Forecasting the spread of aerially transmitted crop diseases with a binary classifier for inoculum survival

Plant Pathology

Volumn 67, Issue 4, 2018, Pages 920-928

  Skelsey, P ^a   Dancey, S R ^a   Preedy, K ^b   Lees, A K ^a   Cooke, D E L ^a  

^a SCOTTISH CROP RESEARCH INSTITUTE   (United Kingdom)

^b BIOMATHEMATICS AND STATISTICS SCOTLAND   (United Kingdom)

Author keywords

classification model; decision support system; disease risk; inoculum; Phytophthora infestans; spore survival

Indexed keywords

ALGORITHM; CLASSIFICATION; DECISION SUPPORT SYSTEM; DISEASE SPREAD; DISEASE TRANSMISSION; FORECASTING METHOD; FUNGAL DISEASE; FUNGUS; INOCULATION; MODEL; RISK; SOLAR RADIATION; SPORE; SURVIVAL; VIABILITY;

UNITED KINGDOM;

PHYTOPHTHORA INFESTANS;

EID: 85041118345     PISSN: 00320862     EISSN: 13653059     Source Type: Journal    
DOI: 10.1111/ppa.12808     Document Type: Article

References (31)

1. Baldi P, Brunak S, Chauvin Y, Andersen CAF, Nielsen H, 2000. Assessing the accuracy of prediction algorithms for classification: an overview. Bioinformatics 16, 412–24.
2. Bashi E, Aylor DE, 1983. Survival of detached sporangia of Peronospora destructor and Peronospora tabacina. Phytopathology 73, 1135–9.
3. Belmar-Diaz CR, Grünwald NJ, Fernandez-Pavia SP et al., 2005. Survival of Phytophthora infestans sporangia exposed to solar radiation in the Toluca Valley. Phytopathology 95, S149–50.
4. Brodersen KH, Ong CS, Stephan KE, Buhmann JM, 2010. The binormal assumption on precision-recall curves. In: Unsalan C, Arica N, eds. Proceedings of the 20th International Conference on Pattern Recognition. Washington, DC, USA: IEEE Computer Society, 4263–6.
5. Bugiani R, Govoni P, Bottazzi R, Giannico P, Montini B, Pozza M, 1995. Monitoring airborne concentrations of sporangia of Phytophthora infestans in relation to tomato late blight in Emilia Romagna, Italy. Aerobiologia 11, 41–6.
6. Cooke L, Schepers HT, Hermansen A et al., 2011. Epidemiology and integrated control of potato late blight in Europe. Potato Research 54, 183–222.
7. Fall ML, Van der Heyden H, Brodeur L, Leclerc Y, Moreau G, Carisse O, 2015. Spatiotemporal variation in airborne sporangia of Phytophthora infestans: characterization and initiatives towards improving potato late blight risk estimation. Plant Pathology 64, 178–90.
8. Fawcett T, 2006. An introduction to ROC analysis. Pattern Recognition Letters 27, 861–74.
9. Freeman EA, Moisen GG, 2008. A comparison of the performance of threshold criteria for binary classification in terms of predicted prevalence and kappa. Ecological Modelling 217, 48–58.
10. Gregory P, Hirst J, 1957. The summer air-spora at Rothamsted in 1952. Microbiology 17, 135–52.
11. Hand DJ, Till RJ, 2001. A simple generalisation of the area under the ROC curve for multiple class classification problems. Machine Learning 45, 171–86.
12. Hanley JA, McNeil BJ, 1982. The meaning and use of the area under a receiver operating characteristic (ROC) curve. Radiology 143, 29–36.
13. Hansen JG, 2014. DSS Overview. [http://euroblight.net/control-strategies/dss-overview/]. Accessed 6 July 2017.
14. Hosmer DW Jr, Lemeshow S, Sturdivant RX, 2013. Applied Logistic Regression. Hoboken, NJ, USA: John Wiley & Sons.
15. Hughes G, McRoberts N, Burnett FJ, 1999. Decision-making and diagnosis in disease management. Plant Pathology 48, 147–53.
16. Kanetis L, Holmes GJ, Ojiambo PS, 2010. Survival of Pseudoperonospora cubensis sporangia exposed to solar radiation. Plant Pathology 59, 313–23.
17. Mizubuti ESG, Aylor DE, Fry WE, 2000. Survival of Phytophthora infestans sporangia exposed to solar radiation. Phytopathology 90, 78–84.
18. Mizubuti E, Lima M, Maffia L, Barreto R, Mizubuti E, 2005. Survival on crop debris, temporal dynamics of sporangia in the air, and alternative hosts to Phytophthora infestans in Brazil. Phytopathology 95, S71.
19. Nielsen BJ, Hansen JG, Pinnschmidt H et al., 2007. Studies of release and infectivity of Phytophthora infestans sporangia under field conditions. In: Schepers HTAM, ed. Proceedings of the 10th Workshop of an European Network for Development of an Integrated Control Strategy of Potato Late Blight, 2007. Wageningen, Netherlands: PPO Special Report No. 12, 211–9.
20. Olanya M, Larkin R, Zhongqi H, Jain S, 2011. Survival potential of Phytophthora infestans sporangia in relation to meteorological factors. Phytopathology 101, S132.
21. Rosner B, 2015. Fundamentals of Biostatistics. Boston, MA, USA: Cengage Learning.
22. Rotem J, Wooding B, Aylor D, 1985. The role of solar radiation, especially ultraviolet, in the mortality of fungal spores. Phytopathology 75, 510–4.
23. Skelsey P, Kessel GJT, Holtslag AAM, Moene AF, van der Werf W, 2009. Regional spore dispersal as a factor in disease risk warnings for potato late blight: a proof of concept. Agricultural and Forest Meteorology 149, 419–30.
24. Skelsey P, Rossing WA, Kessel GJ, van der Werf W, 2010. Invasion of Phytophthora infestans at the landscape level: how do spatial scale and weather modulate the consequences of spatial heterogeneity in host resistance? Phytopathology 100, 1146–61.
25. Sunseri MA, Johnson DA, Dasgupta N, 2002. Survival of detached sporangia of Phytophthora infestans exposed to ambient, relatively dry atmospheric conditions. American Journal of Potato Research 79, 443–50.
26. Vihinen M, 2012. How to evaluate performance of prediction methods? Measures and their interpretation in variation effect analysis. BMC Genomics 13, S2.
27. Wallin JR, 1953. The production and survival of sporangia of Phytophthora infestans on tomato and potato plants in the field. Phytopathology 43, 505–8.
28. Wu BM, Subbarao KV, van Bruggen AHC, 2000. Factors affecting the survival of Bremia lactucae sporangia deposited on lettuce leaves. Phytopathology 90, 827–33.
29. Yuen J, Twengström E, Sigvald R, 1996. Calibration and verification of risk algorithms using logistic regression. European Journal of Plant Pathology 102, 847–54.
30. Zou KH, Hall W, Shapiro DE, 1997. Smooth non-parametric receiver operating characteristic (ROC) curves for continuous diagnostic tests. Statistics in Medicine 16, 2143–56.
31. Zweig MH, Campbell G, 1993. Receiver-operating characteristic (ROC) plots: a fundamental evaluation tool in clinical medicine. Clinical Chemistry 39, 561–77.