Prevalence-adjusted optimisation of fuzzy habitat suitability models for aquatic invertebrate and fish species in New Zealand

Ecological Informatics

Volumn 4, Issue 4, 2009, Pages 215-225

  Mouton, Ans M ^a   Jowett, Ian ^b   Goethals, Peter L M ^a   De Baets, Bernard ^a  

^a GHENT UNIVERSITY   (Belgium)

^b NATIONAL INSTITUTE OF WATER AND ATMOSPHERIC RESEARCH   (New Zealand)

Author keywords

Brown trout; Caddis fly; Performance criteria; Physical habitat; Rainbow trout; Stream

Indexed keywords

CADDISFLY; DATA SET; ECOSYSTEM MANAGEMENT; ECOSYSTEM MODELING; HABITAT QUALITY; OPTIMIZATION; PERFORMANCE ASSESSMENT; SALMONID;

AUSTRALASIA; NEW ZEALAND;

AOTEAPSYCHE; INVERTEBRATA; ONCORHYNCHUS MYKISS; SALMO TRUTTA;

EID: 69749089454     PISSN: 15749541     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ecoinf.2009.07.006     Document Type: Article

References (59)

1. Allouche O., Tsoar A., and Kadmon R. Assessing the accuracy of species distribution models: prevalence, kappa and the true skill statistic (TSS). Journal of Applied Ecology 43 (2006) 1223-1232
2. Anderson R.P., Lew D., and Peterson A.T. Evaluating predictive models of species' distributions: criteria for selecting optimal models. Ecological Modelling 162 (2003) 211-232
3. Araújo M.B., and Rahbek C. How does climate change affect biodiversity?. Science 313 (2006) 1396-1397
4. Assilian, S., 1974. Artificial intelligence in the control of real dynamical systems. Ph.D. Thesis, London University, London, Great Britain.
5. Austin M. Species distribution models and ecological theory: a critical assessment and some possible new approaches. Ecological Modelling 200 (2007) 1-19
6. Baltz D.M., and Moyle P.B. Segregation by species and size classes of rainbow-trout, Salmo-Gairdneri, and Sacramento Sucker, Catostomus-Occidentalis, in 3 California streams. Environmental Biology of Fishes 10 (1984) 101-110
7. Bovee K.D. Probability of use criteria for the family Salmonidae. Instream Flow Information Paper vol. 4 (1978), U.S. Fish and Wildlife Service, Washington, DC FWS/OBS-78/07
8. Bovee K.D. A guide to stream habitat analysis using the Instream Flow Incremental Methodology. Instream Flow Information Paper 12. Biological Report vol. 82 (1982), US Fish and Wildlife Service, Fort Collins, Colorado 248 pp.
9. Cochnauer T., and Elms-Cockrum T. Probability-of-use curves for selected Idaho fish species. Project performance report, Idaho Department of Fish and Game, Boise, Idaho, Project F-71-R-10 (1986)
10. Cohen J. A coefficient of agreement for nominal scales. Educational and Psychological Measurement 20 (1960) 37-46
11. Collier K.J. Flow preferences of aquatic invertebrates in the Tongariro River. Department of Conservation. Science and Research Series vol. 60 (1993) Wellington, New Zealand
12. Elith J., Graham C.H., Anderson R.P., Dudik M., Ferrier S., Guisan A., Hijmans R.J., Huettmann F., Leathwick J.R., Lehmann A., Li J., Lohmann L.G., Loiselle B.A., Manion G., Moritz C., Nakamura M., Nakazawa Y., Overton J.M., Peterson A.T., Phillips S.J., Richardson K., Scachetti-Pereira R., Schapire R.E., Soberon J., Williams S., Wisz M.S., and Zimmermann N.E. Novel methods improve prediction of species' distributions from occurrence data. Ecography 29 (2006) 129-151
13. Fielding A.H., and Bell J.F. A review of methods for the assessment of prediction errors in conservation presence/absence models. Environmental Conservation 24 (1997) 38-49
14. Fitzpatrick M.C., Weltzin J.F., Sanders N.J., and Dunn R.R. The biogeography of prediction error: why does the introduced range of the fire ant over-predict its native range?. Global Ecology and Biogeography 16 (2007) 24-33
15. Glas A.S., Lijmer J.G., Prins M.H., Bonsel G.J., and Bossuyt P.M.M. The diagnostic odds ratio: a single indicator of test performance. Journal of Clinical Epidemiology 56 (2003) 1129-1135
16. Guisan A., and Thuiller W. Predicting species distribution: offering more than simple habitat models. Ecology Letters 8 (2005) 993-1009
