Why do traditional dispersion indices used for analysis of spatial distribution of plants tend to become obsolete?

It is common to characterize the spatial distribution of plant patterns as random, aggregate, or uniform. In this context, a major challenge for the researcher is the choice of the method to identify the spatial pattern correctly as well as the factors related to it. The vast literature on the subject is not recent, especially regarding the dispersion indices. The aim of this review was to conduct a critical and temporal analysis of these dispersion indices and test their effectiveness in determining the spatial distribution of Paepalanthus chiquitensis Herzog (Eriocaulaceae). This species is a meaningful model due to its occurrence in specific sites. The Lexis, Charlier, dispersion, relative variance, aggregation, Green, inverse of k of the negative binomial, Morisita, and standardized Morisita indices were limited to indicating that the individuals of the species are aggregate and did not provide information on neither spatial dimension (scale) where the aggregation occurs, nor the factors related to this aggregation. Although they have distinct magnitudes, the algebraic expressions of dispersion, relative variance, aggregation, Green, inverse of k, Morisita, and standardized Morisita indices exhibited a close relationship with each other and little progress from their precursors Lexis and Charlier. By disregarding the possibility of spatial dependence, these indices make it impossible to generate important hypotheses for the investigation of factors related to spatial structure. Therefore, they became obsolete and are falling into disuse. It should be noted that these measurements accomplished their role and contributed to science in times of limited technologies for spatial data.     

Spatio-temporal dynamics of <Emphasis Type="Italic">Scotinophara lurida</Emphasis> (Hemiptera: Pentatomidae) in rice fields

Studying the spatial pattern of insect pests and the temporal stability of their patterns is important in understanding underlying ecological mechanisms and in developing pest management programs in cultivated crop systems. To elucidate the spatio-temporal pattern of the black rice bug, Scotinophara lurida, in rice fields, samplings were conducted in two rice fields over 2 years. Using spatial analysis by distance indices, the spatial pattern of each developmental stage of S. lurida and their temporal stability of the spatial pattern were identified. Most of the I _a (the index of aggregation) values for overwintered adults and eggs of S. lurda were close to 1, indicating random distribution pattern while nymphs and new adults mainly had I _a values >1, indicating an aggregated distribution pattern. According to spatial association analysis between successive samples using X (the index of spatial association), the spatial pattern of S. lurida showed strong temporal stability throughout the season. Also, there was strong association between the spatial patterns of developmental stages, indicating the great effect of the spatial pattern of the previous developmental stage on that of later developmental stage. Factors influencing the spatial pattern and spatial stability of S. lurida are discussed.     

一种新的景观扩张指数的定义与实现

景观格局动态信息的定量表达始终是景观生态学研究的一个重要科学问题,景观格局指数是其中的一种重要方法,但其多是静态指数,难以有效定量表达景观格局的动态信息.因此,针对景观扩张过程以斑块扩张面积为基础提出了一种新的景观扩张指数,来表达景观格局的动态信息.并以妫水河流域1998-2009年的景观农田化过程为例,验证该指数的适用性,结果表明:该指数不仅能够定量表达斑块的空间扩张规模,而且可以准确识别斑块的空间扩张模式.根据扩张斑块与原斑块的空间位置关系,将景观的空间扩张模式划分为邻接扩张式和外部扩张式两种.提出的景观扩张指数在技术方法上计算简便,易于实现,完善了景观格局动态的量化表征科学方法.     

