Early Detection of Myrtle Rust on Pōhutukawa Using Indices Derived from Hyperspectral and Thermal Imagery

Abstract

Myrtle rust is a very damaging disease, caused by the fungus Austropuccinia psidii, which has recently arrived in New Zealand and threatens the iconic tree species pōhutukawa (Metrosideros excelsa). Canopy-level hyperspectral and thermal images were taken repeatedly within a controlled environment, from 49 inoculated (MR treatment) and 26 uninoculated (control treatment) pōhutukawa plants. Measurements were taken prior to inoculation and six times post-inoculation over a 14-day period. Using indices extracted from these data, the objectives were to (i) identify the key thermal and narrow-band hyperspectral indices (NBHIs) associated with the pre-visual and early expression of myrtle rust and (ii) develop a classification model to detect the disease. The number of symptomatic plants increased rapidly from three plants at 3 days after inoculation (DAI) to all 49 MR plants at 8 DAI. NBHIs were most effective for pre-visual and early disease detection from 3 to 6 DAI, while thermal indices were more effective for detection of disease following symptom expression from 7 to 14 DAI. Using results compiled from an independent test dataset, model performance using the best thermal indices and NBHIs was excellent from 3 DAI to 6 DAI (F1 score 0.81–0.85; accuracy 73–80%) and outstanding from 7 to 14 DAI (F1 score 0.92–0.93; accuracy 89–91%).

Keywords

• biosecurity
• detection
• disease
• pohutukawa
• random forests