MOSCOW — Three senior editors at the media organization controlled by Mikhail Prokhorov, the Russian billionaire and Brooklyn Nets owner, left their jobs on Friday, apparently victims of the Kremlin’s ire for reporting too many details about the family and friends of President Vladimir V. Putin.

The departure of the three editors from the RBC newspaper and news service was widely viewed as the death knell for one of Russia’s last independent papers — and the latest ambush in the extended campaign by the Putin administration to exert control over all news reporting.

Journalists in Moscow described the paper’s editorial line as virtually suicidal as it published stories related to Mr. Putin and problems at state-run sacred cows like Rosneft, the oil company, that no other media outlet dared touch. But those stories also made its website among the most popular newssites in Russia.

The latest controversy erupted on Wednesday, when the paper published an article reporting that a man linked to the management of a giant Rococo palace believed to have been built for Mr. Putin along the Black Sea had been granted a concession to grow oysters and mussels nearby.