Bio-ORACLE: A global environmental dataset for marine species distribution modelling

Global Ecology and Biogeography

Volumn 21, Issue 2, 2012, Pages 272-281

  Tyberghein, Lennert ^a   Verbruggen, Heroen ^a   Pauly, Klaas ^a   Troupin, Charles ^b   Mineur, Frederic ^c   De Clerck, Olivier ^a  

^a GHENT UNIVERSITY   (Belgium)

^b UNIVERSITY OF LIÈGE   (Belgium)

^c QUEEN'S UNIVERSITY BELFAST   (United Kingdom)

Author keywords

Bio ORACLE; Codium fragile; Ecological niche modelling; Environmental data; Global; Macroecology; Marine; Oceanography; Species distribution modelling

Indexed keywords

CONSERVATION MANAGEMENT; DATA SET; ECOLOGICAL MODELING; ECOSYSTEM MANAGEMENT; IN SITU MEASUREMENT; INVASIVE SPECIES; MACROECOLOGY; MARINE ECOSYSTEM; NICHE; RASTER; SATELLITE IMAGERY; SEAWEED; SPATIAL DISTRIBUTION;

CODIUM FRAGILE;

EID: 84855540296     PISSN: 1466822X     EISSN: 14668238     Source Type: Journal    
DOI: 10.1111/j.1466-8238.2011.00656.x     Document Type: Article

References (60)

