On the species abundance distribution in applied ecology and biodiversity management

Journal of Applied Ecology

Volumn 52, Issue 2, 2015, Pages 443-454

  Matthews, Thomas J ^a,b   Whittaker, Robert J ^a,c  

^a UNIVERSITY OF OXFORD   (United Kingdom)

^b UNIVERSITY OF THE AZORES   (Portugal)

^c UNIVERSITY OF COPENHAGEN   (Denmark)

Author keywords

Community structure; Conservation biogeography; Disturbance ecology; Macroecology; Multimodal species abundance distribution; Scaling; Species abundance distribution

Indexed keywords

ABUNDANCE; BIODIVERSITY; BIOLOGICAL CONTROL; CONSERVATION PLANNING; ECOLOGICAL MODELING; ECOSYSTEM HEALTH; ENVIRONMENTAL DISTURBANCE; MANAGEMENT PRACTICE; RARE SPECIES;

EID: 84924614619     PISSN: 00218901     EISSN: 13652664     Source Type: Journal    
DOI: 10.1111/1365-2664.12380     Document Type: Review

References (69)

1. Alonso, D., Ostling, A. & Etienne, R.S. (2008) The implicit assumption of symmetry and the species abundance distribution. Ecology Letters, 11, 93-105.
2. Ambak, M.A. & Mohsin, A.K.M. (1986) Monitoring population parameters for fisheries management: I. species composition, abundance and distribution patterns of fishes in Paya Bungor. Pertanika, 9, 339-351.
3. Anderson, B.J., Chiarucci, A. & Williamson, M. (2012) How differences in plant abundance measures produce different species-abundance distributions. Methods in Ecology and Evolution, 3, 783-786.
4. Barabás, G., D'Andrea, R., Rael, R., Meszéna, G. & Ostling, A. (2013) Emergent neutrality or hidden niches? Oikos, 122, 1565-1572.
5. Barbosa, P., Caldas, A. & Riechert, S.E. (2005) Species abundance distribution and predator-prey interactions. Ecology of Predator-Prey Interactions (eds P. Barbosa & I. Castellanos ), pp. 344-369. Oxford University Press, New York.
6. Bazzaz, F.A. (1975) Plant species diversity in old-field successional ecosystems in Southern Illinois. Ecology, 56, 485-488.
7. Bommarco, R., Biesmeijer, J.C., Meyer, B., Potts, S.G., Pöyry, J., Roberts, S.P.M., Steffan-Dewenter, I. & Öckinger, E. (2010) Dispersal capacity and diet breadth modify the response of wild bees to habitat loss. Proceedings of the Royal Society B: Biological Sciences, 277, 2075-2082.
8. Borda-de-Água, L., Borges, P.A.V., Hubbell, S.P. & Pereira, H.M. (2012) Spatial scaling of species abundance distributions. Ecography, 35, 549-556.
9. Borges, P.A.V., Ugland, K.I., Dinis, F.O. & Gaspar, C.S. (2008) Insect and spider rarity in an oceanic island (Terceira, Azores): True rare and pseudo-rare species. Insect Ecology and Conservation (ed. S. Fattorini ), pp. 47-70. Research Signpost, Kerala.
10. Dornelas, M. & Connolly, S.R. (2008) Multiple modes in a coral species abundance distribution. Ecology Letters, 11, 1008-1016.
11. Dornelas, M., Soykan, C.U. & Ugland, K.I. (2011) Biodiversity and disturbance. Biological Diversity: Frontiers in Measurement and Assessment (eds. A.E. Magurran & B.J. McGill ), pp. 237-251. Oxford University Press, Oxford.
12. Dornelas, M., Moonen, A.C., Magurran, A.E. & Bàrberi, P. (2009) Species abundance distributions reveal environmental heterogeneity in modified landscapes. Journal of Applied Ecology, 46, 666-672.
13. Dunstan, P.K., Bax, N.J., Foster, S.D., Williams, A. & Althaus, F. (2012) Identifying hotspots for biodiversity management using rank abundance distributions. Diversity and Distributions, 18, 22-32.
14. Fattorini, S. (2005) A simple method to fit geometric series and broken stick models in community ecology and island biogeography. Acta Oecologica, 28, 199-205.
15. Fisher, R.A., Corbet, A.S. & Williams, C.B. (1943) The relation between the number of species and the number of individuals in a random sample of an animal population. Journal of Animal Ecology, 12, 42-58.
16. Foster, S.D. & Dunstan, P.K. (2010) The analysis of biodiversity using rank abundance distributions. Biometrics, 66, 186-195.
17. Gaston, K.J. (1994) Rarity. Springer, The Netherlands.
18. Gray, J.S., Bjørgesæter, A. & Ugland, K.I. (2005) The impact of rare species on natural assemblages. Journal of Animal Ecology, 74, 1131-1139.
19. Gray, J.S., Bjørgesæter, A. & Ugland, K.I. (2006) On plotting species abundance distributions. Journal of Animal Ecology, 75, 752-756.
20. Gray, J.S. & Mirza, F.B. (1979) A possible method for the detection of pollution-induced disturbance on marine benthic communities. Marine Pollution Bulletin, 10, 142-146.
