Chief Judicial Magistrate Bharat Singh admitted the complaint and transferred the matter to Judicial Magistrate Raghini Kumari for hearing.
The court has fixed July 13 as the date of hearing in the complaint.
Modi's wife Jessie George appeared in the CJM court today and pleaded that her academic degrees were genuine and the allegation of her fake degrees has tarnished her reputation.
In her complaint, George said that by calling by her degrees 'fake', Singh had sullied her image in the eyes of students, teachers and parents.
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She said she had matriculated from Maharashtra Board of Secondary Education and had done her BSc and BEd from Sophia College of Maharashtra. She has done MEd from Mumbai and PHD from Patna University.
After working in a central school for eight years, she became a lecturer in Patna University in 2003 and since April 2011 was working as principal in-charge of Womens Training College under Patna University.
Modi's wife had demanded that he seek a public apology for levelling a "baseless allegation" and since he did not do so, filed the defamation complaint against him.