New Phytologist (2018) 219, 824-836

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Samuel Soubeyrand, Pauline de Jerphanion, Olivier Martin, Mathilde Saussac, Charles Manceau, Pascal Hendrikx and Christian Lannou (2018)
Inferring pathogen dynamics from temporal count data: the emergence of Xylella fastidiosa in France is probably not recent
New Phytologist 219 (2), 824-836
Abstract: - Unravelling the ecological structure of emerging plant pathogens persisting in multi-host systems is challenging. In such systems, observations are often heterogeneous with respect to time, space and host species, and may lead to biases of perception. The biased perception of pathogen ecology may be exacerbated by hidden fractions of the whole host population, which may act as infection reservoirs.
- We designed a mechanistic-statistical approach to help understand the ecology of emerging pathogens by filtering out some biases of perception. This approach, based on SIR (Susceptible–Infected–Removed) models and a Bayesian framework, disentangles epidemiological and observational processes underlying temporal counting data.
- We applied our approach to French surveillance data on Xylella fastidiosa, a multi-host pathogenic bacterium recently discovered in Corsica, France. A model selection led to two diverging scenarios: one scenario without a hidden compartment and an introduction around 2001, and the other with a hidden compartment and an introduction around 1985.
- Thus, Xylella fastidiosa was probably introduced into Corsica much earlier than its discovery, and its control could be arduous under the hidden compartment scenario. From a methodological perspective, our approach provides insights into the dynamics of emerging plant pathogens and, in particular, the potential existence of infection reservoirs.
(The abstract is excluded from the Creative Commons licence and has been copied with permission by the publisher.)
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Research topic(s) for pests/diseases/weeds:
surveys/sampling/distribution
population dynamics/ epidemiology


Pest and/or beneficial records:

Beneficial Pest/Disease/Weed Crop/Product Country Quarant.
Xylella fastidiosa France