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Point Pattern Analysis (point + pattern_analysis)
Selected AbstractsSize, shape and intensity of aggregation of take-all disease during natural epidemics in second wheat cropsPLANT PATHOLOGY, Issue 1 2007M. Gosme Point pattern analysis (fitting of the beta-binomial distribution and binary form of power law) was used to describe the spatial pattern of natural take-all epidemics (caused by Gaeumannomyces graminis var. tritici) on a second consecutive crop of winter wheat in plots under different cropping practices that could have an impact on the quantity and spatial distribution of primary inoculum, and on the spread of the disease. The spatial pattern of take-all was aggregated in 48% of the datasets when disease incidence was assessed at the plant level and in 83% when it was assessed at the root level. Clusters of diseased roots were in general less than 1 m in diameter for crown roots and 1,1·5 m for seminal roots; when present, clusters of diseased plants were 2,2·5 m in diameter. Anisotropy of the spatial pattern was detected and could be linked to soil cultivation. Clusters did not increase in size over the cropping season, but increased spatial heterogeneity of the disease level was observed, corresponding to local disease amplification within clusters. The relative influences of autonomous spread and inoculum dispersal on the size and shape of clusters are discussed. [source] Spatial pattern of adult trees and the mammal-generated seed rain in the Iberian pearECOGRAPHY, Issue 3 2010Jose M. Fedriani The degree to which plant individuals are aggregated or dispersed co-determines how a species uses resources, how it is used as a resource, and how it reproduces. Quantifying such spatial patterns, however, presents several methodological issues that can be overcome by using spatial point pattern analyses (SPPA). We used SPPA to assess the distribution of P. bourgaeana adult trees and their seeds (within fecal samples) dispersed by three mammals (badger, fox, and wild boar) within a 72-ha plot across a range of spatial scales. Pyrus bourgaeana trees in our study plot (n=75) were clearly aggregated with a critical spatial scale of ca 25,m, and approximately nine randomly distributed tree clusters were identified. As expected from their marking behaviors, the spatial patterns of fecal deposition varied widely among mammal species. Whereas badger feces and dispersed seeds were clearly clustered at small spatial scales (<10,m), boar and fox feces were relatively scattered across the plot. A toroidal shift null model testing for independence indicated that boars tended to deliver seeds to the vicinity of adult trees and thus could contribute to the maintenance and enlargement of existing tree clusters. Badgers delivered feces and seeds in a highly clumped pattern but unlike boars, away from P. bourgaeana neighborhoods; thus, they are more likely to create new tree clusters than boars. The strong tree aggregation is likely to be the result of one or several non-exclusive processes, such as the spatial patterning of seed delivery by dispersers and seedling establishment beneath mother trees. In turn, the distinctive distribution of P. bourgaeana in Doñana appeared to interact with the foraging behavior of its mammalian seed dispersers, leading to neighbourhood-specific dispersal patterns and fruit-removal rates. Our study exemplifies how a detailed description of patterns generates testable hypotheses concerning the ecology of zoochorous. Pyrus bourgaeana dispersers were unique and complementary in their spatial patterning of seed delivery, which likely confers resilience to their overall service and suggests lack of redundancy and expendability of any one species. [source] Multigenerational analysis of spatial structure in the terrestrial, food-deceptive orchid Orchis masculaJOURNAL OF ECOLOGY, Issue 2 2009Hans Jacquemyn Summary 1In long-lived, terrestrial orchids, strong aggregation of adults and recruits within populations and pronounced spatial association between recruits and adults can be expected when seed dispersal is limited, probabilities of seed germination decrease with increasing distance from mother plants and/or not all mother plants contribute to future generations. When individuals are distributed evenly across life-history stages, these processes can also be expected to result in a significant fine-scale spatial genetic structure in recruits that will persist into the adult-stage class. 2We combined detailed spatial genetic and point pattern analyses across different generations with parentage analyses to elucidate the role of the diverse processes that might determine spatial structure in Orchis mascula. 3Analyses of spatial point patterns showed a significant association between adults and recruits and similar clustering patterns for both. Weak, but highly significant spatial genetic structure was observed in adults and recruits, but no significant differences were observed across life stages, indicating that the spatial genetic structure present in recruits persists into the adult stage. 4Parentage analyses highlighted relatively short seed dispersal distances (median offspring-recruitment distance: 1.55 and 1.70 m) and differential contribution of mother plants to future generations. 