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1.
A methodology for estimating environmental thresholds of binary presence–absence data is presented where the level of the threshold is parameterised. Presence–absence data is fitted to three complementary different models: an independent null-model, a monotonically increasing or decreasing model, and an optimum model. The range of the three models is strictly between zero and one and the models are therefore well suited for modelling presence probabilities. The results of the three models may be combined by using Bayesian model selection methodologies. The proposed methodology is exemplified on observed binary presence–absence data of Bauera rubioides along an elevation gradient. Received: May 2005 / Revised: July 2005 An erratum to this article is available at.  相似文献   

2.
Planning land-use for biodiversity conservation frequently involves computer-assisted reserve selection algorithms. Typically such algorithms operate on matrices of species presence–absence in sites, or on species-specific distributions of model predicted probabilities of occurrence in grid cells. There are practically always errors in input data—erroneous species presence–absence data, structural and parametric uncertainty in predictive habitat models, and lack of correspondence between temporal presence and long-run persistence. Despite these uncertainties, typical reserve selection methods proceed as if there is no uncertainty in the data or models. Having two conservation options of apparently equal biological value, one would prefer the option whose value is relatively insensitive to errors in planning inputs. In this work we show how uncertainty analysis for reserve planning can be implemented within a framework of information-gap decision theory, generating reserve designs that are robust to uncertainty. Consideration of uncertainty involves modifications to the typical objective functions used in reserve selection. Search for robust-optimal reserve structures can still be implemented via typical reserve selection optimization techniques, including stepwise heuristics, integer-programming and stochastic global search.  相似文献   

3.
Large, fine-grained samples are ideal for predictive species distribution models used for management purposes, but such datasets are not available for most species and conducting such surveys is costly. We attempted to overcome this obstacle by updating previously available coarse-grained logistic regression models with small fine-grained samples using a recalibration approach. Recalibration involves re-estimation of the intercept or slope of the linear predictor and may improve calibration (level of agreement between predicted and actual probabilities). If reliable estimates of occurrence likelihood are required (e.g., for species selection in ecological restoration) calibration should be preferred to other model performance measures. This updating approach is not expected to improve discrimination (the ability of the model to rank sites according to species suitability), because the rank order of predictions is not altered. We tested different updating methods and sample sizes with tree distribution data from Spain. Updated models were compared to models fitted using only fine-grained data (refitted models). Updated models performed reasonably well at fine scales and outperformed refitted models with small samples (10-100 occurrences). If a coarse-grained model is available (or could be easily developed) and fine-grained predictions are to be generated from a limited sample size, updating previous models may be a more accurate option than fitting a new model. Our results encourage further studies on model updating in other situations where species distribution models are used under different conditions from their training (e.g., different time periods, different regions).  相似文献   

4.
Most performance criteria which have been applied to train ecological models focus on the accuracy of the model predictions. However, these criteria depend on the prevalence of the training set and often do not take into account ecological issues such as the distinction between omission and commission errors. Moreover, a previous study indicated that model training based on different performance criteria results in different optimised models. Therefore, model developers should train models based on different performance criteria and select the most appropriate model depending on the modelling objective. This paper presents a new approach to train fuzzy models based on an adjustable performance criterion, called the adjusted average deviation (aAD). This criterion was applied to develop a species distribution model for spawning grayling in the Aare River near Thun, Switzerland. To analyse the strengths and weaknesses of this approach, it was compared to model training based on other performance criteria. The results suggest that model training based on accuracy-based performance criteria may produce unrealistic models at extreme prevalences of the training set, whereas the aAD allows for the identification of more accurate and more reliable models. Moreover, the adjustable parameter in this criterion enables modellers to situate the optimised models in the search space and thus provides an indication of the ecological model relevance. Consequently, it may support modellers and river managers in the decision making process by improving model reliability and insight into the modelling process. Due to the universality and the flexibility of the approach, it could be applied to any other ecosystem or species, and may therefore be valuable to ecological modelling and ecosystem management in general.  相似文献   

