Anadolu Agency said the man, a Turkish citizen identified by the initials M.T., was ordered arrested by a court in Istanbul late Wednesday on charges of espionage and attempts to "destroy" the constitutional order and Turkey's government.
The man is accused of ties to a former prosecutor and four former police chiefs who are being prosecuted for leading a corruption probe in 2013, which the government says was orchestrated by Gulen's movement in a bid to topple it.
Gulen is also accused of masterminding last year's failed coup. Gulen denies the accusations.
About 50,000 people have been arrested and more than 110,000 have been sacked from government jobs as part of a crackdown on the movement since the coup attempt.
The U.S. Embassy said it was "deeply disturbed" by the arrest of the Istanbul Consulate's staff member as well as by what it said were "leaks from Turkish government sources seemingly aimed at trying the employee in the media rather than a court of law."
"Baseless, anonymous allegations against our employee undermine and devalue (the) longstanding partnership" between Turkey and the United States, the embassy said in a statement.
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