An evaluation of the relative influence of spatial, statistical, and biological factors on the accuracy of stream fish species presence models

Transactions of the American Fisheries Society

Volumn 136, Issue 6, 2007, Pages 1640-1653

  Ruiz, John C ^a   Peterson, James T ^a  

^a UNIVERSITY OF GEORGIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACCURACY ASSESSMENT; DECISION MAKING; ENVIRONMENTAL FACTOR; ERROR ANALYSIS; FISHERY MANAGEMENT; FISHERY MODELING; MODEL VALIDATION; PARAMETERIZATION; SPECIALIZATION; STREAMWATER;

EID: 38349017053     PISSN: 00028487     EISSN: 15488659     Source Type: Journal    
DOI: 10.1577/T06-086.1     Document Type: Article

References (59)

1. Agresti, A. 1990. Categorical data analysis. Wiley, New York.
2. Angermeier, P. L. 1995. Ecological attributes of extinction-prone species: loss of freshwater fishes of Virginia. Conservation Biology 9:143-148.
3. Balon, E. K. 1975. Reproductive guilds of fishes: a proposal and definition. Journal of the Fisheries Research Board of Canada 32:821-864.
4. Benke, A. C. 1990. A perspective on America's vanishing streams. Journal of the North American Benthological Society 9:77-88.
5. Breiman, L., and P. Spector. 1992. Submodel selection and evaluation in regression: the X random case. International Statistical Review 60:291-319.
6. Bryk, A. S., and S. W. Raudenbush. 1992. Hierarchical linear models: applications and data analysis methods. Sage Publications, Thousand Oaks, California.
7. Burkhead, N. M., S. J. Walsh, B. J. Freeman, and J. D. Williams. 1997. Status and restoration of the Etowah River, an imperiled southern Appalachian ecosystem. Pages 375-444 in G. W. Benz and D. E. Collins, editors. Aquatic fauna in peril: the Southeastern perspective. Southeast Aquatic Research Institute, Special Publication 1, Decatur, Georgia.
8. Burnham, K. P., and D. R. Anderson. 2002. Model selection and inference: a practical information-theoretic approach. Springer-Verlag, New York.
9. Burr, B. M., and R. L. Mayden. 1992. Phylogenetics and North American freshwater fishes. Pages 18-75 in R. L. Mayden, editor. Systematics, historical ecology, and North American freshwater fishes. Stanford University Press, Stanford, California.
10. Couch, C. A., E. H. Hopkins, and P. S. Hardy. 1996. Influences of environmental settings on aquatic ecosystems in the Apalachicola-Chattahoochee- Flint River basin. U.S. Geological Survey, Water Resources Investigations Report 95-4278, Atlanta, Georgia.
11. Efron, B. 1983. Estimating the error rate of a prediction rule: improvement on cross validation. Journal of the American Statistical Association 783:316-331.
12. Etnier, D. A. 1997. Jeopardized Southeastern freshwater fishes: a search for causes. Pages 88-104 in G. W. Benz and D. E. Collins, editors. Aquatic fauna in peril: the Southeastern perspective. Southeast Aquatic Research Institute, Special Publication 1, Decatur, Georgia.
13. Frissell, C. A., W. J. Liss, C. E. Warren, and M. D. Hurley. 1986. A hierarchical framework for stream habitat classification: viewing streams in a watershed context. Environmental Management 10:199-214.
14. GADNR (Georgia Department of Natural Resources. 2000. Standard operating procedures for conducting biomonitoring on fish communities in the Piedmont ecoregion of Georgia. Available: georgiawildlife.dnr.state.ga.us/assets/ documents/SOP_Part1.pdf. (July 2004).
15. Haas, T. C., J. T. Peterson, and D. C. Lee. 1999. An evaluation of parametric and nonparametric models of fish population response. Bonneville Power Administration, BPA Report DOE/BP-25866-8, Portland, Oregon. Available: www.efw.bpa.gov/Publications/H25866-8.pdf. (October 2004).
16. Hand, D. J. 1982. Kernel discriminant analysis. Research Studies Press, New York.
17. Kolasa, J. 1989. Ecological systems in hierarchical perspective: breaks in community structure and other consequences. Ecology 70:36-47.