Coral reef flounders,Bothus lunatus,choose substrates on which they can achieve camouflage with their limited body pattern repertoire

Camouflage is a common tactic to avoid detection or recognition by predators and prey. Flounders have adaptive camouflage but a limited body pattern repertoire. We tested whether peacock flounders actively select or avoid certain substrates to more effectively use their limited camouflaging ability. We acquired and analyzed ten 30‐min videos of individual flounders on a coral reef in Bonaire, Dutch Caribbean. Using Manly's beta resource selection indices, we were able to confirm that peacock flounders at this location preferred to settle on neutral‐coloured substrates, such as sand and dead coral. Moreover, they avoided live coral, cyanobacteria, and sponges, which are often brightly coloured (e.g. yellow, orange, and purple). Quantitative analyses of photographs of settled flounders indicate that they use uniform and mottled camouflage patterns, and that the small‐to‐moderate spatial scale of their physiologically controlled light and dark skin components limits their camouflage capabilities to substrates with similar colour and spatial frequencies. These fishes changed their body pattern very fast. We did not observe disruptive body patterns, which are generally characterized by large‐scale skin components and higher contrast. The results suggest that flounders are using visual information to actively choose substrates on which they can achieve general background resemblance. © 2014 The Linnean Society of London, Biological Journal of the Linnean Society, 2015, 114 , 629–638.     

Development and Applications of Five New Water Quality Indices

Two indices, P₁ and I, employing ranked data and following the beta distribution, are described. These indices, which are true statistical measures of water quality, can be used with any set of parameters. Further, these indices correlate highly with biological and subjective-engineering assessments of water quality. Three indices, employing raw data and based on the chi-square distribution, are described. Two of these, B₁ and B₂, do not have sufficient discrimination to serve as general measures of water quality, although they have use in specific circumstances. The index C has been found to be a measure of excessive variability (at a station), and can be used to quantitatively compare the (data) variability among stations. The five indices described here are evaluated against a set of operational criteria which a mathematically sound index should meet.     

Within‐field spatial distribution patterns of corn planthopper,Peregrinus maidis,and severity of hopperburn and Maize mosaic virus symptoms as influenced by sunn hemp intercropping

Habitat management (e.g., intercropping) may alter within‐field spatial distribution patterns of herbivores, from a typical pattern as observed in a monoculture, and may influence patterns of crop injury. Field trials were conducted to study the effect of intercropping maize, Zea mays L. (Poaceae), with sunn hemp, Crotalaria juncea L. (Fabaceae) strips on within‐field spatial distribution patterns of corn planthopper, Peregrinus maidis (Ashmead) (Hemiptera: Delphacidae), and combined severity of hopperburn and Maize mosaic virus (MMV) (Rhabdoviridae: Nucleorhabdovirus) symptoms. In each field trial, spatially explicit data on P. maidis counts and ratings of severity of symptoms were obtained by sampling maize plants at weekly intervals. These data were used to examine the spatial patterns of P. maidis and severity of symptoms in maize‐intercropped and monoculture plots with Spatial Analysis for Distance IndicEs (SADIE) methodology. Spatial aggregation patterns of P. maidis in each treatment plot were not consistent among the field trials and tended to be mediated by their population densities. Interpolation of local cluster indices showed that P. maidis were more often aggregated at the field edges, irrespective of treatment. At times of MMV incidence in field trials (fall 2010 and spring 2011), the patch clusters of P. maidis and symptomatic plants were located at the field edges, but were spatially unassociated in both treatment plots. The results provided an approximation of the unpredictability of P. maidis spatial patterns at different population densities and their association with severity of symptoms in two maize‐cropping systems. However, the gap clusters of symptomatic plants were primarily located at the field interiors and were larger in intercropped than in monoculture plots. Such spatial pattern of symptomatic plants resulted in the reduced incidence of MMV in the intercropped plot compared with the monoculture plot, suggesting intercropping sunn hemp can be a useful tool in the management of MMV in maize fields.     

Do commonly used indices of β‐diversity measure species turnover?