5Persistence of fine-scale spatial genetic structure from seedlings into the adult stage class is consistent with the life history of O. mascula, whereas relatively large dispersal distances of both pollen and seeds compared to the fine-scale clustering of adults and seedlings suggest overlapping seed shadows and mixing of genotypes within populations as the major factors explaining the observed weak spatial genetic structure. 6Nonetheless, comparison of the spatial association between recruits and adults with the genetic analysis of offspring-parent distances suggests that the tight clustering of recruits around adults was probably caused by decreasing probabilities of seed germination with increasing distance from mother plants. 7Synthesis. This study shows that the approach presented here, which combines spatial genetic and spatial pattern analyses with parentage analyses, may be broadly applied to other plant species to elucidate the processes that determine spatial structure within their populations. [source] Tree spacing and area of competitive influence do not scale with tree size in an African rain forestJOURNAL OF VEGETATION SCIENCE, Issue 5 2008Michael J. Lawes Abstract Questions: Is the area of influence of individual trees determined by tree size? Does competition, inferred from spatial pattern between neighbouring trees, affect adult tree spacing patterns in an tropical forest? At what size-class or stage is competition between neighbours most likely to affect adult tree spacing patterns? Location: Kibale National Park, western Uganda. Methods: Relationships between focal tree size and nearest neighbour distance, size, density, and species in a 4-ha permanent plot, using point pattern analyses. Results: We found non-random patterns of distribution of nearest tree neighbours (stems > 10 cm DBH). Independent of identity, tree density was highest and neighbours were regularly spaced within 3,5m of an individual. Tree densities were lower and relatively constant at distances >5m and neighbours were typically randomly spaced. In general, conspecific patterns conformed to the latter trends. Thus, individual area of influence was small (within a radius of 3,5 m). Rarer species were more clumped than common species. Weak competitive thinning occurred among more densely packed small trees (<20 cm DBH), and rapidly disappeared with increasing tree size and distance from an individual. The clumping and density of individuals was not significantly affected by tree size. Conclusions: Negative effects of competition among trees are weak, occur within the crown radius of most individuals, and are independent of adult tree size and identity. The density of neighbouring trees (aggregation) did not decline with increasing focal tree size at either the conspecific or the community level and tree diameter (tree size) was not a good estimator of the implied competitive influence of a tree. Mechanisms operating at the recruitment stage may be important determinants of adult tree community diversity and spacing patterns. [source] Spatial pattern and neighbour effects on Helianthemum squamatum seedlings in a Mediterranean gypsum communityJOURNAL OF VEGETATION SCIENCE, Issue 4 2005Adrián Escudero Abstract Question: Do, in a semi-arid gypsum environment, neighbours condition the spatial patterns of emergence, survival and height of Helianthemum squamatum seedlings? Location: Vicinity of Chinchón, province of Madrid, Spain (40°11,N, 3° 35,W, 550 m a.s.l.) Methods: We evaluated the effects of neighbours on the survival and growth of naturally emerging Helianthemum seedlings in a semi-arid area during a two-year period. We followed a two-fold approach based on the use of neighbour models for seedling survival and growth and spatial point pattern analyses for seedling emergence, taking into account the germination date. Results: Seedlings appeared clumped in the vicinity of mature Helianthemum individuals. The neighbour models fitted showed that interactions with neighbours were extremely important for the survival and growth of Helianthemum seedlings. These models also suggest that the effects of neighbours on these variables vary with changes in spatial scale and in the abiotic conditions. Some species exerted negative or positive effects on Helianthemum seedlings only at certain spatial scales, and others exerted negative or positive effects at earlier stages of seedling development, but none later and vice versa. Conclusions: We suggest that the observed patterns are mainly influenced by small-scale modifications in soil conditions and microclimate created by neighbours, which change in time and space. [source] Proliferative remodeling of the spatial organization of human superficial chondrocytes distant from focal early osteoarthritisARTHRITIS & RHEUMATISM, Issue 2 2010Bernd Rolauffs Objective Human superficial chondrocytes show distinct spatial organizations, and they commonly aggregate near osteoarthritic (OA) fissures. The aim of this study was to determine whether remodeling or destruction of the spatial chondrocyte organization might occur at a distance from focal (early) lesions in patients with OA. Methods Samples of intact cartilage (condyles, patellofemoral groove, and proximal tibia) lying distant from focal lesions of OA in grade 2 joints were compared with location-matched nondegenerative (grade 0,1) cartilage samples. Chondrocyte nuclei