the method of principal component analysis (PCA), multiple linear regression (MLR) and database matching (DM), has been presented in this paper. The HRTFs selected by both the best match and the worst match have been applied into obtaining binaurally auralized sounds, which are then used for subjective listening experiments and the results are compared. For the area in the horizontal plane, the localization results have shown that the selection of HRTFs can enhance the localization accuracy and can also abate the problem of front-back confusion.

Neutron measurements of stresses in a test artifact produced by laser-based additive manufacturing

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gnäupel-Herold, Thomas; Slotwinski, John; Moylan, Shawn

2014-02-18

A stainless steel test artifact produced by Direct Metal Laser Sintering and similar to a proposed standardized test artifact was examined using neutron diffraction. The artifact contained a number of structures with different aspect ratios pertaining to wall thickness, height above base plate, and side length. Through spatial resolutions of the order of one millimeter the volumetric distribution of stresses in several was measured. It was found that the stresses peak in the tensile region around 500 MPa near the top surface, with balancing compressive stresses in the interior. The presence of a support structure (a one millimeter high, thinmore » walled, hence weaker, lattice structure deposited on the base plate, followed by a fully dense AM structure) has only minor effects on the stresses.« less

Internal genetic structure and outcrossing rate in a natural population of Araucaria angustifolia (Bert.) O. Kuntze.

PubMed

Mantovani, Adelar; Morellato, L Patrícia C; Dos Reis, Maurício S

2006-01-01

The internal genetic structure and outcrossing rate of a population of Araucaria angustifolia (Bert.) O. Kuntze were investigated using 16 allozyme loci. Estimates of the mean number of alleles per loci (1.6), percentage of polymorphic loci (43.8%), and expected genetic diversity (0.170) were similar to those obtained for other gymnosperms. The analysis of spatial autocorrelation demonstrated the presence of internal structure in the first distance classes (up to 70 m), suggesting the presence of family structure. The outcrossing rate was high (0.956), as expected for a dioecious species. However, it was different from unity, indicating outcrossings between related individuals and corroborating the presence of internal genetic structure. The results of this study have implications for the methodologies used in conservation collections and for the use or analysis of this forest species.

Readout from iconic memory and selective spatial attention involve similar neural processes.

PubMed

Ruff, Christian C; Kristjánsson, Arni; Driver, Jon

2007-10-01

Iconic memory and spatial attention are often considered separately, but they may have functional similarities. Here we provide functional magnetic resonance imaging evidence for some common underlying neural effects. Subjects judged three visual stimuli in one hemifield of a bilateral array comprising six stimuli. The relevant hemifield for partial report was indicated by an auditory cue, administered either before the visual array (precue, spatial attention) or shortly after the array (postcue, iconic memory). Pre- and postcues led to similar activity modulations in lateral occipital cortex contralateral to the cued side. This finding indicates that readout from iconic memory can have some neural effects similar to those of spatial attention. We also found common bilateral activation of a fronto-parietal network for postcue and precue trials. These neuroimaging data suggest that some common neural mechanisms underlie selective spatial attention and readout from iconic memory. Some differences were also found; compared with precues, postcues led to higher activity in the right middle frontal gyrus.

Readout From Iconic Memory and Selective Spatial Attention Involve Similar Neural Processes

PubMed Central

Ruff, Christian C; Kristjánsson, Árni; Driver, Jon

2007-01-01

Iconic memory and spatial attention are often considered separately, but they may have functional similarities. Here we provide functional magnetic resonance imaging evidence for some common underlying neural effects. Subjects judged three visual stimuli in one hemifield of a bilateral array comprising six stimuli. The relevant hemifield for partial report was indicated by an auditory cue, administered either before the visual array (precue, spatial attention) or shortly after the array (postcue, iconic memory). Pre- and postcues led to similar activity modulations in lateral occipital cortex contralateral to the cued side. This finding indicates that readout from iconic memory can have some neural effects similar to those of spatial attention. We also found common bilateral activation of a fronto-parietal network for postcue and precue trials. These neuroimaging data suggest that some common neural mechanisms underlie selective spatial attention and readout from iconic memory. Some differences were also found; compared with precues, postcues led to higher activity in the right middle frontal gyrus. PMID:17894608

Evaluating habitat associations of a fish assemblage at multiple spatial scales in a minimally disturbed stream using low-cost remote sensing

USGS Publications Warehouse

Cheek, Brandon D.; Grabowski, Timothy B.; Bean, Preston T.; Groeschel, Jillian R.; Magnelia, Stephan J.

2016-01-01

Habitat heterogeneity at multiple scales is a major factor affecting fish assemblage structure. However, assessments that examine these relationships at multiple scales concurrently are lacking. The lack of assessments at these scales is a critical gap in understanding as conservation and restoration efforts typically work at these levels.A combination of low-cost side-scan sonar surveys, aerial imagery using an unmanned aerial vehicle, and fish collections were used to evaluate the relationship between physicochemical and landscape variables at various spatial scales (e.g. micro-mesohabitat, mesohabitat, channel unit, stream reach) and stream–fish assemblage structure and habitat associations in the South Llano River, a spring-fed second-order stream on the Edwards Plateau in central Texas during 2012–2013.Low-cost side-scan sonar surveys have not typically been used to generate data for riverscape assessments of assemblage structure, thus the secondary objective was to assess the efficacy of this approach.The finest spatial scale (micro-mesohabitat) and the intermediate scale (channel unit) had the greatest explanatory power for variation in fish assemblage structure.Many of the fish endemic to the Edwards Plateau showed similar associations with physicochemical and landscape variables suggesting that conservation and restoration actions targeting a single endemic species may provide benefits to a large proportion of the endemic species in this system.Low-cost side-scan sonar proved to be a cost-effective means of acquiring information on the habitat availability of the entire river length and allowed the assessment of how a full suite of riverscape-level variables influenced local fish assemblage structure.

Spatial and Feature-Based Attention in a Layered Cortical Microcircuit Model

PubMed Central

Wagatsuma, Nobuhiko; Potjans, Tobias C.; Diesmann, Markus; Sakai, Ko; Fukai, Tomoki

2013-01-01

Directing attention to the spatial location or the distinguishing feature of a visual object modulates neuronal responses in the visual cortex and the stimulus discriminability of subjects. However, the spatial and feature-based modes of attention differently influence visual processing by changing the tuning properties of neurons. Intriguingly, neurons' tuning curves are modulated similarly across different visual areas under both these modes of attention. Here, we explored the mechanism underlying the effects of these two modes of visual attention on the orientation selectivity of visual cortical neurons. To do this, we developed a layered microcircuit model. This model describes multiple orientation-specific microcircuits sharing their receptive fields and consisting of layers 2/3, 4, 5, and 6. These microcircuits represent a functional grouping of cortical neurons and mutually interact via lateral inhibition and excitatory connections between groups with similar selectivity. The individual microcircuits receive bottom-up visual stimuli and top-down attention in different layers. A crucial assumption of the model is that feature-based attention activates orientation-specific microcircuits for the relevant feature selectively, whereas spatial attention activates all microcircuits homogeneously, irrespective of their orientation selectivity. Consequently, our model simultaneously accounts for the multiplicative scaling of neuronal responses in spatial attention and the additive modulations of orientation tuning curves in feature-based attention, which have been observed widely in various visual cortical areas. Simulations of the model predict contrasting differences between excitatory and inhibitory neurons in the two modes of attentional modulations. Furthermore, the model replicates the modulation of the psychophysical discriminability of visual stimuli in the presence of external noise. Our layered model with a biologically suggested laminar structure describes the basic circuit mechanism underlying the attention-mode specific modulations of neuronal responses and visual perception. PMID:24324628

Lateralization of Frequency-Specific Networks for Covert Spatial Attention to Auditory Stimuli

PubMed Central

Thorpe, Samuel; D'Zmura, Michael

2011-01-01

We conducted a cued spatial attention experiment to investigate the time–frequency structure of human EEG induced by attentional orientation of an observer in external auditory space. Seven subjects participated in a task in which attention was cued to one of two spatial locations at left and right. Subjects were instructed to report the speech stimulus at the cued location and to ignore a simultaneous speech stream originating from the uncued location. EEG was recorded from the onset of the directional cue through the offset of the inter-stimulus interval (ISI), during which attention was directed toward the cued location. Using a wavelet spectrum, each frequency band was then normalized by the mean level of power observed in the early part of the cue interval to obtain a measure of induced power related to the deployment of attention. Topographies of band specific induced power during the cue and inter-stimulus intervals showed peaks over symmetric bilateral scalp areas. We used a bootstrap analysis of a lateralization measure defined for symmetric groups of channels in each band to identify specific lateralization events throughout the ISI. Our results suggest that the deployment and maintenance of spatially oriented attention throughout a period of 1,100 ms is marked by distinct episodes of reliable hemispheric lateralization ipsilateral to the direction in which attention is oriented. An early theta lateralization was evident over posterior parietal electrodes and was sustained throughout the ISI. In the alpha and mu bands punctuated episodes of parietal power lateralization were observed roughly 500 ms after attentional deployment, consistent with previous studies of visual attention. In the beta band these episodes show similar patterns of lateralization over frontal motor areas. These results indicate that spatial attention involves similar mechanisms in the auditory and visual modalities. PMID:21630112

Examining a knowledge domain: Interactive visualization of the Geographic Information Science and Technology Body of Knowledge 1

NASA Astrophysics Data System (ADS)

Stowell, Marilyn Ruth

This research compared the effectiveness and performance of interactive visualizations of the GIS&T Body of Knowledge 1. The visualizations were created using Processing, and display the structure and content of the Body of Knowledge using various spatial layout methods: the Indented List, Tree Graph, treemap and Similarity Graph. The first three methods utilize the existing hierarchical structure of the BoK text, while the fourth method (Similarity Graph) serves as a jumping off point for exploring content-based visualizations of the BoK. The following questions have guided the framework of this research: (1) Which of the spatial layouts is most effective for completing tasks related to the GIS&T; BoK overall? How do they compare to each other in terms of performance? (2) Is one spatial layout significantly more or less effective than others for completing a particular cognitive task? (3) Is the user able to utilize the BoK as a basemap or reference system and make inferences based on BoK scorecard overlays? (4) Which design aspects of the interface assist in carrying out the survey objectives? Which design aspects of the application detract from fulfilling the objectives? To answer these questions, human subjects were recruited to participate in a survey, during which they were assigned a random spatial layout and were asked questions about the BoK based on their interaction with the visualization tool. 75 users were tested, 25 for each spatial layout. Statistical analysis revealed that there were no statistically significant differences between means for overall accuracy when comparing the three visualizations. In looking at individual questions, Tree Graph and Indented List yielded statistically significant higher scores for questions regarding the structure of the Body of Knowledge, as compared to the treemap. There was a significant strong positive correlation between the time taken to complete the survey and the final survey score. This correlation was particularly strong with treemap, possibly confirming the steeper learning curve with the more complex layout. Users were asked for feedback on the perceived "ease" of using the interface, and though few users said the interface was easy to use, there was a positive correlation between perceived "ease" and overall score. Qualitative feedback revealed that the external controls on the interface were not inviting to use, and the interface overall was not intuitive. Additional human subjects were recruited from the professional GIS community to participate in testing remotely. These results weren't significant due to small sample size, but helped to verify the feedback and results from the controlled testing.

The Relationship between Spatial and Temporal Magnitude Estimation of Scientific Concepts at Extreme Scales

NASA Astrophysics Data System (ADS)

Price, Aaron; Lee, H.

2010-01-01

Many astronomical objects, processes, and events exist and occur at extreme scales of spatial and temporal magnitudes. Our research draws upon the psychological literature, replete with evidence of linguistic and metaphorical links between the spatial and temporal domains, to compare how students estimate spatial and temporal magnitudes associated with objects and processes typically taught in science class.. We administered spatial and temporal scale estimation tests, with many astronomical items, to 417 students enrolled in 12 undergraduate science courses. Results show that while the temporal test was more difficult, students’ overall performance patterns between the two tests were mostly similar. However, asymmetrical correlations between the two tests indicate that students think of the extreme ranges of spatial and temporal scales in different ways, which is likely influenced by their classroom experience. When making incorrect estimations, students tended to underestimate the difference between the everyday scale and the extreme scales on both tests. This suggests the use of a common logarithmic mental number line for both spatial and temporal magnitude estimation. However, there are differences between the two tests in the errors student make in the everyday range. Among the implications discussed is the use of spatio-temporal reference frames, instead of smooth bootstrapping, to help students maneuver between scales of magnitude and the use of logarithmic transformations between reference frames. Implications for astronomy range from learning about spectra to large scale galaxy structure.

Spatial release from masking improves sound pattern discrimination along a biologically relevant pulse-rate continuum in gray treefrogs

PubMed Central

Ward, Jessica L.; Buerkle, Nathan P.; Bee, Mark A.

2013-01-01

Frogs form large choruses during the mating season in which males produce loud advertisement calls to attract females and repel rival males. High background noise levels in these social aggregations can impair vocal perception. In humans, spatial release from masking contributes to our ability to understand speech in noisy social groups. Here, we tested the hypothesis that spatial separation between target signals and ‘chorus-shaped noise’ improves the ability of female gray treefrogs (Hyla chrysoscelis) to perform a behavioral discrimination task based on perceiving differences in the pulsatile structure of advertisement calls. We used two-stimulus choice tests to measure phonotaxis (approach toward sound) in response to calls differing in pulse rate along a biologically relevant continuum between conspecific (50 pulses s−1) and heterospecific (20 pulses s−1) calls. Signals were presented in quiet, in colocated noise, and in spatially separated noise. In quiet conditions, females exhibited robust preferences for calls with relatively faster pulse rates more typical of conspecific calls. Behavioral discrimination between calls differing in pulse rate was impaired in the presence of colocated noise but similar between quiet and spatially separated noise conditions. Our results indicate that spatial release from energetic masking facilitates a biologically important temporal discrimination task in frogs. We discuss these results in light of previous work on spatial release from masking in frogs and other animals. PMID:24055623

Spatial pattern characteristics of water footprint for maize production in Northeast China.

PubMed

Duan, Peili; Qin, Lijie; Wang, Yeqiao; He, Hongshi

2016-01-30

Water footprint (WF) methodology is essential for quantifying total water consumption of crop production and making efficient water management policies. This study calculated the green, blue, grey and total WFs of maize production in Northeast China from 1998 to 2012 and compared the values of the provinces. This study also analyzed the spatial variation and structure characteristics of the WFs at the prefecture level. The annual average WF of maize production was 1029 m(3) per ton, which was 51% green, 21% blue and 28% grey. The WF of maize production was highest in Liaoning Province, moderate in Heilongjiang Province and lowest in Jilin Province. The spatial differences of the WFs calculated for the 36 major maize production prefectures were significant in Northeast China. There was a moderate positive spatial autocorrelation among prefectures that had similar WFs. Local indicator of spatial autocorrelation index (LISA) analysis identified prefectures with higher WFs in the southeast region of Liaoning Province and the southwest region of Heilongjiang Province and prefectures with lower WFs in the middle of Jilin Province. Spatial differences in the WF of maize production were caused mainly by variations in climate conditions, soil quality, irrigation facilities and maize yield. The spatial distribution of WFs can help provide a scientific basis for optimizing maize production distribution and then formulate strategies to reduce the WF of maize production. © 2015 Society of Chemical Industry.

Distinct and overlapping fMRI activation networks for processing of novel identities and locations of objects.

PubMed

Pihlajamäki, Maija; Tanila, Heikki; Könönen, Mervi; Hänninen, Tuomo; Aronen, Hannu J; Soininen, Hilkka

2005-10-01

The ventral visual stream processes information about the identity of objects ('what'), whereas the dorsal stream processes the spatial locations of objects ('where'). There is a corresponding, although disputed, distinction for the ventrolateral and dorsolateral prefrontal areas. Furthermore, there seems to be a distinction between the anterior and posterior medial temporal lobe (MTL) structures in the processing of novel items and new spatial arrangements, respectively. Functional differentiation of the intermediary mid-line cortical and temporal neocortical structures that communicate with the occipitotemporal, occipitoparietal, prefrontal, and MTL structures, however, is unclear. Therefore, in the present functional magnetic resonance imaging (fMRI) study, we examined whether the distinction among the MTL structures extends to these closely connected cortical areas. The most striking difference in the fMRI responses during visual presentation of changes in either items or their locations was the bilateral activation of the temporal lobe and ventrolateral prefrontal cortical areas for novel object identification in contrast to wide parietal and dorsolateral prefrontal activation for the novel locations of objects. An anterior-posterior distinction of fMRI responses similar to the MTL was observed in the cingulate/retrosplenial, and superior and middle temporal cortices. In addition to the distinct areas of activation, certain frontal, parietal, and temporo-occipital areas responded to both object and spatial novelty, suggesting a common attentional network for both types of changes in the visual environment. These findings offer new insights to the functional roles and intrinsic specialization of the cingulate/retrosplenial, and lateral temporal cortical areas in visuospatial cognition.

Quantifying spatial patterns in the Yakama Nation Tribal Forest and Okanogan-Wenatchee National Forest to assess forest health

NASA Astrophysics Data System (ADS)

Wilder, T. F.

2013-05-01

Over the past century western United States have experienced drastic anthropogenic land use change from practices such as agriculture, fire exclusion, and timber harvesting. These changes have complex social, cultural, economic, and ecological interactions and consequences. This research studied landscapes patterns of watersheds with similar LANDFIRE potential vegetation in the Southern Washington Cascades physiographic province, within the Yakama Nation Tribal Forest (YTF) and Okanogan-Wenatchee National Forest, Naches Ranger District (NRD). In the selected watersheds, vegetation-mapping units were delineated and populated based on physiognomy of homogeneous areas of vegetative composition and structure using high-resolution aerial photos. Cover types and structural classes were derived from the raw, photo-interpreted vegetation attributes for individual vegetation mapping units and served as individual and composite response variables to quantify and assess spatial patterns and forest health conditions between the two ownerships. Structural classes in both the NRD and YTF were spatially clustered (Z-score 3.1, p-value 0.01; Z-score 2.3, p-value 0.02, respectively), however, ownership and logging type both explained a significant amount of variance in structural class composition. Based on FRAGSTATS landscape metrics, structural classes in the NRD displayed greater clustering and fragmentation with lower interspersion relative to the YTF. The NRD landscape was comprised of 47.4% understory reinitiation structural class type and associated high FRAGASTAT class metrics demonstrated high aggregation with moderate interspersion. Stem exclusion open canopy displayed the greatest dispersal of structural class types throughout the NRD, but adjacencies were correlated to other class types. In the YTF, stem exclusion open canopy comprised 37.7% of the landscape and displayed a high degree of aggregation and interspersion about clusters throughout the YTF. Composite cover type-structural class spatial autocorrelation was clustered in the NRD (Z-score 5.1, p-value 0.01), while the YTF exhibited a random spatial pattern. After accounting for location effects, logging type was the most significant factor explaining variation in composite cover-structure composition. FRAGSTATS landscape metrics identified composite cover-structure classes in the NRD displayed greater aggregation and fragmentation with lower interspersion relative to the YTF. The NRD landscape was comprised of 30.5% Pinus ponderosa-understory reinitiation and associated class metrics demonstrated a high degree of aggregation and fragmentation with low interspersion. Pinus ponderosa-stem exclusion open canopy comprised 24.6% of the YTF landscape and associated class metrics displayed moderate aggregation and fragmentation with high interspersion. A discussion integrating the results and existing relevant literature was indited to assess management regime influences on landscape patterns and, in turn, forest health attributes. This dialog is in provision of enhancing collaboration to optimize forest-health restoration activities across ownerships throughout the study area.

Structure of the N-terminal fragment of Escherichia coli Lon protease

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li, Mi; Gustchina, Alla; Rasulova, Fatima S.

2010-10-22

The structure of a recombinant construct consisting of residues 1-245 of Escherichia coli Lon protease, the prototypical member of the A-type Lon family, is reported. This construct encompasses all or most of the N-terminal domain of the enzyme. The structure was solved by SeMet SAD to 2.6 {angstrom} resolution utilizing trigonal crystals that contained one molecule in the asymmetric unit. The molecule consists of two compact subdomains and a very long C-terminal {alpha}-helix. The structure of the first subdomain (residues 1-117), which consists mostly of {beta}-strands, is similar to that of the shorter fragment previously expressed and crystallized, whereas themore » second subdomain is almost entirely helical. The fold and spatial relationship of the two subdomains, with the exception of the C-terminal helix, closely resemble the structure of BPP1347, a 203-amino-acid protein of unknown function from Bordetella parapertussis, and more distantly several other proteins. It was not possible to refine the structure to satisfactory convergence; however, since almost all of the Se atoms could be located on the basis of their anomalous scattering the correctness of the overall structure is not in question. The structure reported here was also compared with the structures of the putative substrate-binding domains of several proteins, showing topological similarities that should help in defining the binding sites used by Lon substrates.« less

A phylogenetic perspective on species diversity, β-diversity and biogeography for the microbial world.

PubMed

Barberán, Albert; Casamayor, Emilio O

2014-12-01

There is an increasing interest to combine phylogenetic data with distributional and ecological records to assess how natural communities arrange under an evolutionary perspective. In the microbial world, there is also a need to go beyond the problematic species definition to deeply explore ecological patterns using genetic data. We explored links between evolution/phylogeny and community ecology using bacterial 16S rRNA gene information from a high-altitude lakes district data set. We described phylogenetic community composition, spatial distribution, and β-diversity and biogeographical patterns applying evolutionary relatedness without relying on any particular operational taxonomic unit definition. High-altitude lakes districts usually contain a large mosaic of highly diverse small water bodies and conform a fine biogeographical model of spatially close but environmentally heterogeneous ecosystems. We sampled 18 lakes in the Pyrenees with a selection criteria focused on capturing the maximum environmental variation within the smallest geographical area. The results showed highly diverse communities nonrandomly distributed with phylogenetic β-diversity patterns mainly shaped by the environment and not by the spatial distance. Community similarity based on both bacterial taxonomic composition and phylogenetic β-diversity shared similar patterns and was primarily structured by similar environmental drivers. We observed a positive relationship between lake area and phylogenetic diversity with a slope consistent with highly dispersive planktonic organisms. The phylogenetic approach incorporated patterns of common ancestry into bacterial community analysis and emerged as a very convenient analytical tool for direct inter- and intrabiome biodiversity comparisons and sorting out microbial habitats with potential application in conservation studies. © 2014 John Wiley & Sons Ltd.

Fabrication of Nonperiodic Metasurfaces by Microlens Projection Lithography.

PubMed

Gonidec, Mathieu; Hamedi, Mahiar M; Nemiroski, Alex; Rubio, Luis M; Torres, Cesar; Whitesides, George M

2016-07-13

This paper describes a strategy that uses template-directed self-assembly of micrometer-scale microspheres to fabricate arrays of microlenses for projection photolithography of periodic, quasiperiodic, and aperiodic infrared metasurfaces. This method of "template-encoded microlens projection lithography" (TEMPL) enables rapid prototyping of planar, multiscale patterns of similarly shaped structures with critical dimensions down to ∼400 nm. Each of these structures is defined by local projection lithography with a single microsphere acting as a lens. This paper explores the use of TEMPL for the fabrication of a broad range of two-dimensional lattices with varying types of nonperiodic spatial distribution. The matching optical spectra of the fabricated and simulated metasurfaces confirm that TEMPL can produce structures that conform to expected optical behavior.

Vector optical fields with polarization distributions similar to electric and magnetic field lines.

PubMed

Pan, Yue; Li, Si-Min; Mao, Lei; Kong, Ling-Jun; Li, Yongnan; Tu, Chenghou; Wang, Pei; Wang, Hui-Tian

2013-07-01

We present, design and generate a new kind of vector optical fields with linear polarization distributions modeling to electric and magnetic field lines. The geometric configurations of "electric charges" and "magnetic charges" can engineer the spatial structure and symmetry of polarizations of vector optical field, providing additional degrees of freedom assisting in controlling the field symmetry at the focus and allowing engineering of the field distribution at the focus to the specific applications.

Semi-Automated Trajectory Analysis of Deep Ballistic Penetrating Brain Injury

PubMed Central

Folio, Les; Solomon, Jeffrey; Biassou, Nadia; Fischer, Tatjana; Dworzak, Jenny; Raymont, Vanessa; Sinaii, Ninet; Wassermann, Eric M.; Grafman, Jordan

2016-01-01

Background Penetrating head injuries (PHIs) are common in combat operations and most have visible wound paths on computed tomography (CT). Objective We assess agreement between an automated trajectory analysis-based assessment of brain injury and manual tracings of encephalomalacia on CT. Methods We analyzed 80 head CTs with ballistic PHI from the Institutional Review Board approved Vietnam head injury registry. Anatomic reports were generated from spatial coordinates of projectile entrance and terminal fragment location. These were compared to manual tracings of the regions of encephalomalacia. Dice’s similarity coefficients, kappa, sensitivities, and specificities were calculated to assess agreement. Times required for case analysis were also compared. Results Results show high specificity of anatomic regions identified on CT with semiautomated anatomical estimates and manual tracings of tissue damage. Radiologist’s and medical students’ anatomic region reports were similar (Kappa 0.8, t-test p < 0.001). Region of probable injury modeling of involved brain structures was sensitive (0.7) and specific (0.9) compared with manually traced structures. Semiautomated analysis was 9-fold faster than manual tracings. Conclusion Our region of probable injury spatial model approximates anatomical regions of encephalomalacia from ballistic PHI with time-saving over manual methods. Results show potential for automated anatomical reporting as an adjunct to current practice of radiologist/neurosurgical review of brain injury by penetrating projectiles. PMID:23707123

Fractal dynamics of earthquakes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bak, P.; Chen, K.

1995-05-01

Many objects in nature, from mountain landscapes to electrical breakdown and turbulence, have a self-similar fractal spatial structure. It seems obvious that to understand the origin of self-similar structures, one must understand the nature of the dynamical processes that created them: temporal and spatial properties must necessarily be completely interwoven. This is particularly true for earthquakes, which have a variety of fractal aspects. The distribution of energy released during earthquakes is given by the Gutenberg-Richter power law. The distribution of epicenters appears to be fractal with dimension D {approx} 1--1.3. The number of after shocks decay as a function ofmore » time according to the Omori power law. There have been several attempts to explain the Gutenberg-Richter law by starting from a fractal distribution of faults or stresses. But this is a hen-and-egg approach: to explain the Gutenberg-Richter law, one assumes the existence of another power-law--the fractal distribution. The authors present results of a simple stick slip model of earthquakes, which evolves to a self-organized critical state. Emphasis is on demonstrating that empirical power laws for earthquakes indicate that the Earth`s crust is at the critical state, with no typical time, space, or energy scale. Of course the model is tremendously oversimplified; however in analogy with equilibrium phenomena they do not expect criticality to depend on details of the model (universality).« less

The inception of star cluster formation revealed by [C II] emission around an Infrared Dark Cloud

NASA Astrophysics Data System (ADS)

Bisbas, Thomas G.; Tan, Jonathan C.; Csengeri, Timea; Wu, Benjamin; Lim, Wanggi; Caselli, Paola; Güsten, Rolf; Ricken, Oliver; Riquelme, Denise

2018-07-01

We present SOFIA-upGREAT observations of [C II] emission of Infrared Dark Cloud (IRDC) G035.39-00.33, designed to trace its atomic gas envelope and thus test models of the origins of such clouds. Several velocity components of [C II] emission are detected, tracing structures that are at a wide range of distances in the Galactic plane. We find a main component that is likely associated with the IRDC and its immediate surroundings. This strongest emission component has a velocity similar to that of the 13CO(2-1) emission of the IRDC, but offset by ˜3 km s-1 and with a larger velocity width of ˜9 km s-1. The spatial distribution of the [C II] emission of this component is also offset predominantly to one side of the dense filamentary structure of the IRDC. The C II column density is estimated to be of the order of ˜1017-1018 cm-2. We compare these results to the [C II] emission from numerical simulations of magnetized, dense gas filaments formed from giant molecular cloud (GMC) collisions, finding similar spatial and kinematic offsets. These observations and modellingof [C II] add further to the evidence that IRDC G035.39-00.33 has been formed by a process of GMC-GMC collision, which may thus be an important mechanism for initiating star cluster formation.

CheS-Mapper - Chemical Space Mapping and Visualization in 3D.

PubMed

Gütlein, Martin; Karwath, Andreas; Kramer, Stefan

2012-03-17

Analyzing chemical datasets is a challenging task for scientific researchers in the field of chemoinformatics. It is important, yet difficult to understand the relationship between the structure of chemical compounds, their physico-chemical properties, and biological or toxic effects. To that respect, visualization tools can help to better comprehend the underlying correlations. Our recently developed 3D molecular viewer CheS-Mapper (Chemical Space Mapper) divides large datasets into clusters of similar compounds and consequently arranges them in 3D space, such that their spatial proximity reflects their similarity. The user can indirectly determine similarity, by selecting which features to employ in the process. The tool can use and calculate different kind of features, like structural fragments as well as quantitative chemical descriptors. These features can be highlighted within CheS-Mapper, which aids the chemist to better understand patterns and regularities and relate the observations to established scientific knowledge. As a final function, the tool can also be used to select and export specific subsets of a given dataset for further analysis.

CheS-Mapper - Chemical Space Mapping and Visualization in 3D

PubMed Central

2012-01-01

Analyzing chemical datasets is a challenging task for scientific researchers in the field of chemoinformatics. It is important, yet difficult to understand the relationship between the structure of chemical compounds, their physico-chemical properties, and biological or toxic effects. To that respect, visualization tools can help to better comprehend the underlying correlations. Our recently developed 3D molecular viewer CheS-Mapper (Chemical Space Mapper) divides large datasets into clusters of similar compounds and consequently arranges them in 3D space, such that their spatial proximity reflects their similarity. The user can indirectly determine similarity, by selecting which features to employ in the process. The tool can use and calculate different kind of features, like structural fragments as well as quantitative chemical descriptors. These features can be highlighted within CheS-Mapper, which aids the chemist to better understand patterns and regularities and relate the observations to established scientific knowledge. As a final function, the tool can also be used to select and export specific subsets of a given dataset for further analysis. PMID:22424447

Spatial extent of analysis influences observed patterns of population genetic structure in a widespread darter species (Percidae)

USGS Publications Warehouse

Argentina, Jane E.; Angermeier, Paul L.; Hallerman, Eric M.; Welsh, Stuart A.

2018-01-01

Connectivity among stream fish populations allows for exchange of genetic material and helps maintain genetic diversity, adaptive potential and population stability over time. Changes in species demographics and population connectivity have the potential to permanently alter the genetic patterns of stream fish, although these changes through space and time are variable and understudied in small‐bodied freshwater fish.As a spatially widespread, common species of benthic freshwater fish, the variegate darter (Etheostoma variatum) is a model species for documenting how patterns of genetic structure and diversity respond to increasing isolation due to large dams and how scale of study may shape our understanding of these patterns. We sampled variegate darters from 34 sites across their range in the North American Ohio River basin and examined how patterns of genetic structure and diversity within and between populations responded to historical population changes and dams within and between populations.Spatial scale and configuration of genetic structure varied across the eight identified populations, from tributaries within a watershed, to a single watershed, to multiple watersheds that encompass Ohio River mainstem habitats. This multiwatershed pattern of population structuring suggests genetic dispersal across large distances was and may continue to be common, although some populations remain isolated despite no apparent structural dispersal barriers. Populations with low effective population sizes and evidence of past population bottlenecks showed low allelic richness, but diversity patterns were not related to watershed size, a surrogate for habitat availability. Pairwise genetic differentiation (FST) increased with fluvial distance and was related to both historic and contemporary processes. Genetic diversity changes were influenced by underlying population size and stability, and while instream barriers were not strong determinants of genetic structuring or loss of genetic diversity, they reduce population connectivity and may impact long‐term population persistence.The broad spatial scale of this study demonstrated the large spatial extent of some variegate darter populations and indicated that dispersal is more extensive than expected given the movement patterns typically observed for small‐bodied, benthic fish. Dam impacts depended on underlying population size and stability, with larger populations more resilient to genetic drift and allelic richness loss than smaller populations.Other darters that inhabit large river habitats may show similar patterns in landscape‐scale studies, and large river barriers may impact populations of small‐bodied fish more than previously expected. Estimation of dispersal rates and behaviours is critical to conservation of imperilled riverine species such as darters.

