Isolation of genetic material is a crucial stage in molecular biology. Increasing needs for DNA analysis cause continuous improving of genetic material isolation methods toward higher accuracy and output. Automatization in molecular biology is widely seen, especially in clinical and forensic medicine. The objective of this research was optimization of methods for automatic nucleic acid isolation using the Janus automated workstation, Perkin Elmer. The efficiency and purity of isolated DNA was satisfactory. Despite numerous attempts at achieving automatic RNA isolation, we did not succeed in obtaining RNA working in other applications, such as RT-PCR or Real-Time PCR.