ABSTRACTMarker rescue is an important molecular technique that enables sequential gene deletions. The Cre-loxPrecombination system has been used for marker gene rescue in various organisms, including aspergilli. However, this system requires many time-consuming steps, including construction of a Cre expression plasmid, introduction of the plasmid, and Cre expression in the transformant. To circumvent this laborious process, we investigated a method wherein Cre could be directly introduced intoAspergillus oryzaeprotoplasts on carrier DNA such as a fragment or plasmid. In this study, we define the carrier DNA (Cre carrier) as a carrier for the Cre enzyme. A mixture of commercial Cre and nucleic acids (e.g., pUG6 plasmid) was introduced intoA. oryzaeprotoplasts using a modified protoplast-polyethylene glycol method, resulting in the deletion of a selectable marker gene flanked byloxPsites. By using this method, we readily constructed a marker gene-rescued strain lackingligDto optimize homologous recombination. Furthermore, we succeeded in integrative recombination at aloxPsite inA. oryzae. Thus, we developed a simple method to use the Cre-loxPrecombination system inA. oryzaeby direct introduction of Cre into protoplasts using DNA as a carrier for the enzyme.