Following the industrialization and urbanization in Korea, algal bloom causes aesthetic displeasure and many other problems such as taste and odor, coloration, scum, increase in pH, filter-bed blockage. There were some cases involving human death by microcystins during summertime in foreign countries. In Korea, Harmful cyanobacteria such as Microcystis and Anabaena develop in summer in the Daecheong reservoir, one of the main water resources, with the retention time of above 200 days. To better control algal bloom, the Ministry of Environment has been running algal bloom alert system from 1998 for the Daecheong reservoir, which needs to be improved to reflect the characteristics of river-type lakes. For this reason, we try to find new measures to improve an algal bloom alert system for each water zone considering the characteristics of harmful cyanobacteria in this study.