Abstract. Indices of β‐diversity are of two major types, (1) those that measure among‐plot variability in species composition independently of the position of individual plots on spatial or environmental gradients, and (2) those that measure the extent of change in species composition along predefined gradients, i.e. species turnover. Failure to recognize this distinction can lead to the inappropriate use of some β‐diversity indices to measure species turnover. Several commonly‐used indices of β‐diversity are based on Whittaker's β_W (β_W = γ/α, where γ is the number of species in an entire study area and α is the number of species per plot within the study area). It is demonstrated that these indices do not take into account the distribution of species on spatial or environmental gradients, and should therefore not be used to measure species turnover. The terms ‘β‐diversity’ and ‘species turnover’ should not be used interchangeably. Species turnover can be measured using matrices of compositional similarity and physical or environmental distances among pairs of study plots. The use of indices of β‐diversity and similarity‐distance curves is demonstrated using simulated data sets.     

Structure of Flower in Arabidopsis thaliana: Spatial Pattern Formation

Morphological analysis of flowers was carried out in Arabidopsis thaliana wild type plants and agamous and apetala2 mutants. No direct substitution of organs takes place in the mutants, since the number and position of organs in them do not correspond to the structure of wild type flower. In order to explain these data, a notion of spatial pattern formation in the meristem was introduced, which preceded the processes of appearance of organ primordia and formation of organs. Zones of acropetal and basipetal spatial pattern formation in the flower of wild type plants were postulated. It was shown that the acropetal spatial pattern formation alone took place in agamous mutants and basipetal spatial pattern formation alone, in apetala2 mutants. Different variants of flower structure are interpreted as a result of changes in the volume of meristem (space) and order of spatial pattern formation (time).     

海南岛甘什岭热带低地雨林棕榈藤空间点格局分析

以海南岛甘什岭热带低地雨林白藤(Calamus tetradactylus)、大白藤(C.faberii)、华南省藤(C.rhabdocladus)、黄藤(Daemonorops margaritae)和小钩叶藤(Plectocomia microstachys)5种棕榈藤种群为研究对象,采用点格局分析方法对棕榈藤种内和种间空间分布格局及相互关系进行分析。结果表明:(1)海南岛甘什岭热带低地雨林棕榈藤种群的空间格局与空间尺度有着密切的关系,在小尺度上,5种棕榈藤种群都更倾向于聚集分布,随着尺度的增长,各棕榈藤种群主要趋向于随机分布,形成不同的空间分布格局。(2)各藤种间的空间关联情况在整体尺度上表现出明显负关联的是白藤和黄藤、白藤和大白藤,这可能是因为它们对生存空间及养分的需求相同或相似,存在明显的竞争关系。(3)华南省藤和大白藤在整体尺度上表现出明显正关联,这可能是由于它们在生长过程中相互庇护,用于抵御动物捕食和热带雨林内多变的外部环境。(4)黄藤和小钩叶藤以及白藤和小钩叶藤呈现出明显不相关,这说明它们对环境和生存空间的依赖没有冲突性,能做到和平共存。     

Geographic Assessment of Present Protected Areas in Japan for Representativeness of Forest Communities

Most assessments of present protected areas have focused on which features are or are not represented and to what extent, but they have not considered the environmental gradients and the geographic context within each biodiversity feature under a conservation network. We examined how protected areas are distributed with respect to the distribution of six forest community types. Three analyses were applied to the dataset in the Red Data Book of Plant Communities in Japan and the related survey: (1) recursive partitioning was used to contrast environmental factors of conserved communities with nonconserved communities; (2) point pattern analysis, based on Ripley's K function, was used to describe the spatial pattern of conserved communities; and (3) the spatial scan statistic was used to detect spatial representation gaps. Overall, environmental bias was greatest in relation to soil and topography. However, the results of point pattern analysis showed that the spatial pattern of conserved communities did not depend entirely on the distribution of environmental factors. Four types of gaps in spatial representation were detected by the spatial scan statistic, irrespective of environmental bias. These results showed that although a community type might be well protected in total or along the environmental gradients, conserved communities might not capture the full range of geographic context. To ensure appropriate representation or protection, it is important that conservation planning for protected areas take into account both the environmental gradients and the geographic context within each biodiversity feature.     

