GIS and remote sensing-based spatial models for commercial fisheries assessment

By applying a novel set of multidisciplinary GIS, remote sensing and spatial modelling approaches, research presented in this thesis advances our knowledge of the distribution patterns, fishery and ecological status of an important commercial benthic macro-invertebrate, blacklip abalone, in south-east Australia.

Simulating urban growth in a developing nation's region using a cellular automata-based model

Urbanization is one of the most evident global changes. Research in the field of urban growth modelling has generated models that explore for drivers and components of the urban growth dynamics. Cellular automata (CA) modeling is one of the recent advances, and a number of CA-based models of urban growth have produced satisfactory simulations of spatial urban expansion over time. Most application and test of CA-based models of urban growth which provide likely and reliable simulations has been developed in urban regions of developed nations; urban regions in the United States, in particular. This is because most of the models were developed in universities and research centers of developed nations, and these regions have the required data, which is extensive. Most of the population growth in the world, however, occurs in the developing world. While some European countries show signs of stabilization of their population, in less developed countries, such as India, population still grows exponentially. And this growth is normally uncoordinated, which results in serious environmental and social problems in urban areas. Therefore, the use of existing dynamic–spatial models of urban growth in regions of developing nations could be a means to assist planners and decision makers of these regions to understand and simulate the process of urban growth and test the results of different development strategies. The pattern of growth of urban regions of developing nations, however, seems to be different of the pattern of developed countries. The former use to be more dense and centralized, normally expanding outwards from consolidated urban areas; while the second is normally more fragmented and sparse. The present paper aims to investigate to how extent existing CA-based urban growth models tested in developed nations can also be applied to a developing country urban area. The urban growth model was applied to Porto Alegre City, Brazil. An expected contiguous expansion from existing urban areas has been obtained as following the historical trends of growth of the region. Moreover, the model was sensitive and able to portray different pattern of growth in the study area by changing the value of its parameters.

Comparison of Two Methods for Caluculating the Partition Functions of Various Spatial Statistical Models

Likelihood computation in spatial statistics requires accurate and efficient calculation of the normalizing constant (i.e. partition function) of the Gibbs distribution of the model. Two available methods to calculate the normalizing constant by Markov chain Monte Carlo methods are compared by simulation experiments for an Ising model, a Gaussian Markov field model and a pairwise interaction point field model.

Modelling solute transport in structured soils: performance evaluation of the ADR and TRM models

The movement of chemicals through the soil to the groundwater or discharged to surface waters represents a degradation of these resources. In many cases, serious human and stock health implications are associated with this form of pollution. The chemicals of interest include nutrients, pesticides, salts, and industrial wastes. Recent studies have shown that current models and methods do not adequately describe the leaching of nutrients through soil, often underestimating the risk of groundwater contamination by surface-applied chemicals and overestimating the concentration of resident solutes. This inaccuracy results primarily from ignoring soil structure and nonequilibrium between soil constituents, water, and solutes. A multiple sample percolation system (MSPS), consisting of 25 individual collection wells, was constructed to study the effects of localized soil heterogeneities on the transport of nutrients (NO−3, Cl−, PO3−4) in the vadose zone of an agricultural soil predominantly dominated by clay. Very significant variations in drainage patterns across a small spatial scale were observed (one-way ANOVA, p < 0.001 indicating considerable heterogeneity in water flow patterns and nutrient leaching. Using data collected from the multiple sample percolation experiments, this paper compares the performance of two mathematical models for predicting solute transport, the advective-dispersion model with a reaction term (ADR), and a two-region preferential flow model (TRM) suitable for modelling nonequilibrium transport. These results have implications for modelling solute transport and predicting nutrient loading on a larger scale.

Spatial prediction of rufous bristlebird habitat in a coastal heathland: a GIS-based approach