Building Daily 30-meter Spatial Resolution Maps of Surface Water Bodies from MODIS Data Using a Novel Technique for Transferring Information Across Space and Time

NASA Astrophysics Data System (ADS)

Khandelwal, A.; Karpatne, A.; Kumar, V.

2017-12-01

In this paper, we present novel methods for producing surface water maps at 30 meter spatial resolution at a daily temporal resolution. These new methods will make use of the MODIS spectral data from Terra (available daily since 2000) to produce daily maps at 250 meter and 500 meter resolution, and then refine them using the relative elevation ordering of pixels at 30 meter resolution. The key component of these methods is the use of elevation structure (relative elevation ordering) of a water body. Elevation structure is not explicitly available at desired resolution for most water bodies in the world and hence it will be estimated using our previous work that uses the history of imperfect labels. In this paper, we will present a new technique that uses elevation structure (unlike existing pixel based methods) to enforce temporal consistency in surface water extents (lake area on nearby dates is likely to be very similar). This will greatly improve the quality of the MODIS scale land/water labels since daily MODIS data can have a large amount of missing (or poor quality) data due to clouds and other factors. The quality of these maps will be further improved using elevation based resolution refinement approach that will make use of elevation structure estimated at Landsat scale. With the assumption that elevation structure does not change over time, it provides a very effective way to transfer information between datasets even when they are not observed concurrently. In this work, we will derive elevation structure at Landsat scale from monthly water extent maps spanning 1984-2015, publicly available through a joint effort of Google Earth Engine and the European Commission's Joint Research Centre (JRC). This elevation structure will then be used to refine spatial resolution of Modis scale maps from 2000 onwards. We will present the analysis of these methods on a large and diverse set of water bodies across the world.

Performance Evaluation of EnKF-based Hydrogeological Site Characterization using Color Coherent Vectors

NASA Astrophysics Data System (ADS)

Moslehi, M.; de Barros, F.

2017-12-01

Complexity of hydrogeological systems arises from the multi-scale heterogeneity and insufficient measurements of their underlying parameters such as hydraulic conductivity and porosity. An inadequate characterization of hydrogeological properties can significantly decrease the trustworthiness of numerical models that predict groundwater flow and solute transport. Therefore, a variety of data assimilation methods have been proposed in order to estimate hydrogeological parameters from spatially scarce data by incorporating the governing physical models. In this work, we propose a novel framework for evaluating the performance of these estimation methods. We focus on the Ensemble Kalman Filter (EnKF) approach that is a widely used data assimilation technique. It reconciles multiple sources of measurements to sequentially estimate model parameters such as the hydraulic conductivity. Several methods have been used in the literature to quantify the accuracy of the estimations obtained by EnKF, including Rank Histograms, RMSE and Ensemble Spread. However, these commonly used methods do not regard the spatial information and variability of geological formations. This can cause hydraulic conductivity fields with very different spatial structures to have similar histograms or RMSE. We propose a vision-based approach that can quantify the accuracy of estimations by considering the spatial structure embedded in the estimated fields. Our new approach consists of adapting a new metric, Color Coherent Vectors (CCV), to evaluate the accuracy of estimated fields achieved by EnKF. CCV is a histogram-based technique for comparing images that incorporate spatial information. We represent estimated fields as digital three-channel images and use CCV to compare and quantify the accuracy of estimations. The sensitivity of CCV to spatial information makes it a suitable metric for assessing the performance of spatial data assimilation techniques. Under various factors of data assimilation methods such as number, layout, and type of measurements, we compare the performance of CCV with other metrics such as RMSE. By simulating hydrogeological processes using estimated and true fields, we observe that CCV outperforms other existing evaluation metrics.

In Silico Analysis of the Structural and Biochemical Features of the NMD Factor UPF1 in Ustilago maydis.

PubMed

Martínez-Montiel, Nancy; Morales-Lara, Laura; Hernández-Pérez, Julio M; Martínez-Contreras, Rebeca D

2016-01-01

The molecular mechanisms regulating the accuracy of gene expression are still not fully understood. Among these mechanisms, Nonsense-mediated Decay (NMD) is a quality control process that detects post-transcriptionally abnormal transcripts and leads them to degradation. The UPF1 protein lays at the heart of NMD as shown by several structural and functional features reported for this factor mainly for Homo sapiens and Saccharomyces cerevisiae. This process is highly conserved in eukaryotes but functional diversity can be observed in various species. Ustilago maydis is a basidiomycete and the best-known smut, which has become a model to study molecular and cellular eukaryotic mechanisms. In this study, we performed in silico analysis to investigate the structural and biochemical properties of the putative UPF1 homolog in Ustilago maydis. The putative homolog for UPF1 was recognized in the annotated genome for the basidiomycete, exhibiting 66% identity with its human counterpart at the protein level. The known structural and functional domains characteristic of UPF1 homologs were also found. Based on the crystal structures available for UPF1, we constructed different three-dimensional models for umUPF1 in order to analyze the secondary and tertiary structural features of this factor. Using these models, we studied the spatial arrangement of umUPF1 and its capability to interact with UPF2. Moreover, we identified the critical amino acids that mediate the interaction of umUPF1 with UPF2, ATP, RNA and with UPF1 itself. Mutating these amino acids in silico showed an important effect over the native structure. Finally, we performed molecular dynamic simulations for UPF1 proteins from H. sapiens and U. maydis and the results obtained show a similar behavior and physicochemical properties for the protein in both organisms. Overall, our results indicate that the putative UPF1 identified in U. maydis shows a very similar sequence, structural organization, mechanical stability, physicochemical properties and spatial organization in comparison to the NMD factor depicted for Homo sapiens. These observations strongly support the notion that human and fungal UPF1 could perform equivalent biological activities.

Spatial localization in heterogeneous systems

NASA Astrophysics Data System (ADS)

Kao, Hsien-Ching; Beaume, Cédric; Knobloch, Edgar

2014-01-01

We study spatial localization in the generalized Swift-Hohenberg equation with either quadratic-cubic or cubic-quintic nonlinearity subject to spatially heterogeneous forcing. Different types of forcing (sinusoidal or Gaussian) with different spatial scales are considered and the corresponding localized snaking structures are computed. The results indicate that spatial heterogeneity exerts a significant influence on the location of spatially localized structures in both parameter space and physical space, and on their stability properties. The results are expected to assist in the interpretation of experiments on localized structures where departures from spatial homogeneity are generally unavoidable.

On the emergence of molecular structure from atomic shape in the 1/r2 harmonium model.

PubMed

Müller-Herold, Ulrich

2006-01-07

The formal similarity of the three-body Hamiltonians for helium and the hydrogen molecule ion is used to demonstrate the unfolding of a rotating dumbbell-like proton distribution from a (1s)2-type electron distribution by smooth variation of the particles' masses in the 1/r2 harmonium model. The 1/r2 harmonium is an exactly solvable modification of the harmonium model (also known as Hooke's law atom) where the attraction between different particles is harmonic and the repulsion between the two equal particles is given by a 1/r2 potential. The dumbbell-like molecular structure appears as an expression of increasing spatial correlation due to increasing mass. It gradually appears in the one-density distribution of the two equal particles if their mass exceeds a critical value depending on the mass of the third particle. For large mass of the equal particles, their one-density distribution approaches an asymptotic form derived from the Born-Oppenheimer treatment of H2+ in the 1/r2 harmonium model. Below the critical value, the one density is a spherical, Gaussian-type atomic density distribution with a maximum at the center of mass. The topological transition at the critical value separates molecular structure and atomic shape as two qualitatively different manifestations of spatial structure.

Long-term trends in the structure of eastern Adriatic littoral fish assemblages: Consequences for fisheries management

NASA Astrophysics Data System (ADS)

Stagličić, N.; Matić-Skoko, S.; Pallaoro, A.; Grgičević, R.; Kraljević, M.; Tutman, P.; Dragičević, B.; Dulčić, J.

2011-09-01

Long-term interannual changes in abundance, biomass, diversity and structure of littoral fish assemblages were examined between 1993 and 2009 by experimental trammel net fishing up to six times per year, within the warm period - May to September, at multiple areas along the eastern Adriatic coast with the aim of testing for the consistency of patterns of change across a large spatial scale (˜600 km). The results revealed spatially consistent increasing trends of total fish abundance and biomass growing at an average rate of 15 and 14% per year, respectively. Of the diversity indices analysed, the same pattern of variability was observed for Shannon diversity, while Pielou evenness and average taxonomic distinctness measures Δ ∗ and Δ + showed spatial variability with no obvious temporal trends. Multivariate fish assemblage structure underwent a directional change displaying a similar pattern through time for all the areas. The structural change in fish assemblages generally involved most of the species present in trammel net catches. A large pool of fish species responsible for producing the temporal pattern of assemblage change was relatively different in each of the areas reflecting a large geographic range covered by the study. An analysis of 4 fish species ( Symphodus tinca, Pagellus erythrinus, Mullus surmuletus, Scorpaena porcus) common to each of the study areas as the ones driving the temporal change indicated that there were clear increasing trends of their mean catches across the years at all the study areas. A common pattern among time trajectories across the spatial scale studied implies that the factor affecting the littoral fish assemblages is not localised but regional in nature. As an underlying factor having the potential to induce such widespread and consistent improvements in littoral fish assemblages, a more restrictive artisanal fishery management that has progressively been put in place during the study period, is suggested and discussed.

Imaging of turbulent structures and tomographic reconstruction of TORPEX plasma emissivity

NASA Astrophysics Data System (ADS)

Iraji, D.; Furno, I.; Fasoli, A.; Theiler, C.

2010-12-01

In the TORPEX [A. Fasoli et al., Phys. Plasmas 13, 055902 (2006)], a simple magnetized plasma device, low frequency electrostatic fluctuations associated with interchange waves, are routinely measured by means of extensive sets of Langmuir probes. To complement the electrostatic probe measurements of plasma turbulence and study of plasma structures smaller than the spatial resolution of probes array, a nonperturbative direct imaging system has been developed on TORPEX, including a fast framing Photron-APX-RS camera and an image intensifier unit. From the line-integrated camera images, we compute the poloidal emissivity profile of the plasma by applying a tomographic reconstruction technique using a pixel method and solving an overdetermined set of equations by singular value decomposition. This allows comparing statistical, spectral, and spatial properties of visible light radiation with electrostatic fluctuations. The shape and position of the time-averaged reconstructed plasma emissivity are observed to be similar to those of the ion saturation current profile. In the core plasma, excluding the electron cyclotron and upper hybrid resonant layers, the mean value of the plasma emissivity is observed to vary with (Te)α(ne)β, in which α =0.25-0.7 and β =0.8-1.4, in agreement with collisional radiative model. The tomographic reconstruction is applied to the fast camera movie acquired with 50 kframes/s rate and 2 μs of exposure time to obtain the temporal evolutions of the emissivity fluctuations. Conditional average sampling is also applied to visualize and measure sizes of structures associated with the interchange mode. The ω-time and the two-dimensional k-space Fourier analysis of the reconstructed emissivity fluctuations show the same interchange mode that is detected in the ω and k spectra of the ion saturation current fluctuations measured by probes. Small scale turbulent plasma structures can be detected and tracked in the reconstructed emissivity movies with the spatial resolution down to 2 cm, well beyond the spatial resolution of the probe array.

Scaling in cognitive performance reflects multiplicative multifractal cascade dynamics

PubMed Central

Stephen, Damian G.; Anastas, Jason R.; Dixon, James A.

2012-01-01

Self-organized criticality purports to build multi-scaled structures out of local interactions. Evidence of scaling in various domains of biology may be more generally understood to reflect multiplicative interactions weaving together many disparate scales. The self-similarity of power-law scaling entails homogeneity: fluctuations distribute themselves similarly across many spatial and temporal scales. However, this apparent homogeneity can be misleading, especially as it spans more scales. Reducing biological processes to one power-law relationship neglects rich cascade dynamics. We review recent research into multifractality in executive-function cognitive tasks and propose that scaling reflects not criticality but instead interactions across multiple scales and among fluctuations of multiple sizes. PMID:22529819

Characterization of the Spatial Structure of Local Functional Connectivity Using Multidistance Average Correlation Measures.

PubMed

Macià, Dídac; Pujol, Jesus; Blanco-Hinojo, Laura; Martínez-Vilavella, Gerard; Martín-Santos, Rocío; Deus, Joan

2018-06-01

There is ample evidence from basic research in neuroscience of the importance of local corticocortical networks. Millimetric resolution is achievable with current functional magnetic resonance imaging (fMRI) scanners and sequences, and consequently a number of "local" activity similarity measures have been defined to describe patterns of segregation and integration at this spatial scale. We have introduced the use of IsoDistant Average Correlation (IDAC), easily defined as the average fMRI temporal correlation of a given voxel with other voxels placed at increasingly separated isodistant intervals, to characterize the curve of local fMRI signal similarities. IDAC curves can be statistically compared using parametric multivariate statistics. Furthermore, by using red-green-blue color coding to display jointly IDAC values belonging to three different distance lags, IDAC curves can also be displayed as multidistance IDAC maps. We applied IDAC analysis to a sample of 41 subjects scanned under two different conditions, a resting state and an auditory-visual continuous stimulation. Multidistance IDAC mapping was able to discriminate between gross anatomofunctional cortical areas and, moreover, was sensitive to modulation between the two brain conditions in areas known to activate and deactivate during audiovisual tasks. Unlike previous fMRI local similarity measures already in use, our approach draws special attention to the continuous smooth pattern of local functional connectivity.

Place and direction learning in a spatial T-maze task by neonatal piglets

PubMed Central

Elmore, Monica R. P.; Dilger, Ryan N.; Johnson, Rodney W.

2013-01-01

Pigs are a valuable animal model for studying neurodevelopment in humans due to similarities in brain structure and growth. The development and validation of behavioral tests to assess learning and memory in neonatal piglets are needed. The present study evaluated the capability of 2-wk old piglets to acquire a novel place and direction learning spatial T-maze task. Validity of the task was assessed by the administration of scopolamine, an anti-cholinergic drug that acts on the hippocampus and other related structures, to impair spatial memory. During acquisition, piglets were trained to locate a milk reward in a constant place in space, as well as direction (east or west), in a plus-shaped maze using extra-maze visual cues. Following acquisition, reward location was reversed and piglets were re-tested to assess learning and working memory. The performance of control piglets in the maze improved over time (P < 0.0001), reaching performance criterion (80% correct) on day 5 of acquisition. Correct choices decreased in the reversal phase (P < 0.0001), but improved over time. In a separate study, piglets were injected daily with either phosphate buffered saline (PBS; control) or scopolamine prior to testing. Piglets administered scopolamine showed impaired performance in the maze compared to controls (P = 0.03), failing to reach performance criterion after 6 days of acquisition testing. Collectively, these data demonstrate that neonatal piglets can be tested in a spatial T-maze task to assess hippocampal-dependent learning and memory. PMID:22526690

Spatial analysis of future East Asian seasonal temperature using two regional climate model simulations

NASA Astrophysics Data System (ADS)

Kim, Yura; Jun, Mikyoung; Min, Seung-Ki; Suh, Myoung-Seok; Kang, Hyun-Suk

2016-05-01

CORDEX-East Asia, a branch of the coordinated regional climate downscaling experiment (CORDEX) initiative, provides high-resolution climate simulations for the domain covering East Asia. This study analyzes temperature data from regional climate models (RCMs) participating in the CORDEX - East Asia region, accounting for the spatial dependence structure of the data. In particular, we assess similarities and dissimilarities of the outputs from two RCMs, HadGEM3-RA and RegCM4, over the region and over time. A Bayesian functional analysis of variance (ANOVA) approach is used to simultaneously model the temperature patterns from the two RCMs for the current and future climate. We exploit nonstationary spatial models to handle the spatial dependence structure of the temperature variable, which depends heavily on latitude and altitude. For a seasonal comparison, we examine changes in the winter temperature in addition to the summer temperature data. We find that the temperature increase projected by RegCM4 tends to be smaller than the projection of HadGEM3-RA for summers, and that the future warming projected by HadGEM3-RA tends to be weaker for winters. Also, the results show that there will be a warming of 1-3°C over the region in 45 years. More specifically, the warming pattern clearly depends on the latitude, with greater temperature increases in higher latitude areas, which implies that warming may be more severe in the northern part of the domain.

Space, time, and host evolution facilitate coexistence of competing bacteriophages: theory and experiment.

PubMed

Coberly, L Caitlin; Wei, Wei; Sampson, Koffi Y; Millstein, Jack; Wichman, Holly A; Krone, Stephen M

2009-04-01

We present a joint experimental/theoretical investigation into the roles of spatial structure and time in the competition between two pathogens for a single host. We suggest a natural mechanism by which competing pathogens can coexist when host evolution and competitive dynamics occur on similar timescales. Our experimental system consisted of a single bacterial host species and two competing bacteriophage strains grown on agar plates, with a serial transfer of samples of the bacteriophage population to fresh host populations after each incubation cycle. The experiments included two incubation times and two transfer protocols that either maintained or disrupted the spatial structure of the viruses at each transfer. The same bacteriophage acted as the dominant competitor under both transfer protocols. A striking difference between the treatments is that the weak competitor was able to persist in the long-incubation experiments but not in the short-incubation experiments. Mathematical and experimental evidence suggest that coexistence is due to the appearance of resistant mutant host cells that provide a transient "spatiotemporal refuge" for the weaker competitor. Our mathematical model is individual based, captures the stochastic spatial dynamics down to the level of individual cells, and helps to explain the differences in behavior under the various experimental conditions.

An individual-orientated model of the emergence of despotic and egalitarian societies

PubMed Central

Hemelrijk, C. K.

1999-01-01

Single behavioural differences between egalitarian and despotic animal societies are often assumed to reflect specific adaptations. However, in the present paper, I will show in an individual-orientated model, how many behavioural traits of egalitarian and despotic virtual societies arise as emergent characteristics. The artificial entities live in a homogeneous world and only aggregate, and upon meeting one another and may perform dominance interactions in which the effects of winning and losing are self-reinforcing. The behaviour of these entities is studied in a similar way to that of real animals. It will be shown that by varying the intensity of aggression only, one may switch from egalitarian to despotic virtual societies. Differences between the two types of society appear to correspond closely to those between despotic and egalitarian macaque species in the real world. In addition, artificial despotic societies show a clearer spatial centrality of dominants and, counter-intuitively, more rank overlap between the sexes than the egalitarian ones. Because of the correspondence with patterns in real animals, the model makes it worthwhile comparing despotic and egalitarian species for socio-spatial structure and rank overlap too. Furthermore, it presents us with parsimonious hypotheses which can be tested in real animals for patterns of aggression, spatial structure and the distribution of social positive and sexual behaviour.

Rapid encoding of relationships between spatially remote motion signals.

PubMed

Maruya, Kazushi; Holcombe, Alex O; Nishida, Shin'ya

2013-02-06

For visual processing, the temporal correlation of remote local motion signals is a strong cue to detect meaningful large-scale structures in the retinal image, because related points are likely to move together regardless of their spatial separation. While the processing of multi-element motion patterns involved in biological motion and optic flow has been studied intensively, the encoding of simpler pairwise relationships between remote motion signals remains poorly understood. We investigated this process by measuring the temporal rate limit for perceiving the relationship of two motion directions presented at the same time at different spatial locations. Compared to luminance or orientation, motion comparison was more rapid. Performance remained very high even when interstimulus separation was increased up to 100°. Motion comparison also remained rapid regardless of whether the two motion directions were similar to or different from each other. The exception was a dramatic slowing when the elements formed an orthogonal "T," in which two motions do not perceptually group together. Motion presented at task-irrelevant positions did not reduce performance, suggesting that the rapid motion comparison could not be ascribed to global optic flow processing. Our findings reveal the existence and unique nature of specialized processing that encodes long-range relationships between motion signals for quick appreciation of global dynamic scene structure.

Structure and dynamics of an upland old- growth forest at Redwood National Park, California

USGS Publications Warehouse

van Mantgem, Philip J.; Stuart, John D.

2011-01-01

Many current redwood forest management targets are based on old-growth conditions, so it is critical that we understand the variability and range of conditions that constitute these forests. Here we present information on the structure and dynamics from six one-hectare forest monitoring plots in an upland old-growth forest at Redwood National Park, California. We surveyed all stems =20 cm DBH in 1995 and 2010, allowing us to estimate any systematic changes in these stands. Stem size distributions for all species and for redwood (Sequoia sempervirens (D. Don) Endl.) alone did not appreciably change over the 15 year observation interval. Recruitment and mortality rates were roughly balanced, as were basal area dynamics (gains from recruitment and growth versus losses from mortality). Similar patterns were found for Sequoia alone. The spatial structure of stems at the plots suggested a random distribution of trees, though the pattern for Sequoia alone was found to be significantly clumped at small scales (< 5 m) at three of the six plots. These results suggest that these forests, including populations of Sequoia, have been generally stable over the past 15 years at this site, though it is possible that fire exclusion may be affecting recruitment of smaller Sequoia (< 20 cm DBH). The non-uniform spatial arrangement of stems also suggests that restoration prescriptions for second-growth redwood forests that encourage uniform spatial arrangements do not appear to mimic current upland old-growth conditions.

Meta-ecosystem dynamics and functioning on finite spatial networks

PubMed Central

Marleau, Justin N.; Guichard, Frédéric; Loreau, Michel

2014-01-01

The addition of spatial structure to ecological concepts and theories has spurred integration between sub-disciplines within ecology, including community and ecosystem ecology. However, the complexity of spatial models limits their implementation to idealized, regular landscapes. We present a model meta-ecosystem with finite and irregular spatial structure consisting of local nutrient–autotrophs–herbivores ecosystems connected through spatial flows of materials and organisms. We study the effect of spatial flows on stability and ecosystem functions, and provide simple metrics of connectivity that can predict these effects. Our results show that high rates of nutrient and herbivore movement can destabilize local ecosystem dynamics, leading to spatially heterogeneous equilibria or oscillations across the meta-ecosystem, with generally increased meta-ecosystem primary and secondary production. However, the onset and the spatial scale of these emergent dynamics depend heavily on the spatial structure of the meta-ecosystem and on the relative movement rate of the autotrophs. We show how this strong dependence on finite spatial structure eludes commonly used metrics of connectivity, but can be predicted by the eigenvalues and eigenvectors of the connectivity matrix that describe the spatial structure and scale. Our study indicates the need to consider finite-size ecosystems in meta-ecosystem theory. PMID:24403323

Stochastic Evolution of Augmented Born-Infeld Equations

NASA Astrophysics Data System (ADS)

Holm, Darryl D.

2018-06-01

This paper compares the results of applying a recently developed method of stochastic uncertainty quantification designed for fluid dynamics to the Born-Infeld model of nonlinear electromagnetism. The similarities in the results are striking. Namely, the introduction of Stratonovich cylindrical noise into each of their Hamiltonian formulations introduces stochastic Lie transport into their dynamics in the same form for both theories. Moreover, the resulting stochastic partial differential equations retain their unperturbed form, except for an additional term representing induced Lie transport by the set of divergence-free vector fields associated with the spatial correlations of the cylindrical noise. The explanation for this remarkable similarity lies in the method of construction of the Hamiltonian for the Stratonovich stochastic contribution to the motion in both cases, which is done via pairing spatial correlation eigenvectors for cylindrical noise with the momentum map for the deterministic motion. This momentum map is responsible for the well-known analogy between hydrodynamics and electromagnetism. The momentum map for the Maxwell and Born-Infeld theories of electromagnetism treated here is the 1-form density known as the Poynting vector. Two appendices treat the Hamiltonian structures underlying these results.

Dark energy in six nearby galaxy flows: Synthetic phase diagrams and self-similarity

NASA Astrophysics Data System (ADS)

Chernin, A. D.; Teerikorpi, P.; Dolgachev, V. P.; Kanter, A. A.; Domozhilova, L. M.; Valtonen, M. J.; Byrd, G. G.

2012-09-01

Outward flows of galaxies are observed around groups of galaxies on spatial scales of about 1 Mpc, and around galaxy clusters on scales of 10 Mpc. Using recent data from the Hubble Space Telescope (HST), we have constructed two synthetic velocity-distance phase diagrams: one for four flows on galaxy-group scales and the other for two flows on cluster scales. It has been shown that, in both cases, the antigravity produced by the cosmic dark-energy background is stronger than the gravity produced by the matter in the outflow volume. The antigravity accelerates the flows and introduces a phase attractor that is common to all scales, corresponding to a linear velocity-distance relation (the local Hubble law). As a result, the bundle of outflow trajectories mostly follow the trajectory of the attractor. A comparison of the two diagrams reveals the universal self-similar nature of the outflows: their gross phase structure in dimensionless variables is essentially independent of their physical spatial scales, which differ by approximately a factor of 10 in the two diagrams.

Paying attention to working memory: Similarities in the spatial distribution of attention in mental and physical space.

PubMed

Sahan, Muhammet Ikbal; Verguts, Tom; Boehler, Carsten Nicolas; Pourtois, Gilles; Fias, Wim

2016-08-01

Selective attention is not limited to information that is physically present in the external world, but can also operate on mental representations in the internal world. However, it is not known whether the mechanisms of attentional selection operate in similar fashions in physical and mental space. We studied the spatial distributions of attention for items in physical and mental space by comparing how successfully distractors were rejected at varying distances from the attended location. The results indicated very similar distribution characteristics of spatial attention in physical and mental space. Specifically, we found that performance monotonically improved with increasing distractor distance relative to the attended location, suggesting that distractor confusability is particularly pronounced for nearby distractors, relative to distractors farther away. The present findings suggest that mental representations preserve their spatial configuration in working memory, and that similar mechanistic principles underlie selective attention in physical and in mental space.

Attraction of position preference by spatial attention throughout human visual cortex.

PubMed

Klein, Barrie P; Harvey, Ben M; Dumoulin, Serge O

2014-10-01

Voluntary spatial attention concentrates neural resources at the attended location. Here, we examined the effects of spatial attention on spatial position selectivity in humans. We measured population receptive fields (pRFs) using high-field functional MRI (fMRI) (7T) while subjects performed an attention-demanding task at different locations. We show that spatial attention attracts pRF preferred positions across the entire visual field, not just at the attended location. This global change in pRF preferred positions systematically increases up the visual hierarchy. We model these pRF preferred position changes as an interaction between two components: an attention field and a pRF without the influence of attention. This computational model suggests that increasing effects of attention up the hierarchy result primarily from differences in pRF size and that the attention field is similar across the visual hierarchy. A similar attention field suggests that spatial attention transforms different neural response selectivities throughout the visual hierarchy in a similar manner. Copyright © 2014 Elsevier Inc. All rights reserved.

ClaRNA: a classifier of contacts in RNA 3D structures based on a comparative analysis of various classification schemes

PubMed Central

Waleń, Tomasz; Chojnowski, Grzegorz; Gierski, Przemysław; Bujnicki, Janusz M.

2014-01-01

The understanding of folding and function of RNA molecules depends on the identification and classification of interactions between ribonucleotide residues. We developed a new method named ClaRNA for computational classification of contacts in RNA 3D structures. Unique features of the program are the ability to identify imperfect contacts and to process coarse-grained models. Each doublet of spatially close ribonucleotide residues in a query structure is compared to clusters of reference doublets obtained by analysis of a large number of experimentally determined RNA structures, and assigned a score that describes its similarity to one or more known types of contacts, including pairing, stacking, base–phosphate and base–ribose interactions. The accuracy of ClaRNA is 0.997 for canonical base pairs, 0.983 for non-canonical pairs and 0.961 for stacking interactions. The generalized squared correlation coefficient (GC2) for ClaRNA is 0.969 for canonical base pairs, 0.638 for non-canonical pairs and 0.824 for stacking interactions. The classifier can be easily extended to include new types of spatial relationships between pairs or larger assemblies of nucleotide residues. ClaRNA is freely available via a web server that includes an extensive set of tools for processing and visualizing structural information about RNA molecules. PMID:25159614

WE-EF-207-07: Dual Energy CT with One Full Scan and a Second Sparse-View Scan Using Structure Preserving Iterative Reconstruction (SPIR)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wang, T; Zhu, L

Purpose: Conventional dual energy CT (DECT) reconstructs CT and basis material images from two full-size projection datasets with different energy spectra. To relax the data requirement, we propose an iterative DECT reconstruction algorithm using one full scan and a second sparse-view scan by utilizing redundant structural information of the same object acquired at two different energies. Methods: We first reconstruct a full-scan CT image using filtered-backprojection (FBP) algorithm. The material similarities of each pixel with other pixels are calculated by an exponential function about pixel value differences. We assume that the material similarities of pixels remains in the second CTmore » scan, although pixel values may vary. An iterative method is designed to reconstruct the second CT image from reduced projections. Under the data fidelity constraint, the algorithm minimizes the L2 norm of the difference between pixel value and its estimation, which is the average of other pixel values weighted by their similarities. The proposed algorithm, referred to as structure preserving iterative reconstruction (SPIR), is evaluated on physical phantoms. Results: On the Catphan600 phantom, SPIR-based DECT method with a second 10-view scan reduces the noise standard deviation of a full-scan FBP CT reconstruction by a factor of 4 with well-maintained spatial resolution, while iterative reconstruction using total-variation regularization (TVR) degrades the spatial resolution at the same noise level. The proposed method achieves less than 1% measurement difference on electron density map compared with the conventional two-full-scan DECT. On an anthropomorphic pediatric phantom, our method successfully reconstructs the complicated vertebra structures and decomposes bone and soft tissue. Conclusion: We develop an effective method to reduce the number of views and therefore data acquisition in DECT. We show that SPIR-based DECT using one full scan and a second 10-view scan can provide high-quality DECT images and accurate electron density maps as conventional two-full-scan DECT.« less

Spatial Abilities of High-School Students in the Perception of Geologic Structures.

ERIC Educational Resources Information Center

Kali, Yael; Orion, Nir

1996-01-01

Characterizes specific spatial abilities required in geology studies through the examination of the performance of high school students in solving structural geology problems on the geologic spatial ability test (GeoSAT). Concludes that visual penetration ability and the ability to perceive the spatial configuration of the structure are…

Quantifying stream thermal regimes at management-pertinent scales: combining thermal infrared and stationary stream temperature data in a novel modeling framework.

USGS Publications Warehouse

Vatland, Shane J.; Gresswell, Robert E.; Poole, Geoffrey C.

2015-01-01

Accurately quantifying stream thermal regimes can be challenging because stream temperatures are often spatially and temporally heterogeneous. In this study, we present a novel modeling framework that combines stream temperature data sets that are continuous in either space or time. Specifically, we merged the fine spatial resolution of thermal infrared (TIR) imagery with hourly data from 10 stationary temperature loggers in a 100 km portion of the Big Hole River, MT, USA. This combination allowed us to estimate summer thermal conditions at a relatively fine spatial resolution (every 100 m of stream length) over a large extent of stream (100 km of stream) during during the warmest part of the summer. Rigorous evaluation, including internal validation, external validation with spatially continuous instream temperature measurements collected from a Langrangian frame of reference, and sensitivity analyses, suggests the model was capable of accurately estimating longitudinal patterns in summer stream temperatures for this system Results revealed considerable spatial and temporal heterogeneity in summer stream temperatures and highlighted the value of assessing thermal regimes at relatively fine spatial and temporal scales. Preserving spatial and temporal variability and structure in abiotic stream data provides a critical foundation for understanding the dynamic, multiscale habitat needs of mobile stream organisms. Similarly, enhanced understanding of spatial and temporal variation in dynamic water quality attributes, including temporal sequence and spatial arrangement, can guide strategic placement of monitoring equipment that will subsequently capture variation in environmental conditions directly pertinent to research and management objectives.

The Variability of the Horizontal Circulation in the Troposphere and Stratosphere: A Comparison

NASA Technical Reports Server (NTRS)

Perlwitz, Judith; Graf, Hans-F.; Hansem, James E. (Technical Monitor)

2001-01-01

The variability of the horizontal circulation in the stratosphere and troposphere of the Northern Hemisphere (NH) is compared by using various approaches. Spatial degrees of freedom (dof) on different time scales were derived. Modes of variability were computed in geopotential height fields at the tropospheric and stratospheric pressure levels by applying multivariate statistical approaches. Features of the spatial and temporal variability of the winterly zonal wind were studied with the help of recurrence and persistence analyses. The geopotential height and zonally-averaged zonal wind at the 50-, 500- and 1000-hPa level are used to investigate the behavior of the horizontal circulation in the lower stratosphere, mid-troposphere and at the near surface level, respectively. It is illustrated that the features of the variability of the horizontal circulation are very similar in the mid-troposphere and at the near surface level. Due to the filtering of tropospheric disturbances by the stratospheric and upper tropospheric zonal mean flow, the variability of the stratospheric circulation exhibits less spatial complexity than the circulation at tropospheric pressure levels. There exist enormous differences in the number of degrees of freedom (or free variability modes) between both atmospheric layers. Results of the analyses clearly show that the concept of a zonally symmetric AO with a simple structure in the troposphere similar to the one in the stratosphere is not valid. It is concluded that the spatially filtered climate change signal can be detected earlier in the stratosphere than in the mid-troposphere or at the near surface level.