5.
Species distribution models (SDMs) based on statistical relationships between occurrence data and underlying environmental conditions are increasingly used to predict spatial patterns of biological invasions and prioritize locations for early detection and control of invasion outbreaks. However, invasive species distribution models (iSDMs) face special challenges because (i) they typically violate SDM's assumption that the organism is in equilibrium with its environment, and (ii) species absence data are often unavailable or believed to be too difficult to interpret. This often leads researchers to generate pseudo-absences for model training or utilize presence-only methods, and to confuse the distinction between predictions of potential vs. actual distribution. We examined the hypothesis that true-absence data, when accompanied by dispersal constraints, improve prediction accuracy and ecological understanding of iSDMs that aim to predict the actual distribution of biological invasions. We evaluated the impact of presence-only, true-absence and pseudo-absence data on model accuracy using an extensive dataset on the distribution of the invasive forest pathogen Phytophthora ramorum in California. Two traditional presence/absence models (generalized linear model and classification trees) and two alternative presence-only models (ecological niche factor analysis and maximum entropy) were developed based on 890 field plots of pathogen occurrence and several climatic, topographic, host vegetation and dispersal variables. The effects of all three possible types of occurrence data on model performance were evaluated with receiver operating characteristic (ROC) and omission/commission error rates. Results show that prediction of actual distribution was less accurate when we ignored true-absences and dispersal constraints. Presence-only models and models without dispersal information tended to over-predict the actual range of invasions. Models based on pseudo-absence data exhibited similar accuracies as presence-only models but produced spatially less feasible predictions. We suggest that true-absence data are a critical ingredient not only for accurate calibration but also for ecologically meaningful assessment of iSDMs that focus on predictions of actual distributions.  相似文献   

6.
We study a dynamic common pool resource game in which current resource stock depends on resource extraction in the previous period. Our model shows that for a sufficiently high regrowth rate, there is no commons dilemma: the resource will be preserved indefinitely in equilibrium. Lower growth rates lead to depletion. Laboratory tests of the model indicate that favorable ecological characteristics are necessary but insufficient to encourage effective CPR governance. Before the game, we elicit individual willingness to follow a costly rule. Only the presence of enough rule-followers preserves the resource given favorable ecological conditions.  相似文献   

7.
We investigated quantitatively the sensitivity of plant species response curves to sampling characteristics (number of plots, occurrence and frequency of species), along a simulated pH gradient. We defined 54 theoretical unimodal response curves, issued from combinations of six values for optimum (opt = 3, 4, …, 8), three values for tolerance (tol = 0.5, 1.0, and 1.5, sensu ter Braak and Looman [ter Braak, C.J.F., Looman, C.W.N., 1986. Weighted averaging, logistic regression and the Gaussian response model. Vegetatio 65, 3–11]), and three values for maximum probability of presence (pmax = 0.05, 0.20, and 0.50). For each of these 54 theoretical response curves, we built artificial binary data sets (presence/absence) to test the influence of species occurrence, frequency, or number of available plots. With real data extracted from EcoPlant, a phytoecological database for French forests [Gégout, J.-C., Coudun, Ch., Bailly, G., Jabiol, B., 2005. EcoPlant: a forest sites database linking floristic data with soil characteristics and climatic conditions. J. Veg. Sci. 16, 257–260], we compared the ecological response of 50 plant species to soil pH, based first on a small data set (100 randomly sampled plots), and then based on the whole data set available (3810 plots).  相似文献   

8.
Obtaining Environmental Favourability Functions from Logistic Regression   总被引:6,自引:0,他引:6  
Logistic regression is a statistical tool widely used for predicting species’ potential distributions starting from presence/absence data and a set of independent variables. However, logistic regression equations compute probability values based not only on the values of the predictor variables but also on the relative proportion of presences and absences in the dataset, which does not adequately describe the environmental favourability for or against species presence. A few strategies have been used to circumvent this, but they usually imply an alteration of the original data or the discarding of potentially valuable information. We propose a way to obtain from logistic regression an environmental favourability function whose results are not affected by an uneven proportion of presences and absences. We tested the method on the distribution of virtual species in an imaginary territory. The favourability models yielded similar values regardless of the variation in the presence/absence ratio. We also illustrate with the example of the Pyrenean desman’s (Galemys pyrenaicus) distribution in Spain. The favourability model yielded more realistic potential distribution maps than the logistic regression model. Favourability values can be regarded as the degree of membership of the fuzzy set of sites whose environmental conditions are favourable to the species, which enables applying the rules of fuzzy logic to distribution modelling. They also allow for direct comparisons between models for species with different presence/absence ratios in the study area. This makes them more useful to estimate the conservation value of areas, to design ecological corridors, or to select appropriate areas for species reintroductions. Received: June 2005 / Revised: July 2005  相似文献   

