The arrests added to growing international alarm over the use of a state of emergency implemented in the wake of the failed July 15 coup against critics of President Recep Tayyip Erdogan.
The Cumhuriyet staff detained earlier this week, including some of the most prominent names in Turkish journalism, will now be held behind bars ahead of a trial, a date for which had yet to be set.
At total of 13 staff from Cumhuriyet (Republic) had been detained in raids on Monday in a swoop that amplified concerns about press freedoms in Turkey.
Among the nine ordered held ahead of trial were Cumhuriyet's editor-in-chief Murat Sabuncu, celebrated cartoonist Musa Kart and influential anti-Erdogan columnist Kadri Gursel.
However, columnists Hikmet Cetinkaya and Aydin Engin were released on judicial control due to age and on the grounds of health, the reports said, while wo other suspects from the accounts department were released without charge.
Cumhuriyet has for months been in the crosshairs of the Turkish authorities. Earlier this year former editor-in-chief Can Dundar was given a five years and 10 months jail sentence for revealing state secrets in a front-page story.
An arrest warrant has also been issued for Dundar in the current case but he has quit Turkey for Germany.
"Our 'crime' is our writing, our headlines, our news. We will write again. We will write even more," Dundar wrote on Twitter.
Although their hearings took place in the southeastern city of Diyarbakir, both were flown to prisons in the west of Turkey well away from their strongholds in the east.
Demirtas is now in prison in Edirne province close to the Greek and Bulgarian borders while Yuksekdag was taken to Kocaeli just east of Istanbul, reports said.
After his arrest, Demirtas said in a written statement read by his lawyer that he was the victim of a "civilian coup by the government and the palace".
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