The confusion between scale-defined levels and conventional levels of organization in ecology

Abstract. Conventional levels of organization in ecology can be hierarchically ordered, but there is not necessarily a time or space scale-dependent difference between the classes: cell, organism, population, community, ecosystem, landscape, biome and biosphere. The physical processes that ecological systems must obey are strictly scaled in time and space, but communities or ecosystems may be either large or small. Conventional levels of organization are not scale-dependent, but are criteria for telling foreground from background, or the object from its context. We erect a scheme that separates scale-ordered levels from the conventional levels of organization. By comparing landscapes, communities and ecosystems all at the same scale, we find that communities and ecosystems do not map onto places on the landscape. Rather, communities and ecosystems are wave interference patterns between processes and organisms interfering with and accomodating to each other, even though they occur at different scales on the landscape, and so have different periodicities in their waved behavior. Population members are usually commensurately scaled and so do not generally interact to give interference patterns. Populations are therefore tangible, oratleastcan be assigned a location at an instant in time.     

The Hierarchical Structure of Ecosystems: Connections to Evolution

Ecologic systems, which are involved mainly in the processing of energy and materials, are actually nested one inside another—they are simultaneously parts and wholes. This fundamental hierarchical organization is easy to detect in nature but has been undervalued by ecologists as a source of new insights about the structure and development of ecosystems and as a means of understanding the crucial connections between ecologic processes and large-scale evolutionary patterns. These ecologic systems include individual organisms bundled into local populations, populations as functional components of local communities or ecosystems, local systems making up the working parts of larger regional ecosystems, and so on, right up to the entire biosphere. Systems at any level of organization can be described and interpreted based on aspects of scale (size, duration, and “membership” in more inclusive entities), integration (all the vital connections both at a particular focal level and across levels of hierarchical organization), spatiotemporal continuity (the “life history” of each system), and boundaries (either membranes, skins, or some other kind of border criterion). Considering hierarchical organization as a general feature of ecologic systems could reinvigorate theoretical ecology, provide a realistic scaling framework for paleoecologic studies, and – most importantly – forge new and productive connections between ecology and evolutionary theory.     

Ecological boundaries in the context of hierarchy theory

Ecological boundaries have been described as being multiscalar or hierarchical entities. However, the concept of the ecological boundary has not been explicitly examined in the context of hierarchy theory. We explore how ecological boundaries might be envisioned as constituents of scalar hierarchical systems. Boundaries may be represented by the surfaces of constituents or as constituents themselves. Where surfaces would correspond to abrupt transition zones, boundary systems might be quite varied depending on hierarchical context. We conclude that hierarchy theory is compatible with a functional vision of ecological boundaries where functions can be largely represented as the processing or filtering of ecological signals. Furthermore, we postulate that emergent ecological boundaries that arise on a new hierarchical level may contribute to the overconnectedness of mature ecosystems. Nevertheless, a thermodynamic approach to the emergence and development of boundary systems does indicate that in many situations, ecological boundaries would persist in time by contributing to the energy production of higher hierarchical levels.     

昆虫生态学试验设计中时空转换的技巧

时空转换最初是研究植物群落演替的方法,目前作为一种理论推断在社会科学、地理信息和地质分析等领域应用,在昆虫生态学中的应用很少,本文介绍了空间换取时间与时间换取空间两种方法,能够巧妙地缩短很多昆虫生态学的试验时间,或增加研究范围内的样本数,在大尺度景观研究昆虫迁移、预测预报、栖境恢复等方面具有重要意义。这种时空转换的技巧在昆虫生态学的研究的有广阔的应用前景。     

3S技术在城市绿地生态研究中的应用

介绍了城市绿地生态研究中的遥感特点 ,并论述了 3S技术在城市绿地覆盖清查、绿地三维量估测、绿地生态质量监测、绿地景观格局及其动态分析、适宜度评价和城市绿地景观生态规划上的应用现状 ,提出了现存的问题 ,并对其未来发展的方向作了展望。     

Diadromy,history and ecology: a question of scale

The existence of diadromous migrations has significant implications for understanding a broad series of biogeographical and ecological questions and for doing so across a broad range of spatial and temporal scales. Understanding these implications is important for interpretation of patterns in historical and ecological biogeography as well as in community ecology and conservation. This article explores these implications. Guest editors: S. Dufour, E. Prévost, E. Rochard & P. Williot Fish and diadromy in Europe (ecology, management, conservation)     

