Efficient spatial models for predicting the occurrence of subarctic estuarine‐associated fishes: implications for management

In many of the nearshore areas where development is most likely to occur, essential fish habitat data are incomplete and there is little information on species occurrence that can be used to inform management decisions. This research investigated the use of multivariate remotely sensed geomorphic and landscape data to develop accurate predictive models of subarctic, estuarine-associated fishes. The random forest algorithm was used to predict the occurrence of 26 fish species captured in 49 estuaries in Southeast Alaska. Model prediction accuracy ranged from 100 to 42% for species presence and 87 to 15% for species absence. Model goodness of fit and accuracy were assessed by comparing the number of species occurrences predicted by the model against the observed presences and absences of species in an independent data set. Sixty percent of the models were able to predict species presence with an accuracy of 70% or better. The models were used to predict species occurrence for 521 unsampled Southeast Alaskan estuaries to provide a regional map of predicted species distributions.

[1]  Wilfried Thuiller,et al.  Accounting for dispersal and biotic interactions to disentangle the drivers of species distributions and their abundances. , 2012, Ecology letters.

[2]  Trevor Hastie,et al.  Generalized linear and generalized additive models in studies of species distributions: setting the scene , 2002 .

[3]  Scott W. Johnson,et al.  Fish use and size of eelgrass meadows in southeastern Alaska : A baseline for long-term assessment of biotic change , 2005 .

[4]  Michael D. Drexler,et al.  Generalized Additive Models Used to Predict Species Abundance in the Gulf of Mexico: An Ecosystem Modeling Tool , 2013, PloS one.

[5]  F. Huettmann,et al.  Large-scale effects on the spatial distribution of seabirds in the Northwest Atlantic , 2006, Landscape Ecology.

[6]  M. L. Murphy,et al.  A Comparison of Fish Assemblages in Eelgrass and Adjacent Subtidal Habitats Near Craig, Alaska , 2000 .

[7]  K. McGarigal,et al.  The Problem of Ecological Scaling in Spatially Complex, Nonequilibrium Ecological Systems , 2010 .

[8]  G. Juday,et al.  Modeling the distribution of white spruce (Picea glauca) for Alaska with high accuracy: an open access role-model for predicting tree species in last remaining wilderness areas , 2009, Polar Biology.

[9]  M. Schwartz,et al.  Using species distribution models to predict new occurrences for rare plants , 2009 .

[10]  Y. Yamashita,et al.  Comparison of low-salinity adaptability and morphological development during the early life history of five pleuronectid flatfishes, and implications for migration and recruitment to their nurseries , 2007 .

[11]  Y. Wiersma,et al.  Predictive species and habitat modeling in landscape ecology : concepts and applications , 2011 .

[12]  Falk Huettmann,et al.  Using a Random Forest Model and Public Data to Predict the Distribution of Prey for Marine Wildlife Management , 2010 .

[13]  F. Huettmann,et al.  Predicting the distribution and ecological niche of unexploited snow crab (Chionoecetes opilio) populations in Alaskan waters: a first open-access ensemble model. , 2011, Integrative and comparative biology.

[14]  J. Figuerola,et al.  Co-occurrence patterns of some small-bodied freshwater fishes in southwestern France: implications for fish conservation and environmental management. , 2005 .

[15]  Travis O. Brenden,et al.  Comparison between Model-Predicted and Field-Measured Stream Habitat Features for Evaluating Fish Assemblage-Habitat Relationships , 2007 .

[16]  N. Snyder,et al.  Geomorphic comparison of two Atlantic coastal rivers: Toward an understanding of physical controls on Atlantic salmon habitat , 2011 .

[17]  A. Townsend Peterson,et al.  Novel methods improve prediction of species' distributions from occurrence data , 2006 .

[18]  P. Cury,et al.  The Use of a Predictive Habitat Model and a Fuzzy Logic Approach for Marine Management and Planning , 2013, PloS one.

[19]  Yusaku Ohta,et al.  Accurate ocean tide modeling in southeast Alaska and large tidal dissipation around Glacier Bay , 2008 .

[20]  Jane Elith,et al.  Pushing the limits in marine species distribution modelling: lessons from the land present challenges and opportunities , 2011 .

[21]  Leo Breiman,et al.  Random Forests , 2001, Machine Learning.

[22]  Kara A. Moore,et al.  Use of Community‐Composition Data to Predict the Fecundity and Abundance of Species , 2008, Conservation biology : the journal of the Society for Conservation Biology.