9.
An important aspect of species distribution modelling is the choice of the modelling method because a suboptimal method may have poor predictive performance. Previous comparisons have found that novel methods, such as Maxent models, outperform well-established modelling methods, such as the standard logistic regression. These comparisons used training samples with small numbers of occurrences per estimated model parameter, and this limited sample size may have caused poorer predictive performance due to overfitting. Our hypothesis is that Maxent models would outperform a standard logistic regression because Maxent models avoid overfitting by using regularisation techniques and a standard logistic regression does not. Regularisation can be applied to logistic regression models using penalised maximum likelihood estimation. This estimation procedure shrinks the regression coefficients towards zero, causing biased predictions if applied to the training sample but improving the accuracy of new predictions. We used Maxent and logistic regression (standard and penalised) to analyse presence/pseudo-absence data for 13 tree species and evaluated the predictive performance (discrimination) using presence-absence data. The penalised logistic regression outperformed standard logistic regression and equalled the performance of Maxent. The penalised logistic regression may be considered one of the best methods to develop species distribution models trained with presence/pseudo-absence data, as it is comparable to Maxent. Our results encourage further use of the penalised logistic regression for species distribution modelling, especially in those cases in which a complex model must be fitted to a sample with a limited size.  相似文献   

10.
M. Bhaud 《Marine Biology》1972,17(2):115-136
The geographical distribution of marine invertebrate species — Annelida Polychaeta in the present case — is not random. It permits the definition of partially overlapping biogeographical groups. These groups are disposed in a line corresponding to a north-south axis. The seasonal cycles of occurrence of pelagic larvae are considered in southern Scandinavia (on the basis of literature sources), in the western Mediterranean Sea, and in the Indian Ocean (both on the basis of own data). The criterium of reproduction is the presence of meroplanktonic larvae of benthonic species. In this way, it has been possible to distinguish stocks of boreal, temperate and sub-tropical affinity. Within a given stock, the breeding season depends on the site of observation and on ecological factors. The breeding season is retarded for 6 months in southarn Scandinavia as compared to the western Mediterranean Sea, although these species belong to the same stock. This type of comparative study allows emphasis of the role of certain ecological factors related to reproduction (temperature, abundance of phytoplankton, etc.). Breeding may be triggered by different ecological factors, even in animals belonging to one and the same geographical stock: in the Mediterranean Sea, the breeding of the so-called subtropical species seems to be controlled by temperature (monthly variations); in the Indian Ocean, by high levels of phytoplankton abundance. A comparison of temperate species with those of southern Scandinavia and the Mediterranean Sea reveals differences in breeding seasons, which are correlated with thermal regime; breeding does not occur below or above a specific temperature, but is restricted to an optimum value, which appears to be a physiological species characteristic.  相似文献   

11.
Several models have been proposed to understand how so many species can coexist in ecosystems. Despite evidence showing that natural habitats are often patchy and fragmented, these models rarely take into account environmental spatial structure. In this study we investigated the influence of spatial structure in habitat and disturbance regime upon species’ traits and species’ coexistence in a metacommunity. We used a population-based model to simulate competing species in spatially explicit landscapes. The species traits we focused on were dispersal ability, competitiveness, reproductive investment and survival rate. Communities were characterized by their species richness and by the four life-history traits averaged over all the surviving species. Our results show that spatial structure and disturbance have a strong influence on the equilibrium life-history traits within a metacommunity. In the absence of disturbance, spatially structured landscapes favour species investing more in reproduction, but less in dispersal and survival. However, this influence is strongly dependent on the disturbance rate, pointing to an important interaction between spatial structure and disturbance. This interaction also plays a role in species coexistence. While spatial structure tends to reduce diversity in the absence of disturbance, the tendency is reversed when disturbance occurs. In conclusion, the spatial structure of communities is an important determinant of their diversity and characteristic traits. These traits are likely to influence important ecological properties such as resistance to invasion or response to climate change, which in turn will determine the fate of ecosystems facing the current global ecological crisis.  相似文献   

