Predicting fusarium head blight epidemics with weather-driven pre- and post-anthesis logistic regression models

Phytopathology

Volumn 103, Issue 9, 2013, Pages 906-919

  Shah, D A ^a,d   Molineros, J E ^b   Paul, P A ^c   Willyerd, K T ^c   Madden, L V ^c   De Wolf, E D ^a  

^a KANSAS STATE UNIVERSITY   (United States)

^b OKLAHOMA STATE UNIVERSITY   (United States)

^c OHIO STATE UNIVERSITY   (United States)

^d NONE   (United States)

Author keywords

Additive logistic regression; Data mining; Multiple imputation

Indexed keywords

FUSARIUM; TRITICUM AESTIVUM; ZEA MAYS;

ARTICLE; COMPUTER PROGRAM; FUSARIUM; GROWTH, DEVELOPMENT AND AGING; MICROBIOLOGY; PHYSIOLOGY; PLANT DISEASE; REGRESSION ANALYSIS; SEASON; STATISTICAL MODEL; TEMPERATURE; WEATHER; WHEAT;

FUSARIUM; LOGISTIC MODELS; PLANT DISEASES; REGRESSION ANALYSIS; SEASONS; SOFTWARE; TEMPERATURE; TRITICUM; WEATHER;

EID: 84881519838     PISSN: 0031949X     EISSN: None     Source Type: Journal    
DOI: 10.1094/PHYTO-11-12-0304-R     Document Type: Article

References (72)