Defining the abundance body-size constraint space: data from a real food web

Using density and body-size data for a well-documented food web, the Ythan estuary, Aberdeenshire, we show that the shape of the constraint space is broadly similar to that proposed by Brown, and the slope (regression coefficient) of the plot of the central tendency is not significantly different from global or community data sets. However, the steepness of the plot is very sensitive to the degree of taxonomic resolution of species entities, particularly those of small body-size, although the overall shape of the constraint space does not change. When more fully resolved, the regression slope differs markedly from those of most freshwater and terrestrial studies. In addition, the upper bound of the constraint space is, contrary to theoretical expectations, insensitive to gross changes in the system's productivity. The dramatic increase in productivity that has led to an increase in abundance of invertebrates in the Ythan does not visibly affect the upper bound of the constraint space. Our results show that the traditional approach to comparing systems by the regression slopes of central trends is probably meaningless unless data sets are resolved to a similar degree of taxonomic resolution, and that detecting productivity effects on the location of the upper bound will be difficult.     

Effect of a mass of lead in the incubator space of growing cells

Mouse fibroblasts (3T3 line) growing in vitro in an incubator were subjected to inclusion in the incubator space of different masses and different arrangements of metallic lead. It was found that the mass of lead was positively correlated with death of a percentage of the 3T3 cells. Aside from mass, a second property of the lead, that of shape, was also found to be related to the percentage cell death. Progeny of 3T3 cells whose parents had been previously exposed to lead during their growth were found to have developed a resistance to its cytocidal effect on subsequent exposure. Such progeny cells showed no increase in cell death over the period of time which proved lethal to cells which had not had prior exposure to lead in their environment.     

Generalizing Levins metapopulation model in explicit space: models of intermediate complexity

A recent study [Harding and McNamara, 2002. A unifying framework for metapopulation dynamics. Am. Nat. 160, 173-185] presented a unifying framework for the classic Levins metapopulation model by incorporating several realistic biological processes, such as the Allee effect, the Rescue effect and the Anti-rescue effect, via appropriate modifications of the two basic functions of colonization and extinction rates. Here we embed these model extensions on a spatially explicit framework. We consider population dynamics on a regular grid, each site of which represents a patch that is either occupied or empty, and with spatial coupling by neighborhood dispersal. While broad qualitative similarities exist between the spatially explicit models and their spatially implicit (mean-field) counterparts, there are also important differences that result from the details of local processes. Because of localized dispersal, spatial correlation develops among the dynamics of neighboring populations that decays with distance between patches. The extent of this correlation at equilibrium differs among the metapopulation types, depending on which processes prevail in the colonization and extinction dynamics. These differences among dynamical processes become manifest in the spatial pattern and distribution of “clusters” of occupied patches. Moreover, metapopulation dynamics along a smooth gradient of habitat availability show significant differences in the spatial pattern at the range limit. The relevance of these results to the dynamics of disease spread in metapopulations is discussed.     

Parasitoids of the goldenrod gall moth: effects of scale on spatial density dependence

Summary A parasitoid assemblage consisting of four hymenopteran species caused larval and pupal mortality of the host Gnorimoschema gallaeosolidaginis. In the absence of discrete host patches, the relationship between densities of hosts and parasitized hosts was examined on scales of 0.25, 1, 4, 16 and 25 m² within a 400 m² plot and between ten 16 m² plots within a 1·3 km² area. Within the 400 m² plot, positive density dependence was observed on scales of 1, 4 and 16 m². Rates of parasitism were found to be density independent across the ten 16 m² plots. The nature of parasitoid and host spatial patterns were examined at the 400 m² plot by using Goodall's (1974) paired-quadrat variance function, and by fitting the observed distribution of galls and parasitized galls to the Poisson and negative binomial on three scales. Postive density dependence at the 400 m² plot occurred in the context of a host density gradient and may indicate aggregation of search time by parasitoids. However, significant responses on scales of 4 and 16 m² may only reflect the sum of parasitoid responses on lower scales because of this gradient. Predominance of significant responses on a 1 m² scale may be related to the high degree of variation in host density, and limits to active searching range of parasitoids.     