12.
Species distribution models have often been developed based on ecological data. To develop reliable data-driven models, however, a sound model training and evaluation procedures are needed. A crucial step in these procedures is the assessment of the model performance, with as key component the applied performance criterion. Therefore, we reviewed seven performance criteria commonly applied in presence-absence modelling (the correctly classified instances, Kappa, sensitivity, specificity, the normalised mutual information statistic, the true skill statistic and the odds ratio) and analysed their application in both the model training and evaluation process. Although estimates of predictive performance have been used widely to assess final model quality, a systematic overview was missing because most analyses of performance criteria have been empirical and only focused on specific aspects of the performance criteria. This paper provides such an overview showing that different performance criteria evaluate a model differently and that this difference may be explained by the dependency of these criteria on the prevalence of the validation set. We showed theoretically that these prevalence effects only occur if the data are inseparable by an n-dimensional hyperplane, n being the number of input variables. Given this inseparability, different performance criteria focus on different aspects of model performance during model training, such as sensitivity, specificity or predictive accuracy. These findings have important consequences for ecological modelling because ecological data are mostly inseparable due to data noise and the complexity of the studied system. Consequently, it should be very clear which aspect of the model performance is evaluated, and models should be evaluated consistently, that is, independent of, or taking into account, species prevalence. The practical implications of these findings are clear. They provide further insight into the evaluation of ecological presence/absence models and attempt to assist modellers in their choice of suitable performance criteria.  相似文献   

13.
Current threats of invasive species have significant implications for ecological systems. Given their potential impacts, invasive species have been the subject of extensive empirical and theoretical studies. However, these studies have tended to focus on species that produce highly visible ecological and economic impacts. In our study, we take a step back from focusing on these high-impact invasive species, and examine the general colonization (invasion) process of exotic species that have various “competitive abilities” against the native species. Using a two-species cellular automaton model, we demonstrate that: (1) a threshold level of competitive ability is required for the exotic species to successfully establish in a new landscape and (2) an exotic species with superior competitive ability does not necessarily become dominant in a landscape (alternatively, a species that has inferior competitive ability may successfully colonize a new system). Our findings have significant implications for the study of species invasions and also provide clues to how species assemble in ecological communities.  相似文献   

14.
The persistence of species in reserves depends in large part on the persistence of functional ecological interactions. Despite their importance, however, ecological interactions have not yet been explicitly incorporated into conservation prioritization methods. We develop here a general method for incorporating consumer–resource interactions into spatial reserve design. This method protects spatial consumer–resource interactions by protecting areas that maintain the connectivity between the distribution of consumers and resources. We illustrate our method with a conservation planning case study of a mammalian predator, American marten (Martes americana), and its two primary prey species, Red-backed vole (Clethrionomys rutilus) and Deer mouse (Peromyscus maniculatus). The conservation goal was to identify a reserve for marten that comprised 12% of a forest management unit in the boreal forest in Québec, Canada. We compared reserves developed using analysis variants that utilized different levels of information about predator and prey habitat distributions, species-specific connectivity requirements, and interaction connectivity requirements. The inclusion of consumer–resource interactions in reserve-selection resulted in spatially aggregated reserves that maintained local habitat quality for the species. This spatial aggregation was not induced by applying a qualitative penalty for the boundary length of the reserve, but rather was a direct consequence of modelling the spatial needs of the interacting consumer and resources. Our method for maintaining connectivity between consumers and their resources within reserves can be applied even under the most extreme cases of either complete spatial overlap or complete spatial segregation of consumer–resource distributions. The method has been made available via public software.  相似文献   

