Predicting invasion success of forest pathogenic fungi from species traits

Journal of Applied Ecology

Volumn 48, Issue 6, 2011, Pages 1381-1390

  Philibert, Aurore ^a,b   Desprez Loustau, Marie Laure ^c   Fabre, Bénédicte ^d   Frey, Pascal ^d   Halkett, Fabien ^d   Husson, Claude ^d   Lung Escarmant, Brigitte ^c   Marçais, Benoit ^d   Robin, Cécile ^c   Vacher, Corinne ^c   Makowski, David ^a,b  

^a INRA Institut National de la Recherche Agronomique   (France)

^b AGROPARISTECH   (France)

^c UNIVERSITÉ DE BORDEAUX   (France)

^d UNIVERSITÉ DE LORRAINE   (France)

Author keywords

Alien; Biological invasion; Emerging disease; Forest pathology; Invader; Invasiveness; Parasitism; Pest risk assessment; Phytophthora; Random Forest

Indexed keywords

AGRICULTURAL ECOSYSTEM; BIODIVERSITY; BIOLOGICAL INVASION; DISEASE INCIDENCE; DISPERSAL; EUKARYOTE; FOREST ECOSYSTEM; FUNGUS; GLOBALIZATION; HABITAT AVAILABILITY; HOST RANGE; INVASIVE SPECIES; INVASIVENESS; PATHOGEN; PEST SPECIES; RESIDENCE TIME; RISK ASSESSMENT; SEXUAL REPRODUCTION; SPORE;

EUROPE;

ANIMALIA; BACTERIA (MICROORGANISMS); FUNGI; PHYTOPHTHORA;

EID: 80055068780     PISSN: 00218901     EISSN: 13652664     Source Type: Journal    
DOI: 10.1111/j.1365-2664.2011.02039.x     Document Type: Article

References (54)

