“…The widespread degradation of estuaries is notably caused due to eutrophication (Pinckney et al, 2001;Davis and Koop, 2006;Maier et al, 2009;Howarth et al, 2011) and has been the focus of research for many decades (e.g., Barlow et al, 1963;Caperon et al, 1971;Livingston, 1996). However, we also highlight the degradation estuaries have experienced as a consequence of modifications to freshwater flow regimes (Arthington, 2012;Kiwango et al, 2015;Stein et al, 2021), resulting in a decline in estuarine habitat quality due to altered ecosystem processes (Pinckney et al, 2001;Mbandzi et al, 2018). This can induce problems, such as eutrophication (see Section 4), due to biological responses (e.g., algal blooms, seagrass dieback) associated with modified ecosystem structure and function (Cottingham et al, 2018;Scharler et al, 2020).…”