Environmental diversity: on the best-possible use of surrogate data for assessing the relative biodiversity of sets of areas

The conservation goal of representation of biodiversity (in the broad sense of all species) in protected areas requires best-possible use of available surrogate information. One standard approach is based on indicator groups of taxa. A minimum set of areas having at least one representation of each indicator species is taken to be representative of other organisms. This same minimum-set approach is adapted to other attributes of biodiversity, for example, derived environmental clusters. A weakness of these approaches is that useful information is lost; for example, for environmental clusters, there is no distinction made either among or within clusters. A more powerful surrogate approach can use some expression of environmental and/or biotic pattern so that variation among areas is seen as part of a continuum rather than partitioned into arbitrary clusters/attributes. The challenge in using pattern effectively is to adopt a robust model for the relationship between pattern and the underlying units of biodiversity, i.e. species. An environmental space (a continuum or ordination pattern), combined with the standard ecological continuum model relating species to environmental space, has advantages over other patterns based on hierarchy or distance matrices. Because an environmental space can be estimated either directly (observed environmental data) or indirectly (data on indicator groups), the corresponding surrogate-measure of biodiversity, environmental diversity (ED) makes best-possible use of either kind of data. We conclude that the arbitrariness of the attribute approach can be replaced by a robust surrogate pattern approach that is flexible and avoids unwarranted assumptions.     

A new amphipathy scale: I. Determination of the scale from molecular dynamics data

Two new amphipathy scales elaborated from molecular dynamics data are presented. Their applications contribute for the identification of the hydrophobic or hydrophilic regions in proteins solely from the primary structure. The new amphipathy coefficients (AC) reflect the side chain/solvent molecules configurational energies. A polar (water) and an apolar solvent, CCl₄, were used resulting in the two AC_water and AC_CCl4 scales. These solvents were chosen to simulate the aqueous phases and the transmembrane ambients of cellular membranes where the membrane proteins act. The new amphipathy scales were compared with some previous scales determined by different methods, which were also compared between them, indicating more than 90% of the correlation coefficients are less than 0.9: the scales are strictly dependent on the methodologies used in their determination. The AC_CCl4 scale is related with the size of side chain amino acids while AC_water is related with the hydrophobicity of side chain amino acids. The quality of the scales was confirmed by an example of application where AC_water was able to identify correctly the transmembrane, hydrophobic regions of a membrane protein. These results also indicate that water is an important factor responsible for the tertiary structure of membrane proteins.     

Multiple co-inertia analysis: a tool for assessing synchrony in the temporal variability of aquatic communities

Multitable techniques are rarely used for investigating patterns in ecological data surveys despite their ability to deal with the spatial and/or temporal stability of assemblages. Based on a covariance optimisation criterion, Multiple Co-inertia analysis (MCOA) enables the simultaneous ordination of several tables. Such analysis allows the representation of the stable vs. unstable part of the assemblage structure in comparison to a reference derived from each table. We used MCOA on multiple time series of invertebrate sampling to show that synchrony in the temporal variability of communities can establish between geographically distant locations despite the spatial and temporal plasticity of the faunistic responses to long-term changes in environmental conditions.     

Distinguishing technology from biology: a critical review of the use of GPS telemetry data in ecology

In the past decade, ecologists have witnessed vast improvements in our ability to collect animal movement data through animal-borne technology, such as through GPS or ARGOS systems. However, more data does not necessarily yield greater knowledge in understanding animal ecology and conservation. In this paper, we provide a review of the major benefits, problems and potential misuses of GPS/Argos technology to animal ecology and conservation. Benefits are obvious, and include the ability to collect fine-scale spatio-temporal location data on many previously impossible to study animals, such as ocean-going fish, migratory songbirds and long-distance migratory mammals. These benefits come with significant problems, however, imposed by frequent collar failures and high cost, which often results in weaker study design, reduced sample sizes and poorer statistical inference. In addition, we see the divorcing of biologists from a field-based understanding of animal ecology to be a growing problem. Despite these difficulties, GPS devices have provided significant benefits, particularly in the conservation and ecology of wide-ranging species. We conclude by offering suggestions for ecologists on which kinds of ecological questions would currently benefit the most from GPS/Argos technology, and where the technology has been potentially misused. Significant conceptual challenges remain, however, including the links between movement and behaviour, and movement and population dynamics.     

