The Tomi Maru 53 trawler was detained off Russia's Kamchatka Peninsula with illegal catch -pollock, halibut, skate, cod - along with two other Japanese fishing vessels, which belong to Kanai Gyogyo company based in Japan's Hokkaido.
The company, which a Russian court has found guilty of breaching fishing regulations, will also have to pay a fine of 2.8 million rubles (over $108,000). The equipment and over 50 metric tons of the catch will also be confiscated by Russian authorities, prosecutors said.
The captains of the Tomi Maru 53 and another arrested vessel, the Yokei Maru 5, Tagawa Masuo and Soejima Kenzi, are still under investigation in Russia.
Omu Shyozo, the captain of the Gyokuryu Maru, arrested with the illegal catch of over 122 metric tons of pollock, was fined December 26 to over $41,700.
The trawlers with the crews on board are anchored in Russia's Avachi Bay. Prosecutors say the crewmen are free to return home.
Confrontations over poaching between Russian authorities and Japanese fishing vessels are frequent in Russia's Pacific waters. An incident in August near the Kuril Islands, some of which are claimed by both Russia and Japan, led to the death of a Japanese fisherman, who was inadvertently shot by Russian border guards.