"The President has given approval to a HRD ministry recommendation for sacking of Pondicherry VC," a senior HRD Ministry official told PTI, adding that "an order in this regard would be issued soon."
Krishnamurthy had been issued a show cause notice after a UGC committee found her guilty of plagiarism and misrepresentation.
Krishnamurthy took charge on February 1, 2013 for a five-year term.
Last August, she was served the show cause notice asking her to explain why she should not be dismissed.
This is the second instance when HRD ministry has pushed for dismissal of vice chancellor of a central university.
Earlier this year, it had dismissed Visva Bharati vice chancellor Sushanta Dattagupta, who faced allegations of financial and administrative irregularities.