1. Aikio, S., Duncan, R.P. & Hulme, P.E. (2010) Lag-phases in alien plant invasions: separating the facts from the artefacts. Oikos, 119, 370-378.
2. Brasier, C.M. (2008) The biosecurity threat to the UK and global environment from international trade in plants. Plant Pathology, 57, 792-808.
3. Breiman, L. (2001) Random forests. Machine Learning, 45, 15-32.
4. Breiman, L. & Cutler, A. (2003) Setting up, using, and understanding Random Forests v4.0.
5. Breiman, L., Friedman, J., Olshen, R. & Stone, C. (1984) Classification and Regression Trees. Chapman and Hall, London.
6. Brunel, S. (2009) Pathway analysis: aquatic plants imported in 10 EPPO countries. EPPO Bulletin, 39, 201-213.
7. Cutler, D., Edwards, T., Beard, K., Cutler, A., Hess, K., Gibson, J. & Lawler, J. (2007) Random forests for classification in ecology. Ecology, 88, 2783-2792.
8. Davis, M.A. (2003) Biotic globalization: does competition from introduced species threaten biodiversity? BioScience, 53, 481-489.
9. Desprez-Loustau, M.-L. (2009) The alien fungi of Europe. Handbook of Alien Species in Europe (DAISIE), pp. 15-28. Springer, Dordrecht.
10. Desprez-Loustau, M.-L., Robin, C., Buée, M., Courtecuisse, R., Garbaye, J., Suffert, F., Sache, I. & Rizzo, D. (2007) The fungal dimension of biological invasions. Trends in Ecology and Evolution, 22, 472-480.
11. Desprez-Loustau, M.-L., Courtecuisse, R., Robin, C., Husson, C., Moreau, P.-A., Blancard, D., Selosse, M.-A., Lung-Escarmant, B., Piou, D. & Sache, I. (2010) Species diversity and drivers of spread of alien fungi (sensu lato) in Europe with a particular focus on France. Biological Invasions, 12, 157-172.
12. Durrell, L.W. (1964) The composition and structure of walls of dark fungus spores. Mycopathologia, 23, 339-345.
13. Efron, B. & Tibshirani, R. (1993) An Introduction to the Bootstrap. Chapman and Hall, New York.
14. Fraser, J.A., Giles, S.S., Wenink, E.C., Geunes-Boyer, S.G., Wright, J.R., Diezmann, S. et al. (2005) Same-sex mating and the origin of the Vancouver Island Cryptococcus gattii outbreak. Nature, 437, 1360-1364.
15. Gasso, N., Sol, D., Pino, J., Dana, E.D., Lloret, F., Sanz-Elorza, M., Sobrino, E. & Vila, M. (2009) Exploring species attributes and site characteristics to assess plant invasions in Spain. Diversity and Distributions, 15, 50-58.
16. Ghattas, B. (2000) Agrégation d'arbres de classification. Revue de Statistique Appliquée, 48, 85-98.
17. Gilbert, G.S. & Webb, C.O. (2007) Phylogenetic signal in plant pathogen-host range. Proceedings of the National Academy of Sciences, 104, 4979-4983.
18. Hayes, K. & Barry, S. (2008) Are they any consistent predictors of invasion success? Biological Invasions, 10, 483-506.
19. Hulme, P.E. (2009) Trade, transport and trouble: managing invasive species pathways in an era of globalization. Journal of Applied Ecology, 46, 10-18.
20. James, T.Y., Kauff, F., Schoch, C.L., Matheny, P. B., Hofstetter, V., Cox, C. et al. (2006) Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature, 443, 818-822.
21. Keller, R.P. & Drake, J.M. (2009) Trait based risk assessment for invasive species. Bioeconomics of Invasive Species: Integrating Ecology, Economics, Policy and Management (eds R.P. Keller, D.M. Lodge, M.A. Lewis & J.F. Shogren), pp. 44-62. Oxford University Press, New York.
22. Keller, R.P., Lodge, D.M. & Finnoff, D.C. (2007) Risk assessment for invasive species produces net bioeconomic benefits. Proceedings of the National Academy of Sciences, 104, 203-207.
23. Köbler, R. & Seufert, G. (2001) Novel maps for tree species in Europe. Proceedings of the European Symposium on the Physico-Chemical Behaviour of Air Pollutants: "A Changing Atmosphere", Torino (Italy) 17-20 September 2001.
24. Kolar, C.S. & Lodge, D.M. (2001) Progress in invasion biology: predicting invaders. Trends in Ecology and Evolution, 19, 199-204.
25. Kolar, C.S. & Lodge, D.M. (2002) Ecological predictions and risk assessment for alien fishes in North America. Science, 298, 1233-1236.
26. Küster, E.C., Kühn, I., Bruelheide, H. & Klotz, S. (2008) Trait interactions help explain plant invasion success in the German flora. Journal of Ecology, 96, 860-868.
27. Lanier, L., Joly, P., Bondoux, P. & Bellemère, A. (1976) Mycologie et Pathologie Forestière. Masson, Paris.
28. Levine, J.M. & D'Antonio, C.M. (2003) Forecasting biological invasions with increasing international trade. Conservation Biology, 17, 322-326.
29. Liaw, A. & Wiener, M. (2002) Classification and regression by randomforest. R News, 2, 18-22.