1. Agresti, A. 2002. Categorical Data Analysis, 2nd ed. John Wiley & Sons, Inc., Hoboken, NJ.
2. Blandino, M., Haidukowski, M., Pascale, M., Plizzari, L., Scudellari, D., and Reyneri, A. 2012. Integrated strategies for the control of Fusarium head blight and deoxynivalenol contamination in winter wheat. Field Crop Res. 133:139-149.
3. Bosen, J. F. 1958. An approximation formula to compute relative humidity from dry bulb and dewpoint temperature. Mon. Weather Rev. 86:486.
4. Burnham, K. P., and Anderson, D. R. 2010. Model Selection and Multimodel Inference: A Practical Information-Theoretic Approach, 2nd ed. Springer-Verlag, New York.
5. Cody, R. 2008. Cody's Data Cleaning Techniques Using SAS. SAS Publishing, Cary, NC.
6. Cowger, C., and Arrellano, C. 2010. Plump kernels with high deoxynivalenol linked to late Gibberella zeae infection and marginal disease conditions in winter wheat. Phytopathology 100:719-728.
7. Cowger, C., Patton-Ozkurt, J., Brown-Guedira, G., and Perugini, L. 2009. Post-anthesis moisture increased Fusarium head blight and deoxynivalenol levels in North Carolina winter wheat. Phytopathology 99:320-327.
8. DeLong, E. R., DeLong, D. M., and Clarke-Pearson, D. L. 1988. Comparing the areas under two or more correlated receiver operating characteristic curves: A nonparametric approach. Biometrics 44:837-845.
9. Del Ponte, E. M., Fernandes, J. M. C., and Bergstrom, G. C. 2007. Influence of growth stage on Fusarium head blight and deoxynivalenol production in wheat. J. Phytopathol. 155:577-581.
10. Del Ponte, E. M., Fernandes, J. M. C., and Pavan, W. 2005. A risk infection simulation model for Fusarium head blight of wheat. Fitopatol. Brasil. 30:634-642.
11. Derksen, S., and Keselman, H. J. 1992. Backward, forward and stepwise automated subset selection algorithms: Frequency of obtaining authentic and noise variables. Br. J. Math. Stat. Psychol. 45:265-282.
12. De Wolf, E. D., Madden, L. V., and Lipps, P. E. 2003. Risk assessment models for wheat Fusarium head blight epidemics based on within-season weather data. Phytopathology 93:428-435.
13. Dill-Macky, R., and Jones, R. K. 2000. The effect of previous crop residues and tillage on Fusarium head blight of wheat. Plant Dis. 84:71-76.
14. Dufault, N. S., De Wolf, E. D., Lipps, P. E., and Madden, L. V. 2006. Role of temperature and moisture in the production and maturation of Gibberella zeae perithecia. Plant Dis. 90:637-644.
15. Elith, J., Leathwick, J. R., and Hastie, T. 2008. A working guide to boosted regression trees. J. Anim. Ecol. 77:802-813.
16. Freeman, E. A., and Moisen, G. G. 2008. A comparison of the performance of threshold criteria for binary classification in terms of predicted prevalence and kappa. Ecol. Model. 217:48-58.
17. Furnival, G., and Wilson, R. 1974. Regression by leaps and bounds. Technometrics 16:499-511.
18. Gourdain, E., Piraux, F., and Barrier-Guillot, B. 2011. A model combining agronomic and weather factors to predict occurrence of deoxynivalenol in durum wheat kernels. World Mycotoxin J. 4:129-139.
19. Hamel, L. 2009. Knowledge Discovery with Support Vector Machines. John Wiley & Sons, Inc., Hoboken, NJ.
20. Hand, D. J. 2010. Evaluating diagnostic tests: The area under the ROC curve and the balance of errors. Stat. Med. 29:1502-1510.
21. 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.
22. Harrell, F. E., Jr. 2001. Regression Modeling Strategies: With Applications to Linear Models, Logistic Regression, and Survival Analysis. Springer-Verlag, New York.
23. Hastie, T., Tibshirani, R., and Friedman, J. 2009. The Elements of Statistical Learning, 2nd ed. Springer, New York.
24. Hilbe, J. 2009. Logistic Regression Models. CRC Press, Boca Raton, FL.
25. Hooker, D. C., Schaafsma, A. W., and Tamburic-Ilincic, L. 2002. Using weather variables pre- and post-heading to predict deoxynivalenol content in winter wheat. Plant Dis. 86:611-619.
26. Jiménez-Valverde, A., and Lobo, J. M. 2007. Threshold criteria for conversion of probability of species presence to either-or presence-absence. Acta Oecol. Int. J. Ecol. 31:361-369.
27. Khonga, E. B., and Sutton, J. C. 1988. Inoculum production and survival of Gibberella zeae in maize and wheat residues. Can. J. Plant Pathol. 10:232-239.
28. Kriss, A. B., Paul, P. A., Xu, X., Nicholson, P., Doohan, F. M., Hornok, L., Rietini, A., Edwards, S. G., and Madden, L. V. 2012. Quantification of the relationship between the environment and Fusarium head blight, Fusarium pathogen density, and mycotoxins in winter wheat in Europe. Eur. J. Plant Pathol. 133:975-993.
