Integrated step selection analysis: bridging the gap between resource selection and animal movement

Summary A resource selection function is a model of the likelihood that an available spatial unit will be used by an animal, given its resource value. But how do we appropriately define availability? Step selection analysis deals with this problem at the scale of the observed positional data, by matching each ‘used step’ (connecting two consecutive observed positions of the animal) with a set of ‘available steps’ randomly sampled from a distribution of observed steps or their characteristics. Here we present a simple extension to this approach, termed integrated step selection analysis (iSSA), which relaxes the implicit assumption that observed movement attributes (i.e. velocities and their temporal autocorrelations) are independent of resource selection. Instead, iSSA relies on simultaneously estimating movement and resource selection parameters, thus allowing simple likelihood-based inference of resource selection within a mechanistic movement model. We provide theoretical underpinning of iSSA, as well as practical guidelines to its implementation. Using computer simulations, we evaluate the inferential and predictive capacity of iSSA compared to currently used methods. Our work demonstrates the utility of iSSA as a general, flexible and user-friendly approach for both evaluating a variety of ecological hypotheses, and predicting future ecological patterns.

[1]  E. Revilla,et al.  A movement ecology paradigm for unifying organismal movement research , 2008, Proceedings of the National Academy of Sciences.

[2]  Mevin B Hooten,et al.  Estimating animal resource selection from telemetry data using point process models. , 2013, The Journal of animal ecology.

[3]  Ian D. Jonsen,et al.  META‐ANALYSIS OF ANIMAL MOVEMENT USING STATE‐SPACE MODELS , 2003 .

[4]  Jason Matthiopoulos,et al.  The use of space by animals as a function of accessibility and preference , 2003 .

[5]  Mark S Boyce,et al.  Correlation and studies of habitat selection: problem, red herring or opportunity? , 2010, Philosophical Transactions of the Royal Society B: Biological Sciences.

[6]  F. Underwood,et al.  Resource selection by animals. Statistical design and analysis for field studies: By Bryan F. J. Manly, Lyman L. McDonald & Dana L. Thomas. Chapman & Hall, London. 1993. 172 pp. ISBN 0 412 40140 1 (hardback). Price: £27·95 , 1994 .

[7]  B. Manly,et al.  Resource selection by animals: statistical design and analysis for field studies. , 1994 .

[8]  P. Turchin Quantitative Analysis Of Movement , 1998 .

[9]  J A Merkle,et al.  A memory-based foraging tactic reveals an adaptive mechanism for restricted space use. , 2014, Ecology letters.

[10]  G. Odell,et al.  Swarms of Predators Exhibit "Preytaxis" if Individual Predators Use Area-Restricted Search , 1987, The American Naturalist.

[11]  Charles C. Elton Animal Ecology , 1927, Nature.

[12]  Kurt C. VerCauteren,et al.  Animal and Plant Health Inspection Service 2010 An evaluation of three statistical methods used to model resource selection , 2017 .

[13]  Thierry Duchesne,et al.  Equivalence between Step Selection Functions and Biased Correlated Random Walks for Statistical Inference on Animal Movement , 2015, PloS one.

[14]  P. Moorcroft,et al.  Analytic steady-state space use patterns and rapid computations in mechanistic home range analysis , 2007, Journal of mathematical biology.

[15]  Damien A. Fordham,et al.  How interactions between animal movement and landscape processes modify local range dynamics and extinction risk , 2014, Biology Letters.

[16]  M. Lewis,et al.  A generalized residual technique for analysing complex movement models using earth mover's distance , 2014, 1402.1805.

[17]  Daniel Fortin,et al.  Mixed conditional logistic regression for habitat selection studies. , 2010, The Journal of animal ecology.

[18]  Jason Matthiopoulos,et al.  'You shall not pass!': quantifying barrier permeability and proximity avoidance by animals. , 2016, The Journal of animal ecology.

[19]  Wayne M. Getz,et al.  A framework for generating and analyzing movement paths on ecological landscapes , 2008, Proceedings of the National Academy of Sciences.

[20]  Ulrike E. Schlägel,et al.  Detecting effects of spatial memory and dynamic information on animal movement decisions , 2014 .

[21]  B. Sandel Towards a taxonomy of spatial scale‐dependence , 2015 .

[22]  Lael Parrott,et al.  Spatio-temporal dynamics in the response of woodland caribou and moose to the passage of grey wolf. , 2014, The Journal of animal ecology.

[23]  Steve Cherry,et al.  Modeling utilization distributions in space and time. , 2009, Ecology.

[24]  M. Boyce,et al.  Relating populations to habitats using resource selection functions. , 1999, Trends in ecology & evolution.

[25]  Bryan F. J. Manly,et al.  Assessing habitat selection when availability changes , 1996 .

[26]  K. Painter,et al.  Transport and anisotropic diffusion models for movement in oriented habitats , 2013 .

