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PubMed2005

Assessment of the spatial heterogeneity of weathering rates in upland catchments using the sodium dominance index and its significance in integrated catchment management.

The sodium dominance index was developed to quantify weathering rates and critical loads in Scotland, where atmospheric aerosols of maritime origin dominate over biogeochemical weathering in providing base cation inputs to catchment soils and drainage waters. High sodium dominance in river or lake water indicates low weathering rate. Here, this concept is evaluated using intensive temporal and spatial sampling strategies in two substantial catchments, one in Scotland and the other in central England, with particular reference to detection of groundwater inputs, and to possible problems from road salting in the calibration. In the Dee network, the spatial distribution of sodium dominance reflects the distribution of soil parent material geology, but land use also influences the equations. It is postulated that road density, via winter road salting, influences the sodium dominance calibration in lowland agricultural areas. Although road salting can also be problematic in some upland areas, the index still can provide clear indication of the likely severity of acid flush events in remote upland streams. In the Etherow catchment, sodium dominance varies markedly, sometimes over relatively small distances, reflecting soil type distribution, the occurrence of ground-water inputs to streams, and the influence of water in tributaries above the sampling point.

Conservation of Natural Resources↗
PubMed2004

Spatial heterogeneity, social structure and disease dynamics of animal populations.

Social groupings, population dynamics and population movements of animals all give rise to spatio-temporal variations in population levels. These variations may be of crucial importance when considering the spread of infectious diseases since infection levels do not increase unless there is a sufficient pool of susceptible individuals. This paper explores the impact of social groupings on the potential for an endemic disease to develop in a spatially explicit model system. Analysis of the model demonstrates that the explicit inclusion of space allows asymmetry between groups to arise when this was not possible in the equivalent spatially homogeneous system. Moreover, differences in movement behaviours for susceptible and infected individuals gives rise to different spatial profiles for the populations. These profiles were not observed in previous work on an epidemic system. The results are discussed in an ecological context with reference to furious and dumb strains of infectious diseases.

Animal Diseases↗
PubMed2003

Effect of spatial heterogeneity on the role of Coccinella septempunctata as an intra-guild predator of the aphid pathogen Pandora neoaphidis.

The foraging behavior of starved and non-starved adult and larval Coccinella septempunctata on groups of plants in the presence of Pandora neoaphidis-infected Acyrthosiphon pisum, uninfected aphids or a mixture of these two prey types was compared. In general results of these studies confirmed the results of previous work comparing foraging behavior on a smaller spatial scale in Petri dishes. However, behaviors were modified in response to spatial complexity, prey quality, and the host plant. Starved C. septempunctata adults and larvae fed for longer and consumed more aphids than non-starved coccinellids. Both larvae and adults fed on infected aphids and in some cases entirely consumed them. This was thought to be due to the ease of capture of infected (dead) aphids and the feeding stimuli provided by the presence of the host plant and, where there was a choice of prey, uninfected aphids in the environment. Both larvae and adults spent the majority of the time foraging in the upper regions of plants and visited more plants when they were not starved or when they were in the presence of less suitable, infected aphid prey.

Animals↗
PubMed2004

Spatial heterogeneity of the risk of BSE in France following the ban of meat and bone meal in cattle feed.

In France, meat-and-bone meal (MBM) has been prohibited for cattle feeding since 1990, but bovine spongiform encephalopathy (BSE) cases, called 'NAIF', appeared in animals born after this feed ban. Furthermore, in 1996 a new measure was taken: removal of cadavers and specified risk materials (SRM) from the processing of MBM dedicated to animal feed. Nevertheless, BSE cases (called 'super-NAIF') appeared in cattle born after this measure was in force. We analysed the spatial distribution of 445 'NAIF' and 58 'super-NAIF' cases detected in France from July 1, 2001 to July 31, 2003. The detection of BSE was based both on the mandatory reporting system (MRS) and the systematic test screening of cattle at the abattoir and at the fallen-animal plant with rapid tests. The background population was based on the adult-cow census. The disease mapping of the BSE risk was based on the standardised incidence ratio (stochastic Poisson process). A spatial component, which takes into account the spatial dependence between the geographical units by a notion of adjacency was used to eliminate the over-dispersion in the risk assessment. The geographical units were defined by hexagons with a side of 23km (France had 1264 hexagons). The parameters were estimated by a Metropolis Gibbs sampling algorithm using the Markov-chain Monte Carlo methods. The BSE cases were not randomly distributed. Furthermore, the areas at risk for the 'super-NAIF' matched part of the areas at risk for the 'NAIF' cases-which suggests that it might be a common source of contamination.

Animal Feed↗
PubMed2002

Decoupling of diffusion from structural relaxation and spatial heterogeneity in a supercooled simple liquid.

