In many regions across the globe, extreme weather events such as storms have increased in frequency, intensity, and duration due to climate change. Ecological theory predicts that such extreme events should have large impacts on ecosystem structure and function. High winds and precipitation associated with storms can affect lakes via short‐term runoff events from watersheds and physical mixing of the water column. In addition, lakes connected to rivers and streams will also experience flushing due to high flow rates. Although we have a well‐developed understanding of how wind and precipitation events can alter lake physical processes and some aspects of biogeochemical cycling, our mechanistic understanding of the emergent responses of phytoplankton communities is poor. Here we provide a comprehensive synthesis that identifies how storms interact with lake and watershed attributes and their antecedent conditions to generate changes in lake physical and chemical environments. Such changes can restructure phytoplankton communities and their dynamics, as well as result in altered ecological function (e.g., carbon, nutrient and energy cycling) in the short‐ and long‐term. We summarize the current understanding of storm‐induced phytoplankton dynamics, identify knowledge gaps with a systematic review of the literature, and suggest future research directions across a gradient of lake types and environmental conditions.

As part of a global phenomenon, a 30% decrease in average wind speed since 1996 in southern Estonia together with more frequent easterly winds resulted in 47% decrease in bottom shear stress in the large (270 km²), shallow (mean depth 2.8 m), and eutrophic Lake Võrtsjärv. Following a peak in eutrophication pressure in the 1970s–80s, the concentrations of total nutrients were declining. Nonmetric Multidimensional Scaling (NMDS) ordination of a 54‐year phytoplankton community composition time‐series (1964–2017) revealed three distinct periods with breaking points coinciding with changes in wind and/or water level. Contrary to expectations, we detected no decrease in optically active substances that could be related to wind stilling, whereas phytoplankton biomass showed an increasing trend despite reduced nutrient levels. Here we show how opening of the “light niche,” caused by declining amount of suspended sediments, was capitalized and filled by the light‐limited phytoplankton community. We suggest that wind stilling is another global factor, complementary to climate warming that counteracts eutrophication mitigation in lakes and may provide a challenge to assessment of the lake ecological status.

One of the challenges for predicting global change effects on aquatic ecosystems is the vague understanding of the mechanisms of multiple controlling factors affecting phytoplankton dynamics at different time scales. Here we distinguish between hydrometeorological forcing of phytoplankton dynamics at time scales from days to decades based on a 54-year monthly phytoplankton time series from a large shallow Lake Võrtsjärv (58°16′N, 26°02′E) in Estonia, combined with daily data on forcing factors—thermal-, wind-, light- and water-level regimes. By using variance partitioning with linear mixed effect modelling (LME), we found a continuum from the large dominant K-selected filamentous cyanobacteria with strongest decadal scale variation (8–30%) to r-selected phytoflagellates with large stochastic variability (80–96%). External forcing revealed strong seasonal variation (up to 80%), while specifically water level and wind speed had a robust decadal variation (8% and 20%, respectively). The effect of external variables was proportionally manifested in the time scales of phytoplankton variation. Temperature, with a clear seasonal variation, had no impact on the dominant cold tolerant filamentous cyanobacteria in Lake Võrtsjärv. We found the LME as a reliable method for resolving the temporal cross-scale problem. It yielded quantitative results that matched our intuitive understanding of the dynamics of different variables.