1. To develop a conservation management plan for a species, knowledge of its distribution and spatial arrangement of preferred habitat is essential. This is a difficult task, especially when the species of concern is in low   abundance. In south-western Victoria, Australia, populations of the rare rufous bristlebird Dasyornis broadbenti are threatened by fragmentation of suitable habitat. In order to improve the conservation status of this species, critical habitat requirements must be identified and a system of corridors must be established to link known populations. A predictive spatial model of rufous bristlebird habitat was developed in order to identify critical areas requiring preservation, such as corridors for dispersal.
2. Habitat models generated using generalized linear modelling techniques can assist in delineating the specific habitat requirements of a species. Coupled with geographic information system (GIS) technology, these models can be extrapolated to produce maps displaying the spatial configuration of suitable habitat.
3. Models were generated using logistic regression, with bristlebird presence or absence as the dependent variable and landscape variables, extracted from both GIS data layers and multispectral digital imagery, as the predictors. A multimodel inference approach based on Akaike’s information criterion was used and the resulting model was applied in a GIS to extrapolate predicted likelihood of occurrence across the entire area of concern. The predictive performance of the selected model was evaluated using the receiver operating characteristic (ROC) technique. A hierarchical partitioning protocol was used to identify the predictor variables most likely to influence variation in the dependent variable. Probability of species presence was used as an index of habitat suitability.
4. Negative associations between rufous bristlebird presence and  increasing elevation, 'distance to cree', 'distance to coast' and sun index were evident, suggesting a preference for areas relatively low in altitude, in close proximity to the coastal fringe and drainage lines, and receiving less direct sunlight. A positive association with increasing habitat complexity also suggested that this species prefers areas containing high vertical density of vegetation.
5. The predictive performance of the selected model was shown to be high (area under the curve 0·97), indicating a good fit of the model to the data. Hierarchical partitioning analysis showed that all the variables considered had significant  independent contributions towards explaining the variation in the dependent variable. The proportion of the total study area that was predicted as suitable habitat for the rufous bristlebird (using probability of occurrence at a ≥0·5 level ) was 16%.
6. Synthesis and applications. The spatial model clearly delineated areas predicted as highly suitable rufous bristlebird habitat, with evidence of potential corridors linking coastal and inland populations via gullies. Conservation of this species will depend on management actions that protect the critical habitats identified in the model. A multi-scale  approach to the modelling process is recommended whereby a spatially explicit model is first generated using landscape variables extracted from a GIS, and a second model at site level is developed using fine-scale habitat variables measured on the ground. Where there are constraints on the time and cost involved in measuring finer scale variables, the first step alone can be used for conservation planning.

Landscape characteristics associated with species richness and occurrence of small native mammals inhabiting a coastal heathland: a spatial modelling approach

In the coastal region of south-western Victoria, Australia, populations of native small mammal species are restricted to patches of suitable habitat in a highly fragmented landscape. The size and spatial arrangement of these patches is likely to influence both the occupancy and richness of species at a location. Geographic Information System (GIS)-based habitat models of the species richness of native small mammals, and individual species  occurrences, were developed to produce maps displaying the spatial  configuration of suitable habitat. Models were generated using either generalised linear Poisson regression (for species richness) or logistic regression (for species occurrences) with species richness or  presence/absence as the dependent variable and landscape variables, extracted from both GIS data layers and multi-spectral digital imagery, as the predictor variables. A multi-model inference approach based on the Akaike Information Criterion was used and the resulting model was applied in a GIS framework to extrapolate predicted richness/likelihood of occurrence across the entire area of the study. A negative association between species  richness and elevation, habitat complexity and sun index indicated that richness within the study area decreases with increasing altitude, vertical vegetation structure and exposure to solar radiation. Landform  characteristics were important (to varying degrees) in determining habitat occupancy for all of the species examined, while the influence of habitat complexity was important for only one of the species. Performance of all but one of the models generated using presence/absence data was high, as indicated by the area under the curve of a receiver-operating characteristic plot. The effective conservation of the small mammal species in the area of concern is likely to depend on management actions that promote the protection of the critical habitats identified in the models.

Predicting the distribution of discrete spatial events using artificial neural networks

Although the development of geographic information system (GIS) technology and digital data manipulation techniques has enabled practitioners in the geographical and geophysical sciences to make more efficient use of resource information, many of the methods used in forming spatial prediction models are still inherently based on traditional techniques of map stacking in which layers of data are combined under the guidance of a theoretical domain model. This paper describes a data-driven approach by which Artificial Neural Networks (ANNs) can be trained to represent a function characterising the probability that an instance of a discrete event, such as the presence of a mineral deposit or the sighting of an endangered animal species, will occur over some grid element of the spatial area under consideration. A case study describes the application of the technique to the task of mineral prospectivity mapping in the Castlemaine region of Victoria using a range of geological, geophysical and geochemical input variables. Comparison of the maps produced using neural networks with maps produced using a density estimation-based technique demonstrates that the maps can reliably be interpreted as representing probabilities. However, while the neural network model and the density estimation-based model yield similar results under an appropriate choice of values for the respective parameters, the neural network approach has several advantages, especially in high dimensional input spaces.