1. Araújo, M.B. & Guisan, A. (2004) Five (or so) challenges for species distribution modelling. Journal of Biogeography, 33, 1677-1688.
2. Austin, M.P. (2002) Spatial prediction of species distribution: an interface between ecological theory and statistical modelling. Ecological Modelling, 157, 101-118.
3. Bentlage, B., Peterson, A.T. & Cartwright, P. (2009) Inferring distributions of chirodropid box-jellyfishes (Cnidaria: Cubozoa) in geographic and ecological space using ecological niche modeling. Marine Ecology - Progress Series, 384, 121-133.
4. Boyer, T.P., Antonov, J.I., Baranova, O.K., Garcia, H.E., Johnson, D.R., Locarnini, R.A., Mishonov, A.V., O'brien, T.D., Seidov, D., Smolyar, I.V. & Zweng, M.M. (2009) World ocean database 2009. US Government Printing Office, Washington, DC.
5. Brasseur, P.P. & Haus, J.A. (1991) Application of a 3-D variational inverse model to the analysis of ecohydrodynamic data in the northern Bering and southern Chukchi seas. Journal of Marine Systems, 1, 383-401.
6. Brasseur, P., Beckers, J.M., Brankart, J.M. & Schoenauen, R. (1996) Seasonal temperature and salinity fields in the Mediterranean Sea: climatological analyses of a historical data set. Deep Sea Research Part I: Oceanographic Research Papers, 43, 159-192.
7. Chown, S.L., Sinclair, B.J., Leinaas, H.P. & Gaston, K.J. (2004) Hemispheric asymmetries in biodiversity - a serious matter for ecology. PLoS Biology, 2, 1701-1707.
8. Clarke, A. (2009) Temperature and marine macroecology. Marine macroecology (ed. by J.D. Witman and K. Roy ), pp. 250-278. University of Chicago Press, Chicago, IL.
9. Compton, T.J., Leathwick, J.R. & Inglis, G.J. (2010) Thermogeography predicts the potential global range of the invasive European green crab Carcinus maenas. Diversity and Distributions, 16, 243-255.
10. Costello, M.J., Coll, M., Danovaro, R., Halpin, P., Ojaveer, H. & Miloslavich, P. (2010) A census of marine biodiversity knowledge, resources, and future challenges. PLoS One, 5, e12110.
11. Daly, C. (2006) Guidelines for assessing the suitability of spatial climate data sets. International Journal of Climatology, 26, 707-721.
12. Davies, A.J., Wisshak, M., Orr, J.C. & Roberts, J.M. (2008) Predicting suitable habitat for the cold-water coral Lophelia pertusa (Scleractinia). Deep Sea Research Part I: Oceanographic Research Papers, 55, 1048-1062.
13. 2 problem. Annual Review of Marine Science, 1, 169-192.
14. Dring, M.J., Wagner, A., Boeskov, J. & Lüning, K. (1996) Sensitivity of intertidal and subtidal red algae to UVA and UVB radiation, as monitored by Chlorophyll fluorescence measurements: influence of collection depth and season, and length of irradiation. European Journal of Phycology, 31, 293-302.
15. Duan, H., Zhang, Y., Zhang, B., Song, K. & Wang, Z. (2007) Assessment of chlorophyll-a concentration and trophic state for Lake Chagan using Landsat TM and field spectral data. Environmental Monitoring and Assessment, 129, 295-308.
16. Elith, J. & Leathwick, J.R. (2009) Species distribution models: ecological explanation and prediction across space and time. Annual Review of Ecology, Evolution, and Systematics, 40, 677-697.
17. Elith, J., Graham, C.H., Anderson, R.P. etal. (2006) Novel methods improve prediction of species' distributions from occurrence data. Ecography, 29, 129-151.
18. Fautin, D.G. & Buddemeier, R.W. (2008) Biogeoinformatics of the hexacorals. Available at: (accessed September 2010).
19. Feldman, G.C. & McClain, C.R. (2010) OceanColor web (ed. by N. Kuring, S.W. Bailey, B.F. Franz, G. Meister, P.J. Werdell and R.E. Eplee ). NASA Goddard Space Flight Center, Greenbelt, MD. Available at: (accessed January 2010).
20. Franklin, J. (2009) Mapping species distributions: spatial inference and prediction. Cambridge University Press, Cambridge.
21. Gogina, M. & Zettler, M.L. (2010) Diversity and distribution of benthic macrofauna in the Baltic Sea. Data inventory and its use for species distribution modelling and prediction. Journal of Sea Research, 64, 313-321.
22. Graham, C.H., Ron, S.R., Santos, J.C., Schneider, C.J. & Moritz, C. (2004) Integrating phylogenetics and environmental niche models to explore speciation mechanisms in dendrobatid frogs. Evolution, 58, 1781-1793.