An event map of memory space in the hippocampus

PubMed Central

Deuker, Lorena; Bellmund, Jacob LS; Navarro Schröder, Tobias; Doeller, Christian F

2016-01-01

The hippocampus has long been implicated in both episodic and spatial memory, however these mnemonic functions have been traditionally investigated in separate research strands. Theoretical accounts and rodent data suggest a common mechanism for spatial and episodic memory in the hippocampus by providing an abstract and flexible representation of the external world. Here, we monitor the de novo formation of such a representation of space and time in humans using fMRI. After learning spatio-temporal trajectories in a large-scale virtual city, subject-specific neural similarity in the hippocampus scaled with the remembered proximity of events in space and time. Crucially, the structure of the entire spatio-temporal network was reflected in neural patterns. Our results provide evidence for a common coding mechanism underlying spatial and temporal aspects of episodic memory in the hippocampus and shed new light on its role in interleaving multiple episodes in a neural event map of memory space. DOI: http://dx.doi.org/10.7554/eLife.16534.001 PMID:27710766

Laminar Neural Field Model of Laterally Propagating Waves of Orientation Selectivity

PubMed Central

2015-01-01

We construct a laminar neural-field model of primary visual cortex (V1) consisting of a superficial layer of neurons that encode the spatial location and orientation of a local visual stimulus coupled to a deep layer of neurons that only encode spatial location. The spatially-structured connections in the deep layer support the propagation of a traveling front, which then drives propagating orientation-dependent activity in the superficial layer. Using a combination of mathematical analysis and numerical simulations, we establish that the existence of a coherent orientation-selective wave relies on the presence of weak, long-range connections in the superficial layer that couple cells of similar orientation preference. Moreover, the wave persists in the presence of feedback from the superficial layer to the deep layer. Our results are consistent with recent experimental studies that indicate that deep and superficial layers work in tandem to determine the patterns of cortical activity observed in vivo. PMID:26491877

Medial Prefrontal Cortex Reduces Memory Interference by Modifying Hippocampal Encoding

PubMed Central

Guise, Kevin G.; Shapiro, Matthew L.

2017-01-01

Summary The prefrontal cortex (PFC) is crucial for accurate memory performance when prior knowledge interferes with new learning, but the mechanisms that minimize proactive interference are unknown. To investigate these, we assessed the influence of medial PFC (mPFC) activity on spatial learning and hippocampal coding in a plus maze task that requires both structures. mPFC inactivation did not impair spatial learning or retrieval per se, but impaired the ability to follow changing spatial rules. mPFC and CA1 ensembles recorded simultaneously predicted goal choices and tracked changing rules; inactivating mPFC attenuated CA1 prospective coding. mPFC activity modified CA1 codes during learning, which in turn predicted how quickly rats adapted to subsequent rule changes. The results suggest that task rules signaled by the mPFC become incorporated into hippocampal representations and support prospective coding. By this mechanism, mPFC activity prevents interference by “teaching” the hippocampus to retrieve distinct representations of similar circumstances. PMID:28343868

Upscaling transport of a reacting solute through a peridocially converging-diverging channel at pre-asymptotic times

NASA Astrophysics Data System (ADS)

Sund, Nicole L.; Bolster, Diogo; Dawson, Clint

2015-11-01

In this study we extend the Spatial Markov model, which has been successfully used to upscale conservative transport across a diverse range of porous media flows, to test if it can accurately upscale reactive transport, defined by a spatially heterogeneous first order degradation rate. We test the model in a well known highly simplified geometry, commonly considered as an idealized pore or fracture structure, a periodic channel with wavy boundaries. The edges of the flow domain have a layer through which there is no flow, but in which diffusion of a solute still occurs. Reactions are confined to this region. We demonstrate that the Spatial Markov model, an upscaled random walk model that enforces correlation between successive jumps, can reproduce breakthrough curves measured from microscale simulations that explicitly resolve all pertinent processes. We also demonstrate that a similar random walk model that does not enforce successive correlations is unable to reproduce all features of the measured breakthrough curves.

The landscape context of cereal aphid–parasitoid interactions

PubMed Central

Thies, Carsten; Roschewitz, Indra; Tscharntke, Teja

2005-01-01

Analyses at multiple spatial scales may show how important ecosystem services such as biological control are determined by processes acting on the landscape scale. We examined cereal aphid–parasitoid interactions in wheat fields in agricultural landscapes differing in structural complexity (32–100% arable land). Complex landscapes were associated with increased aphid mortality resulting from parasitism, but also with higher aphid colonization, thereby counterbalancing possible biological control by parasitoids and lastly resulting in similar aphid densities across landscapes. Thus, undisturbed perennial habitats appeared to enhance both pests and natural enemies. Analyses at multiple spatial scales (landscape sectors of 0.5–6 km diameter) showed that correlations between parasitism and percentage of arable land were significant at scales of 0.5–2 km, whereas aphid densities responded to percentage of arable land at scales of 1–6 km diameter. Hence, the higher trophic level populations appeared to be determined by smaller landscape sectors owing to dispersal limitation, showing the ‘functional spatial scale’ for species-specific landscape management. PMID:15695212

Similar evolutionary potentials in an obligate ant parasite and its two host species

PubMed Central

Pennings, P S; Achenbach, A; Foitzik, S

2011-01-01

The spatial structure of host–parasite coevolution is shaped by population structure and genetic diversity of the interacting species. We analysed these population genetic parameters in three related ant species: the parasitic slavemaking ant Protomognathus americanus and its two host species Temnothorax longispinosus and T. curvispinosus. We sampled throughout their range, genotyped ants on six to eight microsatellite loci and an MtDNA sequence and found high levels of genetic variation and strong population structure in all three species. Interestingly, the most abundant species and primary host, T. longispinosus, is characterized by less structure, but lower local genetic diversity. Generally, differences between the species were small, and we conclude that they have similar evolutionary potentials. The coevolutionary interaction between this social parasite and its hosts may therefore be less influenced by divergent evolutionary potentials, but rather by varying selection pressures. We employed different methods to quantify and compare genetic diversity and structure between species and genetic markers. We found that Jost D is well suited for these comparisons, as long as mutation rates between markers and species are similar. If this is not the case, for example, when using MtDNA and microsatellites to study sex-specific dispersal, model-based inference should be used instead of descriptive statistics (such as D or GST). Using coalescent-based methods, we indeed found that males disperse much more than females, but this sex bias in dispersal differed between species. The findings of the different approaches with regard to genetic diversity and structure were in good accordance with each other. PMID:21324025

The effect of climatic forcing on population synchrony and genetic structuring of the Canadian lynx

PubMed Central

Stenseth, Nils Chr.; Ehrich, Dorothee; Rueness, Eli Knispel; Lingjærde, Ole Chr.; Chan, Kung-Sik; Boutin, Stan; O'Donoghue, Mark; Robinson, David A.; Viljugrein, Hildegunn; Jakobsen, Kjetill S.

2004-01-01

The abundance of Canadian lynx follows 10-year density fluctuations across the Canadian subcontinent. These cyclic fluctuations have earlier been shown to be geographically structured into three climatic regions: the Atlantic, Continental, and Pacific zones. Recent genetic evidence revealed an essentially similar spatial structuring. Introducing a new population model, the “climate forcing of ecological and evolutionary patterns” model, we link the observed ecological and evolutionary patterns. Specifically, we demonstrate that there is greater phase synchrony within climatic zones than between them and show that external climatic forcing may act as a synchronizer. We simulated genetic drift by using data on population dynamics generated by the climate forcing of ecological and evolutionary patterns model, and we demonstrate that the observed genetic structuring can be seen as an emerging property of the spatiotemporal ecological dynamics. PMID:15067131

The C IV doublet ratio intensity effect in symbiotic stars

NASA Technical Reports Server (NTRS)

Michalitsianos, A. G.; Fahey, M.; Kafatos, M.; Viotti, R.; Cassatella, A.

1988-01-01

High-resolution UV spectra in the 1200-2000 wavelength range of the symbiotic variable R Aqr and its nebular jet were obtained in July 1987 with the IUE. The line profile structure of the C IV 1548, 1550 doublet in the jet indicates multicomponent velocity structure from an optically thin emitting gas. The C IV doublet profiles in the compact H II region engulfing the Mira and hot companion binary also suggest multicomponent structure with radial velocities up to about -100 km/s. The value of the doublet intensity ratio in the R Aqr H II region has been observed in other similar symbiotic stars, such as RX Pup. It is suggested that the anomalous behavior of the C IV doublet intensities may be useful for studying the spatial structure and temporal nature of winds in symbiotic stars.

Penetration of filamentary structures in the x-point region of spherical tokamaks

NASA Astrophysics Data System (ADS)

Baver, D. A.; Myra, J. R.; Scotti, F.; Zweben, S. J.; Militello, F.; Walkden, N.

2017-10-01

ArbiTER is a flexible eigenvalue code designed for plasma physics applications. It is used here to gain insight into the spatial dependence of filamentary structures in the scrape-off layer of spherical tokamaks. In particular, observations on MAST reveal the presence of a quiescent x-point region. Observations in NSTX similarly reveal a reduction in divertor fluctuations near the separatrix and a loss of midplane correlation. We will report on the penetration of filamentary structures into the vicinity of the x-point, as well as growth rate trends, for a variety of profiles and toroidal mode numbers. This will determine whether linear properties of these structures can explain experimental observations. Work supported by the U.S. Department of Energy Office of Science, Office of Fusion Energy Sciences, under Award Number DE-FG02-02ER54678.

StePS: Stereographically Projected Cosmological Simulations

NASA Astrophysics Data System (ADS)

Rácz, Gábor; Szapudi, István; Csabai, István; Dobos, László

2018-05-01

StePS (Stereographically Projected Cosmological Simulations) compactifies the infinite spatial extent of the Universe into a finite sphere with isotropic boundary conditions to simulate the evolution of the large-scale structure. This eliminates the need for periodic boundary conditions, which are a numerical convenience unsupported by observation and which modifies the law of force on large scales in an unrealistic fashion. StePS uses stereographic projection for space compactification and naive O(N2) force calculation; this arrives at a correlation function of the same quality more quickly than standard (tree or P3M) algorithms with similar spatial and mass resolution. The N2 force calculation is easy to adapt to modern graphics cards, hence StePS can function as a high-speed prediction tool for modern large-scale surveys.

Influence of the spatially inhomogeneous gap distribution on the quasiparticle current in c-axis junctions involving d-wave superconductors with charge density waves.

PubMed

Ekino, T; Gabovich, A M; Suan Li, Mai; Szymczak, H; Voitenko, A I

2016-11-09

The quasiparticle tunnel current J(V) between the superconducting ab-planes along the c-axis and the corresponding conductance [Formula: see text] were calculated for symmetric junctions composed of disordered d-wave layered superconductors partially gapped by charge density waves (CDWs). Here, V is the voltage. Both the checkerboard and unidirectional CDWs were considered. It was shown that the spatial spread of the CDW-pairing strength substantially smears the peculiarities of G(V) appropriate to uniform superconductors. The resulting curves G(V) become very similar to those observed for a number of cuprates in intrinsic junctions, e.g. mesas. In particular, the influence of CDWs may explain the peak-dip-hump structures frequently found for high-T c oxides.

There's No Place Like Home: Crown-of-Thorns Outbreaks in the Central Pacific Are Regionally Derived and Independent Events

PubMed Central

Timmers, Molly A.; Bird, Christopher E.; Skillings, Derek J.; Smouse, Peter E.; Toonen, Robert J.

2012-01-01

One of the most significant biological disturbances on a tropical coral reef is a population outbreak of the fecund, corallivorous crown-of-thorns sea star, Acanthaster planci. Although the factors that trigger an initial outbreak may vary, successive outbreaks within and across regions are assumed to spread via the planktonic larvae released from a primary outbreak. This secondary outbreak hypothesis is predominantly based on the high dispersal potential of A. planci and the assertion that outbreak populations (a rogue subset of the larger population) are genetically more similar to each other than they are to low-density non-outbreak populations. Here we use molecular techniques to evaluate the spatial scale at which A. planci outbreaks can propagate via larval dispersal in the central Pacific Ocean by inferring the location and severity of gene flow restrictions from the analysis of mtDNA control region sequence (656 specimens, 17 non-outbreak and six outbreak locations, six archipelagos, and three regions). Substantial regional, archipelagic, and subarchipelagic-scale genetic structuring of A. planci populations indicate that larvae rarely realize their dispersal potential and outbreaks in the central Pacific do not spread across the expanses of open ocean. On a finer scale, genetic partitioning was detected within two of three islands with multiple sampling sites. The finest spatial structure was detected at Pearl & Hermes Atoll, between the lagoon and forereef habitats (<10 km). Despite using a genetic marker capable of revealing subtle partitioning, we found no evidence that outbreaks were a rogue genetic subset of a greater population. Overall, outbreaks that occur at similar times across population partitions are genetically independent and likely due to nutrient inputs and similar climatic and ecological conditions that conspire to fuel plankton blooms. PMID:22363570

Classical and Non-Classical Regimes of the Limited-Fetch Wave Growth and Localized Structures on the Surface of Water

DTIC Science & Technology

2013-09-30

specifying the wave-maker driving signal . The short intense envelope solitons possess vertical asymmetry similar to regular Stokes waves with the same...presented in [P1], [P2]. 2. Physical model of sea wave period from altimeter data We use the asymptotic theory of wind wave growth proposed in [R6...relationship can be used for processing altimeter data assuming the wave field to be stationary and spatially inhomogeneous. It is consistent with

GTC/CanariCam Mid-IR Imaging of the Fullerene-rich Planetary Nebula IC 418: Searching for the Spatial Distribution of Fullerene-like Molecules

NASA Astrophysics Data System (ADS)

Díaz-Luis, J. J.; García-Hernández, D. A.; Manchado, A.; García-Lario, P.; Villaver, E.; García-Segura, G.

2018-03-01

We present seeing-limited narrow-band mid-IR GTC/CanariCam images of the spatially extended fullerene-containing planetary nebula (PN) IC 418. The narrow-band images cover the C60 fullerene band at 17.4 μm, the polycyclic aromatic hydrocarbon like (PAH-like) feature at 11.3 μm, the broad 9–13 μm feature, and their adjacent continua at 9.8 and 20.5 μm. We study the relative spatial distribution of these complex species, all detected in the Spitzer and Infrared Space Observatory spectra of IC 418, with the aim of getting observational constraints to the formation process of fullerenes in H-rich circumstellar environments. A similar ring-like extended structure is seen in all narrow-band filters, except in the dust continuum emission at 9.8 μm, which peaks closer to the central star. The continuum-subtracted images display a clear ring-like extended structure for the carrier of the broad 9–13 μm emission, while the spatial distribution of the (PAH-like) 11.3 μm emission is not so well defined. Interestingly, a residual C60 17.4 μm emission (at about 4σ from the sky background) is seen when subtracting the dust continuum emission at 20.5 μm. This residual C60 emission, if real, might have several interpretations, the most exciting being perhaps that other fullerene-based species like hydrogenated fullerenes with very low H-content may contribute to the observed 17.4 μm emission. We conclude that higher sensitivity mid-IR images and spatially resolved spectroscopic observations (especially in the Q-band) are necessary to get some clues about fullerene formation in PNe.

Effect of long-term mechanical perturbation on intertidal soft-bottom meiofaunal community spatial structure

NASA Astrophysics Data System (ADS)

Boldina, Inna; Beninger, Peter G.; Le Coz, Maïwen

2014-01-01

Situated at the interface of the microbial and macrofaunal compartments, soft-bottom meiofauna accomplish important ecological functions. However, little is known of their spatial distribution in the benthic environment. To assess the effects of long-term mechanical disturbance on soft-bottom meiofaunal spatial distribution, we compared a site subjected to long-term clam digging to a nearby site untouched by such activities, in Bourgneuf Bay, on the Atlantic coast of France. Six patterned replicate samples were taken at 3, 6, 9, 12, 15, 18, 21 and 24 cm lags, all sampling stations being separated by 5 m. A combined correlogram-variogram approach was used to enhance interpretation of the meiofaunal spatial distribution; in particular, the definition of autocorrelation strength and its statistical significance, as well as the detailed characteristics of the periodic spatial structure of nematode assemblages, and the determination of the maximum distance of their spatial autocorrelation. At both sites, nematodes and copepods clearly exhibited aggregated spatial structure at the meso scale; this structure was attenuated at the impacted site. The nematode spatial distribution showed periodicity at the non-impacted site, but not at the impacted site. This is the first explicit report of a periodic process in meiofaunal spatial distribution. No such cyclic spatial process was observed for the more motile copepods at either site. This first study to indicate the impacts of long-term anthropogenic mechanical perturbation on meiofaunal spatial structure opens the door to a new dimension of mudflat ecology. Since macrofaunal predator search behaviour is known to be strongly influenced by prey spatial structure, the alteration of this structure may have important consequences for ecosystem functioning.

Controlling Energy Radiations of Electromagnetic Waves via Frequency Coding Metamaterials

PubMed Central

Wu, Haotian; Liu, Shuo; Wan, Xiang; Zhang, Lei; Wang, Dan; Li, Lianlin

2017-01-01

Metamaterials are artificial structures composed of subwavelength unit cells to control electromagnetic (EM) waves. The spatial coding representation of metamaterial has the ability to describe the material in a digital way. The spatial coding metamaterials are typically constructed by unit cells that have similar shapes with fixed functionality. Here, the concept of frequency coding metamaterial is proposed, which achieves different controls of EM energy radiations with a fixed spatial coding pattern when the frequency changes. In this case, not only different phase responses of the unit cells are considered, but also different phase sensitivities are also required. Due to different frequency sensitivities of unit cells, two units with the same phase response at the initial frequency may have different phase responses at higher frequency. To describe the frequency coding property of unit cell, digitalized frequency sensitivity is proposed, in which the units are encoded with digits “0” and “1” to represent the low and high phase sensitivities, respectively. By this merit, two degrees of freedom, spatial coding and frequency coding, are obtained to control the EM energy radiations by a new class of frequency‐spatial coding metamaterials. The above concepts and physical phenomena are confirmed by numerical simulations and experiments. PMID:28932671

A Gaussian random field model for similarity-based smoothing in Bayesian disease mapping.

PubMed

Baptista, Helena; Mendes, Jorge M; MacNab, Ying C; Xavier, Miguel; Caldas-de-Almeida, José

2016-08-01

Conditionally specified Gaussian Markov random field (GMRF) models with adjacency-based neighbourhood weight matrix, commonly known as neighbourhood-based GMRF models, have been the mainstream approach to spatial smoothing in Bayesian disease mapping. In the present paper, we propose a conditionally specified Gaussian random field (GRF) model with a similarity-based non-spatial weight matrix to facilitate non-spatial smoothing in Bayesian disease mapping. The model, named similarity-based GRF, is motivated for modelling disease mapping data in situations where the underlying small area relative risks and the associated determinant factors do not vary systematically in space, and the similarity is defined by "similarity" with respect to the associated disease determinant factors. The neighbourhood-based GMRF and the similarity-based GRF are compared and accessed via a simulation study and by two case studies, using new data on alcohol abuse in Portugal collected by the World Mental Health Survey Initiative and the well-known lip cancer data in Scotland. In the presence of disease data with no evidence of positive spatial correlation, the simulation study showed a consistent gain in efficiency from the similarity-based GRF, compared with the adjacency-based GMRF with the determinant risk factors as covariate. This new approach broadens the scope of the existing conditional autocorrelation models. © The Author(s) 2016.

An investigation of the development of the topological spatial structures in elementary school students

NASA Astrophysics Data System (ADS)

Everett, Susan Ann

1999-09-01

In this study the relationships among the topological spatial structures were examined in students in kindergarten, second, and fourth grades. These topological spatial structures are part of the three major types of spatial thinking: topological, projective, and Euclidean (as defined by Jean Piaget and associates). According to Piaget's model of spatial thinking, the spatial structures enable humans to think about spatial relationships at a conceptual or representational level rather than only at a simpler, perceptual level. The clinical interview technique was used to interact individually with 72 children to assess the presence of each of the different topological spatial structures. This was accomplished through the use of seven task protocols and simple objects which are familiar to young children. These task protocols allowed the investigator to interact with each child in a consistent manner. The results showed that most of the children in this study (97.2%) had not developed all of the topological spatial structures. The task scores, were analyzed using non-parametric statistical tests due to the ordinal nature of the data. From the data the following results were obtained: (1) the spatial structures did not develop in random order based on the task scores but developed in the sequence expected from Piaget's model, (2) task performance improved with grade level with fourth grade students outperforming second graders and kindergartners on each of the seven tasks, and (3) no significant differences on task performance due to gender were found. Based on these results, young elementary children are beginning to develop topological spatial thinking. This is critical since it provides the foundation for the other types of spatial thinking, projective and Euclidean. Since spatial thinking is not a "gift" but can be developed, educators need to provide more opportunities for students to increase their level of spatial thinking since it is necessary for conceptual understanding of many different topics in math and science.

Developmental gender differences in children in a virtual spatial memory task.

PubMed

León, Irene; Cimadevilla, José Manuel; Tascón, Laura

2014-07-01

Behavioral achievements are the product of brain maturation. During postnatal development, the medial temporal lobe completes its maturation, and children acquire new memory abilities. In recent years, virtual reality-based tasks have been introduced in the neuropsychology field to assess different cognitive functions. In this work, desktop virtual reality tasks are combined with classic psychometric tests to assess spatial abilities in 4- to 10-year-old children. Fifty boys and 50 girls 4-10-years of age participated in this study. Spatial reference memory and spatial working memory were assessed using a desktop virtual reality-based task. Other classic psychometric tests were also included in this work (e.g., the Corsi Block Tapping Test, digit tests, 10/36 Spatial Recall Test). In general terms, 4- and 5-year-old groups showed poorer performance than the older groups. However, 5-year-old children showed basic spatial navigation abilities with little difficulty. In addition, boys outperformed girls from the 6-8-year-old groups. Gender differences only emerged in the reference-memory version of the spatial task, whereas both sexes displayed similar performances in the working-memory version. There was general improvement in the performance of different tasks in children older than 5 years. However, results also suggest that brain regions involved in allocentric memory are functional even at the age of 5. In addition, the brain structures underlying reference memory mature later in girls than those required for the working memory.

Spatial pattern and heterogeneity of soil moisture along a transect in a small catchment on the Loess Plateau

NASA Astrophysics Data System (ADS)

Yang, Yang; Dou, Yanxing; Liu, Dong; An, Shaoshan

2017-07-01

Spatial pattern and heterogeneity of soil moisture is important for the hydrological process on the Loess Plateau. This study combined the classical and geospatial statistical techniques to examine the spatial pattern and heterogeneity of soil moisture along a transect scale (e.g. land use types and topographical attributes) on the Loess Plateau. The average values of soil moisture were on the order of farmland > orchard > grassland > abandoned land > shrubland > forestland. Vertical distribution characteristics of soil moisture (0-500 cm) were similar among land use types. Highly significant (p < 0.01) negative correlations were found between soil moisture and elevation (h) except for shrubland (p > 0.05), whereas no significant correlations were found between soil moisture and plan curvature (Kh), stream power index (SPI), compound topographic index (CTI) (p > 0.05), indicating that topographical attributes (mainly h) have a negative effect on the soil moisture spatial heterogeneity. Besides, soil moisture spatial heterogeneity decreased from forestland to grassland and farmland, accompanied by a decline from 15° to 1° alongside upper to lower slope position. This study highlights the importance of land use types and topographical attributes on the soil moisture spatial heterogeneity from a combined analysis of the structural equation model (SEM) and generalized additive models (GAMs), and the relative contribution of land use types to the soil moisture spatial heterogeneity was higher than that of topographical attributes, which provides insights for researches focusing on soil moisture varitions on the Loess Plateau.

Salient Object Detection via Structured Matrix Decomposition.

PubMed

Peng, Houwen; Li, Bing; Ling, Haibin; Hu, Weiming; Xiong, Weihua; Maybank, Stephen J

2016-05-04

Low-rank recovery models have shown potential for salient object detection, where a matrix is decomposed into a low-rank matrix representing image background and a sparse matrix identifying salient objects. Two deficiencies, however, still exist. First, previous work typically assumes the elements in the sparse matrix are mutually independent, ignoring the spatial and pattern relations of image regions. Second, when the low-rank and sparse matrices are relatively coherent, e.g., when there are similarities between the salient objects and background or when the background is complicated, it is difficult for previous models to disentangle them. To address these problems, we propose a novel structured matrix decomposition model with two structural regularizations: (1) a tree-structured sparsity-inducing regularization that captures the image structure and enforces patches from the same object to have similar saliency values, and (2) a Laplacian regularization that enlarges the gaps between salient objects and the background in feature space. Furthermore, high-level priors are integrated to guide the matrix decomposition and boost the detection. We evaluate our model for salient object detection on five challenging datasets including single object, multiple objects and complex scene images, and show competitive results as compared with 24 state-of-the-art methods in terms of seven performance metrics.

Roosting and foraging social structure of the endangered Indiana bat (Myotis sodalis)

USGS Publications Warehouse

Silvis, Alexander; Kniowski, Andrew B.; Gehrt, Stanley D.; Ford, W. Mark

2014-01-01

Social dynamics are an important but poorly understood aspect of bat ecology. Herein we use a combination of graph theoretic and spatial approaches to describe the roost and social network characteristics and foraging associations of an Indiana bat (Myotis sodalis) maternity colony in an agricultural landscape in Ohio, USA. We tracked 46 bats to 50 roosts (423 total relocations) and collected 2,306 foraging locations for 40 bats during the summers of 2009 and 2010. We found the colony roosting network was highly centralized in both years and that roost and social networks differed significantly from random networks. Roost and social network structure also differed substantially between years. Social network structure appeared to be unrelated to segregation of roosts between age classes. For bats whose individual foraging ranges were calculated, many shared foraging space with at least one other bat. Compared across all possible bat dyads, 47% and 43% of the dyads showed more than expected overlap of foraging areas in 2009 and 2010 respectively. Colony roosting area differed between years, but the roosting area centroid shifted only 332 m. In contrast, whole colony foraging area use was similar between years. Random roost removal simulations suggest that Indiana bat colonies may be robust to loss of a limited number of roosts but may respond differently from year to year. Our study emphasizes the utility of graphic theoretic and spatial approaches for examining the sociality and roosting behavior of bats. Detailed knowledge of the relationships between social and spatial aspects of bat ecology could greatly increase conservation effectiveness by allowing more structured approaches to roost and habitat retention for tree-roosting, socially-aggregating bat species.

Roosting and foraging social structure of the endangered Indiana bat (Myotis sodalis).

PubMed

Silvis, Alexander; Kniowski, Andrew B; Gehrt, Stanley D; Ford, W Mark

2014-01-01

Social dynamics are an important but poorly understood aspect of bat ecology. Herein we use a combination of graph theoretic and spatial approaches to describe the roost and social network characteristics and foraging associations of an Indiana bat (Myotis sodalis) maternity colony in an agricultural landscape in Ohio, USA. We tracked 46 bats to 50 roosts (423 total relocations) and collected 2,306 foraging locations for 40 bats during the summers of 2009 and 2010. We found the colony roosting network was highly centralized in both years and that roost and social networks differed significantly from random networks. Roost and social network structure also differed substantially between years. Social network structure appeared to be unrelated to segregation of roosts between age classes. For bats whose individual foraging ranges were calculated, many shared foraging space with at least one other bat. Compared across all possible bat dyads, 47% and 43% of the dyads showed more than expected overlap of foraging areas in 2009 and 2010 respectively. Colony roosting area differed between years, but the roosting area centroid shifted only 332 m. In contrast, whole colony foraging area use was similar between years. Random roost removal simulations suggest that Indiana bat colonies may be robust to loss of a limited number of roosts but may respond differently from year to year. Our study emphasizes the utility of graphic theoretic and spatial approaches for examining the sociality and roosting behavior of bats. Detailed knowledge of the relationships between social and spatial aspects of bat ecology could greatly increase conservation effectiveness by allowing more structured approaches to roost and habitat retention for tree-roosting, socially-aggregating bat species.

The Transcriptional Regulator CBP Has Defined Spatial Associations within Interphase Nuclei

PubMed Central

McManus, Kirk J; Stephens, David A; Adams, Niall M; Islam, Suhail A; Freemont, Paul S; Hendzel, Michael J

2006-01-01

It is becoming increasingly clear that nuclear macromolecules and macromolecular complexes are compartmentalized through binding interactions into an apparent three-dimensionally ordered structure. This ordering, however, does not appear to be deterministic to the extent that chromatin and nonchromatin structures maintain a strict 3-D arrangement. Rather, spatial ordering within the cell nucleus appears to conform to stochastic rather than deterministic spatial relationships. The stochastic nature of organization becomes particularly problematic when any attempt is made to describe the spatial relationship between proteins involved in the regulation of the genome. The CREB–binding protein (CBP) is one such transcriptional regulator that, when visualised by confocal microscopy, reveals a highly punctate staining pattern comprising several hundred individual foci distributed within the nuclear volume. Markers for euchromatic sequences have similar patterns. Surprisingly, in most cases, the predicted one-to-one relationship between transcription factor and chromatin sequence is not observed. Consequently, to understand whether spatial relationships that are not coincident are nonrandom and potentially biologically important, it is necessary to develop statistical approaches. In this study, we report on the development of such an approach and apply it to understanding the role of CBP in mediating chromatin modification and transcriptional regulation. We have used nearest-neighbor distance measurements and probability analyses to study the spatial relationship between CBP and other nuclear subcompartments enriched in transcription factors, chromatin, and splicing factors. Our results demonstrate that CBP has an order of spatial association with other nuclear subcompartments. We observe closer associations between CBP and RNA polymerase II–enriched foci and SC35 speckles than nascent RNA or specific acetylated histones. Furthermore, we find that CBP has a significantly higher probability of being close to its known in vivo substrate histone H4 lysine 5 compared with the closely related H4 lysine 12. This study demonstrates that complex relationships not described by colocalization exist in the interphase nucleus and can be characterized and quantified. The subnuclear distribution of CBP is difficult to reconcile with a model where chromatin organization is the sole determinant of the nuclear organization of proteins that regulate transcription but is consistent with a close link between spatial associations and nuclear functions. PMID:17054391

Diversity and spatial distribution of prokaryotic communities along a sediment vertical profile of a deep-sea mud volcano.

PubMed

Pachiadaki, Maria G; Kallionaki, Argyri; Dählmann, Anke; De Lange, Gert J; Kormas, Konstantinos Ar

2011-10-01

We investigated the top 30-cm sediment prokaryotic community structure in 5-cm spatial resolution, at an active site of the Amsterdam mud volcano, East Mediterranean Sea, based on the 16S rRNA gene diversity. A total of 339 and 526 sequences were retrieved, corresponding to 25 and 213 unique (≥98% similarity) phylotypes of Archaea and Bacteria, respectively, in all depths. The Shannon-Wiener diversity index H was higher for Bacteria (1.92-4.03) than for Archaea (0.99-1.91) and varied differently between the two groups. Archaea were dominated by anaerobic methanotrophs ANME-1, -2 and -3 groups and were related to phylotypes involved in anaerobic oxidation of methane from similar habitats. The much more complex Bacteria community consisted of 20 phylogenetic groups at the phylum/candidate division level. Proteobacteria, in particular δ-Proteobacteria, was the dominant group. In most sediment layers, the dominant phylotypes of both the Archaea and Bacteria communities were found in neighbouring layers, suggesting some overlap in species richness. The similarity of certain prokaryotic communities was also depicted by using four different similarity indices. The direct comparison of the retrieved phylotypes with those from the Kazan mud volcano of the same field revealed that 40.0% of the Archaea and 16.9% of the Bacteria phylotypes are common between the two systems. The majority of these phylotypes are closely related to phylotypes originating from other mud volcanoes, implying a degree of endemicity in these systems.