17. Guisan A., and Zimmermann N.E. Predictive habitat distribution models in ecology. Ecological Modelling 135 (2000) 147-186
18. Guisan A., Edwards T.C., and Hastie T. Generalized linear and generalized additive models in studies of species distributions: setting the scene. Ecological Modelling 157 (2002) 89-100
19. Hayes J.W., and Jowett I.G. Microhabitat models of large drift-feeding brown trout in three New Zealand rivers. North American Journal of Fisheries Management 14 (1994) 710-725
20. Hill D.M., and Hauser G.E. The effects of proposed water supply withdrawals on fish habitat in the Piney River. Tennessee Valley Authority, Office of Natural Resources and Economic Development (1985) TVA/ONRED/AWR-86/12
21. Hirzel A.H., Helfer V., and Metral F. Assessing habitat-suitability models with a virtual species. Ecological Modelling 145 (2001) 111-121
22. Jiménez-Valverde A., and Lobo J.M. The ghost of unbalanced species distribution data in geographical model predictions. Diversity and Distributions 12 (2006) 521-524
23. Jowett I. RHYHABSIM, river hydraulics and habitat simulation, computer manual (1996), National Institute of Water and Atmospheric Research (NIWA), Hamilton report, 50 pp.
24. Jowett I.G., and Davey A.J.H. A comparison of composite habitat suitability indices and generalized additive models of invertebrate abundance and fish presence-habitat availability. Transactions of the American Fisheries Society 136 (2007) 428-444
25. Jowett I.G., and Richardson J. Microhabitat preferences of benthic invertebrates in a New-Zealand river and the development of in-stream flow-habitat models for Deleatidium spp. New Zealand Journal of Marine and Freshwater Research 24 (1990) 19-30
26. Jowett I.G., Richardson J., Biggs B.J.F., Hickey C.W., and Quinn J.M. Microhabitat preferences of benthic invertebrates and the development of generalized Deleatidium spp habitat suitability curves, applied to 4 New-Zealand rivers. New Zealand Journal of Marine and Freshwater Research 25 (1991) 187-199
27. Jowett I.G., Rowe D., and West D.W. Fishery flow requirements of the Tongariro River (1996), National Institute of Water and Atmospheric Research, Hamilton, New Zealand Report ELE303
28. Kerr J.T., Kharouba H.M., and Currie D.J. The macroecological contribution to global change solutions. Science 316 (2007) 1581-1584
29. Lambert T.R., and Hanson D.F. Development of habitat suitability criteria for trout in small streams. Regulated Rivers: Research and Management 3 (1989) 291-303
30. Leclerc M. Marquage et repérage radiotélémétriques de 71 especes de poisson du territoire central du projet archipel entre octobre 1982 et août 1983, synthèse des résultats. Archipel de Montréal. Rapport Technique, Poisson vol. 5 (1983), Québec, Canada 152-153
31. Loiselle B.A., Howell C.A., Graham C.H., Goerck J.M., Brooks T., Smith K.G., and Williams P.H. Avoiding pitfalls of using species distribution models in conservation planning. Conservation Biology 17 (2003) 1591-1600
32. Maggini R., Lehmann A., Zimmermann N.E., and Guisan A. Improving generalized regression analysis for the spatial prediction of forest communities. Journal of Biogeography 33 (2006) 1729-1749
33. Mamdani E. Application of fuzzy algorithms for control of a simple dynamic plant. Proceedings IEE 121 (1974) 1585-1588
34. Manel S., Williams H.C., and Ormerod S.J. Evaluating presence-absence models in ecology: the need to account for prevalence. Journal of Applied Ecology 38 (2001) 921-931
35. Meynard C.N., and Quinn J.F. Predicting species distributions: a critical comparison of the most common statistical models using artificial species. Journal of Biogeography 34 (2007) 1455-1469
36. Minshall G.W. Aquatic insect-substratum relationships. In: Resh V.H., and Rosenberg D.M. (Eds). The ecology of aquatic insects (1984), Praeger, New York 358-400
37. Mouton A.M., Schneider M., Peter A., Holzer G., Müller R., Goethals P.L.M., and De Pauw N. Optimisation of a fuzzy habitat model for spawning European grayling (Thymallus thymallus L.) in the Aare river (Thun, Switzerland). Ecological Modelling 215 (2008) 122-132
