The extraordinary claim by Interior Minister Maria Paula Romo at a press conference in Quito came shortly after Moreno terminated Assange's near seven-year asylum at Ecuador's London embassy, allowing British police to arrest him.
"For several years now, one of the key members of this WikiLeaks organisation and a person close to Mr Julian Assange has lived in Ecuador, and we have sufficient evidence that he has been collaborating with the destabilisation attempts against the government," Romo said on Thursday.
Moreno was forced to deny allegations of corruption which surfaced on the website inapapers.org, with the president claiming he knew who was responsible for the accusations.
Romo made no direct link between her claims and the recent complaint to the UN rapporteur, however.
She also said the "two Russian hackers" live in Ecuador, and that their names and locations would be given to the prosecutor's office.
"We are not going to allow Ecuador to become a hacking center, and we cannot allow illegal activities to take place in the country, either to harm Ecuadoran citizens or those from other countries or any government."
Patino served as foreign minister under Rafael Correa, a socialist former president whose government granted Assange diplomatic asylum in 2012.
Correa on Thursday called Moreno "the greatest traitor in Ecuadoran and Latin American history" for allowing the arrest.
(This story has not been edited by Business Standard staff and is auto-generated from a syndicated feed.)