EcoDiet : A hierarchical Bayesian model to combine stomach, biotracer, and literature data into diet matrix estimation

Type Article
Date 2022-03
Language English
Author(s) Hernvann Pierre‐yvesORCID1, 2, 3, Gascuel Didier2, Kopp DorotheeORCID1, Robert MarianneORCID1, Rivot Etienne2
Affiliation(s) 1 : Ifremer, STH, F‐56100 Lorient, France
2 : DECOD, Ecosystem Dynamics and Sustainability, Institut Agro, Ifremer, INRAE, 35042 Rennes, France
3 : Institute of Marine Sciences, University of California, Santa Cruz Santa Cruz CA, United States
Source Ecological Applications (1051-0761) (Wiley), 2022-03 , Vol. 32 , N. 2 , P. e2521 (19p.)
DOI 10.1002/eap.2521
WOS© Times Cited 4
Keyword(s) Bayesian integrated model, biotracers, diet matrix, ecosystem modeling, food-web topology, mixing model, stable isotope analyses, stomach content analyses, trophic ecology

While, quantifying trophic interactions is a critical path to understanding and forecasting ecosystem functioning, fitting trophic models to field data remains challenging. It requires flexible statistical tools to combine different sources of information from the literature and fieldwork samples. We present EcoDiet, a hierarchical Bayesian modeling framework to simultaneously estimate food-web topology and diet composition of all consumers in the food web, by combining (i) a priori knowledge from the literature on both food-web topology and diet proportions; (ii) stomach content analyses, with frequencies of prey occurrence used as the primary source of data to update the prior knowledge on the topological food-web structure; (iii) and biotracers data through a mixing model (MM). Inferences are derived in a Bayesian probabilistic rationale that provides a formal way to incorporate prior information and quantifies uncertainty around both the topological structure of the food web and the dietary proportions. EcoDiet was implemented as an open-source R package, providing a user-friendly interface to execute the model as well as examples and guidelines to familiarize with its use. We used simulated data to demonstrate the benefits of EcoDiet and how the framework can improve inferences on diet matrix by comparison with classical network MM. We applied EcoDiet to the Celtic Sea ecosystem, and showed how combining multiple data types within an integrated approach provides a more robust and holistic picture of the food-web topology and diet matrices than the literature or classical MM approach alone. EcoDiet has the potential to become a reference method for building diet matrices as a preliminary step of ecosystem modeling and to improve our understanding of prey-predator interactions.

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Hernvann Pierre‐yves, Gascuel Didier, Kopp Dorothee, Robert Marianne, Rivot Etienne (2022). EcoDiet : A hierarchical Bayesian model to combine stomach, biotracer, and literature data into diet matrix estimation. Ecological Applications, 32(2), e2521 (19p.). Publisher's official version : , Open Access version :