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Abstract The world human population is more and more urban and cities have a strong impact on the biosphere. This explains the development of urban ecology. In this context, the goal of our work is fourfold: to describe the diversity of scientific questions in urban ecology, show how these questions are organized, to assess how these questions can be built in close interactions with stakeholders, to better understand the role urban ecology can play within ecological sciences. A workshop with scientists from all relevant fields (from ecology to sociology) and stakeholders was organized by the Foundation for Research on Biodiversity (FRB). Three types of scientific issues were outlined about (1) the biodiversity of organisms living in urban areas, (2) the functioning of urban organisms and ecosystems, (3) interactions between human societies and urban ecological systems. For all types of issues we outlined it was possible to distinguish both fundamental and applied scientific questions. This allowed building a unique research agenda encompassing all possible types of scientific issues in urban ecology. As all types of ecological and evolutionary questions can be asked in urban areas, urban ecology will likely be more and more influential in the development of ecology. Taken together, the future of towns, their biodiversity and the life of city dwellers is at stake. Increasing the space for ecosystems and biodiversity within towns is more and more viewed as crucial for the well-being of town dwellers. Depending on research and the way its results are taken into account, very different towns could emerge. Urban areas can be viewed as a test and a laboratory for the future of the interactions between human and ecological systems. Graphical abstract Unlabelled Image Highlights • A research agenda for urban ecology was built by scientists and stakeholders. • Questions on biodiversity, ecosystems, interactions with humans are distinguished. • For all types of issue it is possible to ask fundamental and applied questions. • Urban ecology will likely be more and more influential in the development of ecology. • The future of towns, their biodiversity and the life of city dwellers is at stake. [ABSTRACT FROM AUTHOR]

The destruction of natural habitats and the associated loss of Ecosystem Services (ES) are rarely jointly assessed and quantified in Environmental Impact Assessment (EIA). Based on a terrestrial transport infrastructure project, the objective of this paper is to quantify the potential loss of ES associated with direct and indirect impacts, and illustrate their contribution to decision-making for route options. We first quantify how much of each type of ES is generated by different land units in the absence of the infrastructure (baseline conditions). We then estimate ES loss caused by infrastructure construction in a way that discriminates among different types of ES and losses because some ES, in addition to losses that are directly proportional to the surface impacted, can show additional indirect losses associated with landscape connectivity. In addition, we illustrate how the assessment of threshold effects in particular ecosystem types that may be most sensitive to their occurrence can affect the estimation of ES loss. We compare implementation options to provide an example of how choices can be improved by assessing ES loss associated with a combination of direct and indirect impacts. This kind of analysis could be used more generally to assess development projects simply by adapting the framework of analysis to the type of project and the ecosystems concerned. [ABSTRACT FROM AUTHOR]