Spatial and temporal distribution of solute leaching in heterogeneous soils: analysis and application to multisampler lysimeter data

Accurate assessment of the fate of salts, nutrients, and pollutants in natural, heterogeneous soils requires a proper quantification of both spatial and temporal solute spreading during solute movement. The number of experiments with multisampler devices that measure solute leaching as a function of space and time is increasing. The breakthrough curve (BTC) can characterize the temporal aspect of solute leaching, and recently the spatial solute distribution curve (SSDC) was introduced to describe the spatial solute distribution. We combined and extended both concepts to develop a tool for the comprehensive analysis of the full spatio-temporal behavior of solute leaching. The sampling locations are ranked in order of descending amount of total leaching (defined as the cumulative leaching from an individual compartment at the end of the experiment), thus collapsing both spatial axes of the sampling plane into one. The leaching process can then be described by a curved surface that is a function of the single spatial coordinate and time. This leaching surface is scaled to integrate to unity, and termed S can efficiently represent data from multisampler solute transport experiments or simulation results from multidimensional solute transport models. The mathematical relationships between the scaled leaching surface S, the BTC, and the SSDC are established. Any desired characteristic of the leaching process can be derived from S. The analysis was applied to a chloride leaching experiment on a lysimeter with 300 drainage compartments of 25 cm2 each. The sandy soil monolith in the lysimeter exhibited fingered flow in the water-repellent top layer. The observed S demonstrated the absence of a sharp separation between fingers and dry areas, owing to diverging flow in the wettable soil below the fingers. Times-to-peak, maximum solute fluxes, and total leaching varied more in high-leaching than in low-leaching compartments. This suggests a stochastic–convective transport process in the high-flow streamtubes, while convection–dispersion is predominant in the low-flow areas. S can be viewed as a bivariate probability density function. Its marginal distributions are the BTC of all sampling locations combined, and the SSDC of cumulative solute leaching at the end of the experiment. The observed S cannot be represented by assuming complete independence between its marginal distributions, indicating that S contains information about the leaching process that cannot be derived from the combination of the BTC and the SSDC.

Bayesian classification of catchments using spatial data: a first step to improved modelling of catchment effects on stream ecological condition

A major challenge facing freshwater ecologists and managers is the development of models that link stream ecological condition to catchment scale effects, such as land use. Previous attempts to make such models have followed two general approaches. The bottom-up approach employs mechanistic models, which can quickly become too complex to be useful. The top-down approach employs empirical models derived from large data sets, and has often suffered from large amounts of unexplained variation in stream condition.

We believe that the lack of success of both modelling approaches may be at least partly explained by scientists considering too wide a breadth of catchment type. Thus, we believe that by stratifying large sets of catchments into groups of similar types prior to modelling, both types of models may be improved. This paper describes preliminary work using a Bayesian classification software package, ‘Autoclass’ (Cheeseman and Stutz 1996) to create classes of catchments within the Murray Darling Basin based on physiographic data.

Autoclass uses a model-based classification method that employs finite mixture modelling and trades off model fit versus complexity, leading to a parsimonious solution. The software provides information on the posterior probability that the classification is ‘correct’ and also probabilities for alternative classifications. The importance of each attribute in defining the individual classes is calculated and presented, assisting description of the classes. Each case is ‘assigned’ to a class based on membership probability, but the probability of membership of other classes is also provided. This feature deals very well with cases that do not fit neatly into a larger class. Lastly, Autoclass requires the user to specify the measurement error of continuous variables.

Catchments were derived from the Australian digital elevation model. Physiographic data werederived from national spatial data sets. There was very little information on measurement errors for the spatial data, and so a conservative error of 5% of data range was adopted for all continuous attributes. The incorporation of uncertainty into spatial data sets remains a research challenge.

The results of the classification were very encouraging. The software found nine classes of catchments in the Murray Darling Basin. The classes grouped together geographically, and followed altitude and latitude gradients, despite the fact that these variables were not included in the classification. Descriptions of the classes reveal very different physiographic environments, ranging from dry and flat catchments (i.e. lowlands), through to wet and hilly catchments (i.e. mountainous areas). Rainfall and slope were two important discriminators between classes. These two attributes, in particular, will affect the ways in which the stream interacts with the catchment, and can thus be expected to modify the effects of land use change on ecological condition. Thus, realistic models of the effects of land use change on streams would differ between the different types of catchments, and sound management practices will differ.

A small number of catchments were assigned to their primary class with relatively low probability. These catchments lie on the boundaries of groups of catchments, with the second most likely class being an adjacent group. The locations of these ‘uncertain’ catchments show that the Bayesian classification dealt well with cases that do not fit neatly into larger classes.

Although the results are intuitive, we cannot yet assess whether the classifications described in this paper would assist the modelling of catchment scale effects on stream ecological condition. It is most likely that catchment classification and modelling will be an iterative process, where the needs of the model are used to guide classification, and the results of classifications used to suggest further refinements to models.

