The official did not specify what had been targeted but Ukraine has been carrying out strikes on facilities operated by Wildberries in recent weeks, often dubbed the "Russian Amazon".
Kyiv says the depots are used to supply the Russian military, which Moscow denies. Local officials also said Wildberries warehouses were targeted in the St Petersburg and Tver regions overnight.
Russia also launched strikes against parts of Ukraine, killing at least four and injuring several people.