Rappler said the charges were over an article it published in 2012. Ressa was indicted in relation to that case last week which was slammed by Amnesty International as "yet another absurd legal attack" that amounted to "harassment".
She was formally arrested at Rappler's headquarters in Manila after being served an arrest warrant by Philippines National Bureau of Investigation (NBI) officers. Footage streamed on Facebook showed plainclothes officials speaking to the journalist, while several of the site's journalists live-streamed on Facebook and Twitter what was happening.
They were reportedly asked by the NBI to stop filming and taking photos.
Ressa has been indicted multiple times on libel and tax evasion charges described by critics as politically motivated and designed to silence independent media in the country.
The case comes under a controversial "cyber-libel" law, which came into force in September 2012, four months after the article in question was published.
Officials first filed the case against Ressa in 2017, but it was dismissed by the NBI because the one-year limit for bringing libel cases had lapsed. However, in March 2018, the NBI reopened the case.
The news website has reported extensively on Duterte's brutal war on drugs which earned praise from human rights advocates. But it made the site and its journalists a target of supporters of the Duterte administration.
Duterte's office denied the President's involvement in the prosecutions against Rappler, but he previously sparred with the company's employees that led to him banning Ressa and reporter Pia Ranada from Malacanang Palace, his official residence, over their coverage of his administration.
(This story has not been edited by Business Standard staff and is auto-generated from a syndicated feed.)