Specificity space,the structure and evolution of metabolic pathways: Part II of a general theory

Biomolecular structures are interacting in terms of their force fields. These force fields define the specificity surfaces of the molecules. Specificity surfaces are represented by specificity vectors in a multidimensional specificity space. A quantitative analytical expression is developed for biochemical reactions and the evolution of metabolic pathways in the specificity space. This leads to detailed identification of various biomolecular processes with individual terms in the equation. This theoretical analysis permits defining detailed function and resolution requirement of enzymes, as well as, how these fit into the overall metabolic pattern of the cell. This paper is Part II of a general theory of the physical basis of the biological state of matter.     

Symposium introduction: The importance of scale in ecology

Abstract Conceptual issues about scale, both spatial and temporal, have had considerable influence on the way in which ecologists view populations, communities and ecosystems. Scale includes two aspects: the extent over which a community or ecosystem is studied, and the resolution or ‘grain’ at which measurements or experiments are conducted. We illustrate the influence of extent and grain on perceptions of ecological patterns and processes, derived from fundamental measurements, field experiments and theory and modelling. These concepts provide background for a series of subsequent papers that were presented at a symposium on spatial and temporal scaling in freshwater systems. These papers conclude that multi-scale measurements and experiments plus novel methodologies for analysing large-scale surveys and manipulations should be priorities for future research in freshwater systems.     

Multivariate analysis of benthic invertebrate communities: the implication of choosing particular data standardizations,measures of association,and ordination methods

Benthic invertebrate data from thirty-nine lakes in south-central Ontario were analyzed to determine the effect of choosing particular data standardizations, resemblance measures, and ordination methods on the resultant multivariate summaries. Logarithmic-transformed, 0–1 scaled, and ranked data were used as standardized variables with resemblance measures of Bray-Curtis, Euclidean distance, cosine distance, correlation, covariance and chi-squared distance. Combinations of these measures and standardizations were used in principal components analysis, principal coordinates analysis, non-metric multidimensional scaling, correspondence analysis, and detrended correspondence analysis. Correspondence analysis and principal components analysis using a correlation coefficient provided the most consistent results irrespective of the choice in data standardization. Other approaches using detrended correspondence analysis, principal components analysis, principal coordinates analysis, and non-metric multidimensional scaling provided less consistent results. These latter three methods produced similar results when the abundance data were replaced with ranks or standardized to a 0–1 range. The log-transformed data produced the least consistent results, whereas ranked data were most consistent. Resemblance measures such as the Bray-Curtis and correlation coefficient provided more consistent solutions than measures such as Euclidean distance or the covariance matrix when different data standardizations were used. The cosine distance based on standardized data provided results comparable to the CA and DCA solutions. Overall, CA proved most robust as it demonstrated high consistency irrespective of the data standardizations. The strong influence of data standardization on the other ordination methods emphasizes the importance of this frequently neglected stage of data analysis.     

Extended dissimilarity: a method of robust estimation of ecological distances from high beta diversity data

It is widely accepted that reliable ordination of ecological data requires a strong linear or ordinal relationship between the dissimilarity of sites, based on species composition, and the ecological distance between them. Certain dissimilarity measures, having the property that they take a fixed maximum value when sites have no species in common, have been shown to be strongly correlated with ecological distance. For ecological gradients of moderate length (moderate beta diversity), such measures, in conjunction with non-metric multidimensional scaling, will reliably yield successful ordinations. However, as beta diversity increases, more sites have no species in common, and such measures invariably under-estimate ecological distance for such sites. Thus ordinations of data with high species turnover (high beta diversity) may fail.Extended dissimilarities are defined using an iterative adaptation of flexible shortest path adjustment applied to the matrix of dissimilarities with fixed maximum values. By means of theoretical argument and simulations, this is shown to lead to far stronger correlations between the adjusted site dissimilarity and ecological distance for ecological gradients of greater length than previously considered. Hence ordinations of extended dissimilarities, by means of either metric or non-metric scaling techniques, are shown to outperform corresponding ordinations of unadjusted dissimilarities, with the difference increasing with increasing beta diversity.