23. Graham, C.H., Moritz, C. & Williams, S.E. (2006) Habitat history improves prediction of biodiversity in rainforest fauna. Proceedings of the National Academy of Sciences USA, 103, 632-636.
24. Graham, M.H., Kinlan, B.P., Druehl, L.D., Garske, L.E. & Banks, S. (2007) Deep-water kelp refugia as potential hotspots of tropical marine diversity and productivity. Proceedings of the National Academy of Sciences USA, 104, 16576-16580.
25. Gregg, W.W. & Casey, N.W. (2007) Sampling biases in MODIS and SeaWiFS ocean chlorophyll data. Remote Sensing of Environment, 111, 25-35.
26. Guinotte, J.M., Bartley, J.D., Iqbal, A., Fautin, D.G. & Buddemeier, R.W. (2006) Modeling habitat distribution from organism occurrences and environmental data: case study using anemonefishes and their sea anemone hosts. Marine Ecology - Progress Series, 316, 269-283.
27. Guisan, A. & Thuiller, W. (2005) Predicting species distribution: offering more than simple habitat models. Ecology Letters, 8, 993-1009.
28. Guisan, A. & Zimmermann, N.E. (2000) Predictive habitat distribution models in ecology. Ecological Modelling, 135, 147-186.
29. Halpern, B.S., Walbridge, S., Selkoe, K.A., Kappel, C.V., Micheli, F., D'Agrosa, C., Bruno, J.F., Casey, K.S., Ebert, C., Fox, H.E., Fujita, R., Heinemann, D., Lenihan, H.S., Madin, E.M.P., Perry, M.T., Selig, E.R., Spalding, M., Steneck, R. & Watson, R. (2008) A global map of human impact on marine ecosystems. Science, 319, 948-952.
30. Hijmans, R.J., Cameron, S.E., Parra, J.L., Jones, P.G. & Jarvis, A. (2005) Very high resolution interpolated climate surfaces for global land areas. International Journal of Climatology, 25, 1965-1978.
31. Johnson, D.R., Boyer, T.P., Garcia, H.E., Locarnini, R.A., Baranova, O.K. & Zweng, M.M. (2009) World ocean database 2009 documentation. NODC Internal Report 20 (ed. by S. Levitus ), p. 175. NOAA Printing Office, Washington, DC.
32. Karafistan, A., Martin, J.M., Rixen, M. & Beckers, J.M. (2002) Space and time distributions of phosphate in the Mediterranean Sea. Deep Sea Research Part I: Oceanographic Research Papers, 49, 67-82.
33. Karentz, D. & Bosch, I. (2001) Influence of ozone-related increases in ultraviolet radiation on Antarctic marine organisms. American Zoologist, 41, 3-16.
34. Kaschner, K., Watson, R., Trites, A.W. & Pauly, D. (2006) Mapping world-wide distributions of marine mammal species using a relative environmental suitability (RES) model. Marine Ecology - Progress Series, 316, 285-310.
35. Kaschner, K., Ready, J.S., Agbayani, E., Rius, J., Kesner-Reyes, K., Eastwood, P.D., South, A.B., Kullander, S.O., Rees, T., Close, C.H., Watson, R., Pauly, D. & Froese, R. (2008a) AquaMaps: environmental dataset: half-degree cells authority file (HCAF). Electronic publication, available at:, Version 10/2008 (accessed September 2010).
36. Kaschner, K., Ready, J.S., Agbayani, E., Rius, J., Kesner-Reyes, K., Eastwood, P.D., South, A.B., Kullander, S.O., Rees, T., Close, C.H., Watson, R., Pauly, D. & Froese, R. (2008b) AquaMaps: predicted range maps for aquatic species. Electronic publication, available at:, Version 10/2008 (accessed September 2010).
37. Lüning, K. (1990) Seaweeds: their environment, biogeography, and ecophysiology. John Wiley and Sons, New York.
38. Mangel, M., Richerson, K., Cresswell, K.A. & Wiedenmann, J.R. (2010) Modelling the effects of UV radiation on the survival of Antarctic krill (Euphausia superba Dana) in the face of limited data. Ecological Modelling, 221, 2095-2101.
39. Maravelias, C.D. & Reid, D.G. (1997) Identifying the effects of oceanographic features and zooplankton on prespawning herring abundance using generalized additive models. Marine Ecology - Progress Series, 147, 1-9.
40. Martínez-Meyer, E., Peterson, A.T. & Navarro-Sigüenza, A.G. (2004) Evolution of seasonal ecological niches in the Passerina buntings (Aves: Cardinalidae). Proceedings of the Royal Society of London B: Biological Sciences, 271, 1151-1157.
41. NASA (2010) NASA Earth observations (NEO). NASA Goddard Space Flight Center, Greenbelt, MD.