29. Kriss, A. B., Paul, P. A., and Madden, L. V. 2010. Relationship between yearly fluctuations in Fusarium head blight intensity and environmental variables: A window-pane analysis. Phytopathology 100:784-797.
30. Krzanowski, W. J., and Hand, D. J. 2009. ROC Curves for Continuous Data. CRC Press, Boca Raton, FL.
31. Krzanowski, W. J., and Hand, D. J. 2011. Testing the difference between two Kolmogorov-Smirnov values in the context of receiver operating characteristic curves. J. Appl. Stat. 38:437-450.
32. Landschoot, S., Waegeman, W., Audenaert, K., Vandepitte, J., Haesaert, G., and De Baets, B. 2012. Toward a reliable evaluation of forecasting systems for plant diseases: A case study using Fusarium head blight of wheat. Plant Dis. 96:889-896.
33. Madden, L. V. 2006. Botanical epidemiology: Some key advances and its continuing role in disease management. Eur. J. Plant Pathol. 115:3-23.
34. Martínez, M., Moschini, R., Barreto, D., and Comerio, R. 2012. Effect of environment on Fusarium head blight intensity and deoxynivalenol content in wheat grains: development of a forecasting system. Cereal Res. Commun. 40:74-84.
35. McMullen, M., Bergstrom, G., De Wolf, E., Dill-Macky, R., Hershman, D., Shaner, G., and Van Sanford, D. 2012. A unified effort to fight an enemy of wheat and barley: Fusarium head blight. Plant Dis. 96:1712-1728.
36. McMullen, M., Jones, R., and Gallenberg, D. 1997. Scab of wheat and barley: A re-emerging disease of devastating impact. Plant Dis. 81:1340-1348.
37. McRoberts, N., Hall, C., Madden, L. V., and Hughes, G. 2011. Perceptions of disease risk: From social construction of subjective judgments to rational decision making. Phytopathology 101:654-665.
38. McRoberts, N., Hughes, G., and Madden, L. V. 2003. The theoretical basis and practical application of relationships between different disease intensity measures in plants. Ann. Appl. Biol. 142:191-211.
39. Molineros, J., De Wolf, E., Madden, L., Paul, P., and Lipps, P. 2005. Incorporation of host reaction and crop residue level into prediction models for Fusarium head blight. Pages 119-122 in: National Fusarium Head Blight Forum, Milwaukee, WI. S. M. Canty, T. Boring, J. Wardwell, L. Siler, and R. W. Ward, eds. Michigan State University, East Lansing.
40. Molineros, J. E. 2007. Understanding the challenges of Fusarium head blight forecasting. Ph.D. Dissert. The Pennsylvania State University, University Park.
41. Moschini, R. C., and Fortugno, C. 1996. Predicting wheat head blight incidence using models based on meteorological factors in Pergamino, Argentina. Eur. J. Plant Pathol. 102:211-218.
42. Newcombe, R. G. 1998. Interval estimation for the difference between independent proportions: comparison of eleven methods. Stat. Med. 17:873-890.
43. Nganje, W. E., Bangsund, D. A., Leistritz, F. L., Wilson, W. W., and Tiapo, N. M. 2004. Regional economic impacts of Fusarium head blight in wheat and barley. Rev. Agric. Econ. 26:332-347.
44. O'Donnell, K., Ward, T. J., Geiser, D. M., Kistler, H. C., and Aoki, T. 2004. Genealogical concordance between the mating type locus and seven other nuclear genes supports formal recognition of nine phylogenetically distinct species within the Fusarium graminearum clade. Fungal Genet. Biol. 41:600-623.
45. Osborne, L. E., and Stein, J. M. 2007. Epidemiology of Fusarium head blight on small-grain cereals. Int. J. Food Microbiol. 119:103-108.
46. Pace, N. L. 2008. Independent predictors from stepwise logistic regression may be nothing more than publishable P values. Anesth. Analg. 107:1775-1778.
47. Parry, D. W., Jenkinson, P., and McLeod, L. 1995. Fusarium ear blight (scab) in small grain cereals-A review. Plant Pathol. 44:207-238.
48. Paul, P. A., El-Allaf, S. M., Lipps, P. E., and Madden, L. V. 2004. Rain splash dispersal of Gibberella zeae within wheat canopies in Ohio. Phytopathology 94:1342-1349.
49. Paul, P. A., El-Allaf, S. M., Lipps, P. E., and Madden, L. V. 2005. Relationships between incidence and severity of Fusarium head blight on winter wheat in Ohio. Phytopathology 95:1049-1060.
50. Paul, P. A., Lipps, P. E., De Wolf, E., Shaner, G., Buechley, G., Adhikari, T., Ali, S., Stein, J., Osborne, L., and Madden, L. V. 2007. A distributed lag analysis of the relationship between Gibberella zeae inoculum density on wheat spikes and weather variables. Phytopathology 97:1608-1624.
51. Paul, P. A., Lipps, P. E., Hershman, D. E., McMullen, M. P., Draper, M. A., and Madden, L. V. 2007. A quantitative review of tebuconazole effect on Fusarium head blight and deoxynivalenol content in wheat. Phytopathology 97:211-220.
