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A 30-year continuous record of chlorophyll a samples in May from six locations in the Swedish Lake Mälaren was tested for the correlation to air temperature, water temperature, precipitation, discharge, nutrients, yellow substance, dissolved phosphorous load, ice cover and NAO (North Atlantic Oscillation) index. In the deep basins subjected to stratification chlorophyll a concentration correlated with air temperature with equal or shorter delay than it did in the shallow basins. Both precipitation and discharge were significant negatively correlated with chlorophyll a concentration in many of the basins with varying retention times. However, discharge into flushed basins had a more immediate influence on chlorophyll a concentration, and precipitation was earlier correlated with chlorophyll a concentration in basins fed from the smaller and closer situated catchment.