The US-based Bible translation organisation said the pastor had ten days to apeal the term, which was purportedly a punishment for evangelism.
In a message to supporters seen by the Christian news agency BosNewsLife, prayer co-ordinator Mae Greenleaf said: "The humble imprisoned pastor has been physically removed from the presence of the people he loves - from the people who love him.
"Do we have the courage to ask God to move in the hearts of those Muslim authorities, who have sentenced this pastor to a two-year prison term, to change that conviction and release him?"
Iran is one of several Islamic countries where apostasy - the renunciation of Islam - can be met with a severe punishment. Iran was recently ranked tenth in an Open Doors list of nations where persecution against Christians is worst.
The pastor's name and country of origin have not been disclosed, apparently for security concerns. Nor, has the name of the court which sentenced him.
Ms Greenleaf asked Wycliffe Associates supporters to "Pray... that the Holy Spirit will fill the prison with His presence and that Christ will continue to be preached in this land."
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