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Creators/Authors contains: "Paré, Philip_E"

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  1. Abstract Free‐living amoebae (FLA) serve as hosts for a variety of endosymbionts, which are microorganisms that reside and multiply within the FLA. Some of these endosymbionts pose a pathogenic threat to humans, animals, or both. The symbiotic relationship with FLA not only offers these microorganisms protection but also enhances their survival outside their hosts and assists in their dispersal across diverse habitats, thereby escalating disease transmission. This review is intended to offer an exhaustive overview of the existing mathematical models that have been applied to understand the dynamics of FLA, especially concerning their interactions with bacteria. An extensive literature review was conducted across Google Scholar, PubMed, and Scopus databases to identify mathematical models that describe the dynamics of interactions between FLA and bacteria, as published in peer‐reviewed scientific journals. The literature search revealed several FLA–bacteria model systems, includingPseudomonas aeruginosa,Pasteurella multocida, andLegionellaspp. Although the published mathematical models account for significant system dynamics such as predator–prey relationships and non‐linear growth rates, they generally overlook spatial and temporal heterogeneity in environmental conditions, such as temperature, and population diversity. Future mathematical models will need to incorporate these factors to enhance our understanding of FLA–bacteria dynamics and to provide valuable insights for future risk assessment and disease control measures. 
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  2. Abstract The impact that each individual non‐pharmaceutical intervention (NPI) had on the spread rate of COVID‐19 is difficult to estimate, since several NPIs were implemented in rapid succession in most countries. In this article, we analyze the detectability of sudden changes in a parameter of nonlinear dynamical systems, which could be used to represent NPIs or mutations of the virus, in the presence of measurement noise. Specifically, by taking an agnostic approach, we provide necessary conditions for when the best possible unbiased estimator is able to isolate the effect of a sudden change in a model parameter, by using the Hammersley–Chapman–Robbins (HCR) lower bound. Several simplifications to the calculation of the HCR lower bound are given, which depend on the amplitude of the sudden change and the dynamics of the system. We further define the concept of the most informative sample based on the largest distance between two output trajectories, which is a good indicator of when the HCR lower bound converges. These results are thereafter used to analyze the susceptible‐infected‐removed model. For instance, we show that performing analysis using the number of recovered/deceased, as opposed to the cumulative number of infected, may be an inferior signal to use since sudden changes are fundamentally more difficult to estimate and seem to require more samples. Finally, these results are verified by simulations and applied to real data from the spread of COVID‐19 in France. 
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