@article {5038,
	title = {From species distributions to ecosystem structure and function: A methodological perspective},
	journal = {ECOLOGICAL MODELLING},
	volume = {334},
	year = {2016},
	month = {08/2016},
	pages = {78-90},
	abstract = {<p>{As species biology and ecology is profoundly influenced by climate, any climatic alteration may have severe consequences on marine pelagic ecosystems and their food webs. It remains challenging to estimate the influence of climate on both structural and functional properties of food webs. In this study, we proposed an innovative approach to assess the propagating effects of climate change on ecosystem food web. The approach is based on a sensitivity analysis of a food-web model, a linear inverse model using a Monte Carlo method coupled with a Markov Chain, in which changes in the values of parameters are driven by external Ecological Niche Model outputs. Our sensitivity analysis was restricted to parameters regarding a keystone functional group in marine ecosystems, i.e. small pelagic fish. At the ecosystem level, the consequences were evaluated using both structural and functional ecological network indices. The approach is innovative as it is the first time that these three methods were combined to assess ecological network indices sensitivity to future climatic pressure. This coupling method was applied on the French continental shelf of the Bay of Biscay for which a food-web model already exists and where future changes in the distribution of small pelagic fish have already been examined through model building and projections. In response to the sensitivity analysis corresponding to an increase in small pelagics production only, our results suggested a more active system with an intense plankton-small pelagics-seabirds chain and an efficient recycling to maximize detritus use in the system in relation with detritus export. All results combined together seemed to be in favor of a system adapting to sustain the tested increase in production of small pelagic planktivores. Finally, regarding the innovative combination of numerical tools presented, even if further investigations are still necessary to get a more realistic view of cumulative effects resulting from one given pressure (or more) on a food web (e.g. altering different biological compartments at the same time), the Ecological Network Analysis indices values showed a higher variability under the scenarios of change. Our study thus pointed out a promising methodology to assess propagating changes in structural and functional ecosystem properties. (C) 2016 Elsevier B.V. All rights reserved.}</p>
},
	issn = {{0304-3800}},
	doi = {{10.1016/j.ecolmodel.2016.04.022}},
	author = {Chaalali, Aur{\'e}lie and Gr{\'e}gory Beaugrand and Virginie Raybaud and G{\'e}raldine Lassalle and Saint-B{\'e}at, B and Le Loc{\textquoteright}h, Francois and Bopp, Laurent and Samuele Tecchio and Safi, Georges and Chifflet, Marina and Lobry, Jeremy and Nathalie Niquil}
}
@article {5041,
	title = {Incorporating food-web parameter uncertainty into Ecopath-derived ecological network indicators},
	journal = {ECOLOGICAL MODELLING},
	volume = {313},
	year = {2015},
	month = {OCT 10},
	pages = {29-40},
	abstract = {<p class="rtejustify">Ecological network analysis (ENA) provides numerous ecosystem level indices offering a valuable approach to compare and categorize the ecological structure and function of ecosystems. The inclusion of ENA methods in Ecopath with Ecosim (EwE) has insured their continued contribution to ecosystem-based management. In EwE, ENA-derived ecological conclusions are currently based on single values of ENA indices calculated from a unique input flow matrix. Here, we document an easy-to-use routine that allows EwE users to incorporate uncertainty in EwE input data into the calculation of ENA indices. This routine, named ENAtool, is a suite of Matlab functions that performs three main steps: (1) import of an existing Ecopath model and its associated parameter uncertainty values in the form of uncertainty intervals into Matlab; (2) generation of an ensemble of Ecopath models with the same structure as the original, and with parameter values varying based on the prescribed uncertainty limits; and (3) calculation of a set of 13 ENA indices for each ensemble member (one set of flow values) and of summary statistics across the whole ensemble. This novel routine offers the opportunity to calculate ENA indices ranges and confidence intervals, and thus to perform quantitative data analyses. An application of ENAtool on a pre-existing Ecopath model of the Bay of Biscay continental shelf is presented, with a focus on the robustness of previously published ENA-based ecological traits of this ecosystem when the newly introduced uncertainty values are added. We also describe the sensitivity of the ENAtool results to both the number of ensemble members used and to the uncertainty interval set around each input parameter. Ecological conclusions derived from EwE, particularly those regarding the comparison of structural and functional elements for a range of ecosystem types or the assessment of ecosystem properties along gradients of environmental conditions or anthropogenic disturbances, will gain in statistical interpretability. (C) 2015 Elsevier B.V. All rights reserved.</p>
},
	issn = {{0304-3800}},
	doi = {{10.1016/j.ecolmodel.2015.05.036}},
	author = {Guesnet, Vanessa and G{\'e}raldine Lassalle and Chaalali, Aur{\'e}lie and Kearney, Kelly and Saint-B{\'e}at, B and Karimi, Battle and Grami, Boutheina and Samuele Tecchio and Nathalie Niquil and Lobry, Jeremy}
}
@article {5048,
	title = {A new modeling approach to define marine ecosystems food-web status with uncertainty assessment},
	journal = {Progress in Oceanography},
	volume = {135},
	year = {2015},
	pages = {37{\textendash}47},
	author = {Chaalali, Aur{\'e}lie and Saint-B{\'e}at, B and G{\'e}raldine Lassalle and Le Loc{\textquoteright}h, Francois and Samuele Tecchio and Safi, Georges and Savenkoff, Claude and Lobry, Jeremy and Nathalie Niquil}
}
@article {5049,
	title = {Trophic networks: How do theories link ecosystem structure and functioning to stability properties? A review},
	journal = {Ecological indicators},
	volume = {52},
	year = {2015},
	pages = {458{\textendash}471},
	author = {Saint-B{\'e}at, B and Dan Baird and H Asmus and R Asmus and Bacher, C and Pacella, S R and Johnson, Galen A and David, Val{\'e}rie and V{\'e}zina, A F and Nathalie Niquil}
}
@article {5051,
	title = {How does the resuspension of the biofilm alter the functioning of the benthos{\textendash}pelagos coupled food web of a bare mudflat in Marennes-Ol{\'e}ron Bay (NE Atlantic)?},
	journal = {Journal of sea research},
	volume = {92},
	year = {2014},
	pages = {144{\textendash}157},
	author = {Saint-B{\'e}at, B and Christine Dupuy and Agogue, Helene and Alexandre Carpentier and Chalumeau, J and Como, Serena and David, Val{\'e}rie and Margot de Crignis and Duch{\^e}ne, J C and Fontaine, C and others}
}
@article {5052,
	title = {A toolbox to evaluate data reliability for whole-ecosystem models: application on the Bay of Biscay continental shelf food-web model},
	journal = {Ecological modelling},
	volume = {285},
	year = {2014},
	pages = {13{\textendash}21},
	author = {G{\'e}raldine Lassalle and Bourdaud, Pierre and Saint-B{\'e}at, B and Rochette, S{\'e}bastien and Nathalie Niquil}
}
