It was one of the angriest exchanges so far in the trial on terror charges of 17 current and former writers, cartoonists and executives from Cumhuriyet ("Republic"), which has raised alarm over press freedom under President Recep Tayyip Erdogan.
The trial began on July 24, and after several conditional releases in previous hearings, four of the suspects remain behind bars.
The judge ordered the four of them -- investigative journalist Ahmet Sik, the paper's chairman Akin Atalay, editor-in-chief Murat Sabuncu and accountant Emre Iper -- to stay in jail, defence lawyer Kemal Aytac told AFP.
Earlier in the hearing, Sik was ordered to leave the court by the judge because of his "political" defence statement that condemned the government and claimed it treated its critics as "terrorists".
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"There is a judiciary controlled by the government that is translating this 'terrorist' term into preposterous accusations," Sik, who has now been in prison for 360 days, told the court.
During the fraught hearing, Judge Abdurrahman Orkun Dag refused to allow Sik to continue.
Angry supporters in the courtroom responded by shouting: "You are all going to be tried one day" and "Ahmet will get out, he will write again" causing the trial to be adjourned for lunch.
Sik, already jailed from 2011-2012, wrote a book exposing former ties of members of the Turkish elite to the movement of US-based Islamic preacher Fethullah Gulen, who Ankara accuses of being behind last year's failed coup.
They face up to 43 years in prison if convicted.
Their supporters say the charges are absurd and the daily says the trial is an attempt to silence one of the last independent newspapers in Turkey.
Cumhuriyet is fiercely critical of Erdogan and has run front page stories that have angered the president.
"This trial is a symbol of the attempt to silence freedom of expression in Turkey. It is a symbol of pressure on journalists," Gulendam San Karabulutlar, a defence lawyer, told AFP.
Some held Monday's issue of Cumhuriyet whose front page read: "Justice immediately".
Some of the most high-profile suspects -- including political commentator Kadri Gursel -- have already been released but remain charged and on trial.
Dozens of journalists have been arrested in Turkey since the failed coup as part of its crackdown on alleged threats to the state. In total, more than 55,000 people have been arrested, raising concern in Western capitals.
Turkey is ranked 151st of 180 countries in the 2016 World Press Freedom index published by Reporters Without Borders (RSF).