The dark side of shade: How microclimates drive the epidemiological mechanisms of coffee berry disease

Motisi Natacha, Papaïx Julien, Poggi Sylvain. 2022. The dark side of shade: How microclimates drive the epidemiological mechanisms of coffee berry disease. Phytopathology, 112 (6) : 1235-1243.

https://doi.org/10.1094/PHYTO-06-21-0247-R

Article de revue ; Article de recherche ; Article de revue à facteur d'impact

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Url - jeu de données - Dataverse Cirad : https://doi.org/10.18167/DVN1/KP76RE

Liste HCERES des revues (en SHS) : oui

Thème(s) HCERES des revues (en SHS) : Psychologie-éthologie-ergonomie

Résumé : Coffee berry disease (CBD) can cause significant coffee yield losses along with major income losses for African smallholders. Although these farmers cannot afford to purchase pesticides to control the disease, agroecological solutions have rarely been investigated, and how epidemiological mechanisms are linked to the environment of the coffee tree and the plot remains unclear. Agroforestry systems are a promising agroecological option, but the effect of shade on CBD regulation is the subject of debate, and the use of plant species diversity remains uncertain. Here, we address how shade affects epidemiological mechanisms by modifying the microclimate. For this purpose, we developed a mechanistic susceptible-exposed-infectious-removed (SEIR) model, and used a Bayesian framework to infer the epidemiological parameters against microclimatic covariates. We show that shade has opposing effects on different epidemiological mechanisms. Specifically, shade can limit disease dynamics by reducing disease transmission while simultaneously promoting disease dynamics by reducing the latent period of the pathogen. However, in full sun, efficient disease transmission compensates for long latent periods. As a result, the balances between microclimatic variables can counterbalance the epidemiological rates, which can dramatically alter the fate of epidemics in shade versus full sun conditions. We propose research avenues to help design cost- and environmentally effective management strategies for CBD that are notably based on the functional traits of shade trees that could hamper CBD dispersal.

Mots-clés Agrovoc : Coffea arabica, Colletotrichum, agroforesterie, ombrage, morbidité, modélisation, méthode statistique, théorie Bayésienne, relevé (des données)

Mots-clés géographiques Agrovoc : Cameroun

Mots-clés complémentaires : Colletotrichum kahawae

Mots-clés libres : Coffea arabica, Colletotrichum kahawae, Agroforestry systems, Susceptible-exposedinfectious- removed (SEIR) model, Mechanistic-statistical approach, Bayesian inference

Classification Agris : H20 - Maladies des plantes
F08 - Systèmes et modes de culture

Champ stratégique Cirad : CTS 4 (2019-) - Santé des plantes, des animaux et des écosystèmes

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