18. Lai, H.-L., and D. K. Kimura. 2002. Analyzing survey experiments having spatial variability with an application to a sea scallop fishing experiment. Fish Research 56:239-259.
19. Littell, R. C., G. A. Milliken, W. W. Stroup, and R. D. Wolfinger. 1996. SAS system for mixed models. SAS Institute, Cary, North Carolina.
20. MacKenzie, D. I., J. D. Nichols, G. B. Lachman, S. Droege, J. A. Royle, and C. A. Langtimm. 2002. Estimating site occupancy rates when detection probabilities are less than one. Ecology 83:2248-2255.
21. Manel, S., H. C. Williams, and S. J. Ormerod. 2001. Evaluating presence-absence models in ecology: the need to account for prevalence. Journal of Applied Ecology 38:921-931.
22. Mathur, D. 1973. Some aspects of life history of the blackbanded darter, Percina nigrofasciata (Agassiz), in Halawakee Creek, Alabama. American Midland Naturalist 89:381-393.
23. McCargo, J. W. 2003. Influence of drought on seasonal fish assemblages and habitat in the Lower Flint River basin, Georgia. Master's thesis. University of Georgia, Athens.
24. McPherson, R. D. 2005. An assessment of fish community structure and seasonal habitat use of headwater confined channels and headwater wetlands in the Lower Flint River basin, southwest Georgia. Master's thesis. University of Georgia, Athens.
25. McPherson, J. M., W. Jetz, and D. J. Rogers. 2004. The effects of species' range sizes on the accuracy of distribution models: ecological phenomenon or statistical artefact? Journal of Applied Ecology 41:811-823.
26. Mettee, R. R., P. E. O'Neil, and J. M. Pierson. 1996. Fishes of Alabama and the Mobile Basin. Oxmoor House, Birmingham, Alabama.
27. Meyer, C. B., S. L. Miller, and C. J. Ralph. 2004. Logistic regression accuracy across different spatial and temporal scales for a wide-ranging species, the marbled murrelet. Pages 94-106 in S. Huzurbazar, editor. Resource selection methods and applications. Omnipress, Madison, Wisconsin.
28. Minckley, W. L., and J. E. Deacon, editors. 1991. Battle against extinction: native fish management in the American West. University of Arizona Press, Tucson.
29. Moyle, P. B., and R. L. Leidy. 1992. Loss of biodiversity in aquatic ecosystems: evidence from fish faunas. Pages 127-169 in P. L. Fiedler and S. K. Jain, editors. Conservation biology: the theory and practice of nature conservation, preservation, and management. Chapman and Hall, New York.
30. NAWQA (National Water-Quality Assessment Program). 2000. Description of the ACF river basin study area. Available: ga.water.usgs.gov/nawqa/main. description.html. (October 2004).
31. Nelson, J. S. 1968. Life history of the brook silverside, Labidesthes sicculus, in Crooked Lake, Indiana. Transactions of the American Fisheries Society 97:293-296.
32. Noss, R. F., and R. L. Peters. 1995. Endangered ecosystems: a status report on America's vanishing habitat and wildlife. Defenders of Wildlife, Washington, D.C.
33. Olden, J. D., and D. A. Jackson. 2002. A comparison of statistical approaches for modeling fish species distributions. Freshwater Biology 47:1976-1995.
34. Osborne, L. L., and M. J. Wiley. 1992. Influence of tributary spatial position on the structure of warmwater fish communities. Canadian Journal of Fisheries and Aquatic Sciences 49:671-681.
35. Peterson, J. T., B. J. Freeman, E. Kramer, E. Irwin, M. C. Freeman, C. Straight, A. Wimberley, and J. C. Ruiz. 2004. Aquatic gap: regional analysis of biodiversity in the ACT-ACF basins. U.S. Geological Survey, Moscow, Idaho.
36. Peterson, J. T., T. C. Haas, and D. C. Lee. 2000. CATDAT: a program for parametric and nonparametric categorical data analysis. Available: coopunit.forestry.uga.edu/unit_homepage/Peterson/Software/software. (October 2004).
37. Poff, N. L. 1997. Landscape filters and species traits: toward mechanistic understanding and prediction in stream ecology. Journal of the North American Benthological Society 16:391-408.