We report a molecular dynamics simulation of a simple monatomic glass-forming liquid. It is shown that transition to deeper minima in the energy landscape under supercooling results in the formation of icosahedrally structured domains with distinctly slow diffusion which grow with cooling in a low-dimensional manner and percolate around T(c), the critical temperature of the mode-coupling theory. Simultaneously, a sharp slowing down of the structural relaxation relative to diffusion is observed. It is concluded that this effect cannot be accounted for by the spatial variation in atomic mobility. The low-dimensional clustering is discussed as a possible mechanism of fragility.

Journal Article↗
PubMed2006

[Spatial heterogeneity of wind forcing: application to artificial reef functioning influenced by the circulation in the Bay of Marseilles, France].

In the frame of the largest French project of artificial production reefs, initiated by the city of Marseilles in 2001, the present study aimed at describing the hydrodynamic pattern of the coastal area considered, by the use of a 3D numerical modelling. Results were local wind statistics, bottom current fields and drifting particle maps. The knowledge of the hydrodynamic connexions between particle (such as larvae) sources or targeted areas linked to the reefs, allows us to explain the success or failure of the reefs' colonizing. Moreover, the study confirms the wind spatial variability and demonstrates the error resulting from the use of an average but locally absent wind direction.

Animals↗
PubMed2025

Deep Learning on Histologic Slides Accurately Predicts Consensus Molecular Subtypes and Spatial Heterogeneity in Colon Cancer.

Colon cancer (CC) is the third most prevalent cancer type. It is highly heterogeneous, particularly in terms of molecular profiles, which have both prognostic and predictive impacts on the treatment efficacy. However, CC treatment in adjuvant situations is currently guided solely by T and N staging. In this context, consensus molecular subtypes (CMSs) were introduced to stratify patients with CC based on molecular profiles. Recent studies have shown that CMS can be heterogeneous in CC, leading to a worse prognosis. This study focused on predicting CMS and its heterogeneity in CC using deep learning on digitized hematoxylin and eosin ± saffron-stained whole-slide images. Data and whole-slide images of 1996 patients from the PETACC-8, The Cancer Genome Atlas-COAD, and PRODIGE-13 cohorts were used. The model is trained to predict a 4-dimensional CMS vector, reflecting intratumor heterogeneity (ITH). It comprises a self-supervised model for embedding image patches into vectors and a weakly supervised model predicting CMS calls. Ground-truth CMS scores are obtained with the CMSclassifier package. Interpretability analyses are performed at the slide and patch levels. For homogeneous tumors, the model trained on PETACC-8 achieves 93.0% (±1.4%) macroaverage area under the curve in internal cross-validation and 94.4% macroaverage area under the curve in external validation over PRODIGE-13, whereas the The Cancer Genome Atlas-COAD model reaches 85.4% (±3.0%) in cross-validation and 92.4% over PRODIGE-13. The trained models also provide spatial distributions of CMS across tumor slides and associate specific histologic features with each CMS. Finally, the models are able to predict ITH. The results show that a deep learning model trained on routine histology slides is capable of providing an efficient and robust method for predicting CMS and characterizing a patient's ITH, paving the way for the routine consideration of CMS/ITH in clinical decision making in the adjuvant setting.

Humans↗
PubMed2006

Bacterial activity, community structure, and centimeter-scale spatial heterogeneity in contaminated soil.

In an anthropogenically disturbed soil (88% sand, 8% silt, 4% clay), 150-mg samples were studied to examine the fine-scale relationship of bacterial activity and community structure to heavy metal contaminants. The soils had been contaminated for over 40 years with aromatic solvents, Pb, and Cr. Samples from distances of <1, 5, 15, and 50 cm over a depth range of 40-90 cm underwent a sequential analysis to determine metabolic potential (from 14C glucose mineralization), bacterial community structure [using polymerase chain reaction-denaturing gradient gel electrophoresis (PCR-DGGE)], and total extractable Pb and Cr levels. Metabolic potential varied by as much as 10,000-fold in samples <1 cm apart; log-log plots of metal concentration and microbial metabolic potential showed no correlation with each other. Overall, metal concentrations ranged from 9 to 29,000 mg kg(-1) for Pb and from 3 to 8500 mg kg(-1) for Cr with small zones of high contamination present. All regions exhibited variable metal concentrations, with some soil samples having 30-fold differences in metal concentration in sites <1 cm apart. Geostatistical analysis revealed a strong spatial dependence for all three parameters tested (metabolic activity, Pb, and Cr levels) with a range up to 30 cm. Kriging maps showed that in zones of high metal, the corresponding metabolic activity was low suggesting that metals negatively impacted the microbial community. PCR-DGGE analysis revealed that diverse communities were present in the soils with a random distribution of phylotypes throughout the sampling zones. These results suggest the presence of spatially isolated microbial communities within the soil profile.