Expressions for the spherical-wave-structure function based on a bump spectrum model for the index of refraction

NASA Astrophysics Data System (ADS)

Richardson, Christina E.; Andrews, Larry C.

1991-07-01

New spectra models have recently been developed for the spatial power spectra of temperature and refractive index fluctuations in the atmospheric boundary layer showing the characteristic 'bump' just prior to the dissipation ranges. Theoretical work involving these new models has led to new expressions for the phase structure function associated with a plane optical wave, although most experimental work has involved spherical waves. Following techniques similar to those used for the plane wave analysis, new expressions valid in geometrical and diffraction regimes are developed here for the phase structure function of a spherical optical wave propagating through clear-air atmospheric turbulence. Useful asymptotic formulas for small separation distances and the inertial subrange are derived from these general expressions.

The complex roles of space and environment in structuring functional, taxonomic and phylogenetic beta diversity of frogs in the Atlantic Forest

PubMed Central

Luiz, Amom Mendes; Sawaya, Ricardo J.

2018-01-01

Ecological communities are complex entities that can be maintained and structured by niche-based processes such as environmental conditions, and spatial processes such as dispersal. Thus, diversity patterns may be shaped simultaneously at different spatial scales by very distinct processes. Herein we assess whether and how functional, taxonomic, and phylogenetic beta diversities of frog tadpoles are explained by environmental and/or spatial predictors. We implemented a distance–based redundancy analysis to explore variation in components of beta diversity explained by pure environmental and pure spatial predictors, as well as their interactions, at both fine and broad spatial scales. Our results indicated important but complex roles of spatial and environmental predictors in structuring phylogenetic, taxonomic and functional beta diversities. The pure fine-scales spatial fraction was more important in structuring all beta diversity components, especially to functional and taxonomical spatial turnover. Environmental variables such as canopy cover and vegetation structure were important predictors of all components, but especially to functional and taxonomic beta diversity. We emphasize that distinct factors related to environment and space are affecting distinct components of beta diversity in different ways. Although weaker, phylogenetic beta diversity, which is structured more on biogeographical scales, and thus can be represented by spatially structured processes, was more related to broad spatial processes than other components. However, selected fine-scale spatial predictors denoted negative autocorrelation, which may be revealing the existence of differences in unmeasured habitat variables among samples. Although overall important, local environmental-based processes explained better functional and taxonomic beta diversity, as these diversity components carry an important ecological value. We highlight the importance of assessing different components of diversity patterns at different scales by spatially explicit models in order to improve our understanding of community structure and help to unravel the complex nature of biodiversity. PMID:29672575

Hierarchical clustering using correlation metric and spatial continuity constraint

DOEpatents

Stork, Christopher L.; Brewer, Luke N.

2012-10-02

Large data sets are analyzed by hierarchical clustering using correlation as a similarity measure. This provides results that are superior to those obtained using a Euclidean distance similarity measure. A spatial continuity constraint may be applied in hierarchical clustering analysis of images.

Semantic Interference and Facilitation: Understanding the Integration of Spatial Distance and Conceptual Similarity During Sentence Reading.

PubMed

Guerra, Ernesto; Knoeferle, Pia

2018-01-01

Existing evidence has shown a processing advantage (or facilitation) when representations derived from a non-linguistic context (spatial proximity depicted by gambling cards moving together) match the semantic content of an ensuing sentence. A match, inspired by conceptual metaphors such as 'similarity is closeness' would, for instance, involve cards moving closer together and the sentence relates similarity between abstract concepts such as war and battle. However, other studies have reported a disadvantage (or interference) for congruence between the semantic content of a sentence and representations of spatial distance derived from this sort of non-linguistic context. In the present article, we investigate the cognitive mechanisms underlying the interaction between the representations of spatial distance and sentence processing. In two eye-tracking experiments, we tested the predictions of a mechanism that considers the competition, activation, and decay of visually and linguistically derived representations as key aspects in determining the qualitative pattern and time course of that interaction. Critical trials presented two playing cards, each showing a written abstract noun; the cards turned around, obscuring the nouns, and moved either farther apart or closer together. Participants then read a sentence expressing either semantic similarity or difference between these two nouns. When instructed to attend to the nouns on the cards (Experiment 1), participants' total reading times revealed interference between spatial distance (e.g., closeness) and semantic relations (similarity) as soon as the sentence explicitly conveyed similarity. But when instructed to attend to the cards (Experiment 2), cards approaching (vs. moving apart) elicited first interference (when similarity was implicit) and then facilitation (when similarity was made explicit) during sentence reading. We discuss these findings in the context of a competition mechanism of interference and facilitation effects.

A Deep Similarity Metric Learning Model for Matching Text Chunks to Spatial Entities

NASA Astrophysics Data System (ADS)

Ma, K.; Wu, L.; Tao, L.; Li, W.; Xie, Z.

2017-12-01

The matching of spatial entities with related text is a long-standing research topic that has received considerable attention over the years. This task aims at enrich the contents of spatial entity, and attach the spatial location information to the text chunk. In the data fusion field, matching spatial entities with the corresponding describing text chunks has a big range of significance. However, the most traditional matching methods often rely fully on manually designed, task-specific linguistic features. This work proposes a Deep Similarity Metric Learning Model (DSMLM) based on Siamese Neural Network to learn similarity metric directly from the textural attributes of spatial entity and text chunk. The low-dimensional feature representation of the space entity and the text chunk can be learned separately. By employing the Cosine distance to measure the matching degree between the vectors, the model can make the matching pair vectors as close as possible. Mearnwhile, it makes the mismatching as far apart as possible through supervised learning. In addition, extensive experiments and analysis on geological survey data sets show that our DSMLM model can effectively capture the matching characteristics between the text chunk and the spatial entity, and achieve state-of-the-art performance.

Sources of Uncertainty in the Prediction of LAI / fPAR from MODIS

NASA Technical Reports Server (NTRS)

Dungan, Jennifer L.; Ganapol, Barry D.; Brass, James A. (Technical Monitor)

2002-01-01

To explicate the sources of uncertainty in the prediction of biophysical variables over space, consider the general equation: where z is a variable with values on some nominal, ordinal, interval or ratio scale; y is a vector of input variables; u is the spatial support of y and z ; x and u are the spatial locations of y and z , respectively; f is a model and B is the vector of the parameters of this model. Any y or z has a value and a spatial extent which is called its support. Viewed in this way, categories of uncertainty are from variable (e.g. measurement), parameter, positional. support and model (e.g. structural) sources. The prediction of Leaf Area Index (LAI) and the fraction of absorbed photosynthetically active radiation (fPAR) are examples of z variables predicted using model(s) as a function of y variables and spatially constant parameters. The MOD15 algorithm is an example of f, called f(sub 1), with parameters including those defined by one of six biome types and solar and view angles. The Leaf Canopy Model (LCM)2, a nested model that combines leaf radiative transfer with a full canopy reflectance model through the phase function, is a simpler though similar radiative transfer approach to f(sub 1). In a previous study, MOD15 and LCM2 gave similar results for the broadleaf forest biome. Differences between these two models can be used to consider the structural uncertainty in prediction results. In an effort to quantify each of the five sources of uncertainty and rank their relative importance for the LAI/fPAR prediction problem, we used recent data for an EOS Core Validation Site in the broadleaf biome with coincident surface reflectance, vegetation index, fPAR and LAI products from the Moderate Resolution Imaging Spectrometer (MODIS). Uncertainty due to support on the input reflectance variable was characterized using Landsat ETM+ data. Input uncertainties were propagated through the LCM2 model and compared with published uncertainties from the MOD15 algorithm.

Climatic similarity and biological exchange in the worldwide airline transportation network

PubMed Central

Tatem, Andrew J; Hay, Simon I

2007-01-01

Recent increases in the rates of biological invasion and spread of infectious diseases have been linked to the continued expansion of the worldwide airline transportation network (WAN). Here, the global structure of the WAN is analysed in terms of climatic similarity to illuminate the risk of deliberate or accidental movements of climatically sensitive organisms around the world. From over 44 000 flight routes, we show, for each month of an average year, (i) those scheduled routes that link the most spatially distant but climatically similar airports, (ii) the climatically best-connected airports, and (iii) clusters of airports with similar climatic features. The way in which traffic volumes alter these findings is also examined. Climatic similarity across the WAN is skewed (most geographically close airports are climatically similar) but heavy-tailed (there are considerable numbers of geographically distant but climatically similar airports), with climate similarity highest in the June–August period, matching the annual peak in air traffic. Climatically matched, geographically distant airports form subnetworks within the WAN that change throughout the year. Further, the incorporation of passenger and freight traffic data highlight at greater risk of invasion those airports that are climatically well connected by numerous high capacity routes. PMID:17426013

Surface Wave Tomography with Spatially Varying Smoothing Based on Continuous Model Regionalization

NASA Astrophysics Data System (ADS)

Liu, Chuanming; Yao, Huajian

2017-03-01

Surface wave tomography based on continuous regionalization of model parameters is widely used to invert for 2-D phase or group velocity maps. An inevitable problem is that the distribution of ray paths is far from homogeneous due to the spatially uneven distribution of stations and seismic events, which often affects the spatial resolution of the tomographic model. We present an improved tomographic method with a spatially varying smoothing scheme that is based on the continuous regionalization approach. The smoothness of the inverted model is constrained by the Gaussian a priori model covariance function with spatially varying correlation lengths based on ray path density. In addition, a two-step inversion procedure is used to suppress the effects of data outliers on tomographic models. Both synthetic and real data are used to evaluate this newly developed tomographic algorithm. In the synthetic tests, when the contrived model has different scales of anomalies but with uneven ray path distribution, we compare the performance of our spatially varying smoothing method with the traditional inversion method, and show that the new method is capable of improving the recovery in regions of dense ray sampling. For real data applications, the resulting phase velocity maps of Rayleigh waves in SE Tibet produced using the spatially varying smoothing method show similar features to the results with the traditional method. However, the new results contain more detailed structures and appears to better resolve the amplitude of anomalies. From both synthetic and real data tests we demonstrate that our new approach is useful to achieve spatially varying resolution when used in regions with heterogeneous ray path distribution.

Transformation of environmental conditions in large former Soviet countries: regional analysis

NASA Astrophysics Data System (ADS)

Bityukova, V. R.; Borovikov, M. S.

2018-01-01

The article studies changes in the structure of environmental conditions of regions in the large former Soviet countries (case study of Russia and Kazakhstan) that have formed considerable contrasts in the placement of industrial complex and population settlement during the previous development stages. The changes related to the transition to market economy have led to essential transformation of environmental conditions. A complex index allowing to assess changes at the regional level in Kazakhstan and Russia and to reveal main similarities and differences between those changes is applied to studying the transformation of regional and industry structure. The article examines both industry-specific and spatial patterns forming environmental conditions at the regional level.

Self-similar dynamic converging shocks - I. An isothermal gas sphere with self-gravity

NASA Astrophysics Data System (ADS)

Lou, Yu-Qing; Shi, Chun-Hui

2014-07-01

We explore novel self-similar dynamic evolution of converging spherical shocks in a self-gravitating isothermal gas under conceivable astrophysical situations. The construction of such converging shocks involves a time-reversal operation on feasible flow profiles in self-similar expansion with a proper care for the increasing direction of the specific entropy. Pioneered by Guderley since 1942 but without self-gravity so far, self-similar converging shocks are important for implosion processes in aerodynamics, combustion, and inertial fusion. Self-gravity necessarily plays a key role for grossly spherical structures in very broad contexts of astrophysics and cosmology, such as planets, stars, molecular clouds (cores), compact objects, planetary nebulae, supernovae, gamma-ray bursts, supernova remnants, globular clusters, galactic bulges, elliptical galaxies, clusters of galaxies as well as relatively hollow cavity or bubble structures on diverse spatial and temporal scales. Large-scale dynamic flows associated with such quasi-spherical systems (including collapses, accretions, fall-backs, winds and outflows, explosions, etc.) in their initiation, formation, and evolution are likely encounter converging spherical shocks at times. Our formalism lays an important theoretical basis for pertinent astrophysical and cosmological applications of various converging shock solutions and for developing and calibrating numerical codes. As examples, we describe converging shock triggered star formation, supernova explosions, and void collapses.

Approximate spatial reasoning

NASA Technical Reports Server (NTRS)

Dutta, Soumitra

1988-01-01

A model for approximate spatial reasoning using fuzzy logic to represent the uncertainty in the environment is presented. Algorithms are developed which can be used to reason about spatial information expressed in the form of approximate linguistic descriptions similar to the kind of spatial information processed by humans. Particular attention is given to static spatial reasoning.

Implicit transfer of spatial structure in visuomotor sequence learning.

PubMed

Tanaka, Kanji; Watanabe, Katsumi

2014-11-01

Implicit learning and transfer in sequence learning are essential in daily life. Here, we investigated the implicit transfer of visuomotor sequences following a spatial transformation. In the two experiments, participants used trial and error to learn a sequence consisting of several button presses, known as the m×n task (Hikosaka et al., 1995). After this learning session, participants learned another sequence in which the button configuration was spatially transformed in one of the following ways: mirrored, rotated, and random arrangement. Our results showed that even when participants were unaware of the transformation rules, accuracy of transfer session in the mirrored and rotated groups was higher than that in the random group (i.e., implicit transfer occurred). Both those who noticed the transformation rules and those who did not (i.e., explicit and implicit transfer instances, respectively) showed faster performance in the mirrored sequences than in the rotated sequences. Taken together, the present results suggest that people can use their implicit visuomotor knowledge to spatially transform sequences and that implicit transfers are modulated by a transformation cost, similar to that in explicit transfer. Copyright © 2014 Elsevier B.V. All rights reserved.

A High Spatial Resolution Depth Sensing Method Based on Binocular Structured Light

PubMed Central

Yao, Huimin; Ge, Chenyang; Xue, Jianru; Zheng, Nanning

2017-01-01

Depth information has been used in many fields because of its low cost and easy availability, since the Microsoft Kinect was released. However, the Kinect and Kinect-like RGB-D sensors show limited performance in certain applications and place high demands on accuracy and robustness of depth information. In this paper, we propose a depth sensing system that contains a laser projector similar to that used in the Kinect, and two infrared cameras located on both sides of the laser projector, to obtain higher spatial resolution depth information. We apply the block-matching algorithm to estimate the disparity. To improve the spatial resolution, we reduce the size of matching blocks, but smaller matching blocks generate lower matching precision. To address this problem, we combine two matching modes (binocular mode and monocular mode) in the disparity estimation process. Experimental results show that our method can obtain higher spatial resolution depth without loss of the quality of the range image, compared with the Kinect. Furthermore, our algorithm is implemented on a low-cost hardware platform, and the system can support the resolution of 1280 × 960, and up to a speed of 60 frames per second, for depth image sequences. PMID:28397759

Spatio-temporal models of mental processes from fMRI.

PubMed

Janoos, Firdaus; Machiraju, Raghu; Singh, Shantanu; Morocz, Istvan Ákos

2011-07-15

Understanding the highly complex, spatially distributed and temporally organized phenomena entailed by mental processes using functional MRI is an important research problem in cognitive and clinical neuroscience. Conventional analysis methods focus on the spatial dimension of the data discarding the information about brain function contained in the temporal dimension. This paper presents a fully spatio-temporal multivariate analysis method using a state-space model (SSM) for brain function that yields not only spatial maps of activity but also its temporal structure along with spatially varying estimates of the hemodynamic response. Efficient algorithms for estimating the parameters along with quantitative validations are given. A novel low-dimensional feature-space for representing the data, based on a formal definition of functional similarity, is derived. Quantitative validation of the model and the estimation algorithms is provided with a simulation study. Using a real fMRI study for mental arithmetic, the ability of this neurophysiologically inspired model to represent the spatio-temporal information corresponding to mental processes is demonstrated. Moreover, by comparing the models across multiple subjects, natural patterns in mental processes organized according to different mental abilities are revealed. Copyright © 2011 Elsevier Inc. All rights reserved.

Contributions of dorsal striatal subregions to spatial alternation behavior.

PubMed

Moussa, Roula; Poucet, Bruno; Amalric, Marianne; Sargolini, Francesca

2011-07-01

Considerable evidence has shown a clear dissociation between the dorsomedial (DMS) and the dorsolateral (DLS) striatum in instrumental conditioning. In particular, DMS activity is necessary to form action-outcome associations, whereas the DLS is required for developing habitual behavior. However, few studies have investigated whether a similar dissociation exists in more complex goal-directed learning processes. The present study examined the role of the two structures in such complex learning by analyzing the effects of excitotoxic DMS and DLS lesions during the acquisition and extinction of spatial alternation behavior, in a continuous alternation T-maze task. We demonstrate that DMS and DLS lesions have opposite effects, the former impairing and the latter improving animal performance during learning and extinction. DMS lesions may impair the acquisition of spatial alternation behavior by disrupting the signal necessary to link a goal with a specific spatial sequence. In contrast, DLS lesions may accelerate goal-driven strategies by minimizing the influence of external stimuli on the response, thus increasing the impact of action-reward contingencies. Taken together, these results suggest that DMS- and DLS-mediated learning strategies develop in parallel and compete for the control of the behavioral response early in learning.

Parameterized approximation of lacunarity functions derived from airborne laser scanning point clouds of forested areas

NASA Astrophysics Data System (ADS)

Székely, Balázs; Kania, Adam; Varga, Katalin; Heilmeier, Hermann

2017-04-01

Lacunarity, a measure of the spatial distribution of the empty space is found to be a useful descriptive quantity of the forest structure. Its calculation, based on laser-scanned point clouds, results in a four-dimensional data set. The evaluation of results needs sophisticated tools and visualization techniques. To simplify the evaluation, it is straightforward to use approximation functions fitted to the results. The lacunarity function L(r), being a measure of scale-independent structural properties, has a power-law character. Previous studies showed that log(log(L(r))) transformation is suitable for analysis of spatial patterns. Accordingly, transformed lacunarity functions can be approximated by appropriate functions either in the original or in the transformed domain. As input data we have used a number of laser-scanned point clouds of various forests. The lacunarity distribution has been calculated along a regular horizontal grid at various (relative) elevations. The lacunarity data cube then has been logarithm-transformed and the resulting values became the input of parameter estimation at each point (point of interest, POI). This way at each POI a parameter set is generated that is suitable for spatial analysis. The expectation is that the horizontal variation and vertical layering of the vegetation can be characterized by this procedure. The results show that the transformed L(r) functions can be typically approximated by exponentials individually, and the residual values remain low in most cases. However, (1) in most cases the residuals may vary considerably, and (2) neighbouring POIs often give rather differing estimates both in horizontal and in vertical directions, of them the vertical variation seems to be more characteristic. In the vertical sense, the distribution of estimates shows abrupt changes at places, presumably related to the vertical structure of the forest. In low relief areas horizontal similarity is more typical, in higher relief areas horizontal similarity fades out in short distances. Some of the input data have been acquired in the framework of the ChangeHabitats2 project financed by the European Union. BS contributed as an Alexander von Humboldt Research Fellow.

First Time-Resolved Observations of Precipitation Structure and Storm Intensity with a Constellation of Smallsats (TROPICS) Mission Applications Workshop Summary Report

NASA Technical Reports Server (NTRS)

Zavodsky, B.; Dunion, J.; Blackwell, W.; Braun, S.; Velden, C.; Brennan, M.; Adler, R.

2017-01-01

The National Aeronautics and Space Administration (NASA) Time-Resolved Observations of Precipitation structure and storm Intensity with a Constellation of SmallSats (TROPICS) mission is a constellation of state-of-the-science observing platforms that will measure temperature and humidity soundings and precipitation with spatial resolution comparable to current operational passive microwave sounders but with unprecedented temporal resolution. TROPICS is a cost-capped ($30 million) Venture-class mission funded by the NASA Earth Science Division (ESD) and led by principal investigator Dr. William Blackwell from the Massachusetts Institute of Technology Lincoln Laboratory (MIT LL). The mission is comprised of a constellation of six, three-unit (3U) Cube-Sats (approximately 10 by 10 by 34 centimeters), each hosting a 12-channel passive microwave spectrometer based on the Micro-sized Microwave Atmospheric Satellite 2 (MicroMAS-2) developed at MIT LL. TROPICS will provide imagery at frequencies near 91 and 205 gigahertz, temperature sounding near 118 gigahertz, and moisture sounding near 183 gigahertz. Spatial resolution at nadir will be around 27 kilometers for temperature and 17 kilometers for moisture and precipitation with a swath width of approximately 2,000 kilometers. Both the spatial resolution and swath width are similar to the Advanced Technology Microwave Sounder (ATMS) that is being flown as part of the Suomi National Polar-Orbiting Partnership and will fly starting in 2017 on the National Oceanic and Atmospheric Administration (NOAA) Joint Polar Satellite System (JPSS). In addition, TROPICS meets many of the requirements outlined in the 2007 Decadal Survey for the Precision and All-Weather Temperature and Humidity mission, which was originally envisioned as a microwave instrument in geostationary orbit. TROPICS enables temporal resolution similar to geostationary orbit but at a much lower cost, demonstrating a technology that could impact the design of future Earth-observing missions. The satellites for the TROPICS mission are slated for delivery to NASA in 2019 for launches planned no earlier than 2020. The primary mission objective of TROPICS is to relate temperature, humidity, and precipitation structure to the evolution of tropical cyclone (TC) intensity.

Small graben in the southeastern ejecta blanket of the lunar Copernicus crater: Implications for recent shallow igneous intrusion on the Moon

NASA Astrophysics Data System (ADS)

Xiao, Zhiyong; Huang, Qian; Zeng, Zuoxun; Xiao, Long

2017-12-01

Dozens of linear graben that are about 10-400 m wide and less than 1 km long are recognized in the southeastern continuous ejecta deposits of Copernicus, supporting that Copernican-aged tectonism has occurred on the Moon. Fault geometry analysis suggests that the bounding faults of the graben have formed within the ejecta deposits. The graben are exclusively located on a local high-relief area, but they are not formed by mass wasting, because the topographic slope is substantially less than the repose angle of typical lunar materials, and no other extensional structures are visible on similar high-relief areas at the continuous ejecta deposits of Copernicus. The orientations of the graben all point to the center of Copernicus, but the topography of Copernicus is little compensated after formation, suggesting that the graben were not caused by possible crustal isostatic readjustment. This graben system is one of the three examples on the Moon that were interpreted to be caused by shallow igneous intrusions in the format of laccoliths. The currently available GRAIL gravity data have a lower spatial resolution than the size of the graben, so the gravity data cannot resolve the hypothesized sub-kilometer-scale laccoliths beneath the graben. While laccolith intrusion to a depth of about 80 m is required to explain the formation of this graben system, the laccolith intrusion scenario is not consistent with the geological context of the graben. A compressional structure is visible close to the graben system, and their spatial configuration and similar preservation states are consistent with being generically related. A close examination of the other two sets of graben that were also interpreted to have no associated compressional structures actually reveals spatially-related lobate scarps and wrinkle ridges in the vicinity. Therefore, shallow igneous intrusion is not plausible or necessary to explain to formation of Copernican-aged graben on the Moon, and they are most likely formed by the late-stage global contraction of the Moon.

Using neuronal populations to study the mechanisms underlying spatial and feature attention

PubMed Central

Cohen, Marlene R.; Maunsell, John H.R.

2012-01-01

Summary Visual attention affects both perception and neuronal responses. Whether the same neuronal mechanisms mediate spatial attention, which improves perception of attended locations, and non-spatial forms of attention has been a subject of considerable debate. Spatial and feature attention have similar effects on individual neurons. Because visual cortex is retinotopically organized, however, spatial attention can co-modulate local neuronal populations, while feature attention generally requires more selective modulation. We compared the effects of feature and spatial attention on local and spatially separated populations by recording simultaneously from dozens of neurons in both hemispheres of V4. Feature and spatial attention affect the activity of local populations similarly, modulating both firing rates and correlations between pairs of nearby neurons. However, while spatial attention appears to act on local populations, feature attention is coordinated across hemispheres. Our results are consistent with a unified attentional mechanism that can modulate the responses of arbitrary subgroups of neurons. PMID:21689604

Nonlinear Photochromic Switching in the Plasmonic Field of a Nanoparticle Array

NASA Astrophysics Data System (ADS)

Otolski, Christopher J.; Argyropoulos, Christos; Elles, Christopher G.

2017-06-01

Plasmonic nanostructures provide unique environments for non-resonant excitation and switching of photochromic compounds. In this study, photochromic diarylethene molecules were deposited on top of a periodically ordered array of gold nanorods (170 x 80 nm) and then irradiated with <100 fs laser pulses. Irradiation at 800 nm drives the plasmon resonance of the nanoparticle array and induces the photochromic conversion of molecules via non-resonant two-photon excitation. Transmission measurements using broadband continuum laser pulses probe the progress of the photochemical cycloreversion reaction as molecules switch from a visible-absorbing closed-ring structure to a transparent open-ring structure. The spatial dependence of the two-photon conversion of molecules in the plasmonic near field of the array is modeled using calculated field enhancements, and compared with similar measurements for a film of molecules on a glass substrate. Wavelength-dependent polarization effects in the near field of the array lead to interesting anisotropy results in the transmission signal. The results emphasize the importance of both the spatial dependence and anisotropy of the enhanced electric fields in driving non-resonant photochromic reactions.

Benchmark measurements and calculations of a 3-dimensional neutron streaming experiment

NASA Astrophysics Data System (ADS)

Barnett, D. A., Jr.

1991-02-01

An experimental assembly known as the Dog-Legged Void assembly was constructed to measure the effect of neutron streaming in iron and void regions. The primary purpose of the measurements was to provide benchmark data against which various neutron transport calculation tools could be compared. The measurements included neutron flux spectra at four places and integral measurements at two places in the iron streaming path as well as integral measurements along several axial traverses. These data have been used in the verification of Oak Ridge National Laboratory's three-dimensional discrete ordinates code, TORT. For a base case calculation using one-half inch mesh spacing, finite difference spatial differencing, an S(sub 16) quadrature and P(sub 1) cross sections in the MUFT multigroup structure, the calculated solution agreed to within 18 percent with the spectral measurements and to within 24 percent of the integral measurements. Variations on the base case using a fewgroup energy structure and P(sub 1) and P(sub 3) cross sections showed similar agreement. Calculations using a linear nodal spatial differencing scheme and fewgroup cross sections also showed similar agreement. For the same mesh size, the nodal method was seen to require 2.2 times as much CPU time as the finite difference method. A nodal calculation using a typical mesh spacing of 2 inches, which had approximately 32 times fewer mesh cells than the base case, agreed with the measurements to within 34 percent and yet required on 8 percent of the CPU time.

Impact of Spatial Scales on the Intercomparison of Climate Scenarios

DOE Office of Scientific and Technical Information (OSTI.GOV)

Luo, Wei; Steptoe, Michael; Chang, Zheng

2017-01-01

Scenario analysis has been widely applied in climate science to understand the impact of climate change on the future human environment, but intercomparison and similarity analysis of different climate scenarios based on multiple simulation runs remain challenging. Although spatial heterogeneity plays a key role in modeling climate and human systems, little research has been performed to understand the impact of spatial variations and scales on similarity analysis of climate scenarios. To address this issue, the authors developed a geovisual analytics framework that lets users perform similarity analysis of climate scenarios from the Global Change Assessment Model (GCAM) using a hierarchicalmore » clustering approach.« less

Structural features of resorcinol-formaldehyde resin chars and interfacial behavior of water co-adsorbed with low-molecular weight organics

NASA Astrophysics Data System (ADS)

Gun'ko, Vladimir M.; Bogatyrov, Viktor M.; Turov, Vladimir V.; Leboda, Roman; Skubiszewska-Zięba, Jadwiga; Urubkov, Iliya V.

2013-10-01

Products of resorcinol-formaldehyde resin carbonization (chars) are characterized by different morphology (particle shape and sizes) and texture (specific surface area, pore volume and pore size distribution) depending on water content during resin polymerization. At a low amount of water (Cw = 37.8 wt.%) during synthesis resulting in strongly cross-linked polymers, carbonization gives nonporous particles. An increase in the water content to 62.7 wt.% results in a nano/mesoporous char, but if Cw = 73.3 wt.%, a char is purely nanoporous. Despite these textural differences, the Raman spectra of all the chars are similar because of the similarity in the structure of their carbon sheets with a significant contribution of sp3 C atoms. However, the difference in the spatial organization of the carbon sheet stacks in the particles results in the significant differences in the textural and morphological characteristics and in the adsorption properties of chars with respect to water, methane, benzene, hydrogen, methylene chloride, and dimethylsulfoxide.

Limiting similarity and niche theory for structured populations.

PubMed

Szilágyi, András; Meszéna, Géza

2009-05-07

We develop the theory of limiting similarity and niche for structured populations with finite number of individual states (i-state). In line with a previously published theory for unstructured populations, the niche of a species is specified by the impact and sensitivity niche vectors. They describe the population's impact on and sensitivity towards the variables involved in the population regulation. Robust coexistence requires sufficient segregation of the impact, as well as of the sensitivity niche vectors. Connection between the population-level impact and sensitivity and the impact/sensitivity of the specific i-states is developed. Each i-state contributes to the impact of the population proportional to its frequency in the population. Sensitivity of the population is composed of the sensitivity of the rates of demographic transitions, weighted by the frequency and by the reproductive value of the initial and final i-states of the transition, respectively. Coexistence in a multi-patch environment is studied. This analysis is interpreted as spatial niche segregation.

Coastal habitats as surrogates for taxonomic, functional and trophic structures of benthic faunal communities.

PubMed

Törnroos, Anna; Nordström, Marie C; Bonsdorff, Erik

2013-01-01

Due to human impact, there is extensive degradation and loss of marine habitats, which calls for measures that incorporate taxonomic as well as functional and trophic aspects of biodiversity. Since such data is less easily quantifiable in nature, the use of habitats as surrogates or proxies for biodiversity is on the rise in marine conservation and management. However, there is a critical gap in knowledge of whether pre-defined habitat units adequately represent the functional and trophic structure of communities. We also lack comparisons of different measures of community structure in terms of both between- (β) and within-habitat (α) variability when accounting for species densities. Thus, we evaluated a priori defined coastal habitats as surrogates for traditional taxonomic, functional and trophic zoobenthic community structure. We focused on four habitats (bare sand, canopy-forming algae, seagrass above- and belowground), all easily delineated in nature and defined through classification systems. We analyzed uni- and multivariate data on species and trait diversity as well as stable isotope ratios of benthic macrofauna. A good fit between habitat types and taxonomic and functional structure was found, although habitats were more similar functionally. This was attributed to within-habitat heterogeneity so when habitat divisions matched the taxonomic structure, only bare sand was functionally distinct. The pre-defined habitats did not meet the variability of trophic structure, which also proved to differentiate on a smaller spatial scale. The quantification of trophic structure using species density only identified an epi- and an infaunal unit. To summarize the results we present a conceptual model illustrating the match between pre-defined habitat types and the taxonomic, functional and trophic community structure. Our results show the importance of including functional and trophic aspects more comprehensively in marine management and spatial planning.

How structure sculpts function: Unveiling the contribution of anatomical connectivity to the brain's spontaneous correlation structure

NASA Astrophysics Data System (ADS)

Bettinardi, R. G.; Deco, G.; Karlaftis, V. M.; Van Hartevelt, T. J.; Fernandes, H. M.; Kourtzi, Z.; Kringelbach, M. L.; Zamora-López, G.

2017-04-01

Intrinsic brain activity is characterized by highly organized co-activations between different regions, forming clustered spatial patterns referred to as resting-state networks. The observed co-activation patterns are sustained by the intricate fabric of millions of interconnected neurons constituting the brain's wiring diagram. However, as for other real networks, the relationship between the connectional structure and the emergent collective dynamics still evades complete understanding. Here, we show that it is possible to estimate the expected pair-wise correlations that a network tends to generate thanks to the underlying path structure. We start from the assumption that in order for two nodes to exhibit correlated activity, they must be exposed to similar input patterns from the entire network. We then acknowledge that information rarely spreads only along a unique route but rather travels along all possible paths. In real networks, the strength of local perturbations tends to decay as they propagate away from the sources, leading to a progressive attenuation of the original information content and, thus, of their influence. Accordingly, we define a novel graph measure, topological similarity, which quantifies the propensity of two nodes to dynamically correlate as a function of the resemblance of the overall influences they are expected to receive due to the underlying structure of the network. Applied to the human brain, we find that the similarity of whole-network inputs, estimated from the topology of the anatomical connectome, plays an important role in sculpting the backbone pattern of time-average correlations observed at rest.

