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Rice and Wheat Disease Models

Source: R/disease_models.R
disease_models.Rd

Helper functions that provide sensible defaults for disease-specific simulations using epicrop_sim().

Usage

bacterial_blight(wth, emergence, ...)

bb(wth, emergence, ...)

brown_spot(wth, emergence, ...)

bs(wth, emergence, ...)

leaf_blast(wth, emergence, ...)

lb(wth, emergence, ...)

sheath_blight(wth, emergence, ...)

sb(wth, emergence, ...)

tungro(wth, emergence, ...)

tg(wth, emergence, ...)

modified_kim_leaf_blast(wth, emergence, ...)

mk_lb(wth, emergence, ...)

modified_kim_sheath_blight(wth, emergence, ...)

mk_sb(wth, emergence, ...)

leaf_rust(wth, emergence, ...)

brown_rust(wth, emergence, ...)

lr(wth, emergence, ...)

s_tritici_blotch(wth, emergence, ...)

stb(wth, emergence, ...)

Arguments

wth

Weather data with a daily time-step, normally NASA POWER data from get_wth(), but any base::data.frame() object that has been formatted using format_wth() will work.

emergence

Expected date of crop emergence in YYYY-MM-DD format.

...

Additional arguments passed to epicrop_sim().

Value

A data.table::data.table() of disease intensity and infection sites. See epicrop_sim() for a full description of the column values.

Available Models

Rice Diseases (Savary et al. 2012):

  • bacterial_blight() / bb() - Bacterial blight (Xanthomonas oryzae pv. oryzae)

  • brown_spot() / bs() - Brown spot (Cochliobolus miyabeanus)

  • leaf_blast() / lb() - Leaf blast (Magnaporthe oryzae)

  • sheath_blight() / sb() - Sheath blight (Rhizoctonia solani)

  • tungro() / tg() - Tungro (Rice Tungro Spherical Virus and Rice Tungro Bacilliform Virus)

Rice Diseases (Kim et al. 2015):

  • modified_kim_leaf_blast() / mk_lb() - Modified leaf blast model

  • modified_kim_sheath_blight() / mk_sb() - Modified sheath blight model

Wheat Diseases (Savary et al. 2015):

  • leaf_rust() / brown_rust() / lr() - Leaf/brown rust (Puccinia triticina)

  • s_tritici_blotch() / stb() - Septoria tritici blotch (Zymoseptoria tritici)

References

Savary, S., Nelson, A., Willocquet, L., Pangga, I., and Aunario, J. (2012). Modeling and mapping potential epidemics of rice diseases globally. Crop Protection, 34: 6-17. doi:10.1016/j.cropro.2011.11.009

Kim, K. H., Cho, J., Lee, Y. H., & Lee, W. S. (2015). Predicting potential epidemics of rice leaf blast and sheath blight in South Korea Agricultural and Forest Meteorology, 203: 191-207. doi:10.1016/j.agrformet. 2015.01.011

Savary, S., Stetkiewicz, S., Brun, F., & Willocquet, L. (2015). Modelling and mapping potential epidemics of wheat diseases. European Journal of Plant Pathology, 142:771-790. doi:10.1007/s10658-015-0650-7

Author

Adam H. Sparks, adamhsparks@gmail.com