[27]  O. Ovaskainen,et al.  State-space models of individual animal movement. , 2008, Trends in ecology & evolution.

[28]  Paul R Moorcroft,et al.  Mechanistic home range models capture spatial patterns and dynamics of coyote territories in Yellowstone , 2006, Proceedings of the Royal Society B: Biological Sciences.

[29]  Edward A. Codling,et al.  Random walk models in biology , 2008, Journal of The Royal Society Interface.

[30]  Mevin B Hooten,et al.  Practical guidance on characterizing availability in resource selection functions under a use-availability design. , 2013, Ecology.

[31]  S. L. Lima,et al.  Towards a behavioral ecology of ecological landscapes. , 1996, Trends in ecology & evolution.

[32]  P. Kareiva,et al.  Analyzing insect movement as a correlated random walk , 1983, Oecologia.

[33]  Rob Deardon,et al.  An empirically parameterized individual based model of animal movement, perception, and memory , 2013 .

[34]  Monica G. Turner,et al.  Scale and heterogeneity in habitat selection by elk in Yellowstone National Park , 2003 .

[35]  M. Gail,et al.  Likelihood calculations for matched case-control studies and survival studies with tied death times , 1981 .

[36]  Dag Ø. Hjermann,et al.  Analyzing habitat selection in animals without well-defined home ranges , 2000 .

[37]  G. Aarts,et al.  Advancing our thinking in presence-only and used-available analysis. , 2013, The Journal of animal ecology.

[38]  Peter Turchin,et al.  Translating Foraging Movements in Heterogeneous Environments into the Spatial Distribution of Foragers , 1991 .

[39]  Chris J. Johnson,et al.  REVIEW: Can habitat selection predict abundance? , 2016, The Journal of animal ecology.

[40]  Bryan F. J. Manly,et al.  The Use of Discrete-Choice Models for Evaluating Resource Selection , 1998 .

[41]  S. Levin,et al.  Diffusion and Ecological Problems: Modern Perspectives , 2013 .

[42]  Paul R Moorcroft,et al.  Mechanistic home range models and resource selection analysis: a reconciliation and unification. , 2006, Ecology.

[43]  Hugh P. Possingham,et al.  A SPATIALLY EXPLICIT HABITAT SELECTION MODEL INCORPORATING HOME RANGE BEHAVIOR , 2005 .

[44]  John Fieberg,et al.  Kernel density estimators of home range: smoothing and the autocorrelation red herring. , 2007, Ecology.

[45]  Darcy R. Visscher,et al.  Inferring behavioural mechanisms in habitat selection studies getting the null‐hypothesis right for functional and familiarity responses , 2013 .

[46]  Bryan Manly,et al.  Location-only and use-availability data: analysis methods converge. , 2013, The Journal of animal ecology.

[47]  J. Rhymer,et al.  HABITAT SELECTION BY WOOD TURTLES (CLEMMYS INSCULPTA): AN APPLICATION OF PAIRED LOGISTIC REGRESSION , 2002 .

[48]  Jonathan R Potts,et al.  Predicting local and non-local effects of resources on animal space use using a mechanistic step selection model , 2014, Methods in ecology and evolution.

[49]  Tal Avgar,et al.  Environmental and individual drivers of animal movement patterns across a wide geographical gradient. , 2013, The Journal of animal ecology.

[50]  Garrett M. Street,et al.  Space-use behaviour of woodland caribou based on a cognitive movement model. , 2015, The Journal of animal ecology.

[51]  Simon Benhamou,et al.  Of scales and stationarity in animal movements. , 2014, Ecology letters.

[52]  Paul J Rathouz,et al.  Accounting for animal movement in estimation of resource selection functions: sampling and data analysis. , 2009, Ecology.

[53]  Leonidas J. Guibas,et al.  The Earth Mover's Distance as a Metric for Image Retrieval , 2000, International Journal of Computer Vision.

[54]  Roland Langrock,et al.  Flexible and practical modeling of animal telemetry data: hidden Markov models and extensions. , 2012, Ecology.

[55]  M. Boyce,et al.  WOLVES INFLUENCE ELK MOVEMENTS: BEHAVIOR SHAPES A TROPHIC CASCADE IN YELLOWSTONE NATIONAL PARK , 2005 .

[56]  Mark S Boyce,et al.  Applications of step-selection functions in ecology and conservation , 2014, Movement Ecology.

[57]  Mark S Boyce,et al.  Selection, use, choice and occupancy: clarifying concepts in resource selection studies. , 2013, The Journal of animal ecology.

[58]  J. Calabrese,et al.  The Correlated Random Walk and the Rise of Movement Ecology , 2014 .

[59]  M. Lewis,et al.  A unifying framework for quantifying the nature of animal interactions , 2014, Journal of The Royal Society Interface.