The Central Controlling and Testing Institute in Agriculture (ÚKSÚP) is subordinate to the MPRV SR and is responsible for the official control of the agricultural sector. The remit of the ÚKSÚP covers plant health, seeds and seedlings, plant varieties, plant protection products, animal feed and animal nutrition. The ÚKSÚP assists with the drafting of legislation and provides advisory services.

The ÚKSÚP performs phytosanitary controls on imported and exported plants and plant materials at three border crossing points. The ÚKSÚP is the competent authority for organic farming in Slovakia, designated by the Department of Environmental Protection and Organic Farming (DEPOF). Analyses of samples taken in the course of official controls are conducted by its own accredited laboratories.