An analysis of the vegetation pattern in a semi-arid Eucalyptus populnea woodland in north-west New South Wales

Shrub invasion of Eucalyptus populnea woodland is of concern to the pastoral industry. As part of an ecosystem study, different analyses were used to identify spatial pattern and associations in the tree and shrub species, with the aim of identifying what factors were most influential on the ecosystem. The results suggested that there were no strong edaphic or topographic influences on the distribution of plants. The principal influence on the arrangement of trees and shrubs was the large Eucalyptus trees, which were randomly arranged, and the canopy of which covered 15% of the area. It is concluded that any disturbance of the large Eucalyptus trees would have intense effects on the whole ecosystem. Qualitative and quantitative measurements of the plant species in sample quadrats were subjected to a variety of pattern analyses including association analysis (DIVINF), correlation analysis, principal components analysis and several classification programs including POLYDIV and MULCLAS. A criticism of such analyses is that positive results are both inevitable and not subject to statistical proof, whilst their strength is that they can simplify complicated sets of data. In this case the patterns suggested by the results were visually apparent and no additional insights were achieved. The dangers inherent in relying on a single pattern analysis were revealed when the groups of quadrats produced by the different analyses were mapped. Even when the groupings derived from different analyses were based on a similar species content, their spatial arrangement was dissimilar.     

Interpreting biogeographical boundaries among Afrotropical birds: spatial patterns in richness gradients and species replacement

Aim We analyse the geographical distribution of 1911 Afrotropical bird species using indices of three simple biogeographic patterns. The first index, the frequency of species with range edges (T_e), is formulated to map directly the density of species distribution limits, for comparison with the results of traditional biogeographical classification and ordination procedures, in order to show variations in the strength and breadth of transition zones. The other two indices are formulated to seek to distinguish as directly as possible between two components within these transition-zone patterns: contributions from gradients in species richness (T_g); and contributions from replacements among species (T_r). We test the ability of these indices to discover the same boundaries among Afrotropical bird faunas as one popular procedure for classifying areas (TWINSPAN) and then use them to look for geographical trends in the different kinds of transition zones. Location The analysis is restricted to the sub-Saharan or Afrotropical region, excluding the Arabian Peninsula, Madagascar and all offshore islands. Methods We record the presence of each species in 1961 1°×1° grid cells of the map. To apply the three indices, each (core) grid cell in turn is compared with its neighbouring eight cells in the grid. The range edges index (T_e) counts the number of species with range edges between the core cell and the surrounding cells. The richness gradients index (T_g) counts the largest difference in species richness measured diametrically across the core cell in any direction when there is a consistent trend in richness along this line of three cells. The species replacements index (T_r) counts the number of species pairs recorded within a nine-cell neighbourhood that are not corecorded within any of the cells. Values for each of the 1961 grid cells are calculated and used to produce colour-scale maps of transition zones. Results Large-scale spatial patterns of variation in density of range edges (T_e) are consistent with classifications of the same data and with most previous biogeographical classifications proposed for the region. Variation in richness gradients (T_g) and species replacements (T_r) explain different parts of this pattern, with transition zones around humid forests in the equatorial region being dominated by species replacement, and transition zones around deserts (most extensive in the north and south) being dominated by richness gradients. Main conclusions The three indices distinguish the spatial arrangement and intensity of different kinds of transition zones, thereby providing a first step towards a more rigorous mechanistic understanding of the different processes by which they may have arisen and are maintained. As an example of one such pattern shown by our analyses of Afrotropical birds, there is evidence for a broad latitudinal trend in the nature of transition zones in faunal composition (following the latitudinal distribution of the different kinds of habitat transitions), from being dominated by species replacements near the equator to being dominated by richness gradients further from the equator.     