21. Gray, J.S., Waldichuk, M., Newton, A.J., Berry, R.J., Holden, A.V. & Pearson, T.H. (1979) Pollution-induced changes in populations. Philosophical Transactions of the Royal Society of London B, Biological Sciences, 286, 545-561.
22. Green, J.L. & Plotkin, J.B. (2007) A statistical theory for sampling species abundances. Ecology Letters, 10, 1037-1045.
23. Hågvar, S. (1994) Log-normal distribution of dominance as an indicator of stressed soil microarthropod communities? Acta Zoologica Fennica, 195, 71-80.
24. He, F. & Hubbell, S.P. (2011) Species-area relationships always overestimate extinction rates from habitat loss. Nature, 473, 368-371.
25. Henderson, P.A. & Magurran, A.E. (2010) Linking species abundance distributions in numerical abundance and biomass through simple assumptions about community structure. Proceedings of the Royal Society B: Biological Sciences, 277, 1561-1570.
26. Hill, J.K., Hamer, K.C., Lace, K.C. & Banham, W.M.T. (1995) Effects of selective logging on tropical forest butterflies on Buru, Indonesia. Journal of Applied Ecology, 32, 754-760.
27. Kim, D.-H., Cho, W.-S. & Chon, T.-S. (2013) Self-organizing map and species abundance distribution of stream benthic macroinvertebrates in revealing community patterns in different seasons. Ecological Informatics, 17, 14-29.
28. Kitzes, J. & Harte, J. (2014) Beyond the species-area relationship: improving macroecological extinction estimates. Methods in Ecology and Evolution, 5, 1-8.
29. Kůrka, P., Šizling, A.L. & Rosindell, J. (2010) Analytical evidence for scale-invariance in the shape of species abundance distributions. Mathematical Biosciences, 223, 151-159.
30. Labra, F.A., Abades, S.R. & Marquet, P.A. (2005) Distribution and abundance: scaling patterns in exotic and native bird species. Species Invasions: Insights Into Ecology, Evolution, and Biogeography (eds D.F. Sax, J.J. Stachowicz & S.D. Gaines ). Pp. 421-446. Sinauer, Sunderland, MA.
31. Ladle, R.J. & Whittaker, R.J. (eds.) (2011) Conservation Biogeography. Wiley-Blackwell, Chichester.
32. Lambshead, P.J.D., Platt, H.M. & Shaw, K.M. (1983) The detection of differences among assemblages of marine benthic species based on an assessment of dominance and diversity. Journal of Natural History, 17, 859-874.
33. Magurran, A.E. (2004) Measuring Biological Diversity, 2nd edn. Blackwell, Oxford.
34. Magurran, A.E. & Henderson, P.A. (2003) Explaining the excess of rare species in natural species abundance distributions. Nature, 422, 714-716.
35. Marquet, P.A., Fernández, M., Navarrete, S.A. & Valdovinos, C. (2004) Diversity emerging: toward a deconstruction of biodiversity patterns. Frontiers of Biogeography: New Directions in the Geography of Nature (eds M.V. Lomolino & L.R. Heaney ), pp. 191-209. Sinauer, Sunderland, MA.
36. Matthews, T.J., Borregaard, M.K., Ugland, K.I., Borges, P.A.V., Rigal, F., Cardoso, P. & Whittaker, R.J. (2014) The gambin model provides a superior fit to species abundance distributions with a single free parameter: evidence, implementation and interpretation. Ecography, doi:10.1111/ecog.00861.
37. Matthews, T.J., Borges, P.A.V. & Whittaker, R.J. (2014) Multimodal species abundance distributions: a deconstruction approach reveals the processes behind the pattern. Oikos, 123, 533-544.
38. Matthews, T.J., Cottee-Jones, H.E.W. & Whittaker, R.J. (2014) Habitat fragmentation and the species-area relationship: a focus on total species richness obscures the impact of habitat loss on habitat specialists. Diversity and Distributions, doi:10.1111/ddi.12227.
39. Matthews, T.J. & Whittaker, R.J. (2014) Fitting and comparing competing models of the species abundance distribution: assessment and prospect. Frontiers of Biogeography, 6, 67-82.
40. May, R.M. (1975) Patterns of species abundance and diversity. Ecology and Evolution of Communities (eds M.L. Cody & J.M. Diamond ), pp. 81-120. Harvard University Press, Cambridge, MA.
41. McGill, B.J. (2011) Species abundance distributions. Biological Diversity: Frontiers in Measurement and Assessment (eds A.E. Magurran & B.J. Mcgil l), pp. 105-122. Oxford University Press, Oxford.
42. McGill, B.J., Etienne, R.S., Gray, J.S., Alonso, D., Anderson, M.J. & Benecha, H.K. et al. (2007) Species abundance distributions: moving beyond single prediction theories to integration within an ecological framework. Ecology Letters, 10, 995-1015.
43. Morlon, H., White, E.P., Etienne, R.S., Green, J.L., Ostling, A. & Alonso, D. et al. (2009) Taking species abundance distributions beyond individuals. Ecology Letters, 12, 488-501.