Management intensity at field and landscape levels affects the structure of generalist predator communities.

PubMed

Rusch, Adrien; Birkhofer, Klaus; Bommarco, Riccardo; Smith, Henrik G; Ekbom, Barbara

2014-07-01

Agricultural intensification is recognised as a major driver of biodiversity loss in human-modified landscapes. Several agro-environmental measures at different spatial scales have been suggested to mitigate the negative impact of intensification on biodiversity and ecosystem services. The effect of these measures on the functional structure of service-providing communities remains, however, largely unexplored. Using two distinct landscape designs, we examined how the management options of organic farming at the field scale and crop diversification at the landscape level affect the taxonomic and functional structure of generalist predator communities and how these effects vary along a landscape complexity gradient. Organic farming as well as landscapes with longer and more diversified crop rotations enhanced the activity-density of spiders and rove beetles, but not the species richness or evenness. Our results indicate that the two management options affected the functional composition of communities, as they primarily enhanced the activity-density of functionally similar species. The two management options increased the functional similarity between spider species in regards to hunting mode and habitat preference. Organic farming enhanced the functional similarity of rove beetles. Management options at field and landscape levels were generally more important predictors of community structure when compared to landscape complexity. Our study highlights the importance of considering the functional composition of generalist predators in order to understand how agro-environmental measures at various scales shape community assemblages and ecosystem functioning in agricultural landscapes.

Functional Equivalence of Spatial Images from Touch and Vision: Evidence from Spatial Updating in Blind and Sighted Individuals

PubMed Central

Giudice, Nicholas A.; Betty, Maryann R.; Loomis, Jack M.

2012-01-01

This research examines whether visual and haptic map learning yield functionally equivalent spatial images in working memory, as evidenced by similar encoding bias and updating performance. In three experiments, participants learned four-point routes either by seeing or feeling the maps. At test, blindfolded participants made spatial judgments about the maps from imagined perspectives that were either aligned or misaligned with the maps as represented in working memory. Results from Experiments 1 and 2 revealed a highly similar pattern of latencies and errors between visual and haptic conditions. These findings extend the well known alignment biases for visual map learning to haptic map learning, provide further evidence of haptic updating, and most importantly, show that learning from the two modalities yields very similar performance across all conditions. Experiment 3 found the same encoding biases and updating performance with blind individuals, demonstrating that functional equivalence cannot be due to visual recoding and is consistent with an amodal hypothesis of spatial images. PMID:21299331

Informing disease models with temporal and spatial contact structure among GPS-collared individuals in wild populations.

PubMed

Williams, David M; Dechen Quinn, Amy C; Porter, William F

2014-01-01

Contacts between hosts are essential for transmission of many infectious agents. Understanding how contacts, and thus transmission rates, occur in space and time is critical to effectively responding to disease outbreaks in free-ranging animal populations. Contacts between animals in the wild are often difficult to observe or measure directly. Instead, one must infer contacts from metrics such as proximity in space and time. Our objective was to examine how contacts between white-tailed deer (Odocoileus virginianus) vary in space and among seasons. We used GPS movement data from 71 deer in central New York State to quantify potential direct contacts between deer and indirect overlap in space use across time and space. Daily probabilities of direct contact decreased from winter (0.05-0.14), to low levels post-parturition through summer (0.00-0.02), and increased during the rut to winter levels. The cumulative distribution for the spatial structure of direct and indirect contact probabilities around a hypothetical point of occurrence increased rapidly with distance for deer pairs separated by 1,000 m-7,000 m. Ninety-five percent of the probabilities of direct contact occurred among deer pairs within 8,500 m of one another, and 99% within 10,900 m. Probabilities of indirect contact accumulated across greater spatial extents: 95% at 11,900 m and 99% at 49,000 m. Contacts were spatially consistent across seasons, indicating that although contact rates differ seasonally, they occur proportionally across similar landscape extents. Distributions of contact probabilities across space can inform management decisions for assessing risk and allocating resources in response.

Anchoring TGF-β1 on biomaterial surface via affinitive interactions: Effects on spatial structures and bioactivity.

PubMed

Xiao, Meng; Xiao, Jiangwei; Wu, Gang; Ke, Yu; Fang, Liming; Deng, Chunlin; Liao, Hua

2018-06-01

Protein adsorption on biomaterial surfaces is clinically applied to increase therapeutic effects; however, this adsorption is possibly accompanied by conformational changes and results in loss of protein bioactivity or adverse reactions. In this research, a transforming growth factor β1 (TGF-β1) affinitive peptide HSNGLPL was grafted onto biopolymer surface to stabilize TGF-β1 spatial conformation after adhesion. The peptide with azide end group was combined with the propynyl pendant group on polyurethane via copper-catalyzed azide-alkyne cycloaddition (CuAAC) click reaction. The final polymer was characterized by Fourier transform infrared spectroscopy and proton nuclear magnetic resonance spectroscopy, which indicated that the affinitive peptide was introduced to the polymer. Quartz crystal microbalance with dissipation (QCM-D) was performed to monitor TGF-β1 adsorption and desorption on the surfaces coated with polyurethane with and without peptide combination. Results showed that TGF-β1 adhered on polyurethane surface and formed a compact and rigid layer. This layer showed spatial structural change but presented a loose and diffuse layer on the peptide-grafted polyurethane surface, indicating stable spatial conformation after adherence. Similar regulations were observed on the two surfaces where BSA layer was coated in advance. In vivo animal experiments revealed that immune reactions and tissue regenerations occurred earlier on peptide-modified polyurethane than on polyurethane, which did not undergo peptide grafting. This finding confirmed that affinitive interactions may preserve TGF-β1 bioactivity on polymer surface after adsorption. Copyright © 2018 Elsevier B.V. All rights reserved.

Role of structural defects in the ultraviolet luminescence of multiwall boron nitride nanotubes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pierret, Aurélie; Nong, Hanond; Fossard, Frédéric

2015-12-21

BN nanotubes (BNNTs) are structurally similar to their carbon counterparts, though much less investigated. New synthesis methods have been recently reported, enabling the production of industrial quantities and stimulating the search of new applications for the BNNTs. In this paper, we investigate the luminescence of multiwall BNNTs. By performing cathodoluminescence experiments on single tubes at 10 K, we show that the tube luminescence is highly heterogeneous (i) from tube to tube and (ii) spatially along a single tube. By combining cathodoluminescence measurements with a nanometer excitation and transmission electron microscopy on the same tube, we correlate luminescence and structural features. Wemore » conclude that the near-band-edge luminescence of BNNTs (≈5.4 eV) is related to the presence of extended structural defects, such as dislocations or ruptures in the wall stacking.« less

Formation of proto-multiple systems in a magnetized, fragmenting filament

NASA Astrophysics Data System (ADS)

Hull, Charles L. H.

2016-01-01

In just the past few years, it has become clear that filamentary structure is present in the star-formation process across many orders of magnitude in spatial scale, from the galactic scales probed by Planck and Herschel all the way down to the AU-scale structures that ALMA has revealed within protoplanetary disks. A similar story can be told of magnetic fields, which play a role in star formation across the same vast range of size scales. Here I will show filamentary structure near three protostars in the Serpens Main star-forming region, as seen with both CARMA (at 1000 AU scales) and ALMA (at 150 AU scales!). Even at such high resolution, these sources have a number of nearby, filamentary blobs/condensations/companions, which may be the beginnings of multiple star systems. Additionally, the filamentary structures along which these companions lie coincide in a tantalizing way with the magnetic fields we mapped with CARMA.

EEG resolutions in detecting and decoding finger movements from spectral analysis

PubMed Central

Xiao, Ran; Ding, Lei

2015-01-01

Mu/beta rhythms are well-studied brain activities that originate from sensorimotor cortices. These rhythms reveal spectral changes in alpha and beta bands induced by movements of different body parts, e.g., hands and limbs, in electroencephalography (EEG) signals. However, less can be revealed in them about movements of different fine body parts that activate adjacent brain regions, such as individual fingers from one hand. Several studies have reported spatial and temporal couplings of rhythmic activities at different frequency bands, suggesting the existence of well-defined spectral structures across multiple frequency bands. In the present study, spectral principal component analysis (PCA) was applied on EEG data, obtained from a finger movement task, to identify cross-frequency spectral structures. Features from identified spectral structures were examined in their spatial patterns, cross-condition pattern changes, detection capability of finger movements from resting, and decoding performance of individual finger movements in comparison to classic mu/beta rhythms. These new features reveal some similar, but more different spatial and spectral patterns as compared with classic mu/beta rhythms. Decoding results further indicate that these new features (91%) can detect finger movements much better than classic mu/beta rhythms (75.6%). More importantly, these new features reveal discriminative information about movements of different fingers (fine body-part movements), which is not available in classic mu/beta rhythms. The capability in decoding fingers (and hand gestures in the future) from EEG will contribute significantly to the development of non-invasive BCI and neuroprosthesis with intuitive and flexible controls. PMID:26388720

Genetics of Central Valley O. mykiss populations: drainage and watershed scale analyses

USGS Publications Warehouse

Nielsen, Jennifer L.; Pavey, Scott A.; Wiacek, Talia; Williams, Ian S.

2005-01-01

Genetic variation at 11 microsatellite loci described population genetic structure for Oncorhynchus mykiss in the Central Valley, California. Spatial and temporal variation was examined as well as relationships between hatchery and putative natural spawning anadromous stocks. Genetic diversity was analyzed at two distinct spatial scales: fine-scale within drainage for five populations on Clear Creek; between and among drainage diversity for 23 populations. Significant regional spatial structure was apparent, both within Clear Creek and among rainbow trout populations throughout the Central Valley. Significant differences in allelic frequencies were found among most river or drainage systems. Less than 1% of the molecular variance could be attributed to differences found between drainages. Hatchery populations were shown to carry similar genetic diversity to geographically proximate wild populations. Central Valley M = 0.626 (below the M < 0.68 threshold) supported recent population reductions within the Central Valley. However, average estimated effective population size was relatively high (Ne = 5066). Significant allelic differences were found in rainbow trout collected above and below impassable dams on the American, Yuba, Stanislaus and Tuolumne rivers. Rainbow trout sampled in Spring Creek were extremely bottlenecked with allelic variation at only two loci and an estimated effective population size of 62, suggesting some local freshwater O. mykiss stocks may be declining rapidly. These data support significant genetic population structure for steelhead and rainbow trout populations within the Central Valley across multiple scales. Careful consideration of this genetic diversity and its distribution across the landscape should be part of future conservation and restoration efforts. 

Using demographic characteristics of populations to detect spatial fragmentation following suspected ebola outbreaks in great apes.

PubMed

Genton, Céline; Cristescu, Romane; Gatti, Sylvain; Levréro, Florence; Bigot, Elodie; Motsch, Peggy; Le Gouar, Pascaline; Pierre, Jean-Sébastien; Ménard, Nelly

2017-09-01

Demographic crashes due to emerging diseases can contribute to population fragmentation and increase extinction risk of small populations. Ebola outbreaks in 2002-2004 are suspected to have caused a decline of more than 80% in some Western lowland gorilla (Gorilla gorilla gorilla) populations. We investigated whether demographic indicators of this event allowed for the detection of spatial fragmentation in gorilla populations. We collected demographic data from two neighbouring populations: the Lokoué population, suspected to have been affected by an Ebola outbreak (followed from 2001 to 2014), and the Romani population, of unknown demographic status before Ebola outbreaks (followed from 2005 to 2014). Ten years after the outbreak, the Lokoué population is slowly recovering and the short-term demographic indicators of a population crash were no longer detectable. The Lokoué population has not experienced any additional demographic perturbation over the past decade. The Romani population did not show any of the demographic indicators of a population crash over the past decade. Its demographic structure remained similar to that of unaffected populations. Our results highlighted that the Ebola disease could contribute to fragmentation of gorilla populations due to the spatially heterogeneous impact of its outbreaks. The demographic structure of populations (i.e., age-sex and group structure) can be useful indicators of a possible occurrence of recent Ebola outbreaks in populations without known history, and may be more broadly used in other emerging disease/species systems. Longitudinal data are critical to our understanding of the impact of emerging diseases on wild populations and their conservation. © 2017 Wiley Periodicals, Inc.

Genes mirror geography in Daphnia magna.

PubMed

Fields, Peter D; Reisser, Céline; Dukić, Marinela; Haag, Christoph R; Ebert, Dieter

2015-09-01

Identifying the presence and magnitude of population genetic structure remains a major consideration in evolutionary biology as doing so allows one to understand the demographic history of a species as well as make predictions of how the evolutionary process will proceed. Next-generation sequencing methods allow us to reconsider previous ideas and conclusions concerning the distribution of genetic variation, and what this distribution implies about a given species evolutionary history. A previous phylogeographic study of the crustacean Daphnia magna suggested that, despite strong genetic differentiation among populations at a local scale, the species shows only moderate genetic structure across its European range, with a spatially patchy occurrence of individual lineages. We apply RAD sequencing to a sample of D. magna collected across a wide swath of the species' Eurasian range and analyse the data using principle component analysis (PCA) of genetic variation and Procrustes analytical approaches, to quantify spatial genetic structure. We find remarkable consistency between the first two PCA axes and the geographic coordinates of individual sampling points, suggesting that, on a continent-wide scale, genetic differentiation is driven to a large extent by geographic distance. The observed pattern is consistent with unimpeded (i.e. no barriers, landscape or otherwise) migration at large spatial scales, despite the fragmented and patchy nature of favourable habitats at local scales. With high-resolution genetic data similar patterns may be uncovered for other species with wide geographic distributions, allowing an increased understanding of how genetic drift and selection have shaped their evolutionary history. © 2015 John Wiley & Sons Ltd.

CARd-3D: Carbon Distribution in 3D Structure Program for Globular Proteins

PubMed Central

Ekambaram, Rajasekaran; Kannaiyan, Akila; Marimuthu, Vijayasarathy; Swaminathan, Vinobha Chinnaiah; Renganathan, Senthil; Perumal, Ananda Gopu

2014-01-01

Spatial arrangement of carbon in protein structure is analyzed here. Particularly, the carbon fractions around individual atoms are compared. It is hoped that it follows the principle of 31.45% carbon around individual atoms. The results reveal that globular protein's atoms follow this principle. A comparative study on monomer versus dimer reveal that carbon is better distributed in dimeric form than in its monomeric form. Similar study on solid versus liquid structures reveals that the liquid (NMR) structure has better carbon distribution over the corresponding solid (X-Ray) structure. The carbon fraction distributions in fiber and toxin protein are compared. Fiber proteins follow the principle of carbon fraction distribution. At the same time it has another broad spectrum of carbon distribution than in globular proteins. The toxin protein follows an abnormal carbon fraction distribution. The carbon fraction distribution plays an important role in deciding the structure and shape of proteins. It is hoped to help in understanding the protein folding and function. PMID:24748753

Formation of periodic surface structures on dielectrics after irradiation with laser beams of spatially variant polarisation: a comparative study

NASA Astrophysics Data System (ADS)

Papadopoulos, Antonis; Skoulas, Evangelos; Tsibidis, George D.; Stratakis, Emmanuel

2018-02-01

A comparative study is performed to explore the periodic structure formation upon intense femtosecond-pulsed irradiation of dielectrics with radially and azimuthally polarised beams. Laser conditions have been selected appropriately to produce excited carriers with densities below the optical breakdown threshold in order to highlight the role of phase transitions in surface modification mechanisms. The frequency of the laser-induced structures is calculated based on a theoretical model that comprises estimation of electron density excitation, heat transfer, relaxation processes, and hydrodynamics-related mass transport. The influence of the laser wavelength in the periodicity of the structures is also unveiled. The decreased energy absorption for azimuthally polarised beams yields periodic structures with smaller frequencies which are more pronounced as the number of laser pulses applied to the irradiation spot increases. Similar results are obtained for laser pulses of larger photon energy and higher fluences. All induced periodic structures are oriented parallel to the laser beam polarisation.

Structure based comprehensive modelling, spatial fingerprints mapping and ADME screening of curcumin analogues as novel ALR2 inhibitors

PubMed Central

Verma, Sant Kumar

2017-01-01

Aldose reductase (ALR2) inhibition is the most legitimate approach for the management of diabetic complications. The limited triumph in the drug development against ALR2 is mainly because of its close structural similarity with the other members of aldo-keto reductase (AKR) superfamily viz. ALR1, AKR1B10; and lipophilicity problem i.e. poor diffusion of synthetic aldose reductase inhibitors (ARIs) to target tissues. The literature evidenced that naturally occurring curcumin demonstrates relatively specific and non-competitive inhibition towards human recombinant ALR2 over ALR1 and AKR1B10; however β-diketone moiety of curcumin is a specific substrate for liver AKRs and accountable for it’s rapid in vivo metabolism. In the present study, structure based comprehensive modelling studies were used to map the pharmacophoric features/spatial fingerprints of curcumin analogues responsible for their ALR2 specificity along with potency on a data set of synthetic curcumin analogues and naturally occurring curcuminoids. The data set molecules were also screened for drug-likeness or ADME parameters, and the screening data strongly support that curcumin analogues could be proposed as a good drug candidate for the development of ALR2 inhibitors with improved pharmacokinetic profile compared to curcuminoids due to the absence of β-diketone moiety in their structural framework. PMID:28399135

Structural whole-brain covariance of the anterior and posterior hippocampus: Associations with age and memory.

PubMed

Nordin, Kristin; Persson, Jonas; Stening, Eva; Herlitz, Agneta; Larsson, Elna-Marie; Söderlund, Hedvig

2018-02-01

The hippocampus (HC) interacts with distributed brain regions to support memory and shows significant volume reductions in aging, but little is known about age effects on hippocampal whole-brain structural covariance. It is also unclear whether the anterior and posterior HC show similar or distinct patterns of whole-brain covariance and to what extent these are related to memory functions organized along the hippocampal longitudinal axis. Using the multivariate approach partial least squares, we assessed structural whole-brain covariance of the HC in addition to regional volume, in young, middle-aged and older adults (n = 221), and assessed associations with episodic and spatial memory. Based on findings of sex differences in both memory and brain aging, we further considered sex as a potential modulating factor of age effects. There were two main covariance patterns: one capturing common anterior and posterior covariance, and one differentiating the two regions by capturing anterior-specific covariance only. These patterns were differentially related to associative memory while unrelated to measures of single-item memory and spatial memory. Although patterns were qualitatively comparable across age groups, participants' expression of both patterns decreased with age, independently of sex. The results suggest that the organization of hippocampal structural whole-brain covariance remains stable across age, but that the integrity of these networks decreases as the brain undergoes age-related alterations. © 2017 Wiley Periodicals, Inc.

Functional analysis of limb enhancers in the developing fin

PubMed Central

Booker, Betty M.; Murphy, Karl K.

2013-01-01

Despite diverging ~365 million years ago, tetrapod limbs and pectoral fins express similar genes that could be regulated by shared regulatory elements. In this study, we set out to analyze the ability of enhancers to maintain tissue specificity in these two divergent structures. We tested 22 human sequences that were previously reported as mouse limb enhancers for their enhancer activity in zebrafish (Danio rerio). Using a zebrafish enhancer assay, we found that 10/22 (45 %) were positive for pectoral fin activity. Analysis of the various criteria that correlated with positive fin activity found that both spatial limb activity and evolutionary conservation are not good predictors of fin enhancer activity. These results suggest that zebrafish enhancer assays may be limited in detecting human limb enhancers, and this limitation does not improve by the use of limb spatial expression or evolutionary conservation. PMID:24068387

A spatial epidemiological analysis of self-rated mental health in the slums of Dhaka

PubMed Central

2011-01-01

Background The deprived physical environments present in slums are well-known to have adverse health effects on their residents. However, little is known about the health effects of the social environments in slums. Moreover, neighbourhood quantitative spatial analyses of the mental health status of slum residents are still rare. The aim of this paper is to study self-rated mental health data in several slums of Dhaka, Bangladesh, by accounting for neighbourhood social and physical associations using spatial statistics. We hypothesised that mental health would show a significant spatial pattern in different population groups, and that the spatial patterns would relate to spatially-correlated health-determining factors (HDF). Methods We applied a spatial epidemiological approach, including non-spatial ANOVA/ANCOVA, as well as global and local univariate and bivariate Moran's I statistics. The WHO-5 Well-being Index was used as a measure of self-rated mental health. Results We found that poor mental health (WHO-5 scores < 13) among the adult population (age ≥15) was prevalent in all slum settlements. We detected spatially autocorrelated WHO-5 scores (i.e., spatial clusters of poor and good mental health among different population groups). Further, we detected spatial associations between mental health and housing quality, sanitation, income generation, environmental health knowledge, education, age, gender, flood non-affectedness, and selected properties of the natural environment. Conclusions Spatial patterns of mental health were detected and could be partly explained by spatially correlated HDF. We thereby showed that the socio-physical neighbourhood was significantly associated with health status, i.e., mental health at one location was spatially dependent on the mental health and HDF prevalent at neighbouring locations. Furthermore, the spatial patterns point to severe health disparities both within and between the slums. In addition to examining health outcomes, the methodology used here is also applicable to residuals of regression models, such as helping to avoid violating the assumption of data independence that underlies many statistical approaches. We assume that similar spatial structures can be found in other studies focussing on neighbourhood effects on health, and therefore argue for a more widespread incorporation of spatial statistics in epidemiological studies. PMID:21599932

Digital Speckle Photography of Subpixel Displacements of Speckle Structures Based on Analysis of Their Spatial Spectra

NASA Astrophysics Data System (ADS)

Maksimova, L. A.; Ryabukho, P. V.; Mysina, N. Yu.; Lyakin, D. V.; Ryabukho, V. P.

2018-04-01

We have investigated the capabilities of the method of digital speckle interferometry for determining subpixel displacements of a speckle structure formed by a displaceable or deformable object with a scattering surface. An analysis of spatial spectra of speckle structures makes it possible to perform measurements with a subpixel accuracy and to extend the lower boundary of the range of measurements of displacements of speckle structures to the range of subpixel values. The method is realized on the basis of digital recording of the images of undisplaced and displaced speckle structures, their spatial frequency analysis using numerically specified constant phase shifts, and correlation analysis of spatial spectra of speckle structures. Transformation into the frequency range makes it possible to obtain quantities to be measured with a subpixel accuracy from the shift of the interference-pattern minimum in the diffraction halo by introducing an additional phase shift into the complex spatial spectrum of the speckle structure or from the slope of the linear plot of the function of accumulated phase difference in the field of the complex spatial spectrum of the displaced speckle structure. The capabilities of the method have been investigated in natural experiment.

Form and function of topologically associating genomic domains in budding yeast.

PubMed

Eser, Umut; Chandler-Brown, Devon; Ay, Ferhat; Straight, Aaron F; Duan, Zhijun; Noble, William Stafford; Skotheim, Jan M

2017-04-11

The genome of metazoan cells is organized into topologically associating domains (TADs) that have similar histone modifications, transcription level, and DNA replication timing. Although similar structures appear to be conserved in fission yeast, computational modeling and analysis of high-throughput chromosome conformation capture (Hi-C) data have been used to argue that the small, highly constrained budding yeast chromosomes could not have these structures. In contrast, herein we analyze Hi-C data for budding yeast and identify 200-kb scale TADs, whose boundaries are enriched for transcriptional activity. Furthermore, these boundaries separate regions of similarly timed replication origins connecting the long-known effect of genomic context on replication timing to genome architecture. To investigate the molecular basis of TAD formation, we performed Hi-C experiments on cells depleted for the Forkhead transcription factors, Fkh1 and Fkh2, previously associated with replication timing. Forkhead factors do not regulate TAD formation, but do promote longer-range genomic interactions and control interactions between origins near the centromere. Thus, our work defines spatial organization within the budding yeast nucleus, demonstrates the conserved role of genome architecture in regulating DNA replication, and identifies a molecular mechanism specifically regulating interactions between pericentric origins.

Spatial Query for Planetary Data

NASA Technical Reports Server (NTRS)

Shams, Khawaja S.; Crockett, Thomas M.; Powell, Mark W.; Joswig, Joseph C.; Fox, Jason M.

2011-01-01

Science investigators need to quickly and effectively assess past observations of specific locations on a planetary surface. This innovation involves a location-based search technology that was adapted and applied to planetary science data to support a spatial query capability for mission operations software. High-performance location-based searching requires the use of spatial data structures for database organization. Spatial data structures are designed to organize datasets based on their coordinates in a way that is optimized for location-based retrieval. The particular spatial data structure that was adapted for planetary data search is the R+ tree.

An Optical Flow-Based Full Reference Video Quality Assessment Algorithm.

PubMed

K, Manasa; Channappayya, Sumohana S

2016-06-01

We present a simple yet effective optical flow-based full-reference video quality assessment (FR-VQA) algorithm for assessing the perceptual quality of natural videos. Our algorithm is based on the premise that local optical flow statistics are affected by distortions and the deviation from pristine flow statistics is proportional to the amount of distortion. We characterize the local flow statistics using the mean, the standard deviation, the coefficient of variation (CV), and the minimum eigenvalue ( λ min ) of the local flow patches. Temporal distortion is estimated as the change in the CV of the distorted flow with respect to the reference flow, and the correlation between λ min of the reference and of the distorted patches. We rely on the robust multi-scale structural similarity index for spatial quality estimation. The computed temporal and spatial distortions, thus, are then pooled using a perceptually motivated heuristic to generate a spatio-temporal quality score. The proposed method is shown to be competitive with the state-of-the-art when evaluated on the LIVE SD database, the EPFL Polimi SD database, and the LIVE Mobile HD database. The distortions considered in these databases include those due to compression, packet-loss, wireless channel errors, and rate-adaptation. Our algorithm is flexible enough to allow for any robust FR spatial distortion metric for spatial distortion estimation. In addition, the proposed method is not only parameter-free but also independent of the choice of the optical flow algorithm. Finally, we show that the replacement of the optical flow vectors in our proposed method with the much coarser block motion vectors also results in an acceptable FR-VQA algorithm. Our algorithm is called the flow similarity index.

Mesoscale Raised Rim Depressions (MRRDs) on Earth: A Review of the Characteristics, Processes, and Spatial Distributions of Analogs for Mars

NASA Technical Reports Server (NTRS)

Burr, Devon M.; Bruno, Barbara C.; Lanagan, Peter D.; Glaze, Lori; Jaeger, Windy L.; Soare, Richard J.; Tseung, Jean-Michel Wan Bun; Skinner, James A. Jr.; Baloga, Stephen M.

2008-01-01

Fields of mesoscale raised rim depressions (MRRDs) of various origins are found on Earth and Mars. Examples include rootless cones, mud volcanoes, collapsed pingos, rimmed kettle holes, and basaltic ring structures. Correct identification of MRRDs on Mars is valuable because different MRRD types have different geologic and/or climatic implications and are often associated with volcanism and/or water, which may provide locales for biotic or prebiotic activity. In order to facilitate correct identification of fields of MRRDs on Mars and their implications, this work provides a review of common terrestrial MRRD types that occur in fields. In this review, MRRDs by formation mechanism, including hydrovolcanic (phreatomagmatic cones, basaltic ring structures), sedimentological (mud volcanoes), and ice-related (pingos, volatile ice-block forms) mechanisms. For each broad mechanism, we present a comparative synopsis of (i) morphology and observations, (ii) physical formation processes, and (iii) published hypothesized locations on Mars. Because the morphology for MRRDs may be ambiguous, an additional tool is provided for distinguishing fields of MRRDs by origin on Mars, namely, spatial distribution analyses for MRRDs within fields on Earth. We find that MRRDs have both distinguishing and similar characteristics, and observation that applies both to their mesoscale morphology and to their spatial distribution statistics. Thus, this review provides tools for distinguishing between various MRRDs, while highlighting the utility of the multiple working hypotheses approach.

The role of spatial and temporal heterogeneity and competition in structuring trematode communities in the great pond snail, Lymnaea stagnalis (L.)

USGS Publications Warehouse

Soldánová, Miroslava; Kuris, Armand M.; Scholz, Tomáš; Lafferty, Kevin D.

2012-01-01

We assessed how spatial and temporal heterogeneity and competition structure larval trematode communities in the pulmonate snail Lymnaea stagnalis. To postulate a dominance hierarchy, mark-release-recapture was used to monitor replacements of trematode species within snails over time. In addition, we sampled the trematode community in snails in different ponds in 3 consecutive years. A total of 7,623 snails (10,382 capture events) was sampled in 7 fishponds in the Jindřichův Hradec and Třeboň areas in South Bohemia (Czech Republic) from August 2006 to October 2008. Overall, 39% of snails were infected by a community of 14 trematode species; 7% of snails were infected with more than 1 trematode species (constituting 16 double- and 4 triple-species combinations). Results of the null-model analyses suggested that spatial heterogeneity in recruitment among ponds isolated trematode species from each other, whereas seasonal pulses in recruitment increased species interactions in some ponds. Competitive exclusion among trematodes led to a rarity of multiple infections compared to null-model expectations. Competitive relationships among trematode species were hypothesized as a dominance hierarchy based on direct evidence of replacement and invasion and on indirect evidence. Seven top dominant species with putatively similar competitive abilities (6 rediae and 1 sporocyst species) reduced the prevalence of the other trematode species developing in sporocysts only.

Spatial interpolation and radiological mapping of ambient gamma dose rate by using artificial neural networks and fuzzy logic methods.

PubMed

Yeşilkanat, Cafer Mert; Kobya, Yaşar; Taşkın, Halim; Çevik, Uğur

2017-09-01

The aim of this study was to determine spatial risk dispersion of ambient gamma dose rate (AGDR) by using both artificial neural network (ANN) and fuzzy logic (FL) methods, compare the performances of methods, make dose estimations for intermediate stations with no previous measurements and create dose rate risk maps of the study area. In order to determine the dose distribution by using artificial neural networks, two main networks and five different network structures were used; feed forward ANN; Multi-layer perceptron (MLP), Radial basis functional neural network (RBFNN), Quantile regression neural network (QRNN) and recurrent ANN; Jordan networks (JN), Elman networks (EN). In the evaluation of estimation performance obtained for the test data, all models appear to give similar results. According to the cross-validation results obtained for explaining AGDR distribution, Pearson's r coefficients were calculated as 0.94, 0.91, 0.89, 0.91, 0.91 and 0.92 and RMSE values were calculated as 34.78, 43.28, 63.92, 44.86, 46.77 and 37.92 for MLP, RBFNN, QRNN, JN, EN and FL, respectively. In addition, spatial risk maps showing distributions of AGDR of the study area were created by all models and results were compared with geological, topological and soil structure. Copyright © 2017 Elsevier Ltd. All rights reserved.

Space-related pharma-motifs for fast search of protein binding motifs and polypharmacological targets

PubMed Central

2012-01-01

Background To discover a compound inhibiting multiple proteins (i.e. polypharmacological targets) is a new paradigm for the complex diseases (e.g. cancers and diabetes). In general, the polypharmacological proteins often share similar local binding environments and motifs. As the exponential growth of the number of protein structures, to find the similar structural binding motifs (pharma-motifs) is an emergency task for drug discovery (e.g. side effects and new uses for old drugs) and protein functions. Results We have developed a Space-Related Pharmamotifs (called SRPmotif) method to recognize the binding motifs by searching against protein structure database. SRPmotif is able to recognize conserved binding environments containing spatially discontinuous pharma-motifs which are often short conserved peptides with specific physico-chemical properties for protein functions. Among 356 pharma-motifs, 56.5% interacting residues are highly conserved. Experimental results indicate that 81.1% and 92.7% polypharmacological targets of each protein-ligand complex are annotated with same biological process (BP) and molecular function (MF) terms, respectively, based on Gene Ontology (GO). Our experimental results show that the identified pharma-motifs often consist of key residues in functional (active) sites and play the key roles for protein functions. The SRPmotif is available at http://gemdock.life.nctu.edu.tw/SRP/. Conclusions SRPmotif is able to identify similar pharma-interfaces and pharma-motifs sharing similar binding environments for polypharmacological targets by rapidly searching against the protein structure database. Pharma-motifs describe the conservations of binding environments for drug discovery and protein functions. Additionally, these pharma-motifs provide the clues for discovering new sequence-based motifs to predict protein functions from protein sequence databases. We believe that SRPmotif is useful for elucidating protein functions and drug discovery. PMID:23281852

Space-related pharma-motifs for fast search of protein binding motifs and polypharmacological targets.