15.
The evolution of female social relationships in nonhuman primates   总被引:38,自引:14,他引:38  
Considerable interspecific variation in female social relationships occurs in gregarious primates, particularly with regard to agonism and cooperation between females and to the quality of female relationships with males. This variation exists alongside variation in female philopatry and dispersal. Socioecological theories have tried to explain variation in female-female social relationships from an evolutionary perspective focused on ecological factors, notably predation and food distribution. According to the current “ecological model”, predation risk forces females of most diurnal primate species to live in groups; the strength of the contest component of competition for resources within and between groups then largely determines social relationships between females. Social relationships among gregarious females are here characterized as Dispersal-Egalitarian, Resident-Nepotistic, Resident-Nepotistic-Tolerant, or Resident-Egalitarian. This ecological model has successfully explained differences in the occurrence of formal submission signals, decided dominance relationships, coalitions and female philopatry. Group size and female rank generally affect female reproduction success as the model predicts, and studies of closely related species in different ecological circumstances underscore the importance of the model. Some cases, however, can only be explained when we extend the model to incorporate the effects of infanticide risk and habitat saturation. We review evidence in support of the ecological model and test the power of alternative models that invoke between-group competition, forced female philopatry, demographic female recruitment, male interventions into female aggression, and male harassment. Not one of these models can replace the ecological model, which already encompasses the between-group competition. Currently the best model, which explains several phenomena that the ecological model does not, is a “socioecological model” based on the combined importance of ecological factors, habitat saturation and infanticide avoidance. We note some points of similarity and divergence with other mammalian taxa; these remain to be explored in detail. Received: 30 September 1996 / Accepted after revision: 20 July 1997  相似文献   

16.
Abstract:  The ecological traits of species determine how well a species can withstand threats to which it is exposed. If these predisposing traits can be identified, species that are most at risk of decline can be identified and an understanding of the processes behind the declines can be gained. We sought to determine how body size, specificity of larval host plant, overwintering stage, type of host plant, and the interactions of these traits are related to the distribution change in noctuid moths. We used data derived from the literature and analyzed the effects of traits both separately and simultaneously in the same model. When we analyzed the traits separately, it seemed the most important determinants of distribution change were overwintering stage and type of host plant. Nevertheless, ecological traits are often correlated and the independent effect of each trait may not be seen in analyses in which traits are analyzed separately. When we accounted for other correlated traits, the results were substantially different. Only one trait (body size), but 3 interactions, explained distribution change. This finding suggests that distribution change is not determined by 1 or 2 traits; rather, the effect of the traits depends on other interacting traits. Such complexity makes it difficult to understand the processes behind distribution changes and emphasizes the need for basic ecological knowledge of species. With such basic knowledge, a more accurate picture of the factors causing distribution changes and increasing risk of extinction might be attainable.  相似文献   

17.
Ecological theory and current evidence support the validity of various species response curves according to a variety of environmental gradients. Various methods have been developed for building species distribution models but it is not well known how these methods perform under various assumptions about the form of the underlying species response. It is also not well known how spatial correlation in species occurrence affects model performance. These effects were investigated by applying an environmental envelope method (BIOCLIM) and three regression-based methods: logistic regression (LR), generalized additive modelling (GAM), and classification and regression tree (CART) to simulated species occurrence data. Each simulated species was constructed as a sum of responses with varying weights. Three basic species response curves were assumed: Gaussian (bell-shaped), Beta (skew) and linear. The two non-linear responses conform to standard ecological niche theory. All three responses were applied in turn to three simulated environmental variables, each with varying degrees of spatial autocorrelation. GAM produced the most consistent model performance over all forms of simulated species response. BIOCLIM and CART were inclined to underrate the performance of variables with a linear response. BIOCLIM was less sensitive to data density. LR was susceptible to model misspecification. The use of a linear function in LR underestimated the performance of variables with non-linear species response and contributed to increased spatial autocorrelation in model residuals. Omission of important environmental variables with non-linear species response also contributed to increased spatial autocorrelation in model residuals. Adding a spatial autocovariate term to the LR model (autologistic model) reduced the spatial autocorrelation and improved model performance, but did not correct the misidentification of the dominant environmental determinant. This is to be expected since the autologistic approach was designed primarily for prediction and not for inference. Given that various forms of species response to environmental determinants arise commonly in nature: (1) higher order functions should always be tested when applying LR in modelling species distribution; (2) spatial autocorrelation in species distribution model residuals can indicate that environmental determinants with non-linear response are missing from the model; and (3) deficiencies in LR model performance due to model misspecification can be addressed by adding a spatial autocovariate to the model, but care should be taken when interpreting the coefficients of the model parameters.  相似文献   

