Generalized Additive Models Used to Predict Species Abundance in the Gulf of Mexico: An Ecosystem Modeling Tool

PLoS ONE

Volumn 8, Issue 5, 2013, Pages

  Drexler, Michael ^a   Ainsworth, Cameron H ^a  

^a UNIVERSITY OF SOUTH FLORIDA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHLOROPHYLL A; OXYGEN;

ANALYTIC METHOD; ARTICLE; BINOMIAL DISTRIBUTION; ECOSYSTEM; ENVIRONMENTAL PARAMETERS; FARFANTEPENAEUS DUROARUM; FISHERY; GENERALIZED ADDITIVE MODEL; GEOGRAPHIC DISTRIBUTION; GULF OF MEXICO; NONHUMAN; OCEANOGRAPHY; POPULATION ABUNDANCE; PREDICTION; SHRIMP; TEMPERATURE;

ANIMALS; AQUATIC ORGANISMS; CONSERVATION OF NATURAL RESOURCES; ECOSYSTEM; FISHERIES; GULF OF MEXICO; MODELS, STATISTICAL; POPULATION DENSITY; REPRODUCIBILITY OF RESULTS; SPATIAL ANALYSIS;

EID: 84877789538     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0064458     Document Type: Article

References (34)

1. Pikitch EK, Santora C, Babcock E, Bakun A, Bonfil R, et al. (2004) Ecosystem-based fishery management. Science 305: 346-347.
2. Brand EJ, Kaplan IC, Harvey CJ, Levin PS, Fulton EA, et al. (2007) A spatially explicit ecosystem model of the California Current's food web and Oceanography. U.S. Department of Commerce., NOAA Tech Memo, NMFS-NWFSC-84, 145 p.
3. Ainsworth CH, Kaplan IC, Levin PS, Cudney-Bueno R, Fulton EA, et al. (2011) Atlantis model development for the northern Gulf of California. U.S. Department of Commerce., NOAA Tech Memo, NMFS-NWFSC-110, 293 p.
4. Hastie T, Tibshirani R (1986) Generalized Additive Models. Statistical Science, 1, 297-310.
5. Stoner AW, Manderson JP, Pessutti JP, (2001) Spatially explicit analysis of estuarine habitat for juvenile winter flounder: combining generalized additive models and geographic information systems. Mar Ecol Prog Ser 213: 253-271.
6. Maravelias CD, (1999) Habitat selection and clustering of a pelagic fish: effects of topography and bathymetry on species dynamics. Can J Fish Aquat Sci 56: 437-450.
7. Yee TW, Mitchell ND, (1991) Generalized additive models in plant ecology. Journal of Vegetation Science 2: 587-602.
8. Walsh W, Kleiber P, (2001) Generalized additive model and regression tree analysis of blue shark (Prionace glauca) by the Hawaii-based longline fishery. Fish Res 53: 115-131.
9. Katsanevakis S, Maravelis CD, (2009) Bathymetric distribution of demersal fish in the Aegean and Ionian Seas based on generalized additive modeling. Fish Sci 75(1): 13-23.
10. Moisen GC, Frescino TS, (2002) Comparing five modelling techniques for predicting forest characteristics. Ecol Modell 157: 209-225.
11. Guisan A, Edwards TC, Hastie T, (2002) Generalized linear and generalized additive models in studies of species distributions: setting the scene. Ecol Modell 157: 89-100.
12. Aitchison J, Brown JAC (1957) The Lognormal Distribution. Cambridge University Press, Cambridge, UK.
13. Pennington M, (1983) Efficient estimators of abundance, for fish and plankton surveys. Biometrics 39: 281-286.
14. Stefánsson G 1996) Analysis of Groundfish survey adundance data: combining the GLM and delta approaches. ICES J. Mar Sci 53: 577-588.
15. Barry SC, Welsh AH, (2002) Generalized additive modelling and zero inflated count data. Ecol Modell 157: 179-188.
16. Minami M, Lennert-Cody CE, Gao W, Román-Verdesoto M, (2007) Modeling shark bycatch: The zero-inflated negative binomial regression model with smoothing. Fish Res 84: 210-221.
