Detection of Xylella fastidiosa in almond orchards by synergic use of an epidemic spread model and remotely sensed plant traits

Camino, C; Calderón, R; Parnell, SR; Dierkes, H; Chemin, Y; Román-Écija, M; Montes-Borrego, M; Landa, BB; Navas-Cortes, JA; Zarco-Tejada, PJ; Beck, PSA

Abstract

The early detection of Xylella fastidiosa (Xf) infections is critical to the management of this dangerous plan pathogen across the world. Recent studies with remote sensing (RS) sensors at different scales have shown that Xf-infected olive trees have distinct spectral features in the visible and infrared regions (VNIR). However, further work is needed to integrate remote sensing in the management of plant disease epidemics. Here, we research how the spectral changes picked up by different sets of RS plant traits (i.e., pigments, structural or leaf protein content), can help capture the spatial dynamics of Xf spread. We coupled a spatial spread model with the probability of Xf-infection predicted by a RS-driven support vector machine (RS-SVM) model. Furthermore, we analyzed which RS plant traits contribute most to the output of the prediction models. For that, in almond orchards affected by Xf (n = 1426 trees), we conducted a field campaign simultaneously with an airborne campaign to collect high-resolution thermal images and hyperspectral images in the visible-near-infrared (VNIR, 400–850 nm) and short-wave infrared regions (SWIR, 950–1700 nm). The best performing RS-SVM model (OA = 75%; kappa = 0.50) included as predictors leaf protein content, nitrogen indices (NIs), fluorescence and a thermal indicator (Tc), alongside pigments and structural parameters. Leaf protein content together with NIs contributed 28% to the explanatory power of the model, followed by chlorophyll (22%), structural parameters (LAI and LIDFa), and chlorophyll indicators of photosynthetic efficiency. Coupling the RS model with an epidemic spread model increased the accuracy (OA = 80%; kappa = 0.48). In the almond trees where the presence of Xf was assayed by qPCR (n = 318 trees), the combined RS-spread model yielded an OA of 71% and kappa = 0.33, which is higher than the RS-only model and visual inspections (both OA = 64–65% and kappa = 0.26–31). Our work demonstrates how combining spatial epidemiological models and remote sensing can lead to highly accurate predictions of plant disease spatial distribution.

Citation

Camino, C., Calderón, R., Parnell, S., Dierkes, H., Chemin, Y., Román-Écija, M., …Beck, P. (2021). Detection of Xylella fastidiosa in almond orchards by synergic use of an epidemic spread model and remotely sensed plant traits. Remote Sensing of Environment, 260, 112420. https://doi.org/10.1016/j.rse.2021.112420

• Journal Article Type: Article
• Acceptance Date: Mar 29, 2021
• Online Publication Date: Apr 28, 2021
• Publication Date: Jul 1, 2021
• Deposit Date: May 4, 2021
• Publicly Available Date: May 4, 2021
• Journal: Remote Sensing of Environment
• Print ISSN: 0034-4257
• Publisher: Elsevier
• Volume: 260
• Pages: 112420
• DOI: https://doi.org/10.1016/j.rse.2021.112420
• Publisher URL: https://doi.org/10.1016/j.rse.2021.112420
• Related Public URLs: https://www.journals.elsevier.com/remote-sensing-of-environment
• Additional Information: Additional Information : ** Article version: VoR ** From Elsevier via Jisc Publications Router ** Licence for VoR version of this article starting on 31-03-2021: http://creativecommons.org/licenses/by/4.0/ **Journal IDs: issn 00344257 **History: issue date 31-07-2021; published_online 28-04-2021; accepted 29-03-2021; Funders : European Union;Horizon 2020;Alfonso Martin Escudero Foundation; Projects : unspecified;635646;727987; Grant Number: 635646; Grant Number: 727987