were stained with propidium iodide, examined by fluorescence microscopy, and the findings were recorded in a top-down view. Chondrocyte arrangements were tested for randomness or significant grouping via point pattern analyses (Clark and Evans Aggregation Index) and were correlated with the OA grade and the surface cell densities. Results In grade 2 cartilage samples, superficial chondrocytes were situated in horizontal patterns, such as strings, clusters, pairs, and singles, comparable to the patterns in nondegenerative cartilage. In intact cartilage samples from grade 2 joints, the spatial organization included a novel pattern, consisting of chondrocytes that were aligned in 2 parallel lines, building double strings. These double strings correlated significantly with an increased number of chondrocytes per group and an increased corresponding superficial zone cell density. They were observed in all grade 2 condyles and some grade 2 tibiae, but never in grade 0,1 cartilage. Conclusion This study is the first to identify a distinct spatial reorganization of human superficial chondrocytes in response to distant early OA lesions, suggesting that proliferation had occurred distant from focal early OA lesions. This spatial reorganization may serve to recruit metabolically active units as an attempt to repair focal damage. [source] Disturbance affects spatial patterning and stand structure of a tropical rainforest treeAUSTRAL ECOLOGY, Issue 4 2010BRUCE L. WEBBER Abstract The distribution and spatial patterns of plant populations in natural ecosystems have recently received much attention; yet the impacts of human-induced disturbances on these patterns and underlying processes remain poorly understood. We used the sub-canopy tree, Ryparosa kurrangii (Achariaceae), to explore the possible effects of such disturbances on stand structure and spatial patterning in an Australian tropical rainforest. We studied three populations that differed in their extent of habitat modification: anthropogenic disturbance (proximate settlement and roads) and internal damage by an invasive alien species, the feral pig (Sus scrofa). Populations were mapped, characterized, and three size cohorts (seedlings, saplings, trees) were analysed using a suite of spatial point pattern analyses (univariate: Diggle's G and F and Ripley's K; bivariate: Diggle's G and Ripley's K). Ryparosa kurrangii has a typical stand structure for a sub-canopy tree species, but occurs at high densities locally (>400 stems ha,1). At all sites, the tree cohort were randomly distributed and saplings were spatially aggregated at distances of up to 2,3 m. Between sites there were distinct differences in the size structure and spatial pattern of seedlings, the cohort most affected by recent habitat modification. That is, the least disturbed site had no aggregation among seedlings, the site with the greatest anthropogenic disturbance had many small, clustered seedlings that were spatially associated with trees, and the site with pig damage had clustered seedlings that had no spatial relationship with trees. We propose that habitat modification by anthropogenic and pig disturbance disrupts seed dispersal and establishment regimes, which leads to altered seedling spatial patterns. These disturbances could have long-term implications for the population structure and health of R. Kurrangii. [source] Using neutral landscapes to identify patterns of aggregation across resource pointsECOGRAPHY, Issue 3 2006Jill Lancaster Many organisms are aggregated within resource patches and aggregated spatially across landscapes with multiple resources. Such patchy distributions underpin models of population regulation and species coexistence, so ecologists require methods to analyse spatially-explicit data of resource distribution and use. I describe a method for analysing maps of resources and testing hypotheses about how resource distribution influences the distribution of organisms, where resource patches can be described as points in a landscape and the number of organisms on each resource point is known. Using a mark correlation function and the linearised form of Ripley's K-function, this version of marked point pattern analysis can characterise and test hypotheses about the spatial distribution of organisms (marks) on resource patches (points). The method extends a version of point pattern analysis that has wide ecological applicability, it can describe patterns over a range of scales, and can detect mixed patterns. Statistically, Monte Carlo permutations are used to estimate the difference between the observed and expected values of the mark correlation function. Hypothesis testing employs a flexible neutral landscape approach in which spatial characteristics of point patterns are preserved to some extent, and marks are randomised across points. I describe the steps required to identify the appropriate neutral landscape and apply the analysis. Simulated data sets illustrate how the choice of neutral landscape can influence ecological interpretations, and how this spatially-explicit method and traditional dispersion indices can yield different interpretations. Interpretations may be general or context-sensitive, depending on information available about the underlying point pattern and the neutral landscape. An empirical example of caterpillars exploiting food plants