38. Mouton, A., De Baets, B., Goethals, P.L.M., submitted for publication. A theoretical analysis of performance criteria for presence/absence species distribution models. Ecography.
39. Mouton, A., De Baets, B., Van Broekhoven, E., Goethals, P.L.M., 2009a. Prevalence-adjusted optimisation of fuzzy models for species distribution. Ecological Modelling 220, 1776-1786.
40. Mouton, A.M., De Baets, B., Goethals, P.L.M., 2009b. Knowledge-based versus data-driven fuzzy habitat suitability models for river management. Environmental Modelling and Software 24, 982-993.
41. Moyle P.B., and Baltz D.M. Microhabitat use by an assemblage of California stream fishes - developing criteria for instream flow determinations. Transactions of the American Fisheries Society 114 (1985) 695-704
42. Pearce J., and Ferrier S. Evaluating the predictive performance of habitat models developed using logistic regression. Ecological Modelling 133 (2000) 225-245
43. Pert E.J., and Erman D.C. Habitat use by adult rainbow-trout under moderate artificial fluctuations in flow. Transactions of the American Fisheries Society 123 (1994) 913-923
44. Peterson A.T., Papes M., and Eaton M. Transferability and model evaluation in ecological niche modeling: a comparison of GARP and Maxent. Ecography 30 (2007) 550-560
45. Raleigh R.F., Hickman T., Solomon R.C., and Nelson P.C. Habitat suitability information: rainbow trout. U.S. Fish and Wildlife Service Biological Services Program (1984) FWS/OBS/-82/10.60
46. Roloff G.J., and Kernohan B.J. Evaluating reliability of habitat suitability index models. Wildlife Society Bulletin 27 (1999) 973-985
47. Rondinini C., Wilson K.A., Boitani L., Grantham H., and Possingham H.P. Tradeoffs of different types of species occurrence data for use in systematic conservation planning. Ecology Letters 9 (2006) 1136-1145
48. Shannon C.E., and Weaver W. Mathematical Theory of Communication (1963), University of Illinois Press, Urbana, Illinois 144 pp.
49. Stark J.D., and Suren A.M. Project aqua: environmental study - aquatic ecosystems: macroinvertebrates (2003), National Institute of Water and Atmospheric Research, Christchurch, New Zealand Report CHC02/59
50. Strayer D.L., Power M.E., Fagan W.F., Pickett S.T.A., and Belnap J. A classification of ecological boundaries. Bioscience 53 (2003) 723-729
51. Suchanek P.M., Kuntz K.J., and McDonnell J.P. The relative abundance, distribution and instream flow relationships of juvenile salmon in the lower Sustina River. Sustina River Aquatic Studies Program Report 7, part 2 (1984), Alaska Department of Fish and Game, Anchorage, Alaska
52. Teirney L.D., and Jowett I.G. Trout abundance in New Zealand rivers: an assessment by drift diving vol. 118 (1990), Ministry of Agriculture and Fisheries, Freshwater Fisheries Centre, Freshwater Fisheries, Christchurch, New Zealand Report
53. Thomas J.A., and Bovee K.D. Application and testing of a procedure to evaluate transferability of habitat suitability criteria. Regulated Rivers-Research & Management 8 (1993) 285-294
54. Van Broekhoven E., Adriaenssens V., De Baets B., and Verdonschot P.F.M. Fuzzy rule-based macroinvertebrate habitat suitability models for running waters. Ecological Modelling 198 (2006) 71-84
55. Van Broekhoven E., Adriaenssens V., and De Baets B. Interpretability-preserving genetic optimization of linguistic terms in fuzzy models for fuzzy ordered classification: an ecological case study. International Journal of Approximate Reasoning 44 (2007) 65-90
56. Vaughan I.P., and Ormerod S.J. The continuing challenges of testing species distribution models. Journal of Applied Ecology 42 (2005) 720-730
57. Welsh A.H. Aspects of Statistical Inference (1996), John Wiley & Sons, New York, USA 452 pp.
58. Wilson K.A., Westphal M.I., Possingham H.P., and Elith J. Sensitivity of conservation planning to different approaches to using predicted species distribution data. Biological Conservation 122 (2005) 99-112
59. Zadeh L.A. Fuzzy sets. Information and Control 8 (1965) 338-353