PubMed

Chiu, Yi-Yuan; Lin, Chun-Yu; Lin, Chih-Ta; Hsu, Kai-Cheng; Chang, Li-Zen; Yang, Jinn-Moon

2012-01-01

To discover a compound inhibiting multiple proteins (i.e. polypharmacological targets) is a new paradigm for the complex diseases (e.g. cancers and diabetes). In general, the polypharmacological proteins often share similar local binding environments and motifs. As the exponential growth of the number of protein structures, to find the similar structural binding motifs (pharma-motifs) is an emergency task for drug discovery (e.g. side effects and new uses for old drugs) and protein functions. We have developed a Space-Related Pharmamotifs (called SRPmotif) method to recognize the binding motifs by searching against protein structure database. SRPmotif is able to recognize conserved binding environments containing spatially discontinuous pharma-motifs which are often short conserved peptides with specific physico-chemical properties for protein functions. Among 356 pharma-motifs, 56.5% interacting residues are highly conserved. Experimental results indicate that 81.1% and 92.7% polypharmacological targets of each protein-ligand complex are annotated with same biological process (BP) and molecular function (MF) terms, respectively, based on Gene Ontology (GO). Our experimental results show that the identified pharma-motifs often consist of key residues in functional (active) sites and play the key roles for protein functions. The SRPmotif is available at http://gemdock.life.nctu.edu.tw/SRP/. SRPmotif is able to identify similar pharma-interfaces and pharma-motifs sharing similar binding environments for polypharmacological targets by rapidly searching against the protein structure database. Pharma-motifs describe the conservations of binding environments for drug discovery and protein functions. Additionally, these pharma-motifs provide the clues for discovering new sequence-based motifs to predict protein functions from protein sequence databases. We believe that SRPmotif is useful for elucidating protein functions and drug discovery.

Cannibals in space: the coevolution of cannibalism and dispersal in spatially structured populations.

PubMed

Rudolf, Volker H W; Kamo, Masashi; Boots, Mike

2010-05-01

The propensity for cannibalism varies considerably both within and between species. Currently we have little understanding of both the causes of this variation and its evolutionary consequences for other life-history traits. We examine how different levels of spatial structure affect the evolution of cannibalism and how cannibalism in turn drives the evolution of dispersal. Using pair approximations and simulations, we show that cannibalism can easily evolve in spatially structured populations as long as some dispersal exists. Furthermore, for a wide range of intermediate levels of spatial structure, we find the possibility of evolutionary branching leading to polymorphism in cannibalism. We also show that cannibalism itself can have important evolutionary consequences and select for increased dispersal rates, thus helping to determine the spatial structure of populations. The coevolution of cannibalism and dispersal results in the evolution of various alternative life-history strategies with different dispersal and cannibalism regimes. Which strategy evolves depends on the environmental conditions that determine initial cannibalism rates. Our results therefore suggest that differences in spatial structure could explain variation in the propensity for cannibalism and cannibalistic polyphenism. Furthermore, results emphasize that cannibalism can drive the evolution of other life-history traits and determine the spatial structure of natural populations.

Rethinking the polar cap: Eccentric dipole structuring of ULF power at the highest corrected geomagnetic latitudes

NASA Astrophysics Data System (ADS)

Urban, Kevin D.; Gerrard, Andrew J.; Lanzerotti, Louis J.; Weatherwax, Allan T.

2016-09-01

The day-to-day evolution and statistical features of Pc3-Pc7 band ultralow frequency (ULF) power throughout the southern polar cap suggest that the corrected geomagnetic (CGM) coordinates do not adequately organize the observed hydromagnetic spatial structure. It is shown that that the local-time distribution of ULF power at sites along CGM latitudinal parallels exhibit fundamental differences and that the CGM latitude of a site in general is not indicative of the site's projection into the magnetosphere. Thus, ULF characteristics observed at a single site in the polar cap cannot be freely generalized to other sites of similar CGM latitude but separated in magnetic local time, and the inadequacy of CGM coordinates in the polar cap has implications for conjugacy/mapping studies in general. In seeking alternative, observationally motivated systems of "polar cap latitudes," it is found that eccentric dipole (ED) coordinates have several strengths in organizing the hydromagnetic spatial structure in the polar cap region. ED latitudes appear to better classify the local-time ULF power in both magnitude and morphology and better differentiate the "deep polar cap" (where the ULF power is largely UT dependent and nearly free of local-time structure) from the "peripheral polar cap" (where near-magnetic noon pulsations dominate at lower and lower frequencies as one increases in ED latitude). Eccentric local time is shown to better align the local-time profiles in the magnetic east component over several PcX bands but worsen in the magnetic north component. It is suggested that a hybrid ED-CGM coordinate system might capture the strengths of both CGM and ED coordinates. It is shown that the local-time morphology of median ULF power at high-latitude sites is dominantly driven by where they project into the magnetosphere, which is best quantified by their proximity to the low-altitude cusp on the dayside (which is not necessarily quantified by a site's CGM latitude), and that variations in the local-time morphology at sites similar in ED latitude are due to both geographic local-time control (relative amplification or dampening by the diurnal variation in the local ionospheric conductivity) and geomagnetic coastal effects (enhanced power in a coastally mediated direction). Regardless of cause, it is emphasized that the application of CGM latitudes in the polar cap region is not entirely meaningful and likely should be dispensed with in favor of a scheme that is in better accord with the observed hydromagnetic spatial structure.

Three-dimensional cell to tissue development process

NASA Technical Reports Server (NTRS)

Goodwin, Thomas J. (Inventor); Parker, Clayton R. (Inventor)

2008-01-01

An improved three-dimensional cell to tissue development process using a specific time varying electromagnetic force, pulsed, square wave, with minimum fluid shear stress, freedom for 3-dimensional spatial orientation of the suspended particles and localization of particles with differing or similar sedimentation properties in a similar spatial region.

Sex and strategy use matters for pattern separation, adult neurogenesis, and immediate early gene expression in the hippocampus.

PubMed

Yagi, Shunya; Chow, Carmen; Lieblich, Stephanie E; Galea, Liisa A M

2016-01-01

Adult neurogenesis in the dentate gyrus (DG) plays a crucial role for pattern separation, and there are sex differences in the regulation of neurogenesis. Although sex differences, favoring males, in spatial navigation have been reported, it is not known whether there are sex differences in pattern separation. The current study was designed to determine whether there are sex differences in the ability for separating similar or distinct patterns, learning strategy choice, adult neurogenesis, and immediate early gene (IEG) expression in the DG in response to pattern separation training. Male and female Sprague-Dawley rats received a single injection of the DNA synthesis marker, bromodeoxyuridine (BrdU), and were tested for the ability of separating spatial patterns in a spatial pattern separation version of delayed nonmatching to place task using the eight-arm radial arm maze. Twenty-seven days following BrdU injection, rats received a probe trial to determine whether they were idiothetic or spatial strategy users. We found that male spatial strategy users outperformed female spatial strategy users only when separating similar, but not distinct, patterns. Furthermore, male spatial strategy users had greater neurogenesis in response to pattern separation training than all other groups. Interestingly, neurogenesis was positively correlated with performance on similar pattern trials during pattern separation in female spatial strategy users but negatively correlated with performance in male idiothetic strategy users. These results suggest that the survival of new neurons may play an important positive role for pattern separation of similar patterns in females. Furthermore, we found sex and strategy differences in IEG expression in the CA1 and CA3 regions in response to pattern separation. These findings emphasize the importance of studying biological sex on hippocampal function and neural plasticity. © 2015 Wiley Periodicals, Inc.

Variogram analysis of stable oxygen isotope composition of daily precipitation over the British Isles

NASA Astrophysics Data System (ADS)

Kohán, Balázs; Tyler, Jonathan; Jones, Matthew; Kern, Zoltán

2017-04-01

Water stable isotopes are important natural tracers in the hydrological cycle on global, regional and local scales. Daily precipitation water samples were collected from 70 sites over the British Isles on the 23rd, 24th, and 25th January, 2012 [1]. Samples were collected as part of a pilot study for the British Isotopes in Rainfall Project, a community engagement initiative, in collaboration with volunteer weather observers and the UK Met Office. Spatial correlation structure of daily precipitation stable oxygen isotope composition (δ18OP) has been explored by variogram analysis [2]. Since the variograms from the raw data suggested a pronounced trend, owing to the spatial trend discussed in the original study [1], a second order polynomial trend was removed from the raw δ18OP data and variograms were calculated on the residuals. Directional experimental semivariograms were calculated (steps: 10°, tolerance: 30°) and aggregated into variogram surface plots to explore the spatial dependence structure of daily δ18OP. Each daily data set produced distinct variogram plots. -A well expressed anisotropic structure can be seen for Jan 23. The lowest and highest variance was observed in the SW-NE and NNE-SSW direction, respectively. Meteorological observations showed that the majority of the atmospheric flow was SW on this day, so the direction of low variance seems to reflect this flow direction, while the maximum variance might reflect the moisture variance near the elongation of the frontal system. -A less characteristic but still expressed anisotropic structure was found for Jan 24 when a warm front passed the British Isles perpendicular to the east coast, leading to a characteristic east-west δ18OP gradient suggestive of progressive rainout. The low variance central zone has a 100 km radius which might correspond well to the width of the warm front zone. Although, the axis of minimum variance was similarly SW-NE, the zone of maximum variance was broader and practically perpendicular to it. In this case, however, directions of the axes appear misaligned with the flow direction. -We could not observe similar characteristic patterns in the last variogram calculated from the Jan 25 data set. These preliminary results suggest that variogram analysis is a promising approach to link δ18OP patterns to atmospheric processes. NKFIH: SNN118205/ARRS: N1-0054 References 1.Tyler, J. J., Jones, M., Arrowsmith, C., Allott, T., & Leng, M. J. (2016). Spatial patterns in the oxygen isotope composition of daily rainfall in the British Isles. Climate Dynamics 47:1971-1987 2.Webster, R. Oliver M.A. (2007) Geostatistics for Environmental Scientists. John Wiley & Sons, Chichester

On spatial coalescents with multiple mergers in two dimensions.

PubMed

Heuer, Benjamin; Sturm, Anja

2013-08-01

We consider the genealogy of a sample of individuals taken from a spatially structured population when the variance of the offspring distribution is relatively large. The space is structured into discrete sites of a graph G. If the population size at each site is large, spatial coalescents with multiple mergers, so called spatial Λ-coalescents, for which ancestral lines migrate in space and coalesce according to some Λ-coalescent mechanism, are shown to be appropriate approximations to the genealogy of a sample of individuals. We then consider as the graph G the two dimensional torus with side length 2L+1 and show that as L tends to infinity, and time is rescaled appropriately, the partition structure of spatial Λ-coalescents of individuals sampled far enough apart converges to the partition structure of a non-spatial Kingman coalescent. From a biological point of view this means that in certain circumstances both the spatial structure as well as larger variances of the underlying offspring distribution are harder to detect from the sample. However, supplemental simulations show that for moderately large L the different structure is still evident. Copyright © 2012 Elsevier Inc. All rights reserved.

COMPARISON OF SPATIAL PATTERNS OF POLLUTANT DISTRIBUTION WITH CMAQ PREDICTIONS

EPA Science Inventory

One indication of model performance is the comparison of spatial patterns of pollutants, either as concentration or deposition, predicted by the model with spatial patterns derived from measurements. If the spatial patterns produced by the model are similar to the observations i...

Spatial analysis of temperature (BHT/DST) data and consequences for heat-flow determination in sedimentary basins

USGS Publications Warehouse

Forster, A.; Merriam, D.F.; Davis, J.C.

1997-01-01

Large numbers of bottom-hole temperatures (BHTs) and temperatures measured during drill-stem tests (DSTs) are available in areas explored for hydrocarbons, but their usefulness for estimating geothermal gradients and heat-flow density is limited. We investigated a large data set of BHT and DST measurements taken in boreholes in the American Midcontinent, a geologically uniform stable cratonic area, and propose an empirical correction for BHTs based on relationships between BHTs, DSTs, and thermal logs. This empirical correction is compared with similar approaches determined for other areas. The data were analyzed by multivariate statistics prior to the BHT correction to identify anomalous measurements and quantify external influences. Spatial patterns in temperature measurements for major stratigraphic units outline relations to regional structure. Comparision of temperature and structure trend-surface residuals reveals a relationship between temperature highs and local structure highs. The anticlines, developed by continuous but intermittent movement of basement fault blocks in the Late Paleozoic, are subtle features having closures of 10-30 m and contain relatively small hydrocarbon reservoirs. The temperature anomalies of the order of 5-7 ??C may reflect fluids moving upward along fractures and faults, rather than changes in thermal conductivity resulting from different pore fluids. ?? Springer-Verlag 1997.

Spatial analysis of temperature (BHT/DST) data and consequences for heat-flow determination in sedimentary basins

USGS Publications Warehouse

Forster, A.; Merriam, D.F.; Davis, J.C.

1997-01-01

Large numbers of bottom-hole temperatures (BHTs) and temperatures measured during drill-stem tests (DSTs) are available in areas explored for hydrocarbons, but their usefulness for estimating geothermal gradients and heat-flow density is limited. We investigated a large data set of BHT and DST measurements taken in boreholes in the American Midcontinent, a geologically uniform stable cratonic area, and propose an empirical correction for BHTs based on relationships between BHTs, DSTs, and thermal logs. This empirical correction is compared with similar approaches determined for other areas. The data were analyzed by multivariate statistics prior to the BHT correction to identify anomalous measurements and quantify external influences. Spatial patterns in temperature measurements for major stratigraphic units outline relations to regional structure. Comparision of temperature and structure trend-surface residuals reveals a relationship between temperature highs and local structure highs. The anticlines, developed by continuous but intermittent movement of basement fault blocks in the Late Paleozoic, are subtle features having closures of 10-30 m and contain relatively small hydrocarbon reservoirs. The temperature anomalies of the order of 5-7??C may reflect fluids moving upward along fractures and faults, rather than changes in thermal conductivity resulting from different pore fluids.

Microfluidic cell-phoresis enabling high-throughput analysis of red blood cell deformability and biophysical screening of antimalarial drugs.

PubMed

Santoso, Aline T; Deng, Xiaoyan; Lee, Jeong-Hyun; Matthews, Kerryn; Duffy, Simon P; Islamzada, Emel; McFaul, Sarah M; Myrand-Lapierre, Marie-Eve; Ma, Hongshen

2015-12-07

Changes in red blood cell (RBC) deformability are associated with the pathology of many diseases and could potentially be used to evaluate disease status and treatment efficacy. We developed a simple, sensitive, and multiplexed RBC deformability assay based on the spatial dispersion of single cells in structured microchannels. This mechanism is analogous to gel electrophoresis, but instead of transporting molecules through nano-structured material to measure their length, RBCs are transported through micro-structured material to measure their deformability. After transport, the spatial distribution of cells provides a readout similar to intensity bands in gel electrophoresis, enabling simultaneous measurement on multiple samples. We used this approach to study the biophysical signatures of falciparum malaria, for which we demonstrate label-free and calibration-free detection of ring-stage infection, as well as in vitro assessment of antimalarial drug efficacy. We show that clinical antimalarial drugs universally reduce the deformability of RBCs infected by Plasmodium falciparum and that recently discovered PfATP4 inhibitors, known to induce host-mediated parasite clearance, display a distinct biophysical signature. Our process captures key advantages from gel electrophoresis, including image-based readout and multiplexing, to provide a functional screen for new antimalarials and adjunctive agents.

Structure of the N-terminal fragment of Escherichia coli Lon protease

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li, Mi; Basic Research Program, SAIC-Frederick, Frederick, MD 21702; Gustchina, Alla

2010-08-01

The medium-resolution structure of the N-terminal fragment of E. coli Lon protease shows that this part of the enzyme consists of two compact domains and a very long α-helix. The structure of a recombinant construct consisting of residues 1–245 of Escherichia coli Lon protease, the prototypical member of the A-type Lon family, is reported. This construct encompasses all or most of the N-terminal domain of the enzyme. The structure was solved by SeMet SAD to 2.6 Å resolution utilizing trigonal crystals that contained one molecule in the asymmetric unit. The molecule consists of two compact subdomains and a very longmore » C-terminal α-helix. The structure of the first subdomain (residues 1–117), which consists mostly of β-strands, is similar to that of the shorter fragment previously expressed and crystallized, whereas the second subdomain is almost entirely helical. The fold and spatial relationship of the two subdomains, with the exception of the C-terminal helix, closely resemble the structure of BPP1347, a 203-amino-acid protein of unknown function from Bordetella parapertussis, and more distantly several other proteins. It was not possible to refine the structure to satisfactory convergence; however, since almost all of the Se atoms could be located on the basis of their anomalous scattering the correctness of the overall structure is not in question. The structure reported here was also compared with the structures of the putative substrate-binding domains of several proteins, showing topological similarities that should help in defining the binding sites used by Lon substrates.« less

Fish assemblage in a semi-arid Neotropical reservoir: composition, structure and patterns of diversity and abundance.

PubMed

Novaes, J L C; Moreira, S I L; Freire, C E C; Sousa, M M O; Costa, R S

2014-05-01

The aim of this study was to analyse the composition, structure and spatial and temporal patterns of diversity and abundance of the ichthyofauna of the Santa Cruz Reservoir in semi-arid Brazil. Data were collected quarterly at eight sampling locations on the reservoir between February 2010 and November 2011 using gillnets from 12- to 70-mm mesh that were left in the water for 12h00min during the night. We evaluated the composition, structure and assemblage descriptors (Shannon-Wiener diversity index and equitability, respectively) and catch per unit effort by the number (CPUEn) and biomass (CPUEb) of the ichthyofauna. The 6,047 individuals (399,211.6 g) captured represented three orders, ten families and 20 species, of which four belonged to introduced species. The family Characidae was the most abundant with a total of 2,772 (45.8%) individuals captured. The species-abundance curve fit the log-normal model. In the spatial analysis of diversity, there were significant differences between sampling sites in the lacustrine and fluvial regions, and the highest values were found in the lacustrine region. In the temporal analysis of diversity, significant differences were also observed between the rainy and dry seasons, and the higher values were found during the dry season. Equitability followed the same spatiotemporal pattern as diversity. The Spearman correlation was significantly negative between diversity and rainfall. A cluster analysis spatially separated the ichthyofauna into two groups: one group formed by sampling sites in the fluvial region and another group formed by the remainder of the points in the lacustrine region. Both the CPUEn and CPUEb values were higher at point 8 (fluvial region) and during the rainy season. A two-way ANOVA showed that the CPUEn and CPUEb values were spatially and temporally significant. We conclude that the spatial and temporal trends of diversity in the Santa Cruz reservoir differ from those of other Brazilian reservoirs but that the fish community composition and spatiotemporal patterns of abundance were similar.

Chromosome inversions and ecological plasticity in the main African malaria mosquitoes

PubMed Central

Ayala, Diego; Acevedo, Pelayo; Pombi, Marco; Dia, Ibrahima; Boccolini, Daniela; Costantini, Carlo; Simard, Frédéric; Fontenille, Didier

2017-01-01

Chromosome inversions have fascinated the scientific community, mainly because of their role in the rapid adaption of different taxa to changing environments. However, the ecological traits linked to chromosome inversions have been poorly studied. Here, we investigated the roles played by 23 chromosome inversions in the adaptation of the four major African malaria mosquitoes to local environments in Africa. We studied their distribution patterns by using spatially explicit modeling and characterized the ecogeographical determinants of each inversion range. We then performed hierarchical clustering and constrained ordination analyses to assess the spatial and ecological similarities among inversions. Our results show that most inversions are environmentally structured, suggesting that they are actively involved in processes of local adaptation. Some inversions exhibited similar geographical patterns and ecological requirements among the four mosquito species, providing evidence for parallel evolution. Conversely, common inversion polymorphisms between sibling species displayed divergent ecological patterns, suggesting that they might have a different adaptive role in each species. These results are in agreement with the finding that chromosomal inversions play a role in Anopheles ecotypic adaptation. This study establishes a strong ecological basis for future genome-based analyses to elucidate the genetic mechanisms of local adaptation in these four mosquitoes. PMID:28071788

Phenologically distinct phytoplankton regions on the Faroe Shelf - identified by satellite data, in-situ observations and model

NASA Astrophysics Data System (ADS)

Eliasen, Sólvá Káradóttir; Hátún, Hjálmar; Larsen, Karin Margretha H.; Hansen, Bogi; Rasmussen, Till Andreas S.

2017-05-01

Marked inter-annual fluctuations in the primary production on the Faroe shelf propagate to higher trophic levels and influence commercial fish stocks. This has previously been demonstrated based on weekly chlorophyll samples from a coastal station, dating back to 1997. However, the spatial extent, for which the coastal samples are representative, has not been well defined, and potential bio-geographical segregations of the shelf have not been considered. By integrating 18 years of chlorophyll satellite data, supplemented by in-situ, model, and meteorological reanalysis data, we identify three regions with unique characteristics with regards to surface chlorophyll and vertical structure - the Central Shelf, the Outer Shelf and the Eastern Banks. The observed difference in timing of the spring bloom in these regions helps explain different spawning patterns of important fish stocks, and the spatial division of the Faroe Shelf should be considered when studying biology and hydrography in these waters. A positive correlation between annual means on the outer Faroe Shelf and parts of the outer northwest Scottish Shelf indicates similarities between these neighbouring regions. We suggest that this similarity arises from the commonality in nutrient composition of the water masses shared by these neighbouring regions.

[Spatial patterns and influence factors of specialization in tea cultivation based on geographically weighted regression model: A case study of Anxi County of Fujian Province, China].

PubMed

Shui, Wei; DU, Yong; Chen, Yi Ping; Jian, Xiao Mei; Fan, Bing Xiong

2017-04-18

Anxi County, specializing in tea cultivation, was taken as a case in this research. Pearson correlation analysis, ordinary least squares model (OLS) and geographically weighted regression model (GWR) were used to select four primary influence factors of specialization in tea cultivation (i.e., the average elevation, net income per capita, proportion of agricultural population, and the distance from roads) by analyzing the specialization degree of each town of Anxi County. Meanwhile, the spatial patterns of specialization in tea cultivation of Anxi County were evaluated. The results indicated that specialization in tea cultivation of Anxi County showed an obvious spatial auto-correlation, and a spatial pattern with "low-middle-high" circle structure, which was similar to Von Thünen's circle structure model, appeared from the county town to its surrounding region. Meanwhile, GWR (0.624) had a better fitting degree than OLS (0.595), and GWR could reasonably expound the spatial data. Contrary to the agricultural location theory of Von Thünen's model, which indicated that distance from market was a determination factor, the specialization degree of tea cultivation in Anxi was mainly decided by natural conditions of mountain area, instead of the social factors. Specialization degree of tea cultivation was positively correlated with the average elevation, net income per capita and the proportion of agricultural population, while a negative correlation was found between the distance from roads and specialization degree of tea cultivation. Coefficients of regression between the specialization degree of tea cultivation and two factors (i.e., the average elevation and net income per capita) showed a spatial pattern of higher level in the north direction and lower level in the south direction. On the contrary, the regression coefficients for the proportion of agricultural population increased from south to north of Anxi County. Furthermore, regression coefficient for the distance from roads showed a spatial pattern of higher level in the northeast direction and lower level in the southwest direction of Anxi County.

Explaining local-scale species distributions: relative contributions of spatial autocorrelation and landscape heterogeneity for an avian assemblage

USGS Publications Warehouse

Mattsson, Brady J.; Zipkin, Elise F.; Gardner, Beth; Blank, Peter J.; Sauer, John R.; Royle, J. Andrew

2013-01-01

Understanding interactions between mobile species distributions and landcover characteristics remains an outstanding challenge in ecology. Multiple factors could explain species distributions including endogenous evolutionary traits leading to conspecific clustering and endogenous habitat features that support life history requirements. Birds are a useful taxon for examining hypotheses about the relative importance of these factors among species in a community. We developed a hierarchical Bayes approach to model the relationships between bird species occupancy and local landcover variables accounting for spatial autocorrelation, species similarities, and partial observability. We fit alternative occupancy models to detections of 90 bird species observed during repeat visits to 316 point-counts forming a 400-m grid throughout the Patuxent Wildlife Research Refuge in Maryland, USA. Models with landcover variables performed significantly better than our autologistic and null models, supporting the hypothesis that local landcover heterogeneity is important as an exogenous driver for species distributions. Conspecific clustering alone was a comparatively poor descriptor of local community composition, but there was evidence for spatial autocorrelation in all species. Considerable uncertainty remains whether landcover combined with spatial autocorrelation is most parsimonious for describing bird species distributions at a local scale. Spatial structuring may be weaker at intermediate scales within which dispersal is less frequent, information flows are localized, and landcover types become spatially diversified and therefore exhibit little aggregation. Examining such hypotheses across species assemblages contributes to our understanding of community-level associations with conspecifics and landscape composition.

Explaining local-scale species distributions: relative contributions of spatial autocorrelation and landscape heterogeneity for an avian assemblage.

PubMed

Mattsson, Brady J; Zipkin, Elise F; Gardner, Beth; Blank, Peter J; Sauer, John R; Royle, J Andrew

2013-01-01

Understanding interactions between mobile species distributions and landcover characteristics remains an outstanding challenge in ecology. Multiple factors could explain species distributions including endogenous evolutionary traits leading to conspecific clustering and endogenous habitat features that support life history requirements. Birds are a useful taxon for examining hypotheses about the relative importance of these factors among species in a community. We developed a hierarchical Bayes approach to model the relationships between bird species occupancy and local landcover variables accounting for spatial autocorrelation, species similarities, and partial observability. We fit alternative occupancy models to detections of 90 bird species observed during repeat visits to 316 point-counts forming a 400-m grid throughout the Patuxent Wildlife Research Refuge in Maryland, USA. Models with landcover variables performed significantly better than our autologistic and null models, supporting the hypothesis that local landcover heterogeneity is important as an exogenous driver for species distributions. Conspecific clustering alone was a comparatively poor descriptor of local community composition, but there was evidence for spatial autocorrelation in all species. Considerable uncertainty remains whether landcover combined with spatial autocorrelation is most parsimonious for describing bird species distributions at a local scale. Spatial structuring may be weaker at intermediate scales within which dispersal is less frequent, information flows are localized, and landcover types become spatially diversified and therefore exhibit little aggregation. Examining such hypotheses across species assemblages contributes to our understanding of community-level associations with conspecifics and landscape composition.

Explaining Local-Scale Species Distributions: Relative Contributions of Spatial Autocorrelation and Landscape Heterogeneity for an Avian Assemblage

PubMed Central

Mattsson, Brady J.; Zipkin, Elise F.; Gardner, Beth; Blank, Peter J.; Sauer, John R.; Royle, J. Andrew

2013-01-01

Understanding interactions between mobile species distributions and landcover characteristics remains an outstanding challenge in ecology. Multiple factors could explain species distributions including endogenous evolutionary traits leading to conspecific clustering and endogenous habitat features that support life history requirements. Birds are a useful taxon for examining hypotheses about the relative importance of these factors among species in a community. We developed a hierarchical Bayes approach to model the relationships between bird species occupancy and local landcover variables accounting for spatial autocorrelation, species similarities, and partial observability. We fit alternative occupancy models to detections of 90 bird species observed during repeat visits to 316 point-counts forming a 400-m grid throughout the Patuxent Wildlife Research Refuge in Maryland, USA. Models with landcover variables performed significantly better than our autologistic and null models, supporting the hypothesis that local landcover heterogeneity is important as an exogenous driver for species distributions. Conspecific clustering alone was a comparatively poor descriptor of local community composition, but there was evidence for spatial autocorrelation in all species. Considerable uncertainty remains whether landcover combined with spatial autocorrelation is most parsimonious for describing bird species distributions at a local scale. Spatial structuring may be weaker at intermediate scales within which dispersal is less frequent, information flows are localized, and landcover types become spatially diversified and therefore exhibit little aggregation. Examining such hypotheses across species assemblages contributes to our understanding of community-level associations with conspecifics and landscape composition. PMID:23393564

Physical and chemical differentiation of the luminous star-forming region W49A. Results from the JCMT Spectral Legacy Survey

NASA Astrophysics Data System (ADS)

Nagy, Z.; van der Tak, F. F. S.; Fuller, G. A.; Plume, R.

2015-05-01

Context. The massive and luminous star-forming region W49A is a well-known Galactic candidate to probe the physical conditions and chemistry similar to those expected in external starburst galaxies. Aims: We aim to probe the physical and chemical structure of W49A on a spatial scale of ~0.8 pc based on the JCMT Spectral Legacy Survey, which covers the frequency range between 330 and 373 GHz. Methods: The wide 2 × 2 arcmin field and the high spectral resolution of the HARP instrument on JCMT provides information on the spatial structure and kinematics of the cloud traced by the observed molecular lines. For species where multiple transitions are available, we estimate excitation temperatures and column densities using a population diagram method that takes beam dilution and optical depth corrections into account. Results: We detected 255 transitions corresponding to 63 species in the 330-373 GHz range at the center position of W49A. Excitation conditions can be probed for 14 molecules, including the complex organic molecules CH3CCH, CH3CN, and CH3OH. The chemical composition suggests the importance of shock, photon-dominated region (PDR), and hot core chemistry. Many molecular lines show a significant spatial extent across the maps including CO and its isotopologues, high density tracers (e.g., HCN, HNC, CS, HCO+), and tracers of UV irradiation (e.g., CN and C2H). The spatially extended species reveal a complex velocity-structure of W49A with possible infall and outflow motions. Large variations are seen between the subregions with mostly blue-shifted emission toward the eastern tail, mostly red-shifted emission toward the northern clump, and emission peaking around the expected source velocity toward the southwest clump. Conclusions: A comparison of column density ratios of characteristic species observed toward W49A to Galactic PDRs suggests that while the chemistry toward the W49A center is driven by a combination of UV irradiation and shocks, UV irradiation dominates for the northern clump, eastern tail, and southwest clump regions. A comparison to a starburst galaxy and an active galactic nucleus suggests similar C2H, CN, and H2CO abundances (with respect to the dense gas tracer 34CS) between the ~0.8 pc scale probed for W49A and the >1 kpc regions in external galaxies with global star formation. Appendices are available in electronic form at http://www.aanda.org

Family income, parental education and brain structure in children and adolescents.

PubMed

Noble, Kimberly G; Houston, Suzanne M; Brito, Natalie H; Bartsch, Hauke; Kan, Eric; Kuperman, Joshua M; Akshoomoff, Natacha; Amaral, David G; Bloss, Cinnamon S; Libiger, Ondrej; Schork, Nicholas J; Murray, Sarah S; Casey, B J; Chang, Linda; Ernst, Thomas M; Frazier, Jean A; Gruen, Jeffrey R; Kennedy, David N; Van Zijl, Peter; Mostofsky, Stewart; Kaufmann, Walter E; Kenet, Tal; Dale, Anders M; Jernigan, Terry L; Sowell, Elizabeth R

2015-05-01

Socioeconomic disparities are associated with differences in cognitive development. The extent to which this translates to disparities in brain structure is unclear. We investigated relationships between socioeconomic factors and brain morphometry, independently of genetic ancestry, among a cohort of 1,099 typically developing individuals between 3 and 20 years of age. Income was logarithmically associated with brain surface area. Among children from lower income families, small differences in income were associated with relatively large differences in surface area, whereas, among children from higher income families, similar income increments were associated with smaller differences in surface area. These relationships were most prominent in regions supporting language, reading, executive functions and spatial skills; surface area mediated socioeconomic differences in certain neurocognitive abilities. These data imply that income relates most strongly to brain structure among the most disadvantaged children.

Invited Article: Relation between electric and magnetic field structures and their proton-beam images

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kugland, N. L.; Ryutov, D. D.; Plechaty, C.

2012-10-15

Proton imaging is commonly used to reveal the electric and magnetic fields that are found in high energy density plasmas. Presented here is an analysis of this technique that is directed towards developing additional insight into the underlying physics. This approach considers: formation of images in the limits of weak and strong intensity variations; caustic formation and structure; image inversion to obtain line-integrated field characteristics; direct relations between images and electric or magnetic field structures in a plasma; imaging of sharp features such as Debye sheaths and shocks. Limitations on spatial and temporal resolution are assessed, and similarities with opticalmore » shadowgraphy are noted. Synthetic proton images are presented to illustrate the analysis. These results will be useful for quantitatively analyzing experimental proton imaging data and verifying numerical codes.« less

The structural origin of the hard-sphere glass transition in granular packing

DOE PAGES

Xia, Chengjie; Li, Jindong; Cao, Yixin; ...

