Some of the victims include JPMorgan Chase, The Wall Street Journal, E-Trade and Scottrade, according to CNBC.

Gery Shalon, Joshua Samuel Aaron and Ziv Orenstein were charged in a 23-count indictment. Prosecutors alleged crimes including computer hacking, securities fraud, wire fraud, identity theft, illegal Internet gambling, money laundering conspiracy and other conspiracies.

U.S. prosecutors on Tuesday unveiled criminal charges against three men in connection with the computer hacking of several financial institutions and financial news publishers, including the largest ever theft of over 100 million customers data from nine U.S. financial institutions.

"We appreciate the strong partnership with law enforcement in bringing the criminals to justice. As we did here, we continue to cooperate with law enforcement in fighting cybercrime," JPMorgan Chase said in a statement



"We continue to work closely with the authorities by providing any and all information and resources we can to support their investigation and prosecution of the criminals," Scottrade said in another statement.



E-Trade did not immediately respond to a CNBC request for comment.



"The indictment unsealed today refers to the public disclosure we made on October 9. The government's investigation is ongoing, and we continue to cooperate with law enforcement," the Journal said in a statement.



The defendants were previously implicated in several fraud schemes tied to a massive data breach in 2014 at JPMorgan Chase, according to news reports.

U.S. Attorney for the Southern District of New York Preet Bharara held a news conference Tuesday and provided more details on the case.



"The conduct alleged in this case may also signal the next frontier for securities fraud," he said. "Sophisticated hacking to steal nonpublic information — something the defendants allegedly discussed — for the next stage of their sprawling criminal enterprise."

— CNBC contributed to this report.