Bacteria↗
PubMed2000

Spatial heterogeneity of the Tucuruí Reservoir (State of Pará, Amazonia, Brazil) and the distribution of zooplanktonic species.

With the purpose of analyzing the horizontal distribution of the zooplankton community of the Tucuruí Reservoir in the State of Pará, Brazil, collections were made at 16 stations during August 1988. The stations cover the regions called Caraipé (C), Araçagi (B) and Ararão (A), and represent the different compartments of this ecosystem in regard to the morphometry and the presence or absence of "flooded forest". Our findings showed the existence of three compartments with different limnological characteristics determined as a function of the system's morphometry, a factor that may have influenced the horizontal circulation of the reservoir's water and, consequently, led to physical, chemical and biological differences at each of the sampled stations. All the stations presented physical and chemical stratification and layers of total anoxia or reduced concentrations of oxygen dissolved at depths corresponding to the limit of the euphotic zone. With regard to the zooplankton, a differentiated distribution that was mainly quantitative was found among the compartments (density of organisms and proportion among the species) in the case of Cladocera and Copepoda, and basically qualitative in the case of Rotifera. On the other hand, the greatest densities of organisms for all the groups were recorded at the Caraipé stations. As for the spatial distribution, some species were more restricted or more abundant at given stations. Among the Cladocera, there was a greater abundance of Moina minuta, Bosmina hagmani and Bosminopsis deitersi at the Araçagi stations, while C. cornuta intermedia, C. cornuta rigaudi and C. cornuta cornuta were more plentiful in the Caraipé and Diaphanosoma birgei in the Ararão. Among the Rotifera, Trochosphaera aequatoriales and Lecane proiecta, Ascomorpha ecaudis, besides Polyartha cf vulgaris were restricted, respectively, to the Caraipé, Araçagi and Ararão stations, while the others, such as Keratella americana and Collotheca sp., were more broadly distributed. As regards Copepoda Calanoida, the dominating species was found to be Notodiaptomus maracaibenses, followed by Notodiaptomus henseni and Argyrodiaptomus azevedoi. The most abundant Cyclopoda species was Thermocyclops minutus, although Thermocyclops decipiens, Mesocyclops longisetus, Mesocyclops meridianus e Metacyclops sp. were also found.

Journal Article↗
PubMed2006

Spatial heterogeneity in predator activity, nest survivorship, and nest-site selection in two forest thrushes.

The ability of prey to find and use predator-free space has far-reaching consequences for their persistence and interactions with their predators. We tested whether nest survivorship of the ground-nesting veery (Catharus fuscescens) and shrub-nesting wood thrush (Hylocichla mustelina) was related to the local absence of a major nest predator, the white-footed mouse (Peromyscus leucopus). Mouse-free space was defined by trap stations that failed to trap a mouse during the avian breeding season (approximately May through July). In addition, mouse activity was quantified at individual trap stations based on the number of captures during the same period (six 2.25-ha trapping grids, each containing 121 trap stations trapped repeatedly throughout the summer between 1998 and 2002.) Annual mouse-free space was correlated with other measures of mouse activity based on trapping data. Both mouse-free space and activity metrics were significantly related to annual rates of nest predation (i.e., nest daily mortality rate) in veery but not wood thrush. Likewise, mouse-free space and mouse activity within the nest neighborhood (approximately 30x30 m2 surrounding each nest) was significantly related to nest survivorship in veery but not wood thrush. More trap stations had consistently greater (hotspots) and lesser (coldspots) mouse activity than expected by chance, and veeries were significantly more likely to nest near stations that had below the grid-average trapping success. Our study thus documented significant spatial variability in predator activity and its relationship to nest predation and nest-site selection in a ground-nesting songbird.

Animals↗
PubMed1996

Spatial heterogeneity of tumour blood flow modification induced by angiotensin II: relationship to receptor distribution.