17. Warton DI, (2005) Many zeros does not mean zero inflation: comparing the goodness-of-fit of parametric models to multivariate abundance data. Environmetrics 16: 275-289.
18. Fulton EA, Parslow JS, Smith ADM, Johnson CR, (2004) Biogeochemical marine ecosystem models. 2. The effect of physiological data on model performance. Ecol Modell 173: 371-406.
19. Fulton EA, Smith ADM, Smith DC (2007) Alternative management strategies for Southeast Australian Commonwealth Fisheries: Stage 2: Quantitative Management Strategy Evaluation. Australian Fisheries Management Authority. Fisheries Research and Development Corporation.
20. Sherman K, Hempel G (Editors) (2008) The UNEP Large Marine Ecosystem Report: A perspective on changing conditions in LMEs of the world's Regional Seas. UNEP Regional Seas Report and Studies No. 182. United Nations Environment Programme. Nairobi, Kenya.
21. NOS (2008) Gulf of Mexico at a Glance: U.S. National Ocean Service, Department of Commerce, National Oceanic and Atmospheric Administration. Washington, D.C.
22. Vidal L, Pauly D, (2004) Integration of subsystems models as a tool toward describing feeding interactions and fisheries impacts in a large marine ecosystem, the Gulf of Mexico. Ocean Coast Manag 47: 709-725.
23. NOAA (2010) Annual Commercial Landing Statistics. National Marine Fisheries Service. National Oceanic and Atmospheric Administration. Electronic database. Available at http://www.st.nmfs.noaa.gov/st1/commercial/landings/annual_landings.html. Date accessed: June 15, 2012.
24. Mulholland R (1984) Habitat suitability index models: pink shrimp. U.S. Fish and Wildlife Service FWS/OBS-82/10.76, 17 p.
25. GMFMC (2006) Options paper Amendment 15 to the shrimp fishery management plan (including environmental impact statement and regulatory impact review). Gulf of Mexico Fishery Management Council. Tampa, Florida.
26. Bielsa LM, Murdich WH, Labisky RF (1983) Species profiles: life histories and environmental requirements of coastal fishes and invertebrates (south Florida) - pink shrimp. U.S. Fish and Wildlife Service. FWS/OBS-82/11.17. U.S. Army Corps of Engineers, TR EL-82-4. 21 p.
27. GSMFC (2011) SEAMAP environmental and biological atlas of the Gulf of Mexico, 2009. Gulf States Marine Fisheries Commission.
28. Rester JK (2011) SEAMAP Environmental and Biological Atlas of the Gulf of Mexico, 2009. Gulf States Marine Fisheries Commission. Ocean Springs, MS.
29. Boyer TP, Antonov JI, Baranova OK, Garcia HE, Johnson DR, et al. (2009) World Ocean Database 2009. Levitus, S., Ed., NOAA Atlas NESDIS 66, U.S. Government Printing Office, Wash., D.C., 216 p.
30. Becker JJ, Sandwell DT, Smith WHF, Braud J, Binder B, et al. (2009) Global Bathymetry and Elevation Data at 30 Arc Seconds Resolution: SRTM30_PLUS, Marine Geodesy 32(4), 355-371.
31. Buczkowski BJ, Reid JA, Jenkins CJ, Reid JM, Williams SJ, et al. (2006) usSEABED: Gulf of Mexico and Caribbean (Puerto Rico and U.S. Virgin Islands) offshore surficial sediment data release: U.S. Geological Survey Data Series 146, version 1.0.
32. Jenkins C (2011) Dominant Bottom Types and Habitats In Gulf of Mexico Data Atlas [Internet]. Stennis Space Center (MS): National Coastal Data Development Center.
33. ESRI (2011) ArcGIS Desktop: Release 10. Redlands, CA: Environmental Systems Research Institute.
34. Wood S (2006) Generalized Additive Models: An Introduction with R. Chapman and Hall/CRC.