illustrates how this technique might be used to test hypotheses about adult oviposition and larval dispersal. This approach can increase the value of survey data, by making it possible to quantify the distribution of resource points in the landscape and the pattern of resource use by species. [source] Spatial point-process statistics: concepts and application to the analysis of lead contamination in urban soil,ENVIRONMETRICS, Issue 4 2005Christian Walter Abstract This article explores the use of spatial point-process analysis as an aid to describe topsoil lead distribution in urban environments. The data used were collected in Glebe, an inner suburb of Sydney. The approach focuses on the locations of punctual events defining a point pattern, which can be statistically described through local intensity estimates and between-point distance functions. F -, G - and K -surfaces of a marked spatial point pattern were described and used to estimate nearest distance functions over a sliding band of quantiles belonging to the marking variable. This provided a continuous view of the point pattern properties as a function of the marking variable. Several random fields were simulated by selecting points from random, clustered or regular point processes and diffusing them. Recognition of the underlying point process using variograms derived from dense sampling was difficult because, structurally, the variograms were very similar. Point-event distance functions were useful complimentary tools that, in most cases, enabled clear recognition of the clustered processes. Spatial sampling quantile point pattern analysis was defined and applied to the Glebe data set. The analysis showed that the highest lead concentrations were strongly clustered. The comparison of this data set with the simulation confidence limits of a Poisson process, a short-radius clustered point process and a geostatistical simulation showed a random process for the third quartile of lead concentrations but strong clustering for the data in the upper quartile. Thus the distribution of topsoil lead concentrations over Glebe may have resulted from several contamination processes, mainly from regular or random processes with large diffusion ranges and short-range clustered processes for the hot spots. Point patterns with the same characteristics as the Glebe experimental pattern could be generated by separate additive geostatistical simulation. Spatial sampling quantile point patterns statistics can, in an easy and accurate way, be used complementarily with geostatistical methods. Copyright © 2005 John Wiley & Sons, Ltd. [source] Extending point pattern analysis for objects of finite size and irregular shapeJOURNAL OF ECOLOGY, Issue 4 2006THORSTEN WIEGAND Summary 1We use a grid- and simulation-based approach to extend point pattern analysis to deal with plants of finite size and irregular shape, and compare the results of our approach with that of the conventional point approximation. The plants are approximated by using an underlying grid and may occupy several adjacent grid cells depending on their size and shape. Null models correspond to that of point pattern analysis but need to be modified to account for the finite size and irregular shape of plants. 2We use a mapped area of a grass-shrub steppe in semi-arid Patagonia, Argentina, to show that the shrub community is essentially randomly structured, but that shrubs facilitate grasses in their immediate neighbourhood. 3The occurrence of this random spatial structure provides important new information on the biology of shrub populations. In general, previous data from semi-arid and arid ecosystems have shown that adult shrubs tend to show over-dispersed patterns, whereas juveniles are clumped. 4We find that the point approximation may produce misleading results (i) if plant size varies greatly, (ii) if the scale of interest is of the same order of magnitude as the size of the plants, and (iii) if the plants of a given pattern are constrained through competition for space by the presence of other plants. The point approximation worked well in all other cases, but usually depicted weaker significant effects than when the size and shape of plants were taken into account. 5Our approach to quantifying small-scale spatial patterns in plant communities has broad applications, including the study of facilitation and competition. Ecologists will be able to use the software available to take advantage of these methods. [source] Exploring spatiotemporal patterns in early stages of primary succession on former lignite mining sitesJOURNAL OF VEGETATION SCIENCE, Issue 2 2008Birgit Felinks Abstract Questions: 1. Does random colonization predominate in early stages of primary succession? 2. Do pioneer species facilitate the establishment of later arriving species? 