18.
Parents may increase the probability of offspring survival by choosing suitable rearing sites where risks are as low as possible. Predation and competition are major selective pressures influencing the evolution of rearing site selection. Poison frogs look after their clutches and deposit the newly hatched tadpoles in bodies of water where they remain until metamorphosis. In some species, cannibalism occurs, so parents deposit their tadpoles singly in very small pools. However, cannibalism also occurs in species that deposit tadpoles in larger pools already occupied by heterospecific or conspecific larvae that could be either potential predators or competitors. Here, I test the hypothesis that, given the choice, males of Dendrobates tinctorius would deposit their newly hatched tadpoles in low-risk sites for their offspring. I characterised the pools used by D. tinctorius for tadpole deposition, conducted experiments to determine the larval traits that predict the occurrence of and latency to cannibalism, and tested whether parents deposit their tadpoles in low-risk pools. I found that (1) neither pool capacity nor the presence of other larvae predict the presence/absence or number of tadpoles; (2) cannibalism occurs often, and how quickly it occurs depends on the difference in size between the tadpoles involved; and (3) the likelihood of males depositing their tadpoles in occupied pools increases with the size of the resident tadpole. I suggest that predation/cannibalism is not the only factor that parents assess when choosing deposition sites, and that the presence of larger conspecifics may instead provide information about pool quality and stability.  相似文献   

19.
The development of approaches to estimate the vulnerability of biological communities and ecosystems to extirpations and reductions of species is a central challenge of conservation biology. One key aim of this challenge is to develop quantitative approaches to estimate and rank interaction strengths and keystoneness of species and functional groups, i.e. to quantify the relative importance of species. Network analysis can be a powerful tool for this because certain structural aspects of ecological networks are good indicators of the mechanisms that maintain co-evolved, biotic interactions. A static view of ecological networks would lead us to focus research on highly-central species in food webs (topological key players in ecosystems). There are a variety of centrality indices, developed for several types of ecological networks (e.g. for weighted and un-weighted webs). However, truly understanding extinction and its community-wide effects requires the use of dynamic models. Deterministic dynamic models are feasible when population sizes are sufficiently large to minimize noise in the overall system. In models with small population sizes, stochasticity can be modelled explicitly. We present a stochastic simulation-based ecosystem model for identification of “dynamic key species” in situations where stochastic models are appropriate. To demonstrate this approach, we simulated ecosystem dynamics and performed sensitivity analysis using data from the Prince William Sound, Alaska ecosystem model. We then compare these results to those of purely topological analyses and deterministic dynamic (Ecosim) studies. We present the relationships between various topological and dynamic indices and discuss their biological relevance. The trophic group with the largest effect on others is nearshore demersals, the species mostly sensitive to others is halibut, and the group of both considerable effect on and sensitivity to others is juvenile herring. The most important trophic groups in our dynamical simulations appear to have intermediate trophic levels.  相似文献   

20.
Although long-lived tree species experience considerable environmental variation over their life spans, their geographical distributions reflect sensitivity mainly to mean monthly climatic conditions. We introduce an approach that incorporates a physiologically based growth model to illustrate how a half-dozen tree species differ in their responses to monthly variation in four climatic-related variables: water availability, deviations from an optimum temperature, atmospheric humidity deficits, and the frequency of frost. Rather than use climatic data directly to correlate with a species’ distribution, we assess the relative constraints of each of the four variables as they affect predicted monthly photosynthesis for Douglas-fir, the most widely distributed species in the region. We apply an automated regression-tree analysis to create a suite of rules, which differentially rank the relative importance of the four climatic modifiers for each species, and provide a basis for predicting a species’ presence or absence on 3737 uniformly distributed U.S. Forest Services’ Forest Inventory and Analysis (FIA) field survey plots. Results of this generalized rule-based approach were encouraging, with weighted accuracy, which combines the correct prediction of both presence and absence on FIA survey plots, averaging 87%. A wider sampling of climatic conditions throughout the full range of a species’ distribution should improve the basis for creating rules and the possibility of predicting future shifts in the geographic distribution of species.  相似文献   

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