Harmful, toxic algae are now considered as one of the important players in the newly emerging environmental risk factors. The apparent global increase in harmful algal blooms (HABs) is becoming a serious problem in both aquaculture and fisheries populations. Not only has the magnitude and intensity of public health and economic impacts of these blooms increased in recent years, but the number of geographic locations experiencing toxic algal blooms has also increased dramatically. There are two primary factors causing HABs outbreaks. The natural processes such as upwelling and relaxation, and the anthropogenic loading resulting in eutrophication. However, the influence of global climate changes on algal bloom phenomenon cannot be ignored. The problem warrants development of effective strategies for the management and mitigation of HABs. Progress made in the routine coastal monitoring programs, development of methods for detection of algal species and toxins and coastal modeling activities for predicting HABs reflect the international concerns regarding the impacts of HABs. Innovative techniques using molecular probes will hopefully result in development of rapid, reliable screening methods for phycotoxins and the causative organisms.