Eutrophication is commonly considered as one major aspect of global environmental degradation (Nixon, 1995). To protect and manage the water quality, indices are useful tools to communicate with managers because they reduce complex scientific data, integrate different types of information and produce results that can be easily interpreted in the perspective of water quality management (Potapova and Charles, 2007). Many researchers consider that the main reason for the dramatic propagation of algae is the increase in concentration of nutrient materials, such as nitrogen, phosphate, etc. Nonetheless, the relationships between physiochemical and biological factors that impact the growth of algae, such as sunlight, nutrient salts, changes of seasons, water temperature, pH value, and the algae itself, are very complex. It is very hard to forecast the trend in algal growth and to set the eutrophication indicator. A common method was to indicate the water nutrient level using the main representative parameters. The parameters mainly include the concentrations of total phosphate (TP), and total nitrogen (TN), transparency, concentration of chlorophyll a, dissolved oxygen (DO), and so on. According to the parameters, the lakes are divided into different trophic levels, such as poor, middle, eutrophic and so on. The trophic level criterion is different for different countries and different reseachers. Tables 7.1, 7.2 and 7.3 show the trophic level proposed by the United States Environmental Protection Agency and used by Dianchi Lake and East Lake in Wuhan.There also are some other eutrophication standard parameters, such as primary productivity of phytoplankton (Catherine et al., 2008), biomass of phytoplankton (Ho et al., 2008), cell density or numbers of phytoplankton (Dorte et al., 2008), community structure and dominant species (Lorenzo et al., 2008), category composition and dominant species of zooplankton (Toru et al., 2008), numbers of zooplankton, category composition and dominant species of zoobenthos, numbers of bacteria, etc. For different monoids, the methods and standards proposed by different scientists are different. These bio-indicators are not sensitive to changes in aquatic environments and thus are unable to reflect the eutrophic conditions of Distribution and Transformation of Nutrients and