Sudan has "de facto expelled" a senior United Nations official after refusing to renew his "stay permit" for another year, a UN statement said on Sunday.

The foreign ministry informed the UN in Sudan that the annual permit for Ivo Freijsen, who heads the Sudan office of the UN Office for the Coordination of Humanitarian Affairs (OCHA), will not be renewed when it expires on June 6, the statement said.

"This is despite the request for a 12-month extension of his stay permit... which was submitted on 10 April 2016," it said, adding that the ministry did not provide an explanation in writing for its decision.

"The action by the government of Sudan is inconsistent with the fundamental principles of the international civil service enshrined in the Charter of the United Nations... to which Sudan is a party."

Freijsen, who is Dutch, is the fourth senior UN official to be expelled from Sudan over the past two years, the statement said.

His expulsion comes in addition to the "forced closure of international NGO Tearfund in December 2015 and the de facto expulsion of three international NGO country representatives in recent months", it said.

Freijsen was appointed to the post in February 2014, his sixth official appointment in Sudan.

He has worked for more than a decade in Sudan during a career spanning 23 years and more than 15 countries.

"During 12 years at OCHA he has led principled humanitarian coordination work, focusing on providing life-saving and emergency assistance to people in need," the statement said.

The Humanitarian Country Team, a top level coordinating agency among various UN agencies and NGOs in Sudan, expressed "shock and disappointment" at Freijsen's expulsion.

The team "is concerned about the impact of this decision on the operating environment for all humanitarian organisations in Sudan", a statement said.

In 2015 the team and its partners implemented the delivery of more than $600 million worth of aid to hundreds of thousands of people across Sudan, it said.

"The Humanitarian Country Team calls upon the government of Sudan to ensure a fully conducive environment for delivering timely, principled and quality humanitarian assistance," the statement added.

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