3. Does an initially random distribution change to an aggregated pattern with ongoing succession? Location: Lignite mining region of Lower Lusatia, eastern Germany. Methods: Individual plants were mapped along a 2 m × 28 m transect during three successive years and classified into two groups (1) the pioneer Corynephorus canescens and (2),all other species'. Using the pair-correlation function, univariate point pattern analysis was carried out by applying a heterogeneous Poisson process as null model. Bivariate analysis and a toroidal shift null model were applied to test for independence between the spatial patterns of the two groups separately for each year, as well by exploring spatiotemporal patterns from different years. Results: In the first year Corynephorus and ,all other species' showed an aggregated pattern on a spatial scale > 40 cm and in the second and third years a significant attraction for distances between 4 and 12 cm, with an increasing radius in the third year. The analyses of interspecific spatiotemporal dynamics revealed a change from independence to attraction between distances of 4 cm and 16 cm when using Corynephorus as focal species. However, applying ,all other species' as focal points results in a significant attraction at distances up to 60 cm in the first year and a diminishing attraction in the second and third years with distances , 6 cm. Conclusions: Facilitative species-species interactions are present in early stages of primary succession, resulting mainly from pioneer species acting as physical barriers and their ability to capture diaspores being drifted by secondary dispersal along the substrate surface. However, due to gradual establishment of perennial species and their ability of lateral extension by vegetative dispersal, facilitation may influence spatial pattern formation predominantly on short temporal and fine spatial scales. [source] Spatial aggregation in Fusarium pseudograminearum populations from the Australian grain beltPLANT PATHOLOGY, Issue 1 2009A. R. Bentley Previous studies have evaluated the overall structure of populations of Fusarium pseudograminearum (teleomorph, Gibberella coronicola), causal agent of cereal crown rot, but there is no information available on spatial relationships of genetic variation in field populations. Three 1-m-row sections in crown-rot-affected wheat fields in the Australian grain belt were intensively sampled to estimate population genetic parameters and the spatial aggregation, or clustering, of disease aggregates and genotypes. Estimates of population genetic parameters based on amplified fragment length polymorphisms (AFLPs) indicated that the genetic diversity in isolates from the 1-m-row populations described a significant portion of the diversity recorded for corresponding field and regional populations. In point pattern analysis, there was physical clustering and aggregation of F. pseudograminearum isolates from two of the three sites. Analysis of the spatial distribution of clonal haplotypes (DICE similarity , 97%) indicated significant aggregation of clones in all three 1-m-row populations. Based on matrix comparison tests, both mating types and genetic distances had significant spatial aggregation for at least two of the three 1-m-row populations. This is consistent with the presence of non-random spatial genetic structure due to clonal aggregation. High levels of genetic diversity and spatial structuring of disease and genotypes in at least two of the three 1-m-row populations is consistent with the hypothesis that stubble is a primary inoculum source in no-tillage farming systems, resulting in aggregated patterns of disease and allowing for haplotypes to be maintained in the field over a number of annual cropping cycles. [source] Response of pine natural regeneration to small-scale spatial variation in a managed Mediterranean mountain forestAPPLIED VEGETATION SCIENCE, Issue 4 2009Ignacio Barbeito Abstract Questions: What influence do management practices and previous tree and shrub stand structure have on the occurrence and development of natural regeneration of Pinus sylvestris in Mediterranean mountain forests? How are the fine-scale and environmental patterns of resources affected and what impact does this have on the distribution of the regeneration? Location: A Pinus sylvestris Mediterranean mountain forest in central Spain. Methods: Upperstory trees and regeneration (seedlings and saplings) were mapped in four 0.5-ha plots located in two types of stand with different management intensities (even-aged and uneven-aged stands). Environmental variables were recorded at the nodes of a grid within the plots. The relationships between the upperstory and regeneration were evaluated by bivariate point pattern analysis; redundancy analysis ordination and variation partitioning were performed to characterize regeneration niches and the importance of the spatial component. Results: Seedlings and saplings presented a clumped structure under both types of management and their distribution was found to be related to the spatial distribution of favourable microsites. Regeneration was positively related to conditions of partial cover with high soil water content during the summer. More than half of the explained variance was spatially structured in both types of stand. This percentage was particularly high in the even-aged stands where the pattern of regeneration was highly influenced by the gaps created by harvesting. Conclusions: The spatial distribution of the tree and shrub upperstory strongly influences regeneration patterns of P. sylvestris. Current management practices, promoting small gaps, partial canopy cover and moderate shade in even-aged stands, or favouring tree and shrub cover in the case of uneven-aged stands, appears to provide suitable conditions for the natural regeneration of P. sylvestris in a Mediterranean climate. [source] | |||||||||||||