bstract: Genetic manipulation systems play an important role in the functional analysis of genes and gene products. The development of genetic system in hyperthermophilic archaea is lagging behind those in methanogenic and halophilic archaea. The main problem is the unavailability of efficient selective markers. However, in the past 10 years, researchers have made great progress in the development of genetic systems in the genus Sulfolobus and Thermococcus kodakaraensis, representatives of hyperthermophilic archaea. Here we summarize the latest progress in genetic systems and their application for hyperthermophilic archaea.