A statistical model to detect asymptomatic infectious individuals with an application in the Phytophthora alni-induced alder decline

Phytopathology

Volumn 100, Issue 11, 2010, Pages 1262-1269

  Elegbede, Chabi Fabrice ^a,b,c   Pierrat, Jean Claude ^c   Aguayo, Jaime ^a,b   Husson, Claude ^a,b   Halkett, Fabien ^a,b   Marçais, Benoît ^a,b  

^a UNIVERSITÉ DE LORRAINE   (France)

^b UNIVERSITÉ DE LORRAINE   (France)

^c AGROPARISTECH   (France)

Author keywords

Spatial point pattern analysis; Survival analysis

Indexed keywords

ALDER; ARTICLE; BIOLOGICAL MODEL; MICROBIOLOGY; PHYSIOLOGY; PHYTOPHTHORA; PLANT DISEASE; STATISTICAL MODEL;

ALNUS; MODELS, BIOLOGICAL; MODELS, STATISTICAL; PHYTOPHTHORA; PLANT DISEASES;

ALNUS; PHYTOPHTHORA; PHYTOPHTHORA ALNI;

EID: 78149341348     PISSN: 0031949X     EISSN: None     Source Type: Journal    
DOI: 10.1094/PHYTO-05-10-0140     Document Type: Article

References (43)