Predictive distribution models and their application in wildlife conservation

Wildlife managers are often faced with the difficult task of determining the distribution of species, and their preferred habitats, at large spatial scales. This task is even more challenging when the species of concern is in low abundance and/or the terrain is largely inaccessible. Spatially explicit distribution models, derived from multivariate statistical analyses and implemented in a geographic information system (GIS), can be used to predict the distributions of species and their habitats, thus making them a useful conservation tool. We present two such models: one for a dasyurid, the Swamp Antechinus (Antechinus minimus), and the other for a ground-dwelling bird, the Rufous Bristlebird (Dasyornis broadbenti), both of which are rare species occurring in the coastal heathlands of south-western Victoria. Models were generated using generalized linear modelling (GLM) techniques with species presence or absence as the independent variable and a series of landscape variables derived from GIS layers and high-resolution imagery as the predictors. The most parsimonious model, based on the Akaike Information Criterion, for each species then was extrapolated spatially in a GIS. Probability of species presence was used as an index of habitat suitability. Because habitat fragmentation is thought to be one of the major threats to these species, an assessment of the spatial distribution of suitable habitat across the landscape is vital in prescribing management actions to prevent further habitat fragmentation.

A framework for mapping vegetation over broad spatial extents : a technique to aid land management across jurisdictional boundaries

Mismatches in boundaries between natural ecosystems and land governance units often complicate an ecosystem approach to management and conservation. For example, information used to guide management, such as vegetation maps, may not be available or consistent across entire ecosystems. This study was undertaken within a single biogeographic region (the Murray Mallee) spanning three Australian states. Existing vegetation maps could not be used as vegetation classifications differed between states. Our aim was to describe and map ‘tree mallee’ vegetation consistently across a 104 000km2 area of this region. Hierarchical cluster analyses, incorporating floristic data from 713 sites, were employed to identify distinct vegetation types. Neural network classification models were used to map these vegetation types across the region, with additional data from 634 validation sites providing a measure of map accuracy. Four distinct vegetation types were recognised: Triodia Mallee, Heathy Mallee, Chenopod Mallee and Shrubby Mallee. Neural network models predicted the occurrence of three of them with 79% accuracy. Validation results identified that map accuracy was 67% (kappa = 0.42) when using independent data. The framework employed provides a simple approach to describing and mapping vegetation consistently across broad spatial extents. Specific outcomes include: (1) a system of vegetation classification suitable for use across this biogeographic region; (2) a consistent vegetationmapto inform land-use planning and biodiversity management at local and regional scales; and (3) a quantification of map accuracy using independent data. This approach is applicable to other regions facing similar challenges associated with integrating vegetation data across jurisdictional boundaries.

A chemotactic-based model for spatial activity recognition

Spatial activity recognition in everyday environments is particularly challenging due to noise incorporated during video-tracking. We address the noise issue of spatial recognition with a biologically inspired chemotactic model that is capable of handling noisy data. The model is based on bacterial chemotaxis, a process that allows bacteria to survive by changing motile behaviour in relation to environmental dynamics. Using chemotactic principles, we propose the chemotactic model and evaluate its classification performance in a smart house environment. The model exhibits high classification accuracy (99%) with a diverse 10 class activity dataset and outperforms the discrete hidden Markov model (HMM). High accuracy (>89%) is also maintained across small training sets and through incorporation of varying degrees of artificial noise into testing sequences. Importantly, unlike other bottom–up spatial activity recognition models, we show that the chemotactic model is capable of recognizing simple interwoven activities.

Spatial reasoning via active observation

This paper presents a model for space in which an autonomous agent acquires information about its environment. The agent uses a predefined exploration strategy to build a map allowing it to navigate and deduce relationships between points in space. The shapes of objects in the environment are represented qualitatively. This shape information is deduced from the agent's motion. Normally, in a qualitative model, directional information degrades under transitive deduction. By reasoning about the shape of the environment, the agent can match visual events to points on the objects. This strengthens the model by allowing further relationships to be deduced. In particular, points that are separated by long distances, or complex surfaces, can be related by line-of-sight. These relationships are deduced without incorporating any metric information into the model. Examples are given to demonstrate the use of the model.

Tracking and surveillance in wide-area spatial environments using the abstract hidden markov model.

In this paper, we consider the problem of tracking an object and predicting the object's future trajectory in a wide-area environment, with complex spatial layout and the use of multiple sensors/cameras. To solve this problem, there is a need for representing the dynamic and noisy data in the tracking tasks, and dealing with them at different levels of detail. We employ the Abstract Hidden Markov Models (AHMM), an extension of the well-known Hidden Markov Model (HMM) and a special type of Dynamic Probabilistic Network (DPN), as our underlying representation framework. The AHMM allows us to explicitly encode the hierarchy of connected spatial locations, making it scalable to the size of the environment being modeled. We describe an application for tracking human movement in an office-like spatial layout where the AHMM is used to track and predict the evolution of object trajectories at different levels of detail.