38. Press, J., and S. Wilson. 1978. Choosing between logistic regression and discriminant analysis. Journal of the American Statistical Association 73:699-705.
39. Reese, G. C., K. R. Wilson, J. A. Hoeting, and C. H. Flather. 2005. Factors affecting species distribution predictions: a simulation modeling experiment. Ecological Applications 15:554-564.
40. Richards, C., B. Johnson, and G. E. Host. 1996. Landscape influences on stream habitats and biota. Canadian Journal of Fisheries and Aquatic Sciences 53(Supplement I):295-311.
41. Richter, B. D., D. P. Braun, M. A. Mendelson, and L. L. Master. 1997. Threats to imperiled freshwater fauna. Conservation Biology 11:1081-1093.
42. Ricklefs, R. E. 1987. Community diversity: relative roles of local and regional processes. Science 235:167-171.
43. Ruiz, J. C. 2005. An evaluation of the relative influence of spatial, statistical, and biological factors on the accuracy of stream fish species presence models. Master's thesis. University of Georgia, Athens.
44. SAS Institute. 2001. SAS, version 8.2. SAS Institute, Cary, North Carolina.
45. Scott, M. C., and G. S. Helfman. 2001. Native invasions, homogenization, and the mismeasure of integrity of fish assemblages. Fisheries 26(11):6-15.
46. Scott, M. J., and M. D. Jennings. 1998. Large-area mapping of biodiversity. Annals of the Missouri Botanical Garden 85:34-47.
47. Shreve, R. L. 1967. Infinite topologically random channel networks. Journal of Geology 75:178-186.
48. Smogor, R. A., P. L. Angermeier, and C. K. Gaylord. 1995. Distribution and abundance of American eels in Virginia streams: tests of null models across spatial scales. Transactions of the American Fisheries Society 124:789-803.
49. Snijders, T., and R. Bosker. 1999. Multilevel analysis: an introduction to basic and advanced multilevel modeling. Sage Publications, Thousand Oaks, California.
50. Sokal, R. R., and F. J. Rohlf. 1995. Biometry: the principles and practice of statistics in biological research. Freeman, New York.
51. Thompson, W. L., and D. C. Lee. 2000. Modeling relationships between landscape-level attributes and snorkel counts of Chinook salmon and steelhead parr in Idaho. Canadian Journal of Fisheries and Aquatic Sciences 57:1834-1842.
52. Tyre, A. J., B. Tenhurnberg, S. A. Field, D. Niejalke, K. Parris, and H. P. Possingham. 2003. Improving precision and reducing bias in biological surveys: estimating false-negative error rates. Ecological Applications 13:1790-1801.
53. USGS (U.S. Geological Survey). 1999a. Hydrologic unit boundaries data set. Available: water.usgs.gov/GIS/huc.html. (March 2003).
54. USGS (U.S. Geological Survey). 1999b. National elevation data set. Available: ned.usgs.gov/. (March 2003).
55. Walsh, S. W., N. M. Burkhead, and J. D. Williams. 1995. Southeastern freshwater fishes. Pages 177-147 in E. T. LaRoe, editor. Our living resources: a report to the nation on the distribution, abundance, and health of U.S. plants, animals, and ecosystems. U.S. Department of the Interior, National Biological Service, Washington, D.C.
56. Warren, M. L., P. L. Angermeier, B. M. Burr, and W. R. Hagg. 1997. Decline of a diverse fish fauna: patterns of imperilment and protection in the southeastern United States. Pages 105-164 in G. W. Benz and D. E. Collins, editors. Aquatic fauna in peril: the Southeastern perspective. Southeast Aquatic Research Institute, Special Publication 1, Decatur, Georgia.
57. Warren, M. L., B. M. Brooks, S. J. Walsh, H. L. Bart, R. C. Cashner, D. A. Etnier, B. J. Freeman, B. R. Kuhajda, R. L. Mayden, H. W. Robinson, S. T. Ross, and W. C. Starnes. 2000. Diversity, distribution, and conservation status of the native freshwater fishes of the southern United States. Fisheries 25(10):7-31.
58. Warren, M. L., Jr., and B. M. Burr. 1994. Status of freshwater fishes of the United States: overview of an imperiled fauna. Fisheries 19(1):6-18.
59. Wiens, J. A. 1989. Spatial scaling in ecology. Functional Ecology 3:385-397.