1. Bendz-Hellgren, M., and Stenlid, J. 1997. Decreased volume growth of Picea abies in response to Heterobasidion annosum infection. Can.J. For. Vol.100, No.11, 2010 1269 Res. 27:1519-1524.
2. Bloomberg, W.J., and Morrison, D.J. 1989. Relationship of growth reduction in Douglas-fir to infection by Armillaria root disease in southeastern British Columbia. Phytopathology 79:482-487.
3. Brasier, C. M., Kirk, S.A., Delcán, J., Cooke, D. E., Jung, T., and Man In't Veld, W.A. 2004. Phytophthora alni sp. Nov. and its variants: designation of emerging heteroploid hybrid pathogens spreading on Alnus trees. Mycol. Res. 108:1172-1184.
4. Brasier, C. M., Rose, J., and Gibbs, J.N. 1995. An unusual Phytophthora associated with widespread alder mortality in Britain. Plant Pathol. 44:999-1007.
5. Claessens, H. 2003. The alder population in Europe. Pages 5-14 in: Phytophthora Disease of Alder in Europe.J.N. Gibbs, C. van Dijk, and J. Webber, eds. For. Res. Bull. 126.
6. Cox, D.R. 1972. Regression models and life tables.J.R. Stat. Soc.B. Stat. Met. 34:187-202.
7. Delcán, J., and Brasier, C. 2001. Oospore viability and variation in zoospore and hyphal tip derivates of the hybrid alder Phytophthoras. For. Pathol. 31:65-83.
8. Diggle, P.J., Gomez-Rubio, V., Brown, P. E., Chetwynd, A. G., and Gooding, S. 2007. Second-order analysis of inhomogeneous spatial point processes using case-control data. Biometrics 63:550-557.
9. Duong, T., and Hazelton, M. L. 2005. Cross-validation bandwidth matrices for multivariate kernel density estimation. Scand.J. Stat. 15:485-506.
10. Erwin, D.C., and Ribeiro, O. K. 1996. Phytophthora Diseases Worldwide. American Phytopathological Society Press, St. Paul, MN.
11. Fillhart, C.R., Bachand, G.D., and Castello, D.J. 1998. Detection of infectious tobamoviruses in forest soils. Appl. Environ. Microbiol. 64:1430-1435.
12. Gatrell, A.C., Bailey, T.C., Diggle, P.J., and Rowlingson, B. S. 1996. Spatial point pattern analysis and its application in geographical epidemiology. Trans. Inst. Br. Geogr. 21:256-274.
13. Gibbs, J.N. 1995. Phytophthora root disease of alder in Britain. EPPO Bull. 25:661-664.
14. Godfrey, K.R. 1983. Compartmental Models and their Applications. Academic Press, London.
15. Gonçalves, R.C., Alfenas, A.C., Maffia, L.A., and Crous, P.W. 2001. Evaluation of bioassays to quantify Cylindrocladium inocula in soil. Mycoscience 42:261-264.
16. Grambsch, P., and Therneau, T. 1994. Proportional hazards tests and diagnostics based on weighted residuals. Biometrika 81:515-526
17. Hanley, J.A., and McNeil, B.J. 1982. The meaning and use of the area under a receiver operating characteristic (ROC) curve. Radiology 143:29-36.
18. Hosmer, D.W., Jr., and Lemeshow S. 2008. Applied Survival Analysis: Regression Modeling of Time to Event Data, second ed. John Wiley & Sons, Inc., New York.
19. Hughes, G., McRoberts, N., and Burnett, F.J. 1999. Decision-making and diagnosis in disease management. Plant Pathol. 48:147-153.
20. Ioos, R., Andrieux, A., Marçais, B., and Frey, P. 2006. Genetic characterization of the natural hybrid species Phytophthora alni as inferred from nuclear and mitochondrial DNA analyses. Fungal Genet. Biol. 43:511-529.
21. Ioos, R., Husson, C., Andrieux, A., and Frey, P. 2005. SCAR-based PCR primers to detect the hybrid pathogen Phytophthora alni and its subspecies causing alder disease in Europe. Eur.J. Plant Pathol. 112:323-335.
22. Jacquez, J.A. 1996. Compartmental Analysis in Biology and Medicine, third ed. Biomedware, Ann Arbor, MI.
23. Jung, T., and Blaschke, M. 2004. Phytophthora root and collar rot of alders in Bavaria: distribution, modes of spread and possible management strategies. Plant Pathol. 53:197-208
24. Lonsdale D. 2003. Phytophthora disease of alder: sources of inoculum, infection and host colonisation. Pages 65-72 in: Phytophthora Disease of Alder in Europe.J.N. Gibbs, C. van Dijk, and J. Webber, eds. For. Res. Bull. 126.
25. Makowski, D., Denis, J.-B., Ruck, L., and Penaud, A. 2008. A Bayesian approach to assess the accuracy of a diagnostic test based on plant disease measurement. Crop Prot. 27:1187-1193.
26. Makowski, D., Taverne, M., Bolomier, J., and Ducarne, M. 2005. Comparison of risk indicators for Sclerotinia control in oilseed rape. Crop Prot. 24:527-531.
27. Marçais, B., Caël, O., and Delatour, C. 2000. Relationship between presence of basidiomes, above-ground symptoms and root infection by Collybia fusipes in oaks. Eur.J. Plant Pathol. 30:7-17.
28. McCullagh, P., and Nelder, J. 1989. Generalized Linear Models, second ed. Chapman and Hall, London.
29. Ojiambo, P. S., and Scherm, H. 2005. Survival analysis of time to abscission of blueberry leaves affected by Septoria leaf spot. Phytopathology 95:108-113.
30. Samuelsen, S. O., Wisloff, T.F., and Skrondal, A. 2005. A simple correction for ties when censoring times depend on covariates. Stat. Med. 24:3111-3121.
31. Santini, A., Barzanti, G.P., and Capretti, P. 2003. Susceptibility of some mesophilic hardwoods to alder Phytophthora.J. Phytopathol. 151:406-410.
32. Scherm, H., and Ojiambo, P. S. (2004) Applications of survival analysis in botanical epidemiology. Phytopathology 94:1022-1026
33. Schoenfeld, D. 1982. Partial residuals for the proportional hazards regression model. Biometrika 69:239-241.
34. Schwarz, G. 1978. Estimating the dimension of a model. Ann. Stat. 6:461-464.
35. Silverman, B.W. 1986. Density Estimation for Statistics and Data Analysis. Chapman and Hall, London.
36. Stoyan, D., and Penttinen, A. 2000. Recent application of point process methods in forestry statistics. Stat. Sci. 15:61-78.
37. Streito, J.C. 2003. Phytophthora disease of alder: identification and distribution. Pages 25-38 in: Phytophthora Disease of Alder in Europe.J.N. Gibbs, C. van Dijk, and J. Webber, eds. For. Res. Bull. 126.
38. Streito, J.C., Legrand, P., Tabary, F., and Jarnouen de Villartay, G. 2002. Phytophthora disease of alder (Alnus glutinosa) in France: investigation between 1995 and 1999. For. Pathol. 32:179-191.
39. Thoirain, B., Husson, C., and Marçais, B., 2007. Risk factors for the Phytophthora-induced decline of alder in northeastern France. Phytopathology 97:99-105.
40. Wand, M.P., and Jones, M.C. 1993. Comparison of smoothing parameterizations in bivariate kernel density estimation.J. Am. Stat. Assoc. 88:520-528.
41. Wand, M.P., and Jones, M.C. 1995. Kernel Smoothing. Chapman and Hall, London.
42. Windham, A. S., and Lucas, L.T. 1987. A quantitative baiting technique for selective isolation of Rhizoctonia zeae from soil. Phytopathology 77:712-714.
43. Yuen, J., Twengström, E., and Sigvald, R. 1996. Calibration and verification of risk algorithms using logistic regression. Eur.J. Plant Pathol. 102:847-854.