Clustering of plant life strategies on meso-scale

The spatial pattern of life strategies gives us clues about what factors are important for structuring the vegetation and at which scale they work. In this study, we look at the spatial distribution of the CSR-strategies of Grime on a meso-scale (larger than 50 m × 50 m) in a temperate forest. To detect the spatial pattern of the different life forms, 79 plant species were surveyed according to a grid with 2431 cells of 50 m × 50 m. For each cell C, S and R-values were calculated and their spatial distribution was studied. The spatial patterns were then explained by available environmental factors. The different plant strategies clearly showed an aggregated pattern on a scale larger than 50 m × 50 m. This non-random and unequal distribution of the different life strategies could be explained by the factors that are under the control of the forest management, namely “distance to road” and “dominant (planted) tree species”. Patches with high C-values (C-biotopes) where found under pine, S-biotopes where found under mixed oak-beech and pure beech stands of 100 to 150 years old. R-biotopes were bound to the roads.     

Natural regeneration of forest related to the spatial structure of trees: A study of two forest communities in Western Carpathians,southern Poland

The existence of a relationship between the spatial pattern of trees and the distribution of young individuals beneath the canopy has been tested in the beech (Fagus sylvatica) and spruce (Picea abies) — fir (Abies alba) forests in the mountainous region, using two different methods. The first method was the analysis of spatial pattern of individuals, the second one was based on calculating sums of influences of all trees occurring within analysed plot on a given point on the forest floor. Results of spatial pattern analyses were surprisingly consistent: almost all mature trees and seedlings didplayed a random pattern of spatial arrangement. However, there is a clear, although statistically insignificant tendency towards uniformity of spatial pattern with increasing sizes of analysed trees. Results of comparing sums of influences on regularly distributed points with sums of influences on seedlings or saplings revealed no tendency in forest regeneration to concentrate in places, where the sums were smaller than the average for a plot. This, coupled with the dominance of random spatial pattern of trees, suggests, that viewed on a small spatial scale, influence of competition among forest trees on their spatial arrangement is obscured by other factors, which are not closely related to the distribution of individuals.     

Bottom Communities of Semyachik Lagoon (Kronotskii Biosphere Reserve, Eastern Kamchatka)

Bottom communities of Potamogeton filiformis,Zostera marina+ Z. japonica+ Macoma balthica, Enteromorpha prolifera, and a stony block–boulder intertidal community were distinguished in Semyachik Lagoon. The macrobenthos associated with these communities is described. Generally, the biomass and occurrence frequency indices of the macrozoobenthic communities of the lagoon are an order of magnitude lower than those of macrophytobenthic communities (Kafanov, Plekhov, 1998); therefore, they do not play a significant role in bottom community structure. With the exception of the stony block–boulder intertidal community, their spatial distribution is entirely determined by the distribution of underwater vegetation, which is completely controlled by the geomorphological and hydrological features of the lagoon.     

Large-Scale Diversity of Slope Fishes: Pattern Inconsistency between Multiple Diversity Indices

Large-scale studies focused on the diversity of continental slope ecosystems are still rare, usually restricted to a limited number of diversity indices and mainly based on the empirical comparison of heterogeneous local data sets. In contrast, we investigate large-scale fish diversity on the basis of multiple diversity indices and using 1454 standardized trawl hauls collected throughout the upper and middle slope of the whole northern Mediterranean Sea (36°3′- 45°7′ N; 5°3′W - 28°E). We have analyzed (1) the empirical relationships between a set of 11 diversity indices in order to assess their degree of complementarity/redundancy and (2) the consistency of spatial patterns exhibited by each of the complementary groups of indices. Regarding species richness, our results contrasted both the traditional view based on the hump-shaped theory for bathymetric pattern and the commonly-admitted hypothesis of a large-scale decreasing trend correlated with a similar gradient of primary production in the Mediterranean Sea. More generally, we found that the components of slope fish diversity we analyzed did not always show a consistent pattern of distribution according either to depth or to spatial areas, suggesting that they are not driven by the same factors. These results, which stress the need to extend the number of indices traditionally considered in diversity monitoring networks, could provide a basis for rethinking not only the methodological approach used in monitoring systems, but also the definition of priority zones for protection. Finally, our results call into question the feasibility of properly investigating large-scale diversity patterns using a widespread approach in ecology, which is based on the compilation of pre-existing heterogeneous and disparate data sets, in particular when focusing on indices that are very sensitive to sampling design standardization, such as species richness.     

