Momilactones A and B, the major phytotoxins and phytoalexins in rice plants, were quantified by a HPLC-APCI-MS-MS (APCI-MS-MS) system under multiple reaction monitoring conditions. Since MA and MB were found to be easily extracted with water, these phytotoxic compounds may affect germination and growth of other plant species when the rice straws were left in the fields.