Angiotensin II (ATII) has potential for improving delivery of blood-borne anti-cancer agents to tumours by increasing tumour blood flow. However, ATII-induced hypertension is not always accompanied by an increase in tumour blood flow due to significant constriction of the tumour vasculature. Such unpredictability in tumour response to ATII limits the clinical usefulness of this approach. In this study, the potential of assessing numbers of binding sites for ATII as a predictor of tumour blood flow response to intravenous administration of ATII was investigated. The distribution of ATII receptors in the rat P22 carcinosarcoma was related to tumour blood flow distribution and blood flow response to ATII using an autoradiographic approach. ATII (0.2 microgram x kg-1 x min-1) increased mean arterial blood pressure of anaesthetized BD9 rats from 92.2 +/- 1.4 mmHG to 145.6+- 1.3 mmHg. Despite this increase in perfusion pressure, overall tumour blood flow to viable regions decreased by 20%, indicating significant constriction of tumour blood vessels. Autoradiographic localisation of tumour blood flow showed that the decrease in flow was confined to the tumour periphery, with no change at the tumour centre. This pattern was consistent with 10% more binding sites for ATII at the tumour periphery than at the tumour centre. Maximum number of binding sites (BLmax) for the P22 tumour was 0.38 +/- 0.09 fmol x mg-1, which is approximately a factor of 10 lower than published values for various normal tissues. The dissociation constant Kd was l.16 +/- 0.18 nM. These results encourage the development of techniques for analysis of receptor binding characteristics for predicting the response of individual tumours to blood flow manipulation using vasoactive agents.

Angiotensin II↗
PubMed2006

Proteomic analysis reveals the spatial heterogeneity of immobilized Taxus cuspidata cells in support matrices.

A proteomic approach was used to study the responses of Taxus cuspidata cells to local microenvironments in different zones of immobilized support matrices. Analysis of protein spots by 2-DE revealed significant differences in the abundance of 31 spots, 28 spots, and 23 spots in outer, middle, and central zone cells between the immobilized and suspended cells. Six of these proteins, identified by MALDI-TOF-MS, were involved in the regulation of carbohydrate, nitrogen, and sulfur metabolisms. Immobilization triggered an increase in taxol production of the immobilized cells in the middle and central zones compared to that of the suspended cells. A negative relation between taxol production and the mitotic index was observed in the cells in the immobilization support matrix. Cells in the outer zone had high mitotic index and low taxol production, while cells in the middle and central zones showed low mitotic index and high taxol production. The abundance of S-adenosylmethionine synthetase, which was identified as one of the differentially expressed proteins, was positively correlated to the cell division activity in the immobilized cell cultures.

Amino Acid Sequence↗
PubMed2000

Adaptation to spatially heterogeneous modifying and adaptive environments.

The development of an individual's phenotype is influenced by environmental factors (the modifying environment) which may differ from those factors (the adaptive environment) that decide on the adaptational value of the developed phenotype. The shapes of adaptationally optimal norms of reaction are therefore essentially determined by associations between these two environmental components together with the degree of adaptational sensitivity of the developed phenotypes. Two complementary aspects of optimality are accounted for: (a) environments can be optimal for a given norm of reaction and (b) norms of reaction can be optimal for a given environment. The results are obtained for random distribution of genotypes over environmental conditions and under the physiologically reasonable premise that fitness is a function of the costs of modification and adaptation. It turned out that the associations of adaptive and modifying environments are the primary sources of adaptational optimization. More specifically, it is shown that (i) independence between the two environmental components constitutes an adaptationally optimal environment only for norms of reaction in which all phenotypes are adaptively insensitive; (ii) if costs of modification do not depend on the environment, and if the two environmental components are not associated, adaptationally optimal norms of reaction can always be realized through phenogenetic invariance; (iii) as a rule, adaptively sensitive phenotypes developed under strong environmental associations necessitate phenogenetic plasticity for the optimal norm of reaction; (iv) a norm of reaction which is adaptationally optimal in its adaptationally optimal environment can always be realized through phenogenetic invariance, if costs of modification do not vary with the environment. These results reveal an important role of patterns of adaptive sensitivity of phenotypes, which may even surpass that of shapes of norms of reaction in adaptational processes.

Adaptation, Physiological↗
PubMed2002

Dispersal, kin competition, and the ideal free distribution in a spatially heterogeneous population.

In this paper, we reanalyze simple models of the evolution of dispersal in a heterogeneous landscape. Previous analyses concluded that without temporal variability, dispersal can evolve only if it is not costly and if it is conditional on the habitat. If both conditions hold, these models predict that selection on dispersal should lead to balanced dispersal between habitats (the number of immigrants equals the number of emigrants in each habitat). To evaluate the generality of these conclusions, we extended the analysis of these models to finite populations. This requires us to establish fitness measures for finite class-structured populations. These fitness measures allow us to take kin competition into account. Our analysis shows that even without temporal variability, conditional dispersal and the absence of a dispersal cost are not necessary conditions for dispersal to evolve. In the absence of a dispersal cost, we predict that selection on conditional dispersal will always lead to panmixia and not simply to balanced dispersal. When dispersal is costly, we show that the ideal free distribution (IFD) and balanced dispersal do not occur. Our results show that the deviations from IFD are of the order of the dispersal cost. We propose an approach to test our predictions.

Biological Evolution↗