Scaling up: examining the macroecology of ectomycorrhizal fungi

Ectomycorrhizal (ECM) fungi play major ecological roles in temperate and tropical ecosystems. Although the richness of ECM fungal communities and the factors controlling their structure have been documented at local spatial scales, how they vary at larger spatial scales remains unclear. In this issue of Molecular Ecology, Tedersoo et al. (2012) present the results of a meta‐analysis of ECM fungal community structure that sheds important new light on global‐scale patterns. Using data from 69 study systems and 6021 fungal species, the researchers found that ECM fungal richness does not fit the classic latitudinal diversity gradient in which species richness peaks at lower latitudes. Instead, richness of ECM fungal communities has a unimodal relationship with latitude that peaks in temperate zones. Intriguingly, this conclusion suggests the mechanisms driving ECM fungal community richness may differ from those of many other organisms, including their plant hosts. Future research will be key to determine the robustness of this pattern and to examine the processes that generate and maintain global‐scale gradients of ECM fungal richness.     

Spatial patterns in seed bank and vegetation of semi-natural mountain meadows

Soil seed bank composition and vegetative spatial patterns were studied in four mountain meadow communities in the Broto Valley (N. Spain), in order to analyse the differences that might exists between the two life forms. Soil and vegetation samples were taken at 1 m intervals from 10 m × 10 m quadrats in each meadow in one-year study. The spatial distribution of species was analysed along with the calculation of an autocorrelation coefficient which takes account of the relative position of samples: (Moran’s I). The results indicate that the abundance of the majority of the species in the seed bank and in the vegetation are randomly distributed, the percentage of species with a clumped distribution only exceeds 35% in the vegetation of one meadow and none of the taxa identified showed a uniform spatial organisation. The species that were distributed in the seed bank in a clumped pattern in more than one meadow were those of the pioneer species (Anagallis arvensis, Centaurium erythraea, Lamium purpureum and Stellaria media). All of these formed long-term persistent seed banks but were absent in the established vegetation in these meadows. According to the results, there exist not only differences between the spatial distribution of the species present in the same community, but also, that some species change their pattern of distribution according to the life form and to the grassland type in which they are found.     

Phylogeny contributes more than site characteristics and traits to the spatial distribution pattern of tropical tree populations

Dispersal mechanism, species height, sexual system, and wood density are potential drivers of the spatial distribution pattern of tropical tree populations. These traits are usually conserved among closely related species, thus populations of these species should have more similar spatial distribution patterns than populations of phylogenetically distant species. Additionally, variation in the abiotic and biotic environment might result in distinct spatial distribution patterns of local populations of the same species. We employed variation partitioning to determine the degree to which traits, shared evolutionary history, site characteristics, and their joint effects govern the degree of overdispersion or aggregation of tree populations at different spatial scales within fourteen 1‐ha plots of the Atlantic Rainforest in southeastern Brazil. We quantified the degree of overdispersion or aggregation with a new standardized index err(r) based on standardized effect sizes of the pair correlation function. Variation in err(r) was mostly explained by phylogenetic relationships among species (70–95%, depending on spatial scale), indicating that traits not included in our analysis are important drivers of the spatial distribution pattern. Site characteristics explained a smaller part of the variation, indicating context‐dependence. Finally, the traits studied here provided the smallest explanation of the variation, suggesting a minor role of seed dispersal. Residual variation in err(r) ranged from 5–29%, indicating that stochasticity and/or variables not included in the models (e.g. direct measures of post‐dispersal processes) also influence the spatial distribution pattern of the populations. Our results suggest that many ecological processes act in concert at the study site and that their importance changes with spatial scale. Additionally, the relative importance of these processes differs from that previously described for other tropical forests. Determining why a given ecological process is more important in some tropical tree communities than in others are promising venues for further research.