[23]  J. Leathwick,et al.  COMPETITIVE INTERACTIONS BETWEEN TREE SPECIES IN NEW ZEALAND'S OLD‐GROWTH INDIGENOUS FORESTS , 2001 .

[24]  J. Elith,et al.  Species Distribution Models: Ecological Explanation and Prediction Across Space and Time , 2009 .

[25]  Andy Liaw,et al.  Classification and Regression by randomForest , 2007 .

[26]  Stuart I. Rogers,et al.  Modelling the spatial distribution of plaice (Pleuronectes platessa), sole (Solea solea) and thornback ray (Raja clavata) in UK waters for marine management and planning , 2009 .

[27]  F. Mueter,et al.  Linking community structure of small demersal fishes around Kodiak Island, Alaska, to environmental variables , 1999 .

[28]  G. Pierce,et al.  Modelling of essential fish habitat based on remote sensing, spatial analysis and GIS , 2008, Hydrobiologia.

[29]  M. Austin Spatial prediction of species distribution: an interface between ecological theory and statistical modelling , 2002 .

[30]  D. F. Howard,et al.  Multi-scale fish–habitat associations and the use of habitat surrogates to predict the organisation and abundance of deep-water fish assemblages , 2009 .

[31]  Giampiero Marra,et al.  Practical variable selection for generalized additive models , 2011, Comput. Stat. Data Anal..

[32]  J. Lawler,et al.  Using Species Distribution Models for Conservation Planning and Ecological Forecasting , 2011 .

[33]  D. Armstrong,et al.  Habitat associations of estuarine species: Comparisons of intertidal mudflat, seagrass (Zostera marina), and oyster (Crassostrea gigas) habitats , 2006 .

[34]  F. Mueter,et al.  Sea ice retreat alters the biogeography of the Bering Sea continental shelf. , 2008, Ecological applications : a publication of the Ecological Society of America.

[35]  Christopher D. Brown,et al.  Receiver operating characteristics curves and related decision measures: A tutorial , 2006 .

[36]  T. Tomiyama,et al.  Habitat selection of stone and starry flounders in an estuary in relation to feeding and survival , 2008 .

[37]  M. Todd Walter,et al.  Linking the pacific decadal oscillation to seasonal stream discharge patterns in Southeast Alaska , 2002 .

[38]  M. Caley,et al.  Global Patterns and Predictions of Seafloor Biomass Using Random Forests , 2010, PloS one.

[39]  J. Krebs,et al.  Should conservation strategies consider spatial generality? Farmland birds show regional not national patterns of habitat association. , 2007, Ecology letters.

[40]  J. Lobo,et al.  Threshold criteria for conversion of probability of species presence to either–or presence–absence , 2007 .

[41]  C. Ryer,et al.  Laboratory and Field Evidence for Structural Habitat Affinity of Young‐of‐the‐Year Lingcod , 2006 .

[42]  L. Eisner,et al.  Southeast Alaska: oceanographic habitats and linkages , 2009 .

[43]  Juan Carlos Gutiérrez-Estrada,et al.  Estimating fish community diversity from environmental features in the Tagus estuary (Portugal): Multiple Linear Regression and Artificial Neural Network approaches , 2008 .

[44]  Alan M. Friedlander,et al.  Determining the Influence of Seascape Structure on Coral Reef Fishes in Hawaii Using a Geospatial Approach , 2008 .

[45]  M. Araújo,et al.  Consequences of spatial autocorrelation for niche‐based models , 2006 .

[46]  P. Afonso,et al.  Predictive habitat modelling of reef fishes with contrasting trophic ecologies , 2013 .

[47]  A. Prasad,et al.  Newer Classification and Regression Tree Techniques: Bagging and Random Forests for Ecological Prediction , 2006, Ecosystems.

[48]  Catherine S. Jarnevich,et al.  Ensemble Habitat Mapping of Invasive Plant Species , 2010, Risk analysis : an official publication of the Society for Risk Analysis.

[49]  J. Matthews The seasonal circulation of the Glacier Bay, Alaska fjord system , 1981 .

[50]  C. Menza,et al.  Predictive mapping of fish species richness across shallow-water seascapes in the Caribbean , 2007 .

[51]  M. Musyl,et al.  Spatio‐temporal trends of sailfish, Istiophorus platypterus catch rates in relation to spawning ground and environmental factors in the equatorial and southwestern Atlantic Ocean , 2014 .

[52]  Jean-Michel Poggi,et al.  Variable selection using random forests , 2010, Pattern Recognit. Lett..