Ecosystem-based management is an environmental management approach that recognizes the full array of interactions within an ecosystem, including humans, rather than considering single issues, species, or ecosystem services in isolation. It can be applied to studies in the terrestrial and aquatic environments with challenges being attributed to both. In the marine realm, they are highly challenging to quantify due to highly migratory species as well as rapidly changing environmental and anthropogenic factors that can alter the habitat rather quickly. To be able to manage fisheries efficiently and effectively it has become increasingly more pertinent to understand not only the biological aspects of the species being studied, but also the environmental variables they are experiencing. Population abundance and structure, life history traits, competition with other species, where the stock is in the local food web, tidal fluctuations, salinity patterns and anthropogenic influences are among the variables that must be taken into account to fully understand the implementation of a "ecosystem-based management" approach. Interest in ecosystem-based management in the marine realm has developed more recently, in response to increasing recognition of the declining state of fisheries and ocean ecosystems. However, due to a lack of a clear definition and the diversity involved with the environment, the implementation has been lagging. In freshwater lake ecosystems, it has been shown that ecosystem-based habitat management is more effective for enhancing fish populations than management alternatives. Terrestrial ecosystem-based management (often referred to as ecosystem management) came into its own during the conflicts over endangered species protection (particularly the northern spotted owl), land conservation, and water, grazing and timber rights in the western United States in the 1980s and 1990s. The systemic origins of ecosystem-based management are rooted in the ecosystem management policy applied to the Great Lakes of North America in the late 1970s.

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