30. Lloret, F., Médail, F., Brundu, G., Camarda, I., Moragues, E., Rita, J., Lambdon, P. & Hulme, P.E. (2005) Species attributes and invasion success by alien plants in Mediterranean islands. Journal of Ecology, 93, 512-520.
31. MacLeod, A., Pautasso, M., Jeger, M.J. & Haines-Young, R. (2010) Evolution of the international regulation of plant pests and challenges for future plant health. Food Security, 2, 49-70.
32. McDonald, B.A. & Linde, C.C. (2002) Pathogen population genetics, evolutionary potential, and durable resistance. Annual Review of Phytopathology, 40, 349-379.
33. Parker, I.M. & Gilbert, G.S. (2004) The evolutionary ecology of novel plant-pathogen interactions. Annual Review of Ecology, Evolution, and Systematics, 35, 675-700.
34. Prasad, A., Iverson, L. & Liaw, A. (2006) Newer classification and regression tree techniques: bagging and random forests for ecological prediction. Ecosystems, 9, 181-199.
35. Pyšek, P., Křivánek, M. & Jarošík, V. (2009) Planting intensity, residence time, and species traits determine invasion success of alien woody species. Ecology, 90, 2734-2744.
36. Pyšek, P. & Richardson, D.M. (2007) Traits associated with invasiveness in alien plants: where do we stand? Biological Invasions (ed. W. Nentwig), pp. 97-126. Springer-Verlag, Berlin and Heidelberg.
37. Quintanilla, L.G. & Escudero, A. (2006) Spore fitness components do not differ between diploid and allotetraploid species of Dryopteris (Dryopteridaceae). Annals of Botany, 98, 609-618.
38. R Development Core Team (2009) R: A Language and Environment for Statistical Computing. Version 2.9.1. R Foundation for Statistical Computing, Vienna, Austria.
39. Roper, M., Pepper, R.E., Brenner, M.P. & Pringle, A. (2008) Explosively launched spores of ascomycete fungi have drag-minimizing shapes. Proceedings of the National Academy of Science USA, 105, 20583-20588.
40. Sache, I., Roy, A.-S., Suffert, F. & Desprez-Loustau, M.-L. (2011) Invasive Plant Pathogens in Europe. Biological Invasions: Economic and Environmental Costs of Alien Plant, Animal, and Microbe Species, 2nd edn (ed. D. Pimentel), pp. 227-242. CRC Press, Boca Raton.
41. Sakai, A.K., Allendorf, F.W., Holt, J.S., Lodge, D.M., Molofsky, J., With, K.A., Baughman, S., Cabin, R.J., Cohen, J.E., Ellstrand, N.C., McCauley, D.E., O'Neil, P., Parker, I.M. and Thompson, J.N. (2001) The Population Biology of Invasive Species. Annual Review of Ecology and Systematics, 32, 305-332.
42. Shatele, M.S. (2009) Effects of gamma irradiation on fungal growth and associated pathogens. Research Journal of Environmental Toxicology, 3, 94-100.
43. Sinclair, W.A., Lyon, H.H. & Johnson, W.T. (2005) Diseases of Trees and Shrubs. Cornell University Press, Ithaca, New York, USA.
44. Slippers, B., Stenlid, J. & Wingfield, M.J. (2005) Emerging pathogens: fungal host jumps following anthropogenic introduction. Trends in Ecology and Evolution, 20, 420-421.
45. Stockmarr, A., Andreasen, V. & Østergård, H. (2007) Dispersal distances for airborne spores based on deposition rates and stochastic modeling. Phytopathology, 97, 1325-1330.
46. Stohlgren, T.J. & Schnase, J.L. (2006) Risk analysis for biological hazards: what we need to know about invasive species. Risk Analysis, 26, 163-173.
47. Stohlgren, T.J., Ma, P., Kumar, S., Rocca, M., Morisette, J.T., Jarnevich, C.S. & Benson, N. (2010) Ensemble habitat mapping of invasive plant species. Risk Analysis, 30, 224-235.
48. Sun, Y.V. (2010) Multigenic modeling of complex disease by random forests. Advances in Genetics, 72, 73-99.
49. Therneau, T.M. & Atkinson, E.J. (1997) An introduction to recursive partitioning using the rpart routine. Technical Report, 61, Mayo Clinic, Section of Statistics, Rochester.
50. Vall-Ilosera, M. & Sol, D. (2009) A global risk assessment for the success of bird introductions. Journal of Applied Ecology, 46, 787-795.
51. Viennot-Bourgin, G. (1949) Les Champignons Parasites des Plantes Cultivées. Masson, Paris.
52. Vilà, M., Basnou, C., Pysek, P., Josefsson, M., Genovesi, P., Gollasch, S., Nentwig, W., Olenin, S., Roques, A., Roy, D., Hulme, P.E. & DAISIE partners (2010) How well do we understand the impacts of alien species on ecosystem services? A pan-European, cross-taxa assessment. Frontiers in Ecology and Environment, 8, 135-144.
53. Williamson, M. & Fitter, A. (1996) The varying success of invaders. Ecology, 77, 1661-1665.
54. Wilson, J.R.U., Richardson, D.M., Rouget, M., Proches, S., Amis, M.A., Henderson, L. & Thuillier, W. (2007) Residence time and potential range: crucial considerations in modelling plant invasions. Diversity and Distributions, 131, 11-22.