2015-09-28

Glass transition is accompanied by a rapid growth of the structural relaxation time and a concomitant decrease of configurational entropy. It remains unclear whether the transition has a thermodynamic origin, and whether the dynamic arrest is associated with the growth of a certain static order. Using granular packing as a model hard-sphere glass, we show the glass transition as a thermodynamic phase transition with a ‘hidden’ polytetrahedral order. This polytetrahedral order is spatially correlated with the slow dynamics. It is geometrically frustrated and has a peculiar fractal dimension. Additionally, as the packing fraction increases, its growth follows an entropy-driven nucleationmore » process, similar to that of the random first-order transition theory. In conclusion, our study essentially identifies a long-sought-after structural glass order in hard-sphere glasses.« less

Electrical structure in two thunderstorm anvil clouds

NASA Technical Reports Server (NTRS)

Marshall, Thomas C.; Rust, W. David; Winn, William P.; Gilbert, Kenneth E.

1989-01-01

Electrical structures in two thunderstorm anvil clouds (or 'anvils'), one in New Mexico, the other in Oklahoma, were investigated, using measurements of electric field by balloon-carried instruments and a one-dimensional model to calculate the time and spatial variations of electrical parameters in the clear air below the anvil. The electric field soundings through the two thunderstorm anvils showed similar charge structures; namely, negatively charged screening layers on the top and the bottom surfaces, a layer of positive charge in the interior, and one or two layers of zero charge. It is suggested that the positive charge originated in the main positive charge region normally found at high altitudes in the core of thunderclouds, and the negatively charged layers probably formed as screening layers, resulting from the discontinuity in the electrical conductivity at the cloud boundaries.

Soil variability in engineering applications

NASA Astrophysics Data System (ADS)

Vessia, Giovanna

2014-05-01

Natural geomaterials, as soils and rocks, show spatial variability and heterogeneity of physical and mechanical properties. They can be measured by in field and laboratory testing. The heterogeneity concerns different values of litho-technical parameters pertaining similar lithological units placed close to each other. On the contrary, the variability is inherent to the formation and evolution processes experienced by each geological units (homogeneous geomaterials on average) and captured as a spatial structure of fluctuation of physical property values about their mean trend, e.g. the unit weight, the hydraulic permeability, the friction angle, the cohesion, among others. The preceding spatial variations shall be managed by engineering models to accomplish reliable designing of structures and infrastructures. Materon (1962) introduced the Geostatistics as the most comprehensive tool to manage spatial correlation of parameter measures used in a wide range of earth science applications. In the field of the engineering geology, Vanmarcke (1977) developed the first pioneering attempts to describe and manage the inherent variability in geomaterials although Terzaghi (1943) already highlighted that spatial fluctuations of physical and mechanical parameters used in geotechnical designing cannot be neglected. A few years later, Mandelbrot (1983) and Turcotte (1986) interpreted the internal arrangement of geomaterial according to Fractal Theory. In the same years, Vanmarcke (1983) proposed the Random Field Theory providing mathematical tools to deal with inherent variability of each geological units or stratigraphic succession that can be resembled as one material. In this approach, measurement fluctuations of physical parameters are interpreted through the spatial variability structure consisting in the correlation function and the scale of fluctuation. Fenton and Griffiths (1992) combined random field simulation with the finite element method to produce the Random Finite Element Method (RFEM). This method has been used to investigate the random behavior of soils in the context of a variety of classical geotechnical problems. Afterward, some following studies collected the worldwide variability values of many technical parameters of soils (Phoon and Kulhawy 1999a) and their spatial correlation functions (Phoon and Kulhawy 1999b). In Italy, Cherubini et al. (2007) calculated the spatial variability structure of sandy and clayey soils from the standard cone penetration test readings. The large extent of the worldwide measured spatial variability of soils and rocks heavily affects the reliability of geotechnical designing as well as other uncertainties introduced by testing devices and engineering models. So far, several methods have been provided to deal with the preceding sources of uncertainties in engineering designing models (e.g. First Order Reliability Method, Second Order Reliability Method, Response Surface Method, High Dimensional Model Representation, etc.). Nowadays, the efforts in this field have been focusing on (1) measuring spatial variability of different rocks and soils and (2) developing numerical models that take into account the spatial variability as additional physical variable. References Cherubini C., Vessia G. and Pula W. 2007. Statistical soil characterization of Italian sites for reliability analyses. Proc. 2nd Int. Workshop. on Characterization and Engineering Properties of Natural Soils, 3-4: 2681-2706. Griffiths D.V. and Fenton G.A. 1993. Seepage beneath water retaining structures founded on spatially random soil, Géotechnique, 43(6): 577-587. Mandelbrot B.B. 1983. The Fractal Geometry of Nature. San Francisco: W H Freeman. Matheron G. 1962. Traité de Géostatistique appliquée. Tome 1, Editions Technip, Paris, 334 p. Phoon K.K. and Kulhawy F.H. 1999a. Characterization of geotechnical variability. Can Geotech J, 36(4): 612-624. Phoon K.K. and Kulhawy F.H. 1999b. Evaluation of geotechnical property variability. Can Geotech J, 36(4): 625-639. Terzaghi K. 1943. Theoretical Soil Mechanics. New York: John Wiley and Sons. Turcotte D.L. 1986. Fractals and fragmentation. J Geophys Res, 91: 1921-1926. Vanmarcke E.H. 1977. Probabilistic modeling of soil profiles. J Geotech Eng Div, ASCE, 103: 1227-1246. Vanmarcke E.H. 1983. Random fields: analysis and synthesis. MIT Press, Cambridge.

Foraging optimally for home ranges

USGS Publications Warehouse

Mitchell, Michael S.; Powell, Roger A.

2012-01-01

Economic models predict behavior of animals based on the presumption that natural selection has shaped behaviors important to an animal's fitness to maximize benefits over costs. Economic analyses have shown that territories of animals are structured by trade-offs between benefits gained from resources and costs of defending them. Intuitively, home ranges should be similarly structured, but trade-offs are difficult to assess because there are no costs of defense, thus economic models of home-range behavior are rare. We present economic models that predict how home ranges can be efficient with respect to spatially distributed resources, discounted for travel costs, under 2 strategies of optimization, resource maximization and area minimization. We show how constraints such as competitors can influence structure of homes ranges through resource depression, ultimately structuring density of animals within a population and their distribution on a landscape. We present simulations based on these models to show how they can be generally predictive of home-range behavior and the mechanisms that structure the spatial distribution of animals. We also show how contiguous home ranges estimated statistically from location data can be misleading for animals that optimize home ranges on landscapes with patchily distributed resources. We conclude with a summary of how we applied our models to nonterritorial black bears (Ursus americanus) living in the mountains of North Carolina, where we found their home ranges were best predicted by an area-minimization strategy constrained by intraspecific competition within a social hierarchy. Economic models can provide strong inference about home-range behavior and the resources that structure home ranges by offering falsifiable, a priori hypotheses that can be tested with field observations.

The Spatial Distribution of Forest Biomass in the Brazilian Amazon: A Comparison of Estimates

NASA Technical Reports Server (NTRS)

Houghton, R. A.; Lawrence, J. L.; Hackler, J. L.; Brown, S.

2001-01-01

The amount of carbon released to the atmosphere as a result of deforestation is determined, in part, by the amount of carbon held in the biomass of the forests converted to other uses. Uncertainty in forest biomass is responsible for much of the uncertainty in current estimates of the flux of carbon from land-use change. We compared several estimates of forest biomass for the Brazilian Amazon, based on spatial interpolations of direct measurements, relationships to climatic variables, and remote sensing data. We asked three questions. First, do the methods yield similar estimates? Second, do they yield similar spatial patterns of distribution of biomass? And, third, what factors need most attention if we are to predict more accurately the distribution of forest biomass over large areas? Amazonian forests (including dead and below-ground biomass) vary by more than a factor of two, from a low of 39 PgC to a high of 93 PgC. Furthermore, the estimates disagree as to the regions of high and low biomass. The lack of agreement among estimates confirms the need for reliable determination of aboveground biomass over large areas. Potential methods include direct measurement of biomass through forest inventories with improved allometric regression equations, dynamic modeling of forest recovery following observed stand-replacing disturbances (the approach used in this research), and estimation of aboveground biomass from airborne or satellite-based instruments sensitive to the vertical structure plant canopies.

Specificity of Cs-137 redistribution in toposequence of arable soils cultivated after the Chernobyl accident

NASA Astrophysics Data System (ADS)

Korobova, Elena; Romanov, Sergey; Baranchukov, Vladimir; Berezkin, Victor; Moiseenko, Fedor; Kirov, Sergey

2017-04-01

Investigations performed after the Chernobyl accident showed high spatial variation of radionuclide contamination of the soil cover in elementary landscape geochemical systems (ELGS) that characterize catena's structure. Our studies of Cs-137 distribution along and cross the slopes of local ridges in natural forested key site revealed a cyclic character of variation of the radionuclide surface activity along the studied transections (Korobova et al, 2008; Korobova, Romanov, 2009; 2011). We hypothesized that the observed pattern reflects a specific secondary migration of Cs-137 with water, and that this process could have taken place in any ELGS. To test this hypothesis a detailed field measurement of Cs-137 surface activity was performed in ELGS in agricultural area cultivated after the Chernobyl accident but later withdrawn from land-use. In situ measurements carried out by field gamma-spectrometry were accompanied by soil core sampling at the selected points. Soil samples were taken in increments of 2 cm down to 20 cm and of 5 cm down to 40 cm. The samples were analyzed for Cs-137 in laboratory using Canberra gamma-spectrometer with HP-Ge detector. Obtained results confirmed the fact of area cultivation down to 20 cm that was clearly traced by Cs-137 profile in soil columns. At the same time, the measurements also showed a cyclic character of Cs-137 variation in a sequence of ELGS from watershed to the local depression similar to that found in woodland key site. This proved that the observed pattern is a natural process typical for matter migration in ELGS independently of the vegetation type and ploughing. Therefore, spatial aspect is believed to be an important issue for development of adequate technique for a forecast of contamination of agricultural production and remediation of the soil cover on the local scale within the contaminated areas. References Korobova, E.M., Romanov, S.L., 2009. A Chernobyl 137Cs contamination study as an example for the spatial structure of geochemical fields and modeling of the geochemical field //Chemometrics and Intelligent Laboratory Systems, 99, 1-8. Korobova, E., Romanov S., 2011. Experience of mapping spatial structure of Cs-137 in natural landscape and patterns of its distribution in soil toposequence // Journal of Geochemical Exploration, 109, 1-3, 139-145. Korobova Elena, Sergey Romanov, Vladimir Samsonov, Fedor Moiseenko, 2008. Peculiarities of spatial structure of 137Cs contamination field in landscape toposequence: regularities in geo-field structure. Proceedings of the International Conference on Radioecology and Environmental Radioactivity, 15-20 June 2008, Bergen, Norway, Part 2, 182-186.

Visually induced plasticity of auditory spatial perception in macaques.

PubMed

Woods, Timothy M; Recanzone, Gregg H

2004-09-07

When experiencing spatially disparate visual and auditory stimuli, a common percept is that the sound originates from the location of the visual stimulus, an illusion known as the ventriloquism effect. This illusion can persist for tens of minutes, a phenomenon termed the ventriloquism aftereffect. The underlying neuronal mechanisms of this rapidly induced plasticity remain unclear; indeed, it remains untested whether similar multimodal interactions occur in other species. We therefore tested whether macaque monkeys experience the ventriloquism aftereffect similar to the way humans do. The ability of two monkeys to determine which side of the midline a sound was presented from was tested before and after a period of 20-60 min in which the monkeys experienced either spatially identical or spatially disparate auditory and visual stimuli. In agreement with human studies, the monkeys did experience a shift in their auditory spatial perception in the direction of the spatially disparate visual stimulus, and the aftereffect did not transfer across sounds that differed in frequency by two octaves. These results show that macaque monkeys experience the ventriloquism aftereffect similar to the way humans do in all tested respects, indicating that these multimodal interactions are a basic phenomenon of the central nervous system.

Does visuo-spatial working memory generally contribute to immediate serial letter recall?

PubMed

Fürstenberg, A; Rummer, R; Schweppe, J

2013-01-01

This work contributes to the understanding of the visual similarity effect in verbal working memory, a finding that suggests that the visuo-spatial sketch pad-the system in Baddeley's working memory model specialised in retaining nonverbal visual information-might be involved in the retention of visually presented verbal materials. Crucially this effect is implicitly interpreted by the most influential theory of multimedia learning as evidence for an obligatory involvement of the visuo-spatial sketch pad. We claim that it is only involved when the functioning of the working memory component normally used for processing verbal material is impaired. In this article we review the studies that give rise to the idea of obligatory involvement of the visuo-spatial sketch pad and suggest that some findings can be understood with reference to orthographic rather than visual similarity. We then test an alternative explanation of the finding that is most apt to serve as evidence for obligatory involvement of the visuo-spatial sketch pad. We conclude that, in healthy adults and under normal learning conditions, the visual similarity effect can be explained within the framework of verbal working memory proposed by Baddeley (e.g., 1986, 2000) without additional premises regarding the visuo-spatial sketch.

Effect of scanning velocity on femtosecond laser-induced periodic surface structures on HgCdTe crystal

NASA Astrophysics Data System (ADS)

Gu, Hongan; Dai, Ye; Wang, Haodong; Yan, Xiaona; Ma, Guohong

2017-12-01

In this paper, a femtosecond laser line-scanning irradiation was used to induce the periodic surface microstructure on HgCdTe crystal. Low spatial frequency laser induced periodic surface structures of 650-770 nm and high spatial frequency laser induced periodic surface structures of 152-246 nm were respectively found with different scanning speeds. The evolution process from low spatial frequency laser induced periodic surface structures to high spatial frequency laser induced periodic surface structures is characterized by scanning electron microscope. Their spatial periods deduced by using a two-dimensional Fourier transformation partly agree with the predictions of the Sipe-Drude theory. Confocal micro-Raman spectral show that the atomic arrangement of induced low spatial frequency laser-induced structures are basically consistent with the crystal in the central area of laser-scanning line, however a new peak at 164 cm-1 for the CdTe-like mode becomes evident due to the Hg vaporization when strong laser ablation happens. The obtained surface periodic ripples may have applications in fabricating advanced infrared detector.

Characterizing spatial heterogeneity based on the b-value and fractal analyses of the 2015 Nepal earthquake sequence

NASA Astrophysics Data System (ADS)

Nampally, Subhadra; Padhy, Simanchal; Dimri, Vijay P.

2018-01-01

The nature of spatial distribution of heterogeneities in the source area of the 2015 Nepal earthquake is characterized based on the seismic b-value and fractal analysis of its aftershocks. The earthquake size distribution of aftershocks gives a b-value of 1.11 ± 0.08, possibly representing the highly heterogeneous and low stress state of the region. The aftershocks exhibit a fractal structure characterized by a spectrum of generalized dimensions, Dq varying from D2 = 1.66 to D22 = 0.11. The existence of a fractal structure suggests that the spatial distribution of aftershocks is not a random phenomenon, but it self-organizes into a critical state, exhibiting a scale-independent structure governed by a power-law scaling, where a small perturbation in stress is sufficient enough to trigger aftershocks. In order to obtain the bias in fractal dimensions resulting from finite data size, we compared the multifractal spectrum for the real data and random simulations. On comparison, we found that the lower limit of bias in D2 is 0.44. The similarity in their multifractal spectra suggests the lack of long-range correlation in the data, with an only weakly multifractal or a monofractal with a single correlation dimension D2 characterizing the data. The minimum number of events required for a multifractal process with an acceptable error is discussed. We also tested for a possible correlation between changes in D2 and energy released during the earthquakes. The values of D2 rise during the two largest earthquakes (M > 7.0) in the sequence. The b- and D2 values are related by D2 = 1.45 b that corresponds to the intermediate to large earthquakes. Our results provide useful constraints on the spatial distribution of b- and D2-values, which are useful for seismic hazard assessment in the aftershock area of a large earthquake.

Spatial Analysis of Geothermal Resource Potential in New York and Pennsylvania: A Stratified Kriging Approach

NASA Astrophysics Data System (ADS)

Smith, J. D.; Whealton, C. A.; Stedinger, J. R.

2014-12-01

Resource assessments for low-grade geothermal applications employ available well temperature measurements to determine if the resource potential is sufficient for supporting district heating opportunities. This study used a compilation of bottomhole temperature (BHT) data from recent unconventional shale oil and gas wells, along with legacy oil, gas, and storage wells, in Pennsylvania (PA) and New York (NY). Our study's goal was to predict the geothermal resource potential and associated uncertainty for the NY-PA region using kriging interpolation. The dataset was scanned for outliers, and some observations were removed. Because these wells were drilled for reasons other than geothermal resource assessment, their spatial density varied widely. An exploratory spatial statistical analysis revealed differences in the spatial structure of the geothermal gradient data (the kriging semi-variogram and its nugget variance, shape, sill, and the degree of anisotropy). As a result, a stratified kriging procedure was adopted to better capture the statistical structure of the data, to generate an interpolated surface, and to quantify the uncertainty of the computed surface. The area was stratified reflecting different physiographic provinces in NY and PA that have geologic properties likely related to variations in the value of the geothermal gradient. The kriging prediction and the variance-of-prediction were determined for each province by the generation of a semi-variogram using only the wells that were located within that province. A leave-one-out cross validation (LOOCV) was conducted as a diagnostic tool. The results of stratified kriging were compared to kriging using the whole region to determine the impact of stratification. The two approaches provided similar predictions of the geothermal gradient. However, the variance-of-prediction was different. The stratified approach is recommended because it gave a more appropriate site-specific characterization of uncertainty based upon a more realistic description of the statistical structure of the data given the geologic characteristics of each province.

Method of data mining including determining multidimensional coordinates of each item using a predetermined scalar similarity value for each item pair

DOEpatents

Meyers, Charles E.; Davidson, George S.; Johnson, David K.; Hendrickson, Bruce A.; Wylie, Brian N.

1999-01-01

A method of data mining represents related items in a multidimensional space. Distance between items in the multidimensional space corresponds to the extent of relationship between the items. The user can select portions of the space to perceive. The user also can interact with and control the communication of the space, focusing attention on aspects of the space of most interest. The multidimensional spatial representation allows more ready comprehension of the structure of the relationships among the items.

Catalysts at work: From integral to spatially resolved X-ray absorption spectroscopy

DOE Office of Scientific and Technical Information (OSTI.GOV)

Grunwaldt, Jan-Dierk; Kimmerle, Bertram; Baiker, Alfons

2009-09-25

Spectroscopic studies on heterogeneous catalysts have mostly been done in an integral mode. However, in many cases spatial variations in catalyst structure can occur, e.g. during impregnation of pre-shaped particles, during reaction in a catalytic reactor, or in microstructured reactors as the present overview shows. Therefore, spatially resolved molecular information on a microscale is required for a comprehensive understanding of theses systems, partly in ex situ studies, partly under stationary reaction conditions and in some cases even under dynamic reaction conditions. Among the different available techniques, X-ray absorption spectroscopy (XAS) is a well-suited tool for this purpose as the differentmore » selected examples highlight. Two different techniques, scanning and full-field X-ray microscopy/tomography, are described and compared. At first, the tomographic structure of impregnated alumina pellets is presented using full-field transmission microtomography and compared to the results obtained with a scanning X-ray microbeam technique to analyse the catalyst bed inside a catalytic quartz glass reactor. On the other hand, by using XAS in scanning microtomography, the structure and the distribution of Cu(0), Cu(I), Cu(II) species in a Cu/ZnO catalyst loaded in a quartz capillary microreactor could be reconstructed quantitatively on a virtual section through the reactor. An illustrating example for spatially resolved XAS under reaction conditions is the partial oxidation of methane over noble metal-based catalysts. In order to obtain spectroscopic information on the spatial variation of the oxidation state of the catalyst inside the reactor XAS spectra were recorded by scanning with a micro-focussed beam along the catalyst bed. Alternatively, full-field transmission imaging was used to efficiently determine the distribution of the oxidation state of a catalyst inside a reactor under reaction conditions. The new technical approaches together with quantitative data analysis and an appropriate in situ catalytic experiment allowed drawing important conclusions on the reaction mechanism, and the analytical strategy might be similarly applied in other case studies. The corresponding temperature profiles and the catalytic performance were measured by means of an IR-camera and mass spectrometric analysis. In a more advanced experiment the ignition process of the partial oxidation of methane was followed in a spatiotemporal manner which demonstrates that spatially resolved spectroscopic information can even be obtained in the subsecond scale.« less

Cyanobacterial Community Structure In Lithifying Mats of A Yellowstone Hotspring-Implications for Precambrian Stromatolite Biocomplexity

NASA Technical Reports Server (NTRS)

Lau, Evan; Nash, C. Z.; Vogler, D. R.; Cullings, K.; DeVincenzi, Donald (Technical Monitor)

2002-01-01

Denaturing Gradient Gel Electrophoresis (DGGE) of partial 16S rRNA gene sequences was used to investigate the molecular biodiversity of cyanobacterial communities inhabiting various lithified morpho-structures in two hotsprings of Yellowstone National Park. These morpho-structures - flat-topped columns, columnar cones, and ridged cones - resemble ancient stromatolites, which are possibly biogenic in origin. The top, middle and bottom sections of these lithified morpho-structures, as well as surrounding non-lithified mats were analyzed to determine the vertical and spatial distribution of cyanobacterial communities. Results from DGGE indicate that the cyanobacterial community composition of lithified morpho-structures (flat-topped columns, columnar cones, and ridged cones) were largely similar in vertical distribution as well as among the morpho-structures being studied. Preliminary results indicate that the cyanobacterial communities in these lithified morpho-structures were significantly different from communities in surrounding non-lithified mats. These results provide additional support to the theory that certain Phormidium/Leptolyngbya species are involved in the morphogenesis of lithifying morpho-structures in hotsprings and may have played a role in the formation of ancient stromatolites.

Testing aggregation hypotheses among Neotropical trees and shrubs: results from a 50-ha plot over 20 years of sampling.

PubMed

Myster, Randall W; Malahy, Michael P

2012-09-01

Spatial patterns of tropical trees and shrubs are important to understanding their interaction and the resultant structure of tropical rainforests. To assess this issue, we took advantage of previously collected data, on Neotropical tree and shrub stem identified to species and mapped for spatial coordinates in a 50ha plot, with a frequency of every five years and over a 20 year period. These stems data were first placed into four groups, regardless of species, depending on their location in the vertical strata of the rainforest (shrubs, understory trees, mid-sized trees, tall trees) and then used to generate aggregation patterns for each sampling year. We found shrubs and understory trees clumped at small spatial scales of a few meters for several of the years sampled. Alternatively, mid-sized trees and tall trees did not clump, nor did they show uniform (regular) patterns, during any sampling period. In general (1) groups found higher in the canopy did not show aggregation on the ground and (2) the spatial patterns of all four groups showed similarity among different sampling years, thereby supporting a "shifting mosaic" view of plant communities over large areas. Spatial analysis, such as this one, are critical to understanding and predicting tree spaces, tree-tree replacements and the Neotropical forest patterns, such as biodiversity and those needed for sustainability efforts, they produce.

Effects of geometrical structure on spatial distribution of thermal energy in two-dimensional triangular lattices

NASA Astrophysics Data System (ADS)

Liu, Yong-Yang; Xu, Yu-Liang; Liu, Zhong-Qiang; Li, Jing; Wang, Chun-Yang; Kong, Xiang-Mu

2018-07-01

Employing the correlation matrix technique, the spatial distribution of thermal energy in two-dimensional triangular lattices in equilibrium, interacting with linear springs, is studied. It is found that the spatial distribution of thermal energy varies with the included angle of the springs. In addition, the average thermal energy of the longer springs is lower. Springs with different included angle and length will lead to an inhomogeneous spatial distribution of thermal energy. This suggests that the spatial distribution of thermal energy is affected by the geometrical structure of the system: the more asymmetric the geometrical structure of the system is, the more inhomogeneous is the spatial distribution of thermal energy.

Imaging of turbulent structures and tomographic reconstruction of TORPEX plasma emissivity

DOE Office of Scientific and Technical Information (OSTI.GOV)

Iraji, D.; Furno, I.; Fasoli, A.

In the TORPEX [A. Fasoli et al., Phys. Plasmas 13, 055902 (2006)], a simple magnetized plasma device, low frequency electrostatic fluctuations associated with interchange waves, are routinely measured by means of extensive sets of Langmuir probes. To complement the electrostatic probe measurements of plasma turbulence and study of plasma structures smaller than the spatial resolution of probes array, a nonperturbative direct imaging system has been developed on TORPEX, including a fast framing Photron-APX-RS camera and an image intensifier unit. From the line-integrated camera images, we compute the poloidal emissivity profile of the plasma by applying a tomographic reconstruction technique usingmore » a pixel method and solving an overdetermined set of equations by singular value decomposition. This allows comparing statistical, spectral, and spatial properties of visible light radiation with electrostatic fluctuations. The shape and position of the time-averaged reconstructed plasma emissivity are observed to be similar to those of the ion saturation current profile. In the core plasma, excluding the electron cyclotron and upper hybrid resonant layers, the mean value of the plasma emissivity is observed to vary with (T{sub e}){sup {alpha}}(n{sub e}){sup {beta}}, in which {alpha}=0.25-0.7 and {beta}=0.8-1.4, in agreement with collisional radiative model. The tomographic reconstruction is applied to the fast camera movie acquired with 50 kframes/s rate and 2 {mu}s of exposure time to obtain the temporal evolutions of the emissivity fluctuations. Conditional average sampling is also applied to visualize and measure sizes of structures associated with the interchange mode. The {omega}-time and the two-dimensional k-space Fourier analysis of the reconstructed emissivity fluctuations show the same interchange mode that is detected in the {omega} and k spectra of the ion saturation current fluctuations measured by probes. Small scale turbulent plasma structures can be detected and tracked in the reconstructed emissivity movies with the spatial resolution down to 2 cm, well beyond the spatial resolution of the probe array.« less

Statistical analysis of the MODIS atmosphere products for the Tomsk region

NASA Astrophysics Data System (ADS)

Afonin, Sergey V.; Belov, Vladimir V.; Engel, Marina V.

2005-10-01

The paper presents the results of using the MODIS Atmosphere Products satellite information to study the atmospheric characteristics (the aerosol and water vapor) in the Tomsk Region (56-61°N, 75-90°E) in 2001-2004. The satellite data were received from the NASA Goddard Distributed Active Archive Center (DAAC) through the INTERNET.To use satellite data for a solution of scientific and applied problems, it is very important to know their accuracy. Despite the results of validation of the MODIS data have already been available in the literature, we decided to carry out additional investigations for the Tomsk Region. The paper presents the results of validation of the aerosol optical thickness (AOT) and total column precipitable water (TCPW), which are in good agreement with the test data. The statistical analysis revealed some interesting facts. Thus, for example, analyzing the data on the spatial distribution of the average seasonal values of AOT or TCPW for 2001-2003 in the Tomsk Region, we established that instead of the expected spatial homogeneity of these distributions, they have similar spatial structures.

Brain Mechanisms Supporting Discrimination of Sensory Features of Pain: A New Model

PubMed Central

Oshiro, Yoshitetsu; Quevedo, Alexandre S.; McHaffie, John G.; Kraft, Robert A.; Coghill, Robert C.

2010-01-01

Pain can be very intense or only mild, and can be well localized or diffuse. To date, little is known as to how such distinct sensory aspects of noxious stimuli are processed by the human brain. Using functional magnetic resonance imaging and a delayed match-to-sample task, we show that discrimination of pain intensity, a non-spatial aspect of pain, activates a ventrally directed pathway extending bilaterally from the insular cortex to the prefrontal cortex. This activation is distinct from the dorsally-directed activation of the posterior parietal cortex and right dorsolateral prefrontal cortex that occurs during spatial discrimination of pain. Both intensity and spatial discrimination tasks activate highly similar aspects of the anterior cingulate cortex, suggesting that this structure contributes to common elements of the discrimination task such as the monitoring of sensory comparisons and response selection. Taken together, these results provide the foundation for a new model of pain in which bidirectional dorsal and ventral streams preferentially amplify and process distinct sensory features of noxious stimuli according to top-down task demands. PMID:19940188

Spatial Variability and Distribution of the Metals in Surface Runoff in a Nonferrous Metal Mine

PubMed Central

Ren, Bozhi; Chen, Yangbo; Zhu, Guocheng; Wang, Zhenghua; Zheng, Xie

2016-01-01

The spatial variation and distribution features of the metals tested in the surface runoff in Xikuangshan Bao Daxing miming area were analyzed by combining statistical methods with a geographic information system (GIS). The results showed that the maximum concentrations of those five kinds of the metals (Sb, Zn, Cu, Pb, and Cd) in the surface runoff of the antimony mining area were lower than the standard value except the concentration of metal Ni. Their concentrations were 497.1, 2.0, 1.8, 22.2, and 22.1 times larger than the standard value, respectively. This metal pollution was mainly concentrated in local areas, which were seriously polluted. The variation coefficient of Sb, Zn, Cu, Ni, Pb, and Cd was between 0.4 to 0.6, wherein the Sb's spatial variability coefficient is 50.56%, indicating a strong variability. Variation coefficients of the rest of metals were less than 50%, suggesting a moderate variability. The spatial structure analysis showed that the squared correlation coefficient (R 2) of the models fitting for Sb, Zn, Cu, Ni, Pb, and Cd was between 0.721 and 0.976; the ratio of the nugget value (C 0) to the abutment value (C + C 0) was between 0.0767 and 0.559; the semivariogram of Sb, Zn, Ni, and Pb was in agreement with a spherical model, while semivariogram of Cu and Cd was in agreement with Gaussian model, and both had a strong spatial correlation. The trend and spatial distribution indicated that those pollution distributions resulting from Ni, Pb, and Cd are similar, mainly concentrated in both ends of north and south in eastern part. The main reasons for the pollution were attributed to the residents living, transportation, and industrial activities; the Sb distribution was concentrated mainly in the central part, of which the pollution was assigned to the mining and the industrial activity; the pollution distributions of Zn and Cu were similar, mainly concentrated in both ends of north and south as well as in west; the sources of the metals were widely distributed. PMID:27069713

Application of micro X-ray diffraction to investigate the reaction products formed by the alkali silica reaction in concrete structures

DOE Office of Scientific and Technical Information (OSTI.GOV)

Dähn, R.; Arakcheeva, A.; Schaub, Ph.

Alkali–silica reaction (ASR) is one of the most important deterioration mechanisms in concrete leading to substantial damages of structures worldwide. Synchrotron-based micro-X-ray diffraction (micro-XRD) was employed to characterize the mineral phases formed in micro-cracks of concrete aggregates as a consequence of ASR. This particular high spatial resolution technique enables to directly gain structural information on ASR products formed in a 40-year old motorway bridge damaged due to ASR. Micro-X-ray-fluorescence was applied on thin sections to locate the reaction products formed in veins within concrete aggregates. Micro-XRD pattern were collected at selected points of interest along a vein by rotating themore » sample. Rietveld refinement determined the structure of the ASR product consisting of a new layered framework similar to mountainite and rhodesite. Furthermore, it is conceivable that understanding the structure of the ASR product may help developing new technical treatments inhibiting ASR.« less

Application of micro X-ray diffraction to investigate the reaction products formed by the alkali–silica reaction in concrete structures

DOE Office of Scientific and Technical Information (OSTI.GOV)

Dähn, R., E-mail: rainer.daehn@psi.ch; Arakcheeva, A.; Schaub, Ph.