44. Mouillot, D. & Lepretre, A. (2000) Introduction of relative abundance distribution (RAD) indices, estimated from the rank-frequency diagrams (RFD), to assess changes in community diversity. Environmental Monitoring and Assessment, 63, 279-295.
45. Mouillot, D., Graham, N.A.J., Villéger, S., Mason, N.W.H. & Bellwood, D.R. (2013) A functional approach reveals community responses to disturbances. Trends in Ecology & Evolution, 28, 167-177.
46. Newman, E.I. (1993) Applied Ecology. Blackwell Scientific Publications, Oxford.
47. Nummelin, M. (1998) Log-normal distribution of species abundances is not a universal indicator of rain forest disturbance. Journal of Applied Ecology, 35, 454-457.
48. Pearce, J. & Ferrier, S. (2001) The practical value of modelling relative abundance of species for regional conservation planning: a case study. Biological Conservation, 98, 33-43.
49. Persiani, A.M. & Maggi, O. (2013) Species-abundance distribution patterns of soil fungi: contribution to the ecological understanding of their response to experimental fire in Mediterranean maquis (southern Italy). Mycologia, 105, 260-276.
50. Pielou, E.C. (1969) An Introduction to Mathematical Ecology. John Wiley & Sons, New York.
51. Preston, F.W. (1948) The commonness, and rarity, of species. Ecology, 29, 254-283.
52. Rodrigues, A.S.L., Gregory, R.D. & Gaston, K.J. (2000) Robustness of reserve selection procedures under temporal species turnover. Proceedings of the Royal Society of London. Series B: Biological Sciences, 267, 49-55.
53. Sæther, B.-E., Engen, S. & Grøtan, V. (2013) Species diversity and community similarity in fluctuating environments: parametric approaches using species abundance distributions. Journal of Animal Ecology, 82, 721-738.
54. Sala, O.E., Chapin, F.S. III, Armesto, J.J., Berlow, E., Bloomfield, J. & Dirzo, R. et al. (2000) Global biodiversity scenarios for the year 2100. Science, 287, 1770-1774.
55. Šizling, A., Storch, D., Reif, J. & Gaston, K. (2009) Invariance in species-abundance distributions. Theoretical Ecology, 2, 89-103.
56. ter Steege, H., Pitman, N.C.A., Sabatier, D., Baraloto, C., Salomão, R.P. & Guevara, J.E. et al. (2013) Hyperdominance in the Amazonian tree flora. Science, 342, 1243092.
57. Syrek, D., Weiner, W.M., Wojtylak, M., Olszowska, G. & Kwapis, Z. (2006) Species abundance distribution of collembolan communities in forest soils polluted with heavy metals. Applied Soil Ecology, 31, 239-250.
58. Tallamy, D.W., Hansens, E.J. & Denno, R.F. (1976) Comparison of malaise trapping and aerial netting for sampling a horsefly and deerfly community. Environmental Entomology, 5, 788-792.
59. Tang, H., Song, M.-Y., Cho, W.-S., Park, Y.-S. & Chon, T.-S. (2010) Species abundance distribution of benthic chironomids and other macroinvertebrates across different levels of pollution in streams. International Journal of Limnology, 46, 53-66.
60. van Teeffelen, A.J.A., Cabeza, M. & Moilanen, A. (2006) Connectivity, probabilities and persistence: comparing reserve selection strategies. Biodiversity & Conservation, 15, 899-919.
61. Tokeshi, M. (1993) Species abundance patterns and community structure. Advances in Ecological Research, 24, 111-186.
62. Ugland, K.I. & Gray, J.S. (1982) Lognormal distributions and the concept of community equilibrium. Oikos, 39, 171-178.
63. Ugland, K.I., Lambshead, P.J.D., McGill, B., Gray, J.S., O'Dea, N., Ladle, R.J. & Whittaker, R.J. (2007) Modelling dimensionality in species abundance distributions: description and evaluation of the Gambin model. Evolutionary Ecology Research, 9, 313-324.
64. Ulrich, W. & Zalewski, M. (2006) Abundance and co-occurrence patterns of core and satellite species of ground beetles on small lake islands. Oikos, 114, 338-348.
65. Unterseher, M., Jumpponen, A.R.I., ÖPik, M., Tedersoo, L., Moora, M., Dormann, C.F. & Schnittler, M. (2011) Species abundance distributions and richness estimations in fungal metagenomics - lessons learned from community ecology.Molecular Ecology, 20, 275-285.
66. Vergnon, R., van Nes, E.H. & Scheffer, M. (2012) Emergent neutrality leads to multimodal species abundance distributions. Nature Communications, 3, 663.
67. Warwick, R.M. (1986) A new method for detecting pollution effects on marine macrobenthic communities. Marine Biology, 92, 557-562.
68. Whittaker, R.J. & Fernández-Palacios, J.M. (2007) Island Biogeography: Ecology, Evolution, and Conservation, 2nd edn. Oxford University Press, Oxford.
69. Wickham, H. (2009) Ggplot2: Elegant Graphics for Data Analysis. Springer, New York.