42. Peterson, A.T. (2006) Uses and requirements of ecological niche models and related distributional models. Biodiversity Informatics, 3, 59-72.
43. Phillips, S.J., Anderson, R.P. & Schapire, R.E. (2006) Maximum entropy modeling of species geographic distributions. Ecological Modelling, 190, 231-259.
44. Provan, J., Booth, D., Todd, N.P., Beatty, G.E. & Maggs, C.A. (2008) Tracking biological invasions in space and time: elucidating the invasive history of the green alga Codium fragile using old DNA. Diversity and Distributions, 14, 343-354.
45. Ready, J., Kaschner, K., South, A.B., Eastwood, P.D., Rees, T., Rius, J., Agbayani, E., Kullander, S. & Froese, R. (2010) Predicting the distributions of marine organisms at the global scale. Ecological Modelling, 221, 467-478.
46. Robinson, L.M., Elith, J., Hobday, A.J., Pearson, R.G., Kendall, B.E., Possingham, H.P. & Richardson, A.J. (in press) Pushing the limits in marine species distribution modelling: lessons from the land present challenges and opportunities. Global Ecology and Biogeography.
47. Roleda, M.Y., Wiencke, C., Hanelt, D., Van De Poll, W. & Gruber, A. (2005) Sensitivity of Laminariales zoospores from Helgoland (North Sea) to ultraviolet and photosynthetically active radiation: implications for depth distribution and seasonal reproduction. Plant Cell and Environment, 28, 466-479.
48. Schmidt-Nielsen, K. (1990) Animal physiology: adaptation and environment. Cambridge University Press, New York.
49. Shimodaira, H. (2004) Approximately unbiased tests of regions using multistep-multiscale bootstrap resampling. Annals of Statistics, 32, 2616-2641.
50. Suzuki, R. & Shimodaira, H. (2006) Pvclust: an R package for assessing the uncertainty in hierarchical clustering. Bioinformatics, 22, 1540-1542.
51. Thomas, C.D., Cameron, A., Green, R.E., Bakkenes, M., Beaumont, L.J., Collingham, Y.C., Erasmus, B.F.N., Ferreira de Siqueira, M., Grainger, A., Hannah, L., Hughes, L., Huntley, B., van Jaarsveld, A.S., Midgley, G.F., Miles, L., Ortega-Huerta, M.A., Townsend Peterson, A.T., Phillips, O.L. & Williams, S.E. (2004) Extinction risk from climate change. Nature, 427, 145-148.
52. Thuiller, W., Richardson, D.M., Pyšek, P., Midgley, G.F., Hughes, G.O. & Rouget, M. (2005) Niche-based modelling as a tool for predicting the risk of alien plant invasions at a global scale. Global Change Biology, 11, 2234-2250.
53. Tittensor, D.P., Baco, A.R., Brewin, P.E., Clark, M.R., Consalvey, M., Hall-Spencer, J., Rowden, A.A., Schlacher, T., Stocks, K.I. & Rogers, A.D. (2009) Predicting global habitat suitability for stony corals on seamounts. Journal of Biogeography, 36, 1111-1128.
54. Troupin, C., Machín, F., Ouberdous, M., Sirjacobs, D., Barth, A. & Beckers, J.-M. (2010) High-resolution climatology of the northeast Atlantic using data-interpolating variational analysis (DIVA). Journal of Geophysical Research - Oceans, 115, C08005.
55. Trowbridge, C.D. (1998) Ecology of the green macroalga Codium fragile (Suringar) Hariot: invasive and noninvasive subspecies. Oceanography and Marine Biology: an Annual Review, 36, 1-64.
56. Valavanis, V.D., Pierce, G.J., Zuur, A.F., Palialexis, A., Saveliev, A., Katara, I. & Wang, J.J. (2008) Modelling of essential fish habitat based on remote sensing, spatial analysis and GIS. Hydrobiologia, 612, 5-20.
57. Verbruggen, H., Tyberghein, L., Pauly, K., Vlaeminck, C., Van Nieuwenhuyze, K., Kooistra, W., Leliaert, F. & De Clerck, O. (2009) Macroecology meets macroevolution: evolutionary niche dynamics in the seaweed Halimeda. Global Ecology and Biogeography, 18, 393-405.
58. Warren, D.L. & Seifert, S. (in press) Environmental niche modeling in Maxent: the importance of model complexity and the performance of model selection criteria. Ecological Applications, doi:10.1890/10-1171.1.
59. Wiley, E.O., Mcnyset, K.M., Peterson, A.T., Robins, C.R. & Stewart, A.M. (2003) Niche modeling and geographic range predictions in the marine environment using a machine-learning algorithm. Oceanography, 16, 120-127.
60. Wootton, J.T., Pfister, C.A. & Forester, J.D. (2008) Dynamic patterns and ecological impacts of declining ocean pH in a high-resolution multi-year dataset. Proceedings of the National Academy of Sciences USA, 105, 18848-18853.