Alkali–silica reaction (ASR) is one of the most important deterioration mechanisms in concrete leading to substantial damages of structures worldwide. Synchrotron-based micro-X-ray diffraction (micro-XRD) was employed to characterize the mineral phases formed in micro-cracks of concrete aggregates as a consequence of ASR. This high spatial resolution technique enables to directly gain structural information on ASR products formed in a 40-year old motorway bridge damaged due to ASR. Micro-X-ray-fluorescence was applied on thin sections to locate the reaction products formed in veins within concrete aggregates. Micro-XRD pattern were collected at selected points of interest along a vein by rotating the sample.more » Rietveld refinement determined the structure of the ASR product consisting of a new layered framework similar to mountainite and rhodesite. It is conceivable that understanding the structure of the ASR product may help developing new technical treatments inhibiting ASR.« less

Correlation Between Chain Architecture and Hydration Water Structure in Polysaccharides

NASA Astrophysics Data System (ADS)

Grossutti, Michael; Dutcher, John

The physical properties of confined water can differ dramatically from those of bulk water. Hydration water associated with polysaccharides provides a particularly important example of confined water, with differences in polysaccharide structure providing different spatially confined environments for water adsorption. We have used attenuated total reflection infrared (ATR-IR) spectroscopy to investigate the structure of hydration water in films of three different polysaccharides under controlled relative humidity (RH) conditions. We compare the results obtained for films of highly branched, monodisperse phytoglycogen nanoparticles to those obtained for two unbranched polysaccharides, hyaluronic acid (HA) and chitosan. We find similarities between water structuring in the two linear polysaccharides, and significant differences for phytoglycogen. In particular, the phytoglycogen nanoparticles exhibited high network water connectivity, and a large increase in the fraction of multimer water clusters with increasing RH, whereas the water structure for HA and chitosan was found to be insensitive to changes in RH. These measurements provide unique insight into the relationship between the chain architecture and hydration of polysaccharides.

Spatio-Temporal Structure, Path Characteristics, and Perceptual Grouping in Immediate Serial Spatial Recall

PubMed Central

De Lillo, Carlo; Kirby, Melissa; Poole, Daniel

2016-01-01

Immediate serial spatial recall measures the ability to retain sequences of locations in short-term memory and is considered the spatial equivalent of digit span. It is tested by requiring participants to reproduce sequences of movements performed by an experimenter or displayed on a monitor. Different organizational factors dramatically affect serial spatial recall but they are often confounded or underspecified. Untangling them is crucial for the characterization of working-memory models and for establishing the contribution of structure and memory capacity to spatial span. We report five experiments assessing the relative role and independence of factors that have been reported in the literature. Experiment 1 disentangled the effects of spatial clustering and path-length by manipulating the distance of items displayed on a touchscreen monitor. Long-path sequences segregated by spatial clusters were compared with short-path sequences not segregated by clusters. Recall was more accurate for sequences segregated by clusters independently from path-length. Experiment 2 featured conditions where temporal pauses were introduced between or within cluster boundaries during the presentation of sequences with the same paths. Thus, the temporal structure of the sequences was either consistent or inconsistent with a hierarchical representation based on segmentation by spatial clusters but the effect of structure could not be confounded with effects of path-characteristics. Pauses at cluster boundaries yielded more accurate recall, as predicted by a hierarchical model. In Experiment 3, the systematic manipulation of sequence structure, path-length, and presence of path-crossings of sequences showed that structure explained most of the variance, followed by the presence/absence of path-crossings, and path-length. Experiments 4 and 5 replicated the results of the previous experiments in immersive virtual reality navigation tasks where the viewpoint of the observer changed dynamically during encoding and recall. This suggested that the effects of structure in spatial span are not dependent on perceptual grouping processes induced by the aerial view of the stimulus array typically afforded by spatial recall tasks. These results demonstrate the independence of coding strategies based on structure from effects of path characteristics and perceptual grouping in immediate serial spatial recall. PMID:27891101

Advanced data structures for the interpretation of image and cartographic data in geo-based information systems

NASA Technical Reports Server (NTRS)

Peuquet, D. J.

1986-01-01

A growing need to usse geographic information systems (GIS) to improve the flexibility and overall performance of very large, heterogeneous data bases was examined. The Vaster structure and the Topological Grid structure were compared to test whether such hybrid structures represent an improvement in performance. The use of artificial intelligence in a geographic/earth sciences data base context is being explored. The architecture of the Knowledge Based GIS (KBGIS) has a dual object/spatial data base and a three tier hierarchial search subsystem. Quadtree Spatial Spectra (QTSS) are derived, based on the quadtree data structure, to generate and represent spatial distribution information for large volumes of spatial data.

Spatial structure and electronic spectrum of TiSi{/n -} clusters ( n = 6-18)

NASA Astrophysics Data System (ADS)

Borshch, N. A.; Pereslavtseva, N. S.; Kurganskii, S. I.

2014-10-01

Results from optimizing the spatial structure and calculated electronic spectra of anion clusters TiSi{/n -} ( n = 6-18) are presented. Calculations are performed within the density functional theory. Spatial structures of clusters detected experimentally are established by comparing the calculated and experimental data. It is shown that prismatic and fullerene-like structures are the ones most energetically favorable for clusters TiSi{/n -}. It is concluded that these structures are basic when building clusters with close numbers of silicon atoms.

Spatio-temporal evolutions of non-orthogonal equatorial wave modes derived from observations

NASA Astrophysics Data System (ADS)

Barton, Cory

Equatorial waves have been studied extensively due to their importance to the tropical climate and weather systems. Historically, their activity is diagnosed mainly in the wavenumber-frequency domain. Recently, many studies have projected observational data onto parabolic cylinder functions (PCFs), which represent the meridional structure of individual wave modes, to attain time-dependent spatial wave structures. The non-orthogonality of wave modes has yet posed a problem when attempting to separate data into wave fields where the waves project onto the same structure functions. We propose the development and application of a new methodology for equatorial wave expansion of instantaneous flows using the full equatorial wave spectrum. By creating a mapping from the meridional structure function amplitudes to the equatorial wave class amplitudes, we are able to diagnose instantaneous wave fields and determine their evolution. Because all meridional modes are shared by some subset of the wave classes, we require constraints on the wave class amplitudes to yield a closed system with a unique solution for all waves' spatial structures, including IG waves. A synthetic field is analyzed using this method to determine its accuracy for data of a single vertical mode. The wave class spectra diagnosed using this method successfully match the correct dispersion curves even if the incorrect depth is chosen for the spatial decomposition. In the case of more than one depth scale, waves with varying equivalent depth may be similarly identified using the dispersion curves. The primary vertical mode is the 200 m equivalent depth mode, which is that of the peak projection response. A distinct spectral power peak along the Kelvin wave dispersion curve for this value validates our choice of equivalent depth, although the possibility of depth varying with time and height is explored. The wave class spectra diagnosed assuming this depth scale mostly match their expected dispersion curves, showing that this method successfully partitions the wave spectra by calculating wave amplitudes in physical space. This is particularly striking because the time evolution, and therefore the frequency characteristics, is determined simply by a timeseries of independently-diagnosed instantaneous horizontal fields. We use the wave fields diagnosed by this method to study wave evolution in the context of the stratospheric QBO of zonal wind, confirming the continuous evolution of the selection mechanism for equatorial waves in the middle atmosphere. The amplitude cycle synchronized with the background zonal wind as predicted by QBO theory is present in the wave class fields even though the dynamics are not forced by the method itself. We have additionally identified a time-evolution of the zonal wavenumber spectrum responsible for the amplitude variability in physical space. Similar to the temporal characteristics, the vertical structures are also the result of a simple height cross-section through multiple independently-diagnosed levels.

A spatially localized architecture for fast and modular DNA computing

NASA Astrophysics Data System (ADS)

Chatterjee, Gourab; Dalchau, Neil; Muscat, Richard A.; Phillips, Andrew; Seelig, Georg

2017-09-01

Cells use spatial constraints to control and accelerate the flow of information in enzyme cascades and signalling networks. Synthetic silicon-based circuitry similarly relies on spatial constraints to process information. Here, we show that spatial organization can be a similarly powerful design principle for overcoming limitations of speed and modularity in engineered molecular circuits. We create logic gates and signal transmission lines by spatially arranging reactive DNA hairpins on a DNA origami. Signal propagation is demonstrated across transmission lines of different lengths and orientations and logic gates are modularly combined into circuits that establish the universality of our approach. Because reactions preferentially occur between neighbours, identical DNA hairpins can be reused across circuits. Co-localization of circuit elements decreases computation time from hours to minutes compared to circuits with diffusible components. Detailed computational models enable predictive circuit design. We anticipate our approach will motivate using spatial constraints for future molecular control circuit designs.

Rectangular Array Model Supporting Students' Spatial Structuring in Learning Multiplication

ERIC Educational Resources Information Center

Shanty, Nenden Octavarulia; Wijaya, Surya

2012-01-01

We examine how rectangular array model can support students' spatial structuring in learning multiplication. To begin, we define what we mean by spatial structuring as the mental operation of constructing an organization or form for an object or set of objects. For that reason, the eggs problem was chosen as the starting point in which the…

Dielectric response of asphaltene in solvents

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sheu, E.Y.; De Tar, M.M.; Storm, D.A.

1993-12-31

Asphaltenes derived from Ratawi (Neutral Zone) crude oil, by heptane extraction, self-associate in toluene. The structure of the disperse aggregates are similar to water-in-oil microemulsion droplets. The origin of the self-association is not yet understood, but has been speculated to be related to the electric properties of asphaltenes. In this study, the authors measured the dielectric response as a function of applied frequency from 1 kHz to 10 MHz. The results suggest that the charge dynamics is confined within a spatial length scale similar to the aggregate size. This indicates that the aggregates are more conductive than the continuous (toluene)more » phase. Additionally, the authors analyzed the loss modules using the Cole-Cole equation, form which the inter-aggregate interactions were determined.« less

What Does Children's Spatial Language Reveal about Spatial Concepts? Evidence from the Use of Containment Expressions

ERIC Educational Resources Information Center

Johanson, Megan; Papafragou, Anna

2014-01-01

Children's overextensions of spatial language are often taken to reveal spatial biases. However, it is unclear whether extension patterns should be attributed to children's overly general spatial concepts or to a narrower notion of conceptual similarity allowing metaphor-like extensions. We describe a previously unnoticed extension of…

Predicting the evolution of complex networks via similarity dynamics

NASA Astrophysics Data System (ADS)

Wu, Tao; Chen, Leiting; Zhong, Linfeng; Xian, Xingping

2017-01-01

Almost all real-world networks are subject to constant evolution, and plenty of them have been investigated empirically to uncover the underlying evolution mechanism. However, the evolution prediction of dynamic networks still remains a challenging problem. The crux of this matter is to estimate the future network links of dynamic networks. This paper studies the evolution prediction of dynamic networks with link prediction paradigm. To estimate the likelihood of the existence of links more accurate, an effective and robust similarity index is presented by exploiting network structure adaptively. Moreover, most of the existing link prediction methods do not make a clear distinction between future links and missing links. In order to predict the future links, the networks are regarded as dynamic systems in this paper, and a similarity updating method, spatial-temporal position drift model, is developed to simulate the evolutionary dynamics of node similarity. Then the updated similarities are used as input information for the future links' likelihood estimation. Extensive experiments on real-world networks suggest that the proposed similarity index performs better than baseline methods and the position drift model performs well for evolution prediction in real-world evolving networks.

How a Spatial Arrangement of Secondary Structure Elements Is Dispersed in the Universe of Protein Folds

PubMed Central

Minami, Shintaro; Sawada, Kengo; Chikenji, George

2014-01-01

It has been known that topologically different proteins of the same class sometimes share the same spatial arrangement of secondary structure elements (SSEs). However, the frequency by which topologically different structures share the same spatial arrangement of SSEs is unclear. It is important to estimate this frequency because it provides both a deeper understanding of the geometry of protein folds and a valuable suggestion for predicting protein structures with novel folds. Here we clarified the frequency with which protein folds share the same SSE packing arrangement with other folds, the types of spatial arrangement of SSEs that are frequently observed across different folds, and the diversity of protein folds that share the same spatial arrangement of SSEs with a given fold, using a protein structure alignment program MICAN, which we have been developing. By performing comprehensive structural comparison of SCOP fold representatives, we found that approximately 80% of protein folds share the same spatial arrangement of SSEs with other folds. We also observed that many protein pairs that share the same spatial arrangement of SSEs belong to the different classes, often with an opposing N- to C-terminal direction of the polypeptide chain. The most frequently observed spatial arrangement of SSEs was the 2-layer α/β packing arrangement and it was dispersed among as many as 27% of SCOP fold representatives. These results suggest that the same spatial arrangements of SSEs are adopted by a wide variety of different folds and that the spatial arrangement of SSEs is highly robust against the N- to C-terminal direction of the polypeptide chain. PMID:25243952

GSHR-Tree: a spatial index tree based on dynamic spatial slot and hash table in grid environments

NASA Astrophysics Data System (ADS)

Chen, Zhanlong; Wu, Xin-cai; Wu, Liang

2008-12-01

Computation Grids enable the coordinated sharing of large-scale distributed heterogeneous computing resources that can be used to solve computationally intensive problems in science, engineering, and commerce. Grid spatial applications are made possible by high-speed networks and a new generation of Grid middleware that resides between networks and traditional GIS applications. The integration of the multi-sources and heterogeneous spatial information and the management of the distributed spatial resources and the sharing and cooperative of the spatial data and Grid services are the key problems to resolve in the development of the Grid GIS. The performance of the spatial index mechanism is the key technology of the Grid GIS and spatial database affects the holistic performance of the GIS in Grid Environments. In order to improve the efficiency of parallel processing of a spatial mass data under the distributed parallel computing grid environment, this paper presents a new grid slot hash parallel spatial index GSHR-Tree structure established in the parallel spatial indexing mechanism. Based on the hash table and dynamic spatial slot, this paper has improved the structure of the classical parallel R tree index. The GSHR-Tree index makes full use of the good qualities of R-Tree and hash data structure. This paper has constructed a new parallel spatial index that can meet the needs of parallel grid computing about the magnanimous spatial data in the distributed network. This arithmetic splits space in to multi-slots by multiplying and reverting and maps these slots to sites in distributed and parallel system. Each sites constructs the spatial objects in its spatial slot into an R tree. On the basis of this tree structure, the index data was distributed among multiple nodes in the grid networks by using large node R-tree method. The unbalance during process can be quickly adjusted by means of a dynamical adjusting algorithm. This tree structure has considered the distributed operation, reduplication operation transfer operation of spatial index in the grid environment. The design of GSHR-Tree has ensured the performance of the load balance in the parallel computation. This tree structure is fit for the parallel process of the spatial information in the distributed network environments. Instead of spatial object's recursive comparison where original R tree has been used, the algorithm builds the spatial index by applying binary code operation in which computer runs more efficiently, and extended dynamic hash code for bit comparison. In GSHR-Tree, a new server is assigned to the network whenever a split of a full node is required. We describe a more flexible allocation protocol which copes with a temporary shortage of storage resources. It uses a distributed balanced binary spatial tree that scales with insertions to potentially any number of storage servers through splits of the overloaded ones. The application manipulates the GSHR-Tree structure from a node in the grid environment. The node addresses the tree through its image that the splits can make outdated. This may generate addressing errors, solved by the forwarding among the servers. In this paper, a spatial index data distribution algorithm that limits the number of servers has been proposed. We improve the storage utilization at the cost of additional messages. The structure of GSHR-Tree is believed that the scheme of this grid spatial index should fit the needs of new applications using endlessly larger sets of spatial data. Our proposal constitutes a flexible storage allocation method for a distributed spatial index. The insertion policy can be tuned dynamically to cope with periods of storage shortage. In such cases storage balancing should be favored for better space utilization, at the price of extra message exchanges between servers. This structure makes a compromise in the updating of the duplicated index and the transformation of the spatial index data. Meeting the needs of the grid computing, GSHRTree has a flexible structure in order to satisfy new needs in the future. The GSHR-Tree provides the R-tree capabilities for large spatial datasets stored over interconnected servers. The analysis, including the experiments, confirmed the efficiency of our design choices. The scheme should fit the needs of new applications of spatial data, using endlessly larger datasets. Using the system response time of the parallel processing of spatial scope query algorithm as the performance evaluation factor, According to the result of the simulated the experiments, GSHR-Tree is performed to prove the reasonable design and the high performance of the indexing structure that the paper presented.

A Correlational Study of Seven Projective Spatial Structures with Regard to the Phases of the MOON^

NASA Astrophysics Data System (ADS)

Wellner, Karen Linette

1995-01-01

This study investigated the relationship between projective spatial structures and the ability to construct a scientific model. In addition, gender-related performance and the influence of prior astronomy experience on task success were evaluated. Sixty-one college science undergraduates were individually administered Piagetian tasks to assess for projective spatial structures and the ability to set up a phases of the moon model. The spatial tasks included: (a) Mountains task (coordination of perspectives); (b) Railroad task (size and intervals of objects with increasing distance); (c) Telephone Poles task (masking and ordering objects); and (d) Shadows task (spatial relationships between an object and its shadow, dependent upon the object's orientation). Cramer coefficient analyses indicated that significant relationships existed between Moon task and spatial task success. In particular, the Shadows task, requiring subjects to draw shadows of objects in different orientations, proved most difficult and was most strongly associated with with a subject's understanding of lunar phases. Chi-square tests for two independent samples were used to analyze gender performance differences on each of the Ave tasks. Males performed significantly better at a.05 significance level in regard to the Shadows task and the Moon task. Chi-square tests for two independent samples showed no significant difference in Moon task performance between subjects with astronomy or Earth science coursework, and those without such science classroom experience. Overall, only six subjects passed all seven projective spatial structure tasks. Piaget (1967) contends that concrete -operational spatial structures must be established before an individual is able to develop formal-operational patterns of thinking. The results of this study indicate that 90% of the interviewed science majors are still operating at the concrete-operational level. Several educational implications were drawn from this study: (1) The teaching of spatially dependent content to students without prerequisite spatial structures results in understanding no further beyond that which can be memorized; (2) assessment for projective spatial structures should precede science lessons dealing with time-space relationships, and (3) a student's level of spatial ability may directly impact upon interpretation of three-dimensional models.

Rapid change with depth in megabenthic structure-forming communities of the Makapu'u deep-sea coral bed

NASA Astrophysics Data System (ADS)

Long, Dustin J.; Baco, Amy R.

2014-01-01

Seamounts are largely unexplored undersea mountains rising abruptly from the ocean floor, which can support an increased abundance and diversity of organisms. Deep-sea corals are important benthic structure-formers on current-swept hard substrates in these habitats. While depth is emerging as a factor structuring the fauna of seamounts on a large spatial scale, most work addressing deep-sea coral and seamount community structure has not considered the role of small-scale variation in species distributions. Video from six ROV dives over a depth range of ~320-530 m were analyzed to assess the diversity and density of benthic megafaunal invertebrates across the Makapu'u deep-sea coral bed, offshore of Oahu, Hawaii. At the same time, the physical environment along the dive track was surveyed to relate biotic patterns with abiotic variables including depth, aspect, rugosity, substrate, slope and relief to test the factors structuring community assemblages. Despite the narrow range examined, depth was found to be the strongest structuring gradient, and six unique macrobenthic communities were found, with a 93% faunal dissimilarity over the depth surveyed. Relief, rugosity and slope were also factors in the final model. Alcyonacean octocorals were the dominant macrofaunal invertebrates at all but the deepest depth zone. The commercially harvested precious coral C. secundum was the dominant species at depths 370-470 m, with a distribution that is on average deeper than similar areas. This may be artificial due to the past harvesting of this species on the shallower portion of its range. Primnoid octocorals were the most abundant octocoral family overall. This work yields new insight on the spatial ecology of seamounts, pointing out that community changes can occur over narrow depth ranges and that communities can be structured by small-scale physiography.

The properties of fast and slow oblique solitons in a magnetized plasma

NASA Astrophysics Data System (ADS)

McKenzie, J. F.; Doyle, T. B.

2002-01-01

This work builds on a recent treatment by McKenzie and Doyle [Phys. Plasmas 8, 4367 (2001)], on oblique solitons in a cold magnetized plasma, to include the effects of plasma thermal pressure. Conservation of total momentum in the direction of wave propagation immediately shows that if the flow is supersonic, compressive (rarefactive) changes in the magnetic pressure induce decelerations (accelerations) in the flow speed, whereas if the flow is subsonic, compressive (rarefactive) changes in the magnetic pressure induce accelerations (decelerations) in the flow speed. Such behavior is characteristic of a Bernoulli-type plasma momentum flux which exhibits a minimum at the plasma sonic point. The plasma energy flux (kinetic plus enthalpy) also shows similar Bernoulli-type behavior. This transonic effect is manifest in the spatial structure equation for the flow speed (in the direction of propagation) which shows that soliton structures may exist if the wave speed lies either (i) in the range between the fast and Alfven speeds or (ii) between the sound and slow mode speed. These conditions follow from the requirement that a defined, characteristic "soliton parameter" m exceeds unity. It is in this latter slow soliton regime that the effects of plasma pressure are most keenly felt. The equilibrium points of the structure equation define the center of the wave. The structure of both fast and slow solitons is elucidated through the properties of the energy integral function of the structure equation. In particular, the slow soliton, which owes its existence to plasma pressure, may have either a compressive or rarefactive nature, and exhibits a rich structure, which is revealed through the spatial structure of the longitudinal speed and its corresponding transverse velocity hodograph.

Computing global minimizers to a constrained B-spline image registration problem from optimal l1 perturbations to block match data

PubMed Central

Castillo, Edward; Castillo, Richard; Fuentes, David; Guerrero, Thomas

2014-01-01

Purpose: Block matching is a well-known strategy for estimating corresponding voxel locations between a pair of images according to an image similarity metric. Though robust to issues such as image noise and large magnitude voxel displacements, the estimated point matches are not guaranteed to be spatially accurate. However, the underlying optimization problem solved by the block matching procedure is similar in structure to the class of optimization problem associated with B-spline based registration methods. By exploiting this relationship, the authors derive a numerical method for computing a global minimizer to a constrained B-spline registration problem that incorporates the robustness of block matching with the global smoothness properties inherent to B-spline parameterization. Methods: The method reformulates the traditional B-spline registration problem as a basis pursuit problem describing the minimal l1-perturbation to block match pairs required to produce a B-spline fitting error within a given tolerance. The sparsity pattern of the optimal perturbation then defines a voxel point cloud subset on which the B-spline fit is a global minimizer to a constrained variant of the B-spline registration problem. As opposed to traditional B-spline algorithms, the optimization step involving the actual image data is addressed by block matching. Results: The performance of the method is measured in terms of spatial accuracy using ten inhale/exhale thoracic CT image pairs (available for download at www.dir-lab.com) obtained from the COPDgene dataset and corresponding sets of expert-determined landmark point pairs. The results of the validation procedure demonstrate that the method can achieve a high spatial accuracy on a significantly complex image set. Conclusions: The proposed methodology is demonstrated to achieve a high spatial accuracy and is generalizable in that in can employ any displacement field parameterization described as a least squares fit to block match generated estimates. Thus, the framework allows for a wide range of image similarity block match metric and physical modeling combinations. PMID:24694135

Parasite community similarity in Athabasca River trout-perch (Percopsis omiscomaycus) varies with local-scale land use and sediment hydrocarbons, but not distance or linear gradients.

PubMed

Blanar, C A; Hewitt, M; McMaster, M; Kirk, J; Wang, Z; Norwood, W; Marcogliese, D J

2016-10-01

Parasite communities have been shown to be structured by processes at scales ranging from continental to microhabitat, but few studies have simultaneously considered spatial and environmental variables, measured at different scales, to assess their relative influences on parasite abundance, species richness, and community similarity. Parasite abundance, diversity, and community similarity in Athabasca River trout-perch (Percopsis omiscomaycus) were examined in relation to water quality, substrate profile, metal and organic compound levels in water and sediment, and landscape use patterns at different scales, as well as distance among sites and upstream-downstream position along the river. Although species richness did not differ among sites, there were significant differences in abundance of individual taxa and community structure. We observed a shift from communities dominated by larval trematodes Diplostomum spp. to domination by gill monogeneans Urocleidus baldwini, followed by a reversion further downstream. Variations in the abundance of these taxa and of overall community similarity were strongly correlated with sediment hydrocarbons (alkanes and polycyclic aromatic hydrocarbons (PAHs)) as well as landscape use within 5 km of study sites. No correlations were noted with any other predictors, indicating that parasite populations and communities in this system were likely primarily influenced by habitat level and landscape-scale filters, rather than larger-scale processes such as distance decay or river continuum effects.

Proposed correlation of structure network inherited from producing techniques and deformation behavior for Ni-Ti-Mo metallic glasses via atomistic simulations

PubMed Central

Yang, M. H.; Li, J. H.; Liu, B. X.

2016-01-01

Based on the newly constructed n-body potential of Ni-Ti-Mo system, Molecular Dynamics and Monte Carlo simulations predict an energetically favored glass formation region and an optimal composition sub-region with the highest glass-forming ability. In order to compare the producing techniques between liquid melt quenching (LMQ) and solid-state amorphization (SSA), inherent hierarchical structure and its effect on mechanical property were clarified via atomistic simulations. It is revealed that both producing techniques exhibit no pronounced differences in the local atomic structure and mechanical behavior, while the LMQ method makes a relatively more ordered structure and a higher intrinsic strength. Meanwhile, it is found that the dominant short-order clusters of Ni-Ti-Mo metallic glasses obtained by LMQ and SSA are similar. By analyzing the structural evolution upon uniaxial tensile deformation, it is concluded that the gradual collapse of the spatial structure network is intimately correlated to the mechanical response of metallic glasses and acts as a structural signature of the initiation and propagation of shear bands. PMID:27418115

Correlation Between Chain Architecture and Hydration Water Structure in Polysaccharides.

PubMed

Grossutti, Michael; Dutcher, John R

2016-03-14

The physical properties of confined water can differ dramatically from those of bulk water. Hydration water associated with polysaccharides provides a particularly interesting example of confined water, because differences in polysaccharide structure provide different spatially confined environments for water sorption. We have used attenuated total reflection infrared (ATR-IR) spectroscopy to investigate the structure of hydration water in films of three different polysaccharides under controlled relative humidity (RH) conditions. We compare the results obtained for films of highly branched, dendrimer-like phytoglycogen nanoparticles to those obtained for two unbranched polysaccharides, hyaluronic acid (HA), and chitosan. We find similarities between the water structuring in the two linear polysaccharides and significant differences for phytoglycogen. In particular, the results suggest that the high degree of branching in phytoglycogen leads to a much more well-ordered water structure (low density, high connectivity network water), indicating the strong influence of chain architecture on the structuring of water. These measurements provide unique insight into the relationship between the structure and hydration of polysaccharides, which is important for understanding and exploiting these sustainable nanomaterials in a wide range of applications.

The effect of spatially variable overstory on the understory light environment of an open-canopied longleaf pine forest

Treesearch

Michael A. Battaglia; Pu Mou; Brian Palik; Robert J. Mitchell

2002-01-01

Spatial aggregation of forest structure strongly regulates understory light and its spatial variation in longleaf pine (Pinus palustris Mill.) forest ecosystems. Previous studies have demonstrated that light availability strongly influences longleaf pine seedling growth. In this study, the relationship between spatial structure of a longleaf pine...

Concerted spatial-frequency and polarization-phase filtering of laser images of polycrystalline networks of blood plasma smears

NASA Astrophysics Data System (ADS)

Ushenko, Yu A.

2012-11-01

The complex technique of concerted polarization-phase and spatial-frequency filtering of blood plasma laser images is suggested. The possibility of obtaining the coordinate distributions of phases of linearly and circularly birefringent protein networks of blood plasma separately is presented. The statistical (moments of the first to fourth orders) and scale self-similar (logarithmic dependences of power spectra) structure of phase maps of different types of birefringence of blood plasma of two groups of patients-healthy people (donors) and those suffering from rectal cancer-is investigated. The diagnostically sensitive parameters of a pathological change of the birefringence of blood plasma polycrystalline networks are determined. The effectiveness of this technique for detecting change in birefringence in the smears of other biological fluids in diagnosing the appearance of cholelithiasis (bile), operative differentiation of the acute and gangrenous appendicitis (exudate), and differentiation of inflammatory diseases of joints (synovial fluid) is shown.

Spatial filtering of audible sound with acoustic landscapes

NASA Astrophysics Data System (ADS)

Wang, Shuping; Tao, Jiancheng; Qiu, Xiaojun; Cheng, Jianchun

2017-07-01

Acoustic metasurfaces manipulate waves with specially designed structures and achieve properties that natural materials cannot offer. Similar surfaces work in audio frequency range as well and lead to marvelous acoustic phenomena that can be perceived by human ears. Being intrigued by the famous Maoshan Bugle phenomenon, we investigate large scale metasurfaces consisting of periodic steps of sizes comparable to the wavelength of audio frequency in both time and space domains. We propose a theoretical method to calculate the scattered sound field and find that periodic corrugated surfaces work as spatial filters and the frequency selective character can only be observed at the same side as the incident wave. The Maoshan Bugle phenomenon can be well explained with the method. Finally, we demonstrate that the proposed method can be used to design acoustical landscapes, which transform impulsive sound into famous trumpet solos or other melodious sound.

Public health expenditure and spatial interactions in a decentralized national health system.

PubMed

Costa-Font, Joan; Pons-Novell, Jordi

2007-03-01

One of the limitations of cross-country health expenditure analysis refers to the fact that the financing, the internal organization and political restraints of health care decision-making are country-specific and heterogeneous. Yet, a way through is to examine the influence of such effects in those countries that have undertaken decentralization processes. In such a setting, it is possible to examine potential expenditure spillovers across the geography of a country as well as the influence of the political ideology of regional incumbents and institutional factors on public health expenditure. This paper examines the determinants of public health expenditure within Spanish region-states (Autonomous Communities, ACs), most of them subject to similar financing structures although exhibiting significant heterogeneity as a result of the increasing decentralization, region-specific political factors along with different use of health care inputs, economic dimension and spatial interactions. Copyright (c) 2006 John Wiley & Sons, Ltd.

Spatio-temporal propagation of cascading overload failures in spatially embedded networks

NASA Astrophysics Data System (ADS)

Zhao, Jichang; Li, Daqing; Sanhedrai, Hillel; Cohen, Reuven; Havlin, Shlomo

2016-01-01

Different from the direct contact in epidemics spread, overload failures propagate through hidden functional dependencies. Many studies focused on the critical conditions and catastrophic consequences of cascading failures. However, to understand the network vulnerability and mitigate the cascading overload failures, the knowledge of how the failures propagate in time and space is essential but still missing. Here we study the spatio-temporal propagation behaviour of cascading overload failures analytically and numerically on spatially embedded networks. The cascading overload failures are found to spread radially from the centre of the initial failure with an approximately constant velocity. The propagation velocity decreases with increasing tolerance, and can be well predicted by our theoretical framework with one single correction for all the tolerance values. This propagation velocity is found similar in various model networks and real network structures. Our findings may help to predict the dynamics of cascading overload failures in realistic systems.

Optical pendulum effect in one-dimensional diffraction-thick porous silicon based photonic crystals

DOE Office of Scientific and Technical Information (OSTI.GOV)

Novikov, V. B., E-mail: vb.novikov@physics.msu.ru; Svyakhovskiy, S. E.; Maydykovskiy, A. I.

We present the realization of the multiperiodic optical pendulum effect in 1D porous silicon photonic crystals (PhCs) under dynamical Bragg diffraction in the Laue scheme. The diffraction-thick PhC contained 360 spatial periods with a large variation of the refractive index of adjacent layers of 0.4. The experiments reveal switching of the light leaving the PhC between the two spatial directions, which correspond to Laue diffraction maxima, as the fundamental wavelength or polarization of the incident light is varied. A similar effect can be achieved when the temperature of the sample or the intensity of the additional laser beam illuminating themore » crystal are changed. We show that in our PhC structures, the spectral period of the pendulum effect is down to 5 nm, while the thermal period is about 10 °C.« less

Glassy behavior and dynamic tweed in defect-free multiferroics

NASA Astrophysics Data System (ADS)

Wang, Xiaofei; Salje, Ekhard K. H.; Sun, Jun; Ding, Xiangdong

2018-01-01

Multiferroics often show significant elastic fluctuations even when the transition is strongly stepwise. Molecular dynamics simulations of a generic toy model show the appearance of tweed nanostructures (cross hatched patterns) in the paraelastic phase just above the transition point. This tweed lowers the elastic modulus C12 when approaching the transition temperature. The spatial and temporal correlations of the tweed structure follow the Vogel-Fulcher relationship, and the Vogel-Fulcher temperature is slightly below the transition temperature Ttrans, preventing this glassy state to freeze completely. Spatial correlations of shear strain show that the size of tweed patches reaches about eight lattice spacings near Ttrans. Cross- and rod-shaped diffuse scattering, similar to that in relaxors, emerges around {hh0}* and {h00}* Bragg reflections. The viscosity of the sample increases dramatically at the transition point with a significant precursor increase in the tweed regime.