The airlines were cited for violations of safety norms or flight and technical maintenance rules, or because they simply did not have the money to properly maintain and operate flights, it said.
Interfax quoted Yevgeny Lobachev, head of the certification section.
Russia has one of the world's worst air safety records this decade. Worldwide, about one passenger in a million is killed in an air crash. The figure is five times as high in Russia.
There are 390 air companies in Russia now, 165 of them offshoots of the Soviet airline Aeroflot, 179 of them new and 46 of them offspring of the Aircraft Construction Ministry, Interfax said.
Three hundred people have died in crashes this year alone, including one in which the pilot's son was at the controls when the plane crashed.
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