52. Paul, P. A., Lipps, P. E., Hershman, D. E., McMullen, M. P., Draper, M. A., and Madden, L. V. 2008. Efficacy of triazole-based fungicides for Fusarium head blight and deoxynivalenol control in wheat: A multivariate meta-analysis. Phytopathology 98:999-1011.
53. Paulitz, T. C. 1999. Fusarium head blight: A re-emerging disease. Phytoprotection 80:127-133.
54. Pencina, M. J., D'Agostino, R. B., Sr., D'Agostino, R. B., Jr., and Vasan, R. S. 2008. Evaluating the added predictive ability of a new marker: from area under the ROC curve to reclassification and beyond. Stat. Med. 27:157-172.
55. Prandini, A., Sigolo, S., Filippi, L., Battilani, P., and Piva, G. 2009. Review of predictive models for Fusarium head blight and related mycotoxin contamination in wheat. Food Chem. Toxicol. 47:927-931.
56. Prenger, J. J., and Ling, P. P. 2001. Greenhouse condensation control: Understanding and using vapor pressure deficit (VPD). Ohio State Univ. Ext. Fact Sheet AEX-804.
57. Rubin, D. B. 1987. Multiple Imputation for Nonresponse in Surveys. John Wiley & Sons, Inc., New York.
58. Schaafsma, A. W., and Hooker, D. C. 2007. Climatic models to predict occurrence of Fusarium toxins in wheat and maize. Int. J. Food Microbiol. 119:116-125.
59. Shaner, G. 2003. Epidemiology of Fusarium head blight of small grain cereals in North America. Pages 84-119 in: Fusarium Head Blight of Wheat and Barley. K. J. Leonard and W. R. Bushnell, eds. American Phytopathological Society Press, St. Paul, MN.
60. Stack, R. W. 2003. History of Fusarium head blight with emphasis on North America. Pages 1-34 in: Fusarium Head Blight of Wheat and Barley K. J. Leonard and W. R. Bushnell, eds. American Phytopathological Society, St. Paul, MN.
61. Stack, R. W., and McMullen, M. P. 1998. A visual scale to estimate severity of Fusarium head blight in wheat. N. D. State Univ. Ext. Serv. Small Grains Publ. PP-1095. Online publication.
62. Stein, J. M., Osborne, L. E., Bondalapati, K. D., Glover, K. D., and Nelson, C. A. 2009. Fusarium head blight severity and deoxynivalenol concentration in wheat in response to Gibberella zeae inoculum concentration. Phytopathology 99:759-764.
63. Sutton, J. C. 1982. Epidemiology of wheat head blight and maize ear rot caused by Fusarium graminearum. Can. J. Plant Pathol. 4:195-209.
64. Van der Heiden, G. J. M. G., Donders, A. R. T., Stijnen, T., and Moons, K. G. M. 2006. Imputation of missing values is superior to complete case analysis and the missing-indicator method in multivariable diagnostic research: a clinical example. J. Clin. Epidemiol. 59:1102-1109.
65. Venkatraman, E. S., and Begg, C. B. 1996. A distribution-free procedure for comparing receiver operating characteristic curves from a paired experiment. Biometrika 83:835-848.
66. Vickers, A. J. 2008. Decision analysis for the evaluation of diagnostic tests, prediction models, and molecular markers. Am. Stat. 62:314-320.
67. Wegulo, S. N., Bockus, W. W., Nopsa, J. H., De Wolf, E. D., Eskridge, K. M., Peiris, K. H. S., and Dowell, F. E. 2011. Effects of integrating cultivar resistance and fungicide application on Fusarium head blight and deoxynivalenol in winter wheat. Plant Dis. 95:554-560.
68. Whittingham, M. J., Stephens, P. A., Bradbury, R. B., and Freckleton, R. P. 2006. Why do we still use stepwise modelling in ecology and behaviour? J. Anim. Ecol. 75:1182-1189.
69. Willyerd, K. T., Li, C., Madden, L. V., Bradley, C. A., Bergstrom, G. C., Sweets, L. E., McMullen, M., Ransom, J. K., Grybauskas, A., Osborne, L., Wegulo, S. N., Hershman, D. E., Wise, K., Bockus, W. W., Groth, D., Dill-Macky, R., Milus, E., Esker, P. D., Waxman, K. D., Adee, E. A., Ebelhar, S. E., Young, B. G., and Paul, P. A. 2012. Efficacy and stability of integrating fungicide and cultivar resistance to manage Fusarium head blight and deoxynivalenol in wheat. Plant Dis. 96:957-967.
70. Wood, S. N. 2006. Generalized Additive Models: An Introduction with R. CRC Press, Boca Raton, FL.
71. Xu, X. M., Nicholson, P., Thomsett, M. A., Simpson, D., Cooke, B. M., Doohan, F. M., Brennan, J., Monaghan, S., Moretti, A., Mule, G., Homok, L., Beki, E., Tatnell, J., Ritieni, A., and Edwards, S. G. 2008. Relationship between the fungal complex causing Fusarium head blight of wheat and environmental conditions. Phytopathology 98:69-78.
72. Yoshida, M., Nakajima, T., Tomimura, K., Suzuki, F., Arai, M., and Miyasaka, A. 2012. Effect of the timing of fungicide application on Fusarium head blight and